diff --git a/dev/.documenter-siteinfo.json b/dev/.documenter-siteinfo.json
new file mode 100644
index 000000000..a4f7c56ea
--- /dev/null
+++ b/dev/.documenter-siteinfo.json
@@ -0,0 +1 @@
+{"documenter":{"julia_version":"1.10.2","generation_timestamp":"2024-03-20T09:58:22","documenter_version":"1.3.0"}}
\ No newline at end of file
diff --git a/dev/assets/Discretization_BondFilters_RectangularPlane.png b/dev/assets/Discretization_BondFilters_RectangularPlane.png
new file mode 100644
index 000000000..be5f050d3
Binary files /dev/null and b/dev/assets/Discretization_BondFilters_RectangularPlane.png differ
diff --git a/dev/assets/Discretization_BondFilters_RectangularPlane.png.license b/dev/assets/Discretization_BondFilters_RectangularPlane.png.license
new file mode 100644
index 000000000..d6221fcad
--- /dev/null
+++ b/dev/assets/Discretization_BondFilters_RectangularPlane.png.license
@@ -0,0 +1,3 @@
+# SPDX-FileCopyrightText: Martin Raedel <martin.raedel@dlr.de>, 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+#
+# SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/assets/documenter.js b/dev/assets/documenter.js
new file mode 100644
index 000000000..c6562b558
--- /dev/null
+++ b/dev/assets/documenter.js
@@ -0,0 +1,1050 @@
+// Generated by Documenter.jl
+requirejs.config({
+  paths: {
+    'highlight-julia': 'https://cdnjs.cloudflare.com/ajax/libs/highlight.js/11.8.0/languages/julia.min',
+    'headroom': 'https://cdnjs.cloudflare.com/ajax/libs/headroom/0.12.0/headroom.min',
+    'jqueryui': 'https://cdnjs.cloudflare.com/ajax/libs/jqueryui/1.13.2/jquery-ui.min',
+    'katex-auto-render': 'https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/contrib/auto-render.min',
+    'jquery': 'https://cdnjs.cloudflare.com/ajax/libs/jquery/3.7.0/jquery.min',
+    'headroom-jquery': 'https://cdnjs.cloudflare.com/ajax/libs/headroom/0.12.0/jQuery.headroom.min',
+    'katex': 'https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min',
+    'highlight': 'https://cdnjs.cloudflare.com/ajax/libs/highlight.js/11.8.0/highlight.min',
+    'highlight-julia-repl': 'https://cdnjs.cloudflare.com/ajax/libs/highlight.js/11.8.0/languages/julia-repl.min',
+  },
+  shim: {
+  "highlight-julia": {
+    "deps": [
+      "highlight"
+    ]
+  },
+  "katex-auto-render": {
+    "deps": [
+      "katex"
+    ]
+  },
+  "headroom-jquery": {
+    "deps": [
+      "jquery",
+      "headroom"
+    ]
+  },
+  "highlight-julia-repl": {
+    "deps": [
+      "highlight"
+    ]
+  }
+}
+});
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery', 'katex', 'katex-auto-render'], function($, katex, renderMathInElement) {
+$(document).ready(function() {
+  renderMathInElement(
+    document.body,
+    {
+  "delimiters": [
+    {
+      "left": "$",
+      "right": "$",
+      "display": false
+    },
+    {
+      "left": "$$",
+      "right": "$$",
+      "display": true
+    },
+    {
+      "left": "\\[",
+      "right": "\\]",
+      "display": true
+    }
+  ]
+}
+
+  );
+})
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery', 'highlight', 'highlight-julia', 'highlight-julia-repl'], function($) {
+$(document).ready(function() {
+    hljs.highlightAll();
+})
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+let timer = 0;
+var isExpanded = true;
+
+$(document).on("click", ".docstring header", function () {
+  let articleToggleTitle = "Expand docstring";
+
+  debounce(() => {
+    if ($(this).siblings("section").is(":visible")) {
+      $(this)
+        .find(".docstring-article-toggle-button")
+        .removeClass("fa-chevron-down")
+        .addClass("fa-chevron-right");
+    } else {
+      $(this)
+        .find(".docstring-article-toggle-button")
+        .removeClass("fa-chevron-right")
+        .addClass("fa-chevron-down");
+
+      articleToggleTitle = "Collapse docstring";
+    }
+
+    $(this)
+      .find(".docstring-article-toggle-button")
+      .prop("title", articleToggleTitle);
+    $(this).siblings("section").slideToggle();
+  });
+});
+
+$(document).on("click", ".docs-article-toggle-button", function (event) {
+  let articleToggleTitle = "Expand docstring";
+  let navArticleToggleTitle = "Expand all docstrings";
+  let animationSpeed = event.noToggleAnimation ? 0 : 400;
+
+  debounce(() => {
+    if (isExpanded) {
+      $(this).removeClass("fa-chevron-up").addClass("fa-chevron-down");
+      $(".docstring-article-toggle-button")
+        .removeClass("fa-chevron-down")
+        .addClass("fa-chevron-right");
+
+      isExpanded = false;
+
+      $(".docstring section").slideUp(animationSpeed);
+    } else {
+      $(this).removeClass("fa-chevron-down").addClass("fa-chevron-up");
+      $(".docstring-article-toggle-button")
+        .removeClass("fa-chevron-right")
+        .addClass("fa-chevron-down");
+
+      isExpanded = true;
+      articleToggleTitle = "Collapse docstring";
+      navArticleToggleTitle = "Collapse all docstrings";
+
+      $(".docstring section").slideDown(animationSpeed);
+    }
+
+    $(this).prop("title", navArticleToggleTitle);
+    $(".docstring-article-toggle-button").prop("title", articleToggleTitle);
+  });
+});
+
+function debounce(callback, timeout = 300) {
+  if (Date.now() - timer > timeout) {
+    callback();
+  }
+
+  clearTimeout(timer);
+
+  timer = Date.now();
+}
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require([], function() {
+function addCopyButtonCallbacks() {
+  for (const el of document.getElementsByTagName("pre")) {
+    const button = document.createElement("button");
+    button.classList.add("copy-button", "fa-solid", "fa-copy");
+    button.setAttribute("aria-label", "Copy this code block");
+    button.setAttribute("title", "Copy");
+
+    el.appendChild(button);
+
+    const success = function () {
+      button.classList.add("success", "fa-check");
+      button.classList.remove("fa-copy");
+    };
+
+    const failure = function () {
+      button.classList.add("error", "fa-xmark");
+      button.classList.remove("fa-copy");
+    };
+
+    button.addEventListener("click", function () {
+      copyToClipboard(el.innerText).then(success, failure);
+
+      setTimeout(function () {
+        button.classList.add("fa-copy");
+        button.classList.remove("success", "fa-check", "fa-xmark");
+      }, 5000);
+    });
+  }
+}
+
+function copyToClipboard(text) {
+  // clipboard API is only available in secure contexts
+  if (window.navigator && window.navigator.clipboard) {
+    return window.navigator.clipboard.writeText(text);
+  } else {
+    return new Promise(function (resolve, reject) {
+      try {
+        const el = document.createElement("textarea");
+        el.textContent = text;
+        el.style.position = "fixed";
+        el.style.opacity = 0;
+        document.body.appendChild(el);
+        el.select();
+        document.execCommand("copy");
+
+        resolve();
+      } catch (err) {
+        reject(err);
+      } finally {
+        document.body.removeChild(el);
+      }
+    });
+  }
+}
+
+if (document.readyState === "loading") {
+  document.addEventListener("DOMContentLoaded", addCopyButtonCallbacks);
+} else {
+  addCopyButtonCallbacks();
+}
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery', 'headroom', 'headroom-jquery'], function($, Headroom) {
+
+// Manages the top navigation bar (hides it when the user starts scrolling down on the
+// mobile).
+window.Headroom = Headroom; // work around buggy module loading?
+$(document).ready(function () {
+  $("#documenter .docs-navbar").headroom({
+    tolerance: { up: 10, down: 10 },
+  });
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+$(document).ready(function () {
+  let meta = $("div[data-docstringscollapsed]").data();
+
+  if (meta?.docstringscollapsed) {
+    $("#documenter-article-toggle-button").trigger({
+      type: "click",
+      noToggleAnimation: true,
+    });
+  }
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+/*
+To get an in-depth about the thought process you can refer: https://hetarth02.hashnode.dev/series/gsoc
+
+PSEUDOCODE:
+
+Searching happens automatically as the user types or adjusts the selected filters.
+To preserve responsiveness, as much as possible of the slow parts of the search are done
+in a web worker. Searching and result generation are done in the worker, and filtering and
+DOM updates are done in the main thread. The filters are in the main thread as they should
+be very quick to apply. This lets filters be changed without re-searching with minisearch
+(which is possible even if filtering is on the worker thread) and also lets filters be
+changed _while_ the worker is searching and without message passing (neither of which are
+possible if filtering is on the worker thread)
+
+SEARCH WORKER:
+
+Import minisearch
+
+Build index
+
+On message from main thread
+  run search
+  find the first 200 unique results from each category, and compute their divs for display
+    note that this is necessary and sufficient information for the main thread to find the
+    first 200 unique results from any given filter set
+  post results to main thread
+
+MAIN:
+
+Launch worker
+
+Declare nonconstant globals (worker_is_running,  last_search_text, unfiltered_results)
+
+On text update
+  if worker is not running, launch_search()
+
+launch_search
+  set worker_is_running to true, set last_search_text to the search text
+  post the search query to worker
+
+on message from worker
+  if last_search_text is not the same as the text in the search field,
+    the latest search result is not reflective of the latest search query, so update again
+    launch_search()
+  otherwise
+    set worker_is_running to false
+
+  regardless, display the new search results to the user
+  save the unfiltered_results as a global
+  update_search()
+
+on filter click
+  adjust the filter selection
+  update_search()
+
+update_search
+  apply search filters by looping through the unfiltered_results and finding the first 200
+    unique results that match the filters
+
+  Update the DOM
+*/
+
+/////// SEARCH WORKER ///////
+
+function worker_function(documenterSearchIndex, documenterBaseURL, filters) {
+  importScripts(
+    "https://cdn.jsdelivr.net/npm/minisearch@6.1.0/dist/umd/index.min.js"
+  );
+
+  let data = documenterSearchIndex.map((x, key) => {
+    x["id"] = key; // minisearch requires a unique for each object
+    return x;
+  });
+
+  // list below is the lunr 2.1.3 list minus the intersect with names(Base)
+  // (all, any, get, in, is, only, which) and (do, else, for, let, where, while, with)
+  // ideally we'd just filter the original list but it's not available as a variable
+  const stopWords = new Set([
+    "a",
+    "able",
+    "about",
+    "across",
+    "after",
+    "almost",
+    "also",
+    "am",
+    "among",
+    "an",
+    "and",
+    "are",
+    "as",
+    "at",
+    "be",
+    "because",
+    "been",
+    "but",
+    "by",
+    "can",
+    "cannot",
+    "could",
+    "dear",
+    "did",
+    "does",
+    "either",
+    "ever",
+    "every",
+    "from",
+    "got",
+    "had",
+    "has",
+    "have",
+    "he",
+    "her",
+    "hers",
+    "him",
+    "his",
+    "how",
+    "however",
+    "i",
+    "if",
+    "into",
+    "it",
+    "its",
+    "just",
+    "least",
+    "like",
+    "likely",
+    "may",
+    "me",
+    "might",
+    "most",
+    "must",
+    "my",
+    "neither",
+    "no",
+    "nor",
+    "not",
+    "of",
+    "off",
+    "often",
+    "on",
+    "or",
+    "other",
+    "our",
+    "own",
+    "rather",
+    "said",
+    "say",
+    "says",
+    "she",
+    "should",
+    "since",
+    "so",
+    "some",
+    "than",
+    "that",
+    "the",
+    "their",
+    "them",
+    "then",
+    "there",
+    "these",
+    "they",
+    "this",
+    "tis",
+    "to",
+    "too",
+    "twas",
+    "us",
+    "wants",
+    "was",
+    "we",
+    "were",
+    "what",
+    "when",
+    "who",
+    "whom",
+    "why",
+    "will",
+    "would",
+    "yet",
+    "you",
+    "your",
+  ]);
+
+  let index = new MiniSearch({
+    fields: ["title", "text"], // fields to index for full-text search
+    storeFields: ["location", "title", "text", "category", "page"], // fields to return with results
+    processTerm: (term) => {
+      let word = stopWords.has(term) ? null : term;
+      if (word) {
+        // custom trimmer that doesn't strip @ and !, which are used in julia macro and function names
+        word = word
+          .replace(/^[^a-zA-Z0-9@!]+/, "")
+          .replace(/[^a-zA-Z0-9@!]+$/, "");
+
+        word = word.toLowerCase();
+      }
+
+      return word ?? null;
+    },
+    // add . as a separator, because otherwise "title": "Documenter.Anchors.add!", would not
+    // find anything if searching for "add!", only for the entire qualification
+    tokenize: (string) => string.split(/[\s\-\.]+/),
+    // options which will be applied during the search
+    searchOptions: {
+      prefix: true,
+      boost: { title: 100 },
+      fuzzy: 2,
+    },
+  });
+
+  index.addAll(data);
+
+  /**
+   *  Used to map characters to HTML entities.
+   * Refer: https://github.com/lodash/lodash/blob/main/src/escape.ts
+   */
+  const htmlEscapes = {
+    "&": "&amp;",
+    "<": "&lt;",
+    ">": "&gt;",
+    '"': "&quot;",
+    "'": "&#39;",
+  };
+
+  /**
+   * Used to match HTML entities and HTML characters.
+   * Refer: https://github.com/lodash/lodash/blob/main/src/escape.ts
+   */
+  const reUnescapedHtml = /[&<>"']/g;
+  const reHasUnescapedHtml = RegExp(reUnescapedHtml.source);
+
+  /**
+   * Escape function from lodash
+   * Refer: https://github.com/lodash/lodash/blob/main/src/escape.ts
+   */
+  function escape(string) {
+    return string && reHasUnescapedHtml.test(string)
+      ? string.replace(reUnescapedHtml, (chr) => htmlEscapes[chr])
+      : string || "";
+  }
+
+  /**
+   * Make the result component given a minisearch result data object and the value
+   * of the search input as queryString. To view the result object structure, refer:
+   * https://lucaong.github.io/minisearch/modules/_minisearch_.html#searchresult
+   *
+   * @param {object} result
+   * @param {string} querystring
+   * @returns string
+   */
+  function make_search_result(result, querystring) {
+    let search_divider = `<div class="search-divider w-100"></div>`;
+    let display_link =
+      result.location.slice(Math.max(0), Math.min(50, result.location.length)) +
+      (result.location.length > 30 ? "..." : ""); // To cut-off the link because it messes with the overflow of the whole div
+
+    if (result.page !== "") {
+      display_link += ` (${result.page})`;
+    }
+
+    let textindex = new RegExp(`${querystring}`, "i").exec(result.text);
+    let text =
+      textindex !== null
+        ? result.text.slice(
+            Math.max(textindex.index - 100, 0),
+            Math.min(
+              textindex.index + querystring.length + 100,
+              result.text.length
+            )
+          )
+        : ""; // cut-off text before and after from the match
+
+    text = text.length ? escape(text) : "";
+
+    let display_result = text.length
+      ? "..." +
+        text.replace(
+          new RegExp(`${escape(querystring)}`, "i"), // For first occurrence
+          '<span class="search-result-highlight py-1">$&</span>'
+        ) +
+        "..."
+      : ""; // highlights the match
+
+    let in_code = false;
+    if (!["page", "section"].includes(result.category.toLowerCase())) {
+      in_code = true;
+    }
+
+    // We encode the full url to escape some special characters which can lead to broken links
+    let result_div = `
+        <a href="${encodeURI(
+          documenterBaseURL + "/" + result.location
+        )}" class="search-result-link w-100 is-flex is-flex-direction-column gap-2 px-4 py-2">
+          <div class="w-100 is-flex is-flex-wrap-wrap is-justify-content-space-between is-align-items-flex-start">
+            <div class="search-result-title has-text-weight-bold ${
+              in_code ? "search-result-code-title" : ""
+            }">${escape(result.title)}</div>
+            <div class="property-search-result-badge">${result.category}</div>
+          </div>
+          <p>
+            ${display_result}
+          </p>
+          <div
+            class="has-text-left"
+            style="font-size: smaller;"
+            title="${result.location}"
+          >
+            <i class="fas fa-link"></i> ${display_link}
+          </div>
+        </a>
+        ${search_divider}
+      `;
+
+    return result_div;
+  }
+
+  self.onmessage = function (e) {
+    let query = e.data;
+    let results = index.search(query, {
+      filter: (result) => {
+        // Only return relevant results
+        return result.score >= 1;
+      },
+    });
+
+    // Pre-filter to deduplicate and limit to 200 per category to the extent
+    // possible without knowing what the filters are.
+    let filtered_results = [];
+    let counts = {};
+    for (let filter of filters) {
+      counts[filter] = 0;
+    }
+    let present = {};
+
+    for (let result of results) {
+      cat = result.category;
+      cnt = counts[cat];
+      if (cnt < 200) {
+        id = cat + "---" + result.location;
+        if (present[id]) {
+          continue;
+        }
+        present[id] = true;
+        filtered_results.push({
+          location: result.location,
+          category: cat,
+          div: make_search_result(result, query),
+        });
+      }
+    }
+
+    postMessage(filtered_results);
+  };
+}
+
+// `worker = Threads.@spawn worker_function(documenterSearchIndex)`, but in JavaScript!
+const filters = [
+  ...new Set(documenterSearchIndex["docs"].map((x) => x.category)),
+];
+const worker_str =
+  "(" +
+  worker_function.toString() +
+  ")(" +
+  JSON.stringify(documenterSearchIndex["docs"]) +
+  "," +
+  JSON.stringify(documenterBaseURL) +
+  "," +
+  JSON.stringify(filters) +
+  ")";
+const worker_blob = new Blob([worker_str], { type: "text/javascript" });
+const worker = new Worker(URL.createObjectURL(worker_blob));
+
+/////// SEARCH MAIN ///////
+
+// Whether the worker is currently handling a search. This is a boolean
+// as the worker only ever handles 1 or 0 searches at a time.
+var worker_is_running = false;
+
+// The last search text that was sent to the worker. This is used to determine
+// if the worker should be launched again when it reports back results.
+var last_search_text = "";
+
+// The results of the last search. This, in combination with the state of the filters
+// in the DOM, is used compute the results to display on calls to update_search.
+var unfiltered_results = [];
+
+// Which filter is currently selected
+var selected_filter = "";
+
+$(document).on("input", ".documenter-search-input", function (event) {
+  if (!worker_is_running) {
+    launch_search();
+  }
+});
+
+function launch_search() {
+  worker_is_running = true;
+  last_search_text = $(".documenter-search-input").val();
+  worker.postMessage(last_search_text);
+}
+
+worker.onmessage = function (e) {
+  if (last_search_text !== $(".documenter-search-input").val()) {
+    launch_search();
+  } else {
+    worker_is_running = false;
+  }
+
+  unfiltered_results = e.data;
+  update_search();
+};
+
+$(document).on("click", ".search-filter", function () {
+  if ($(this).hasClass("search-filter-selected")) {
+    selected_filter = "";
+  } else {
+    selected_filter = $(this).text().toLowerCase();
+  }
+
+  // This updates search results and toggles classes for UI:
+  update_search();
+});
+
+/**
+ * Make/Update the search component
+ */
+function update_search() {
+  let querystring = $(".documenter-search-input").val();
+
+  if (querystring.trim()) {
+    if (selected_filter == "") {
+      results = unfiltered_results;
+    } else {
+      results = unfiltered_results.filter((result) => {
+        return selected_filter == result.category.toLowerCase();
+      });
+    }
+
+    let search_result_container = ``;
+    let modal_filters = make_modal_body_filters();
+    let search_divider = `<div class="search-divider w-100"></div>`;
+
+    if (results.length) {
+      let links = [];
+      let count = 0;
+      let search_results = "";
+
+      for (var i = 0, n = results.length; i < n && count < 200; ++i) {
+        let result = results[i];
+        if (result.location && !links.includes(result.location)) {
+          search_results += result.div;
+          count++;
+          links.push(result.location);
+        }
+      }
+
+      if (count == 1) {
+        count_str = "1 result";
+      } else if (count == 200) {
+        count_str = "200+ results";
+      } else {
+        count_str = count + " results";
+      }
+      let result_count = `<div class="is-size-6">${count_str}</div>`;
+
+      search_result_container = `
+            <div class="is-flex is-flex-direction-column gap-2 is-align-items-flex-start">
+                ${modal_filters}
+                ${search_divider}
+                ${result_count}
+                <div class="is-clipped w-100 is-flex is-flex-direction-column gap-2 is-align-items-flex-start has-text-justified mt-1">
+                  ${search_results}
+                </div>
+            </div>
+        `;
+    } else {
+      search_result_container = `
+           <div class="is-flex is-flex-direction-column gap-2 is-align-items-flex-start">
+               ${modal_filters}
+               ${search_divider}
+               <div class="is-size-6">0 result(s)</div>
+            </div>
+            <div class="has-text-centered my-5 py-5">No result found!</div>
+       `;
+    }
+
+    if ($(".search-modal-card-body").hasClass("is-justify-content-center")) {
+      $(".search-modal-card-body").removeClass("is-justify-content-center");
+    }
+
+    $(".search-modal-card-body").html(search_result_container);
+  } else {
+    if (!$(".search-modal-card-body").hasClass("is-justify-content-center")) {
+      $(".search-modal-card-body").addClass("is-justify-content-center");
+    }
+
+    $(".search-modal-card-body").html(`
+      <div class="has-text-centered my-5 py-5">Type something to get started!</div>
+    `);
+  }
+}
+
+/**
+ * Make the modal filter html
+ *
+ * @returns string
+ */
+function make_modal_body_filters() {
+  let str = filters
+    .map((val) => {
+      if (selected_filter == val.toLowerCase()) {
+        return `<a href="javascript:;" class="search-filter search-filter-selected"><span>${val}</span></a>`;
+      } else {
+        return `<a href="javascript:;" class="search-filter"><span>${val}</span></a>`;
+      }
+    })
+    .join("");
+
+  return `
+        <div class="is-flex gap-2 is-flex-wrap-wrap is-justify-content-flex-start is-align-items-center search-filters">
+            <span class="is-size-6">Filters:</span>
+            ${str}
+        </div>`;
+}
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+// Modal settings dialog
+$(document).ready(function () {
+  var settings = $("#documenter-settings");
+  $("#documenter-settings-button").click(function () {
+    settings.toggleClass("is-active");
+  });
+  // Close the dialog if X is clicked
+  $("#documenter-settings button.delete").click(function () {
+    settings.removeClass("is-active");
+  });
+  // Close dialog if ESC is pressed
+  $(document).keyup(function (e) {
+    if (e.keyCode == 27) settings.removeClass("is-active");
+  });
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+$(document).ready(function () {
+  let search_modal_header = `
+    <header class="modal-card-head gap-2 is-align-items-center is-justify-content-space-between w-100 px-3">
+      <div class="field mb-0 w-100">
+        <p class="control has-icons-right">
+          <input class="input documenter-search-input" type="text" placeholder="Search" />
+          <span class="icon is-small is-right has-text-primary-dark">
+            <i class="fas fa-magnifying-glass"></i>
+          </span>
+        </p>
+      </div>
+      <div class="icon is-size-4 is-clickable close-search-modal">
+        <i class="fas fa-times"></i>
+      </div>
+    </header>
+  `;
+
+  let initial_search_body = `
+    <div class="has-text-centered my-5 py-5">Type something to get started!</div>
+  `;
+
+  let search_modal_footer = `
+    <footer class="modal-card-foot">
+      <span>
+        <kbd class="search-modal-key-hints">Ctrl</kbd> +
+        <kbd class="search-modal-key-hints">/</kbd> to search
+      </span>
+      <span class="ml-3"> <kbd class="search-modal-key-hints">esc</kbd> to close </span>
+    </footer>
+  `;
+
+  $(document.body).append(
+    `
+      <div class="modal" id="search-modal">
+        <div class="modal-background"></div>
+        <div class="modal-card search-min-width-50 search-min-height-100 is-justify-content-center">
+          ${search_modal_header}
+          <section class="modal-card-body is-flex is-flex-direction-column is-justify-content-center gap-4 search-modal-card-body">
+            ${initial_search_body}
+          </section>
+          ${search_modal_footer}
+        </div>
+      </div>
+    `
+  );
+
+  document.querySelector(".docs-search-query").addEventListener("click", () => {
+    openModal();
+  });
+
+  document
+    .querySelector(".close-search-modal")
+    .addEventListener("click", () => {
+      closeModal();
+    });
+
+  $(document).on("click", ".search-result-link", function () {
+    closeModal();
+  });
+
+  document.addEventListener("keydown", (event) => {
+    if ((event.ctrlKey || event.metaKey) && event.key === "/") {
+      openModal();
+    } else if (event.key === "Escape") {
+      closeModal();
+    }
+
+    return false;
+  });
+
+  // Functions to open and close a modal
+  function openModal() {
+    let searchModal = document.querySelector("#search-modal");
+
+    searchModal.classList.add("is-active");
+    document.querySelector(".documenter-search-input").focus();
+  }
+
+  function closeModal() {
+    let searchModal = document.querySelector("#search-modal");
+    let initial_search_body = `
+      <div class="has-text-centered my-5 py-5">Type something to get started!</div>
+    `;
+
+    searchModal.classList.remove("is-active");
+    document.querySelector(".documenter-search-input").blur();
+
+    if (!$(".search-modal-card-body").hasClass("is-justify-content-center")) {
+      $(".search-modal-card-body").addClass("is-justify-content-center");
+    }
+
+    $(".documenter-search-input").val("");
+    $(".search-modal-card-body").html(initial_search_body);
+  }
+
+  document
+    .querySelector("#search-modal .modal-background")
+    .addEventListener("click", () => {
+      closeModal();
+    });
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+// Manages the showing and hiding of the sidebar.
+$(document).ready(function () {
+  var sidebar = $("#documenter > .docs-sidebar");
+  var sidebar_button = $("#documenter-sidebar-button");
+  sidebar_button.click(function (ev) {
+    ev.preventDefault();
+    sidebar.toggleClass("visible");
+    if (sidebar.hasClass("visible")) {
+      // Makes sure that the current menu item is visible in the sidebar.
+      $("#documenter .docs-menu a.is-active").focus();
+    }
+  });
+  $("#documenter > .docs-main").bind("click", function (ev) {
+    if ($(ev.target).is(sidebar_button)) {
+      return;
+    }
+    if (sidebar.hasClass("visible")) {
+      sidebar.removeClass("visible");
+    }
+  });
+});
+
+// Resizes the package name / sitename in the sidebar if it is too wide.
+// Inspired by: https://github.com/davatron5000/FitText.js
+$(document).ready(function () {
+  e = $("#documenter .docs-autofit");
+  function resize() {
+    var L = parseInt(e.css("max-width"), 10);
+    var L0 = e.width();
+    if (L0 > L) {
+      var h0 = parseInt(e.css("font-size"), 10);
+      e.css("font-size", (L * h0) / L0);
+      // TODO: make sure it survives resizes?
+    }
+  }
+  // call once and then register events
+  resize();
+  $(window).resize(resize);
+  $(window).on("orientationchange", resize);
+});
+
+// Scroll the navigation bar to the currently selected menu item
+$(document).ready(function () {
+  var sidebar = $("#documenter .docs-menu").get(0);
+  var active = $("#documenter .docs-menu .is-active").get(0);
+  if (typeof active !== "undefined") {
+    sidebar.scrollTop = active.offsetTop - sidebar.offsetTop - 15;
+  }
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+// Theme picker setup
+$(document).ready(function () {
+  // onchange callback
+  $("#documenter-themepicker").change(function themepick_callback(ev) {
+    var themename = $("#documenter-themepicker option:selected").attr("value");
+    if (themename === "auto") {
+      // set_theme(window.matchMedia('(prefers-color-scheme: dark)').matches ? 'dark' : 'light');
+      window.localStorage.removeItem("documenter-theme");
+    } else {
+      // set_theme(themename);
+      window.localStorage.setItem("documenter-theme", themename);
+    }
+    // We re-use the global function from themeswap.js to actually do the swapping.
+    set_theme_from_local_storage();
+  });
+
+  // Make sure that the themepicker displays the correct theme when the theme is retrieved
+  // from localStorage
+  if (typeof window.localStorage !== "undefined") {
+    var theme = window.localStorage.getItem("documenter-theme");
+    if (theme !== null) {
+      $("#documenter-themepicker option").each(function (i, e) {
+        e.selected = e.value === theme;
+      });
+    }
+  }
+});
+
+})
+////////////////////////////////////////////////////////////////////////////////
+require(['jquery'], function($) {
+
+// update the version selector with info from the siteinfo.js and ../versions.js files
+$(document).ready(function () {
+  // If the version selector is disabled with DOCUMENTER_VERSION_SELECTOR_DISABLED in the
+  // siteinfo.js file, we just return immediately and not display the version selector.
+  if (
+    typeof DOCUMENTER_VERSION_SELECTOR_DISABLED === "boolean" &&
+    DOCUMENTER_VERSION_SELECTOR_DISABLED
+  ) {
+    return;
+  }
+
+  var version_selector = $("#documenter .docs-version-selector");
+  var version_selector_select = $("#documenter .docs-version-selector select");
+
+  version_selector_select.change(function (x) {
+    target_href = version_selector_select
+      .children("option:selected")
+      .get(0).value;
+    window.location.href = target_href;
+  });
+
+  // add the current version to the selector based on siteinfo.js, but only if the selector is empty
+  if (
+    typeof DOCUMENTER_CURRENT_VERSION !== "undefined" &&
+    $("#version-selector > option").length == 0
+  ) {
+    var option = $(
+      "<option value='#' selected='selected'>" +
+        DOCUMENTER_CURRENT_VERSION +
+        "</option>"
+    );
+    version_selector_select.append(option);
+  }
+
+  if (typeof DOC_VERSIONS !== "undefined") {
+    var existing_versions = version_selector_select.children("option");
+    var existing_versions_texts = existing_versions.map(function (i, x) {
+      return x.text;
+    });
+    DOC_VERSIONS.forEach(function (each) {
+      var version_url = documenterBaseURL + "/../" + each + "/";
+      var existing_id = $.inArray(each, existing_versions_texts);
+      // if not already in the version selector, add it as a new option,
+      // otherwise update the old option with the URL and enable it
+      if (existing_id == -1) {
+        var option = $(
+          "<option value='" + version_url + "'>" + each + "</option>"
+        );
+        version_selector_select.append(option);
+      } else {
+        var option = existing_versions[existing_id];
+        option.value = version_url;
+        option.disabled = false;
+      }
+    });
+  }
+
+  // only show the version selector if the selector has been populated
+  if (version_selector_select.children("option").length > 0) {
+    version_selector.toggleClass("visible");
+  }
+});
+
+})
diff --git a/dev/assets/logo-dark.png b/dev/assets/logo-dark.png
new file mode 100644
index 000000000..a147b43e5
Binary files /dev/null and b/dev/assets/logo-dark.png differ
diff --git a/dev/assets/logo-dark.png.license b/dev/assets/logo-dark.png.license
new file mode 100644
index 000000000..c0e5cfe40
--- /dev/null
+++ b/dev/assets/logo-dark.png.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 German Aerospace Center (Deutsches Zentrum für Luft- und Raumfahrt e.V.; DLR)
+
+SPDX-License-Identifier: CC-BY-NC-ND-3.0-DE
diff --git a/dev/assets/logo.png b/dev/assets/logo.png
new file mode 100644
index 000000000..36c7b4bd4
Binary files /dev/null and b/dev/assets/logo.png differ
diff --git a/dev/assets/logo.png.license b/dev/assets/logo.png.license
new file mode 100644
index 000000000..c0e5cfe40
--- /dev/null
+++ b/dev/assets/logo.png.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 German Aerospace Center (Deutsches Zentrum für Luft- und Raumfahrt e.V.; DLR)
+
+SPDX-License-Identifier: CC-BY-NC-ND-3.0-DE
diff --git a/dev/assets/themes/documenter-dark.css b/dev/assets/themes/documenter-dark.css
new file mode 100644
index 000000000..53889fb99
--- /dev/null
+++ b/dev/assets/themes/documenter-dark.css
@@ -0,0 +1,7 @@
+html.theme--documenter-dark .pagination-previous,html.theme--documenter-dark .pagination-next,html.theme--documenter-dark .pagination-link,html.theme--documenter-dark .pagination-ellipsis,html.theme--documenter-dark .file-cta,html.theme--documenter-dark .file-name,html.theme--documenter-dark .select select,html.theme--documenter-dark .textarea,html.theme--documenter-dark .input,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input,html.theme--documenter-dark .button{-moz-appearance:none;-webkit-appearance:none;align-items:center;border:1px solid transparent;border-radius:.4em;box-shadow:none;display:inline-flex;font-size:1rem;height:2.5em;justify-content:flex-start;line-height:1.5;padding-bottom:calc(0.5em - 1px);padding-left:calc(0.75em - 1px);padding-right:calc(0.75em - 1px);padding-top:calc(0.5em - 1px);position:relative;vertical-align:top}html.theme--documenter-dark .pagination-previous:focus,html.theme--documenter-dark .pagination-next:focus,html.theme--documenter-dark .pagination-link:focus,html.theme--documenter-dark .pagination-ellipsis:focus,html.theme--documenter-dark .file-cta:focus,html.theme--documenter-dark .file-name:focus,html.theme--documenter-dark .select select:focus,html.theme--documenter-dark .textarea:focus,html.theme--documenter-dark .input:focus,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input:focus,html.theme--documenter-dark .button:focus,html.theme--documenter-dark .is-focused.pagination-previous,html.theme--documenter-dark .is-focused.pagination-next,html.theme--documenter-dark .is-focused.pagination-link,html.theme--documenter-dark .is-focused.pagination-ellipsis,html.theme--documenter-dark .is-focused.file-cta,html.theme--documenter-dark .is-focused.file-name,html.theme--documenter-dark .select select.is-focused,html.theme--documenter-dark .is-focused.textarea,html.theme--documenter-dark .is-focused.input,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.is-focused,html.theme--documenter-dark .is-focused.button,html.theme--documenter-dark .pagination-previous:active,html.theme--documenter-dark .pagination-next:active,html.theme--documenter-dark .pagination-link:active,html.theme--documenter-dark .pagination-ellipsis:active,html.theme--documenter-dark .file-cta:active,html.theme--documenter-dark .file-name:active,html.theme--documenter-dark .select select:active,html.theme--documenter-dark .textarea:active,html.theme--documenter-dark .input:active,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input:active,html.theme--documenter-dark .button:active,html.theme--documenter-dark .is-active.pagination-previous,html.theme--documenter-dark .is-active.pagination-next,html.theme--documenter-dark .is-active.pagination-link,html.theme--documenter-dark .is-active.pagination-ellipsis,html.theme--documenter-dark .is-active.file-cta,html.theme--documenter-dark .is-active.file-name,html.theme--documenter-dark .select select.is-active,html.theme--documenter-dark .is-active.textarea,html.theme--documenter-dark .is-active.input,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.is-active,html.theme--documenter-dark .is-active.button{outline:none}html.theme--documenter-dark .pagination-previous[disabled],html.theme--documenter-dark .pagination-next[disabled],html.theme--documenter-dark .pagination-link[disabled],html.theme--documenter-dark .pagination-ellipsis[disabled],html.theme--documenter-dark .file-cta[disabled],html.theme--documenter-dark .file-name[disabled],html.theme--documenter-dark .select select[disabled],html.theme--documenter-dark .textarea[disabled],html.theme--documenter-dark .input[disabled],html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input[disabled],html.theme--documenter-dark .button[disabled],fieldset[disabled] html.theme--documenter-dark .pagination-previous,html.theme--documenter-dark fieldset[disabled] .pagination-previous,fieldset[disabled] html.theme--documenter-dark .pagination-next,html.theme--documenter-dark fieldset[disabled] .pagination-next,fieldset[disabled] html.theme--documenter-dark .pagination-link,html.theme--documenter-dark fieldset[disabled] .pagination-link,fieldset[disabled] html.theme--documenter-dark .pagination-ellipsis,html.theme--documenter-dark fieldset[disabled] .pagination-ellipsis,fieldset[disabled] html.theme--documenter-dark .file-cta,html.theme--documenter-dark fieldset[disabled] .file-cta,fieldset[disabled] html.theme--documenter-dark .file-name,html.theme--documenter-dark fieldset[disabled] .file-name,fieldset[disabled] html.theme--documenter-dark .select select,fieldset[disabled] html.theme--documenter-dark .textarea,fieldset[disabled] html.theme--documenter-dark .input,fieldset[disabled] html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input,html.theme--documenter-dark fieldset[disabled] .select select,html.theme--documenter-dark .select fieldset[disabled] select,html.theme--documenter-dark fieldset[disabled] .textarea,html.theme--documenter-dark fieldset[disabled] .input,html.theme--documenter-dark fieldset[disabled] #documenter .docs-sidebar form.docs-search>input,html.theme--documenter-dark #documenter .docs-sidebar fieldset[disabled] form.docs-search>input,fieldset[disabled] html.theme--documenter-dark .button,html.theme--documenter-dark fieldset[disabled] .button{cursor:not-allowed}html.theme--documenter-dark .tabs,html.theme--documenter-dark .pagination-previous,html.theme--documenter-dark .pagination-next,html.theme--documenter-dark .pagination-link,html.theme--documenter-dark .pagination-ellipsis,html.theme--documenter-dark .breadcrumb,html.theme--documenter-dark .file,html.theme--documenter-dark .button,.is-unselectable{-webkit-touch-callout:none;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;user-select:none}html.theme--documenter-dark .navbar-link:not(.is-arrowless)::after,html.theme--documenter-dark .select:not(.is-multiple):not(.is-loading)::after{border:3px solid rgba(0,0,0,0);border-radius:2px;border-right:0;border-top:0;content:" ";display:block;height:0.625em;margin-top:-0.4375em;pointer-events:none;position:absolute;top:50%;transform:rotate(-45deg);transform-origin:center;width:0.625em}html.theme--documenter-dark .admonition:not(:last-child),html.theme--documenter-dark .tabs:not(:last-child),html.theme--documenter-dark .pagination:not(:last-child),html.theme--documenter-dark .message:not(:last-child),html.theme--documenter-dark .level:not(:last-child),html.theme--documenter-dark .breadcrumb:not(:last-child),html.theme--documenter-dark .block:not(:last-child),html.theme--documenter-dark .title:not(:last-child),html.theme--documenter-dark .subtitle:not(:last-child),html.theme--documenter-dark .table-container:not(:last-child),html.theme--documenter-dark .table:not(:last-child),html.theme--documenter-dark .progress:not(:last-child),html.theme--documenter-dark .notification:not(:last-child),html.theme--documenter-dark .content:not(:last-child),html.theme--documenter-dark .box:not(:last-child){margin-bottom:1.5rem}html.theme--documenter-dark .modal-close,html.theme--documenter-dark .delete{-webkit-touch-callout:none;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;user-select:none;-moz-appearance:none;-webkit-appearance:none;background-color:rgba(10,10,10,0.2);border:none;border-radius:9999px;cursor:pointer;pointer-events:auto;display:inline-block;flex-grow:0;flex-shrink:0;font-size:0;height:20px;max-height:20px;max-width:20px;min-height:20px;min-width:20px;outline:none;position:relative;vertical-align:top;width:20px}html.theme--documenter-dark .modal-close::before,html.theme--documenter-dark .delete::before,html.theme--documenter-dark .modal-close::after,html.theme--documenter-dark .delete::after{background-color:#fff;content:"";display:block;left:50%;position:absolute;top:50%;transform:translateX(-50%) translateY(-50%) rotate(45deg);transform-origin:center center}html.theme--documenter-dark .modal-close::before,html.theme--documenter-dark .delete::before{height:2px;width:50%}html.theme--documenter-dark .modal-close::after,html.theme--documenter-dark .delete::after{height:50%;width:2px}html.theme--documenter-dark .modal-close:hover,html.theme--documenter-dark .delete:hover,html.theme--documenter-dark .modal-close:focus,html.theme--documenter-dark .delete:focus{background-color:rgba(10,10,10,0.3)}html.theme--documenter-dark .modal-close:active,html.theme--documenter-dark .delete:active{background-color:rgba(10,10,10,0.4)}html.theme--documenter-dark .is-small.modal-close,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.modal-close,html.theme--documenter-dark .is-small.delete,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.delete{height:16px;max-height:16px;max-width:16px;min-height:16px;min-width:16px;width:16px}html.theme--documenter-dark .is-medium.modal-close,html.theme--documenter-dark .is-medium.delete{height:24px;max-height:24px;max-width:24px;min-height:24px;min-width:24px;width:24px}html.theme--documenter-dark .is-large.modal-close,html.theme--documenter-dark .is-large.delete{height:32px;max-height:32px;max-width:32px;min-height:32px;min-width:32px;width:32px}html.theme--documenter-dark .control.is-loading::after,html.theme--documenter-dark .select.is-loading::after,html.theme--documenter-dark .loader,html.theme--documenter-dark .button.is-loading::after{animation:spinAround 500ms infinite linear;border:2px solid 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+  Author: @ericwbailey
+  Maintainer: @ericwbailey
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.button.is-danger.is-inverted.is-outlined.is-hovered,html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined:focus,html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined.is-focused{background-color:#fff;color:#9e1b0d}html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined.is-loading:hover::after,html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined.is-loading.is-hovered::after,html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined.is-loading:focus::after,html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined.is-loading.is-focused::after{border-color:transparent transparent #9e1b0d #9e1b0d !important}html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined[disabled],fieldset[disabled] html.theme--documenter-dark .button.is-danger.is-inverted.is-outlined{background-color:transparent;border-color:#fff;box-shadow:none;color:#fff}html.theme--documenter-dark .button.is-danger.is-light{background-color:#fdeeec;color:#ec311d}html.theme--documenter-dark .button.is-danger.is-light:hover,html.theme--documenter-dark .button.is-danger.is-light.is-hovered{background-color:#fce3e0;border-color:transparent;color:#ec311d}html.theme--documenter-dark .button.is-danger.is-light:active,html.theme--documenter-dark .button.is-danger.is-light.is-active{background-color:#fcd8d5;border-color:transparent;color:#ec311d}html.theme--documenter-dark .button.is-small,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.button{font-size:.75rem}html.theme--documenter-dark .button.is-small:not(.is-rounded),html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.button:not(.is-rounded){border-radius:3px}html.theme--documenter-dark .button.is-normal{font-size:1rem}html.theme--documenter-dark .button.is-medium{font-size:1.25rem}html.theme--documenter-dark .button.is-large{font-size:1.5rem}html.theme--documenter-dark .button[disabled],fieldset[disabled] html.theme--documenter-dark .button{background-color:#8c9b9d;border-color:#5e6d6f;box-shadow:none;opacity:.5}html.theme--documenter-dark .button.is-fullwidth{display:flex;width:100%}html.theme--documenter-dark .button.is-loading{color:transparent !important;pointer-events:none}html.theme--documenter-dark .button.is-loading::after{position:absolute;left:calc(50% - (1em * 0.5));top:calc(50% - (1em * 0.5));position:absolute !important}html.theme--documenter-dark .button.is-static{background-color:#282f2f;border-color:#5e6d6f;color:#dbdee0;box-shadow:none;pointer-events:none}html.theme--documenter-dark .button.is-rounded,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.button{border-radius:9999px;padding-left:calc(1em + 0.25em);padding-right:calc(1em + 0.25em)}html.theme--documenter-dark .buttons{align-items:center;display:flex;flex-wrap:wrap;justify-content:flex-start}html.theme--documenter-dark .buttons .button{margin-bottom:0.5rem}html.theme--documenter-dark .buttons .button:not(:last-child):not(.is-fullwidth){margin-right:.5rem}html.theme--documenter-dark .buttons:last-child{margin-bottom:-0.5rem}html.theme--documenter-dark .buttons:not(:last-child){margin-bottom:1rem}html.theme--documenter-dark .buttons.are-small .button:not(.is-normal):not(.is-medium):not(.is-large){font-size:.75rem}html.theme--documenter-dark .buttons.are-small .button:not(.is-normal):not(.is-medium):not(.is-large):not(.is-rounded){border-radius:3px}html.theme--documenter-dark .buttons.are-medium .button:not(.is-small):not(.is-normal):not(.is-large){font-size:1.25rem}html.theme--documenter-dark .buttons.are-large .button:not(.is-small):not(.is-normal):not(.is-medium){font-size:1.5rem}html.theme--documenter-dark .buttons.has-addons .button:not(:first-child){border-bottom-left-radius:0;border-top-left-radius:0}html.theme--documenter-dark .buttons.has-addons .button:not(:last-child){border-bottom-right-radius:0;border-top-right-radius:0;margin-right:-1px}html.theme--documenter-dark .buttons.has-addons .button:last-child{margin-right:0}html.theme--documenter-dark .buttons.has-addons .button:hover,html.theme--documenter-dark .buttons.has-addons .button.is-hovered{z-index:2}html.theme--documenter-dark .buttons.has-addons .button:focus,html.theme--documenter-dark .buttons.has-addons .button.is-focused,html.theme--documenter-dark .buttons.has-addons .button:active,html.theme--documenter-dark .buttons.has-addons .button.is-active,html.theme--documenter-dark .buttons.has-addons .button.is-selected{z-index:3}html.theme--documenter-dark .buttons.has-addons .button:focus:hover,html.theme--documenter-dark .buttons.has-addons .button.is-focused:hover,html.theme--documenter-dark .buttons.has-addons .button:active:hover,html.theme--documenter-dark .buttons.has-addons .button.is-active:hover,html.theme--documenter-dark .buttons.has-addons .button.is-selected:hover{z-index:4}html.theme--documenter-dark .buttons.has-addons .button.is-expanded{flex-grow:1;flex-shrink:1}html.theme--documenter-dark .buttons.is-centered{justify-content:center}html.theme--documenter-dark .buttons.is-centered:not(.has-addons) .button:not(.is-fullwidth){margin-left:0.25rem;margin-right:0.25rem}html.theme--documenter-dark .buttons.is-right{justify-content:flex-end}html.theme--documenter-dark .buttons.is-right:not(.has-addons) .button:not(.is-fullwidth){margin-left:0.25rem;margin-right:0.25rem}@media screen and (max-width: 768px){html.theme--documenter-dark .button.is-responsive.is-small,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.is-responsive{font-size:.5625rem}html.theme--documenter-dark .button.is-responsive,html.theme--documenter-dark .button.is-responsive.is-normal{font-size:.65625rem}html.theme--documenter-dark .button.is-responsive.is-medium{font-size:.75rem}html.theme--documenter-dark .button.is-responsive.is-large{font-size:1rem}}@media screen and (min-width: 769px) and (max-width: 1055px){html.theme--documenter-dark .button.is-responsive.is-small,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.is-responsive{font-size:.65625rem}html.theme--documenter-dark .button.is-responsive,html.theme--documenter-dark .button.is-responsive.is-normal{font-size:.75rem}html.theme--documenter-dark .button.is-responsive.is-medium{font-size:1rem}html.theme--documenter-dark .button.is-responsive.is-large{font-size:1.25rem}}html.theme--documenter-dark .container{flex-grow:1;margin:0 auto;position:relative;width:auto}html.theme--documenter-dark .container.is-fluid{max-width:none !important;padding-left:32px;padding-right:32px;width:100%}@media screen and (min-width: 1056px){html.theme--documenter-dark .container{max-width:992px}}@media screen and (max-width: 1215px){html.theme--documenter-dark .container.is-widescreen:not(.is-max-desktop){max-width:1152px}}@media screen and (max-width: 1407px){html.theme--documenter-dark .container.is-fullhd:not(.is-max-desktop):not(.is-max-widescreen){max-width:1344px}}@media screen and (min-width: 1216px){html.theme--documenter-dark .container:not(.is-max-desktop){max-width:1152px}}@media screen and (min-width: 1408px){html.theme--documenter-dark .container:not(.is-max-desktop):not(.is-max-widescreen){max-width:1344px}}html.theme--documenter-dark .content li+li{margin-top:0.25em}html.theme--documenter-dark .content p:not(:last-child),html.theme--documenter-dark .content dl:not(:last-child),html.theme--documenter-dark .content ol:not(:last-child),html.theme--documenter-dark .content ul:not(:last-child),html.theme--documenter-dark .content blockquote:not(:last-child),html.theme--documenter-dark .content pre:not(:last-child),html.theme--documenter-dark .content table:not(:last-child){margin-bottom:1em}html.theme--documenter-dark .content h1,html.theme--documenter-dark .content h2,html.theme--documenter-dark .content h3,html.theme--documenter-dark .content h4,html.theme--documenter-dark .content h5,html.theme--documenter-dark .content h6{color:#f2f2f2;font-weight:600;line-height:1.125}html.theme--documenter-dark .content h1{font-size:2em;margin-bottom:0.5em}html.theme--documenter-dark .content h1:not(:first-child){margin-top:1em}html.theme--documenter-dark .content h2{font-size:1.75em;margin-bottom:0.5714em}html.theme--documenter-dark .content h2:not(:first-child){margin-top:1.1428em}html.theme--documenter-dark .content h3{font-size:1.5em;margin-bottom:0.6666em}html.theme--documenter-dark .content h3:not(:first-child){margin-top:1.3333em}html.theme--documenter-dark .content h4{font-size:1.25em;margin-bottom:0.8em}html.theme--documenter-dark .content h5{font-size:1.125em;margin-bottom:0.8888em}html.theme--documenter-dark .content h6{font-size:1em;margin-bottom:1em}html.theme--documenter-dark .content blockquote{background-color:#282f2f;border-left:5px solid #5e6d6f;padding:1.25em 1.5em}html.theme--documenter-dark .content ol{list-style-position:outside;margin-left:2em;margin-top:1em}html.theme--documenter-dark .content ol:not([type]){list-style-type:decimal}html.theme--documenter-dark .content ol.is-lower-alpha:not([type]){list-style-type:lower-alpha}html.theme--documenter-dark .content ol.is-lower-roman:not([type]){list-style-type:lower-roman}html.theme--documenter-dark .content ol.is-upper-alpha:not([type]){list-style-type:upper-alpha}html.theme--documenter-dark .content ol.is-upper-roman:not([type]){list-style-type:upper-roman}html.theme--documenter-dark .content ul{list-style:disc outside;margin-left:2em;margin-top:1em}html.theme--documenter-dark .content ul ul{list-style-type:circle;margin-top:0.5em}html.theme--documenter-dark .content ul ul ul{list-style-type:square}html.theme--documenter-dark .content dd{margin-left:2em}html.theme--documenter-dark .content figure{margin-left:2em;margin-right:2em;text-align:center}html.theme--documenter-dark .content figure:not(:first-child){margin-top:2em}html.theme--documenter-dark .content figure:not(:last-child){margin-bottom:2em}html.theme--documenter-dark .content figure img{display:inline-block}html.theme--documenter-dark .content figure figcaption{font-style:italic}html.theme--documenter-dark .content pre{-webkit-overflow-scrolling:touch;overflow-x:auto;padding:0;white-space:pre;word-wrap:normal}html.theme--documenter-dark .content sup,html.theme--documenter-dark .content sub{font-size:75%}html.theme--documenter-dark .content table{width:100%}html.theme--documenter-dark .content table td,html.theme--documenter-dark .content table th{border:1px solid #5e6d6f;border-width:0 0 1px;padding:0.5em 0.75em;vertical-align:top}html.theme--documenter-dark .content table th{color:#f2f2f2}html.theme--documenter-dark .content table th:not([align]){text-align:inherit}html.theme--documenter-dark .content table thead td,html.theme--documenter-dark .content table thead th{border-width:0 0 2px;color:#f2f2f2}html.theme--documenter-dark .content table tfoot td,html.theme--documenter-dark .content table tfoot th{border-width:2px 0 0;color:#f2f2f2}html.theme--documenter-dark .content table tbody tr:last-child td,html.theme--documenter-dark .content table tbody tr:last-child th{border-bottom-width:0}html.theme--documenter-dark .content .tabs li+li{margin-top:0}html.theme--documenter-dark .content.is-small,html.theme--documenter-dark #documenter .docs-sidebar form.docs-search>input.content{font-size:.75rem}html.theme--documenter-dark .content.is-normal{font-size:1rem}html.theme--documenter-dark .content.is-medium{font-size:1.25rem}html.theme--documenter-dark .content.is-large{font-size:1.5rem}html.theme--documenter-dark .icon{align-items:center;display:inline-flex;justify-content:center;height:1.5rem;width:1.5rem}html.theme--documenter-dark .icon.is-small,html.theme--documenter-dark #documenter 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#documenter .docs-sidebar .docs-logo>img img.is-rounded{border-radius:9999px}html.theme--documenter-dark .image.is-fullwidth,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-fullwidth{width:100%}html.theme--documenter-dark .image.is-square img,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-square img,html.theme--documenter-dark .image.is-square .has-ratio,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-square .has-ratio,html.theme--documenter-dark .image.is-1by1 img,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-1by1 img,html.theme--documenter-dark .image.is-1by1 .has-ratio,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-1by1 .has-ratio,html.theme--documenter-dark .image.is-5by4 img,html.theme--documenter-dark #documenter .docs-sidebar .docs-logo>img.is-5by4 img,html.theme--documenter-dark .image.is-5by4 .has-ratio,html.theme--documenter-dark #documenter 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diff --git a/dev/assets/themes/documenter-light.css b/dev/assets/themes/documenter-light.css
new file mode 100644
index 000000000..2f168c77b
--- /dev/null
+++ b/dev/assets/themes/documenter-light.css
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.filter-tabs::-webkit-scrollbar-thumb{background-color:gray;border-radius:1rem}#search-modal .modal-card-body::-webkit-scrollbar-track,#search-modal .filter-tabs::-webkit-scrollbar-track{-webkit-box-shadow:inset 0 0 6px rgba(0,0,0,0.6);background-color:transparent}.w-100{width:100%}.gap-2{gap:0.5rem}.gap-4{gap:1rem}.gap-8{gap:2rem}.ansi span.sgr1{font-weight:bolder}.ansi span.sgr2{font-weight:lighter}.ansi span.sgr3{font-style:italic}.ansi span.sgr4{text-decoration:underline}.ansi span.sgr7{color:#fff;background-color:#222}.ansi span.sgr8{color:transparent}.ansi span.sgr8 span{color:transparent}.ansi span.sgr9{text-decoration:line-through}.ansi span.sgr30{color:#242424}.ansi span.sgr31{color:#a7201f}.ansi span.sgr32{color:#066f00}.ansi span.sgr33{color:#856b00}.ansi span.sgr34{color:#2149b0}.ansi span.sgr35{color:#7d4498}.ansi span.sgr36{color:#007989}.ansi span.sgr37{color:gray}.ansi span.sgr40{background-color:#242424}.ansi span.sgr41{background-color:#a7201f}.ansi span.sgr42{background-color:#066f00}.ansi span.sgr43{background-color:#856b00}.ansi span.sgr44{background-color:#2149b0}.ansi span.sgr45{background-color:#7d4498}.ansi span.sgr46{background-color:#007989}.ansi span.sgr47{background-color:gray}.ansi span.sgr90{color:#616161}.ansi span.sgr91{color:#cb3c33}.ansi span.sgr92{color:#0e8300}.ansi span.sgr93{color:#a98800}.ansi span.sgr94{color:#3c5dcd}.ansi span.sgr95{color:#9256af}.ansi span.sgr96{color:#008fa3}.ansi span.sgr97{color:#f5f5f5}.ansi span.sgr100{background-color:#616161}.ansi span.sgr101{background-color:#cb3c33}.ansi span.sgr102{background-color:#0e8300}.ansi span.sgr103{background-color:#a98800}.ansi span.sgr104{background-color:#3c5dcd}.ansi span.sgr105{background-color:#9256af}.ansi span.sgr106{background-color:#008fa3}.ansi span.sgr107{background-color:#f5f5f5}code.language-julia-repl>span.hljs-meta{color:#066f00;font-weight:bolder}/*!
+  Theme: Default
+  Description: Original highlight.js style
+  Author: (c) Ivan Sagalaev <maniac@softwaremaniacs.org>
+  Maintainer: @highlightjs/core-team
+  Website: https://highlightjs.org/
+  License: see project LICENSE
+  Touched: 2021
+*/pre code.hljs{display:block;overflow-x:auto;padding:1em}code.hljs{padding:3px 5px}.hljs{background:#F3F3F3;color:#444}.hljs-comment{color:#697070}.hljs-tag,.hljs-punctuation{color:#444a}.hljs-tag .hljs-name,.hljs-tag .hljs-attr{color:#444}.hljs-keyword,.hljs-attribute,.hljs-selector-tag,.hljs-meta .hljs-keyword,.hljs-doctag,.hljs-name{font-weight:bold}.hljs-type,.hljs-string,.hljs-number,.hljs-selector-id,.hljs-selector-class,.hljs-quote,.hljs-template-tag,.hljs-deletion{color:#880000}.hljs-title,.hljs-section{color:#880000;font-weight:bold}.hljs-regexp,.hljs-symbol,.hljs-variable,.hljs-template-variable,.hljs-link,.hljs-selector-attr,.hljs-operator,.hljs-selector-pseudo{color:#ab5656}.hljs-literal{color:#695}.hljs-built_in,.hljs-bullet,.hljs-code,.hljs-addition{color:#397300}.hljs-meta{color:#1f7199}.hljs-meta .hljs-string{color:#38a}.hljs-emphasis{font-style:italic}.hljs-strong{font-weight:bold}.gap-4{gap:1rem}
diff --git a/dev/assets/themeswap.js b/dev/assets/themeswap.js
new file mode 100644
index 000000000..9f5eebe6a
--- /dev/null
+++ b/dev/assets/themeswap.js
@@ -0,0 +1,84 @@
+// Small function to quickly swap out themes. Gets put into the <head> tag..
+function set_theme_from_local_storage() {
+  // Initialize the theme to null, which means default
+  var theme = null;
+  // If the browser supports the localstorage and is not disabled then try to get the
+  // documenter theme
+  if (window.localStorage != null) {
+    // Get the user-picked theme from localStorage. May be `null`, which means the default
+    // theme.
+    theme = window.localStorage.getItem("documenter-theme");
+  }
+  // Check if the users preference is for dark color scheme
+  var darkPreference =
+    window.matchMedia("(prefers-color-scheme: dark)").matches === true;
+  // Initialize a few variables for the loop:
+  //
+  //  - active: will contain the index of the theme that should be active. Note that there
+  //    is no guarantee that localStorage contains sane values. If `active` stays `null`
+  //    we either could not find the theme or it is the default (primary) theme anyway.
+  //    Either way, we then need to stick to the primary theme.
+  //
+  //  - disabled: style sheets that should be disabled (i.e. all the theme style sheets
+  //    that are not the currently active theme)
+  var active = null;
+  var disabled = [];
+  var primaryLightTheme = null;
+  var primaryDarkTheme = null;
+  for (var i = 0; i < document.styleSheets.length; i++) {
+    var ss = document.styleSheets[i];
+    // The <link> tag of each style sheet is expected to have a data-theme-name attribute
+    // which must contain the name of the theme. The names in localStorage much match this.
+    var themename = ss.ownerNode.getAttribute("data-theme-name");
+    // attribute not set => non-theme stylesheet => ignore
+    if (themename === null) continue;
+    // To distinguish the default (primary) theme, it needs to have the data-theme-primary
+    // attribute set.
+    if (ss.ownerNode.getAttribute("data-theme-primary") !== null) {
+      primaryLightTheme = themename;
+    }
+    // Check if the theme is primary dark theme so that we could store its name in darkTheme
+    if (ss.ownerNode.getAttribute("data-theme-primary-dark") !== null) {
+      primaryDarkTheme = themename;
+    }
+    // If we find a matching theme (and it's not the default), we'll set active to non-null
+    if (themename === theme) active = i;
+    // Store the style sheets of inactive themes so that we could disable them
+    if (themename !== theme) disabled.push(ss);
+  }
+  var activeTheme = null;
+  if (active !== null) {
+    // If we did find an active theme, we'll (1) add the theme--$(theme) class to <html>
+    document.getElementsByTagName("html")[0].className = "theme--" + theme;
+    activeTheme = theme;
+  } else {
+    // If we did _not_ find an active theme, then we need to fall back to the primary theme
+    // which can either be dark or light, depending on the user's OS preference.
+    var activeTheme = darkPreference ? primaryDarkTheme : primaryLightTheme;
+    // In case it somehow happens that the relevant primary theme was not found in the
+    // preceding loop, we abort without doing anything.
+    if (activeTheme === null) {
+      console.error("Unable to determine primary theme.");
+      return;
+    }
+    // When switching to the primary light theme, then we must not have a class name
+    // for the <html> tag. That's only for non-primary or the primary dark theme.
+    if (darkPreference) {
+      document.getElementsByTagName("html")[0].className =
+        "theme--" + activeTheme;
+    } else {
+      document.getElementsByTagName("html")[0].className = "";
+    }
+  }
+  for (var i = 0; i < document.styleSheets.length; i++) {
+    var ss = document.styleSheets[i];
+    // The <link> tag of each style sheet is expected to have a data-theme-name attribute
+    // which must contain the name of the theme. The names in localStorage much match this.
+    var themename = ss.ownerNode.getAttribute("data-theme-name");
+    // attribute not set => non-theme stylesheet => ignore
+    if (themename === null) continue;
+    // we'll disable all the stylesheets, except for the active one
+    ss.disabled = !(themename == activeTheme);
+  }
+}
+set_theme_from_local_storage();
diff --git a/dev/assets/warner.js b/dev/assets/warner.js
new file mode 100644
index 000000000..3f6f5d008
--- /dev/null
+++ b/dev/assets/warner.js
@@ -0,0 +1,52 @@
+function maybeAddWarning() {
+  // DOCUMENTER_NEWEST is defined in versions.js, DOCUMENTER_CURRENT_VERSION and DOCUMENTER_STABLE
+  // in siteinfo.js.
+  // If either of these are undefined something went horribly wrong, so we abort.
+  if (
+    window.DOCUMENTER_NEWEST === undefined ||
+    window.DOCUMENTER_CURRENT_VERSION === undefined ||
+    window.DOCUMENTER_STABLE === undefined
+  ) {
+    return;
+  }
+
+  // Current version is not a version number, so we can't tell if it's the newest version. Abort.
+  if (!/v(\d+\.)*\d+/.test(window.DOCUMENTER_CURRENT_VERSION)) {
+    return;
+  }
+
+  // Current version is newest version, so no need to add a warning.
+  if (window.DOCUMENTER_NEWEST === window.DOCUMENTER_CURRENT_VERSION) {
+    return;
+  }
+
+  // Add a noindex meta tag (unless one exists) so that search engines don't index this version of the docs.
+  if (document.body.querySelector('meta[name="robots"]') === null) {
+    const meta = document.createElement("meta");
+    meta.name = "robots";
+    meta.content = "noindex";
+
+    document.getElementsByTagName("head")[0].appendChild(meta);
+  }
+
+  const div = document.createElement("div");
+  div.classList.add("outdated-warning-overlay");
+  const closer = document.createElement("button");
+  closer.classList.add("outdated-warning-closer", "delete");
+  closer.addEventListener("click", function () {
+    document.body.removeChild(div);
+  });
+  const href = window.documenterBaseURL + "/../" + window.DOCUMENTER_STABLE;
+  div.innerHTML =
+    'This documentation is not for the latest stable release, but for either the development version or an older release.<br><a href="' +
+    href +
+    '">Click here to go to the documentation for the latest stable release.</a>';
+  div.appendChild(closer);
+  document.body.appendChild(div);
+}
+
+if (document.readyState === "loading") {
+  document.addEventListener("DOMContentLoaded", maybeAddWarning);
+} else {
+  maybeAddWarning();
+}
diff --git a/dev/devLog.md.license b/dev/devLog.md.license
new file mode 100644
index 000000000..e2c8c6448
--- /dev/null
+++ b/dev/devLog.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/devLog/index.html b/dev/devLog/index.html
new file mode 100644
index 000000000..5f509efcb
--- /dev/null
+++ b/dev/devLog/index.html
@@ -0,0 +1,49 @@
+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Dev Log · PeriLab</title><meta name="title" content="Dev Log · PeriLab"/><meta property="og:title" content="Dev Log · PeriLab"/><meta property="twitter:title" content="Dev Log · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/devLog/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/devLog/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/devLog/"/><script data-outdated-warner src="../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL=".."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../assets/documenter.js"></script><script src="../search_index.js"></script><script src="../siteinfo.js"></script><script src="../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../assets/themeswap.js"></script><link href="../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../"><img class="docs-light-only" src="../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../">Introduction</a></li><li><a class="tocitem" href="../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../lib/functions/">Functions</a></li><li><a class="tocitem" href="../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../lib/references/">References</a></li><li class="is-active"><a class="tocitem" href>Dev Log</a><ul class="internal"><li><a class="tocitem" href="#Dev-Steps"><span>Dev Steps</span></a></li><li><a class="tocitem" href="#Design-decisions"><span>Design decisions</span></a></li><li><a class="tocitem" href="#Issues"><span>Issues</span></a></li><li><a class="tocitem" href="#planned-feature"><span>planned feature</span></a></li></ul></li><li><a class="tocitem" href="../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>Dev Log</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Dev Log</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/devLog.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><p>&lt;!– SPDX-FileCopyrightText: 2023 Christian Willberg &lt;christian.willberg@dlr.de&gt;, Jan-Timo Hesse &lt;jan-timo.hesse@dlr.de&gt;</p><p>SPDX-License-Identifier: BSD-3-Clause –&gt;</p><h2 id="Dev-Steps"><a class="docs-heading-anchor" href="#Dev-Steps">Dev Steps</a><a id="Dev-Steps-1"></a><a class="docs-heading-anchor-permalink" href="#Dev-Steps" title="Permalink"></a></h2><pre><code class="nohighlight hljs">1. dof für koordinaten an alle cores verteilen verteilen -&gt; done
+2. num_responder num_controller verteilen -&gt; done
+3. coordinatenfelder initialisieren auf allen Knoten -&gt; done
+4. versenden von Koordinaten -&gt; done
+5. versenden der Block_Id der Knoten -&gt; done
+5.a neighborhoodlist -&gt; num neighbor für jeden knoten -&gt; done
+                     -&gt; feld init an jedem knoten -&gt; das vielleicht skalierbare referenz? -&gt; done
+5.b neighboorhoodlist verteilen -&gt; done
+5.c bond init lists -&gt; done
+!-----------
+6. loc to glob -&gt; distributionsfeld an die Knoten -&gt; done 
+7. glob to loc ableiten für RB Knoten -&gt; done
+8. overlapmap verteilen an Knoten -&gt; send to all! -&gt; done
+! ---------
+9. block filter -&gt; auf den Kernen block_id -&gt; alle Knoten -&gt; done
+10. BC Filter -&gt; an alle -&gt; done
+! -------------
+11. Nachbarschaftslisten versenden ! wie in sinnvoller Weise?
+12. bondvectors set to zero -&gt; done
+13. bc interpreter -&gt; done
+13.a nodesets in mesh -&gt; done
+14. overlap synchronisation
+15. bc in solver -&gt; done
+16. verlet solver -&gt; pacackage?
+17. write output -&gt; done
+18. integrate first model
+18.a step width determination -&gt; done
+19. first test
+20. 2D arrays in fields
+21. params reader for material + physics -&gt; done
+22. compute class</code></pre><h2 id="Design-decisions"><a class="docs-heading-anchor" href="#Design-decisions">Design decisions</a><a id="Design-decisions-1"></a><a class="docs-heading-anchor-permalink" href="#Design-decisions" title="Permalink"></a></h2><p>Each vector entry for a value exists for all nodes, also if the node does not have this property in a block. However, the synchronisation is very ugly, because all responder nodes of block with value I need the entry at the other core to. If not it will lead nowhere if MPI communication occurs</p><pre><code class="nohighlight hljs">IO
+nodesets are not defined yet in Exodus.jl
+
+snake_case for variables and functions
+PascalCase for modules and type names
+FULL_UPPERCASE for constants</code></pre><h2 id="Issues"><a class="docs-heading-anchor" href="#Issues">Issues</a><a id="Issues-1"></a><a class="docs-heading-anchor-permalink" href="#Issues" title="Permalink"></a></h2><pre><code class="nohighlight hljs">for n=4 -&gt; errors    
+MPI_Neighbor_alltoall -&gt; might be easier</code></pre><h2 id="planned-feature"><a class="docs-heading-anchor" href="#planned-feature">planned feature</a><a id="planned-feature-1"></a><a class="docs-heading-anchor-permalink" href="#planned-feature" title="Permalink"></a></h2><pre><code class="nohighlight hljs">test if blocks are defined in yaml, but missing in mesh
+https://github.com/StephenVavasis/Unroll.jl
+static arrays package -&gt; speed up -&gt; only for arrays smaller 100; inverte of Jacobian, etc.
+integration of FEM Julia package -&gt; coupling might be better, becaus of more functionality
+time step minimum for all cores -&gt; parallel computing! -&gt; done
+matrix -&gt; reshape from vector for better use
+search for jl files in material
+check the header for the material name
+include the file in the code via a makro
+material inclusion is very simple
+bonds as elements in exodus -&gt; filter small to large writing ?! -&gt; elements can be x,y to be represented both
+multiple materials in one block -&gt; evaluation order</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../lib/references/">« References</a><a class="docs-footer-nextpage" href="../lib/faq/">FAQ »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/index.html b/dev/index.html
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Introduction · PeriLab</title><meta name="title" content="Introduction · PeriLab"/><meta property="og:title" content="Introduction · PeriLab"/><meta property="twitter:title" content="Introduction · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/"/><script data-outdated-warner src="assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="assets/documenter.js"></script><script src="search_index.js"></script><script src="siteinfo.js"></script><script src="../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="assets/themeswap.js"></script><link href="assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href><img class="docs-light-only" src="assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href>PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li class="is-active"><a class="tocitem" href>Introduction</a><ul class="internal"><li><a class="tocitem" href="#What-is-PeriLab.jl?"><span>What is PeriLab.jl?</span></a></li><li><a class="tocitem" href="#PeriLab.jl-and-the-Peridynamics-Ecosystem"><span>PeriLab.jl and the Peridynamics Ecosystem</span></a></li><li><a class="tocitem" href="#Questions?"><span>Questions?</span></a></li><li><a class="tocitem" href="#Package-Manual"><span>Package Manual</span></a></li><li><a class="tocitem" href="#API"><span>API</span></a></li></ul></li><li><a class="tocitem" href="man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="man/input_yaml/">Input File</a></li><li><a class="tocitem" href="man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="lib/functions/">Functions</a></li><li><a class="tocitem" href="lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="lib/references/">References</a></li><li><a class="tocitem" href="devLog/">Dev Log</a></li><li><a class="tocitem" href="lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>Introduction</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Introduction</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/index.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="PeriLab"><a class="docs-heading-anchor" href="#PeriLab">PeriLab</a><a id="PeriLab-1"></a><a class="docs-heading-anchor-permalink" href="#PeriLab" title="Permalink"></a></h1><p>Welcome to the PeriLab documentation!</p><p>This resource aims to teach you everything you need to know to get up and running with tabular data manipulation using the PeriLab.jl package.</p><h2 id="What-is-PeriLab.jl?"><a class="docs-heading-anchor" href="#What-is-PeriLab.jl?">What is PeriLab.jl?</a><a id="What-is-PeriLab.jl?-1"></a><a class="docs-heading-anchor-permalink" href="#What-is-PeriLab.jl?" title="Permalink"></a></h2><p>PeriLab.jl provides a Peridynamics [<a href="lib/references/#BobaruF2016">1</a>] simulation core</p><p>Its design and functionality are similar to those of Peridigm  [<a href="lib/references/#LittlewoodDJ2023">2</a>] and several extenions [<a href="lib/references/#WillbergC2019">3</a>], [<a href="lib/references/#WillbergC2023">4</a>], [<a href="lib/references/#HesseJA2023">5</a>]. </p><h2 id="PeriLab.jl-and-the-Peridynamics-Ecosystem"><a class="docs-heading-anchor" href="#PeriLab.jl-and-the-Peridynamics-Ecosystem">PeriLab.jl and the Peridynamics Ecosystem</a><a id="PeriLab.jl-and-the-Peridynamics-Ecosystem-1"></a><a class="docs-heading-anchor-permalink" href="#PeriLab.jl-and-the-Peridynamics-Ecosystem" title="Permalink"></a></h2><p>Mesh-free particle-based methods are mostly used for the numerical approximation of peridynamics equations. [<a href="lib/references/#WillbergC2024">6</a>] provides an overview of current Peridynamics software developments. In addition to this, many local research groups are also developing their software. Most of the listed tools are problem-specific or developed by a single person. The most sophisticated software tools are EMU and Peridigm. EMU is not open source, but researchers can request the code. However, due to the code developments at the Sandia National labs and the rules of development, the code is officially not usable because the rules violate the &quot;Treaty on the Non-Proliferation of Nuclear Weapons&quot;.</p><p>Peridigm is an open-source tool that can be used for large-scale problems. It includes multiple material laws, simple damage models. Peridigm is usable under a BSD license. Currently, there is some irregular development ongoing. It provides multiple ways of model input and provides Paraview readable output. The whole code allows the analysis of large-scale problems. A lot of research has been performed utilizing the software.</p><p>One challenge, however, remains. How can Peridynamics be widely adopted? Classical continuum mechanics is extensively utilized in the engineering field through the finite element method. There is a multitude of commercial and non-commercial software tools available for this purpose. In the case of Peridynamics, this is not the case. Peridigm as the most advanced one provides an open-source code with many functionalities. However, the implementation effort is substantial, and the installation process is difficult and time-consuming. To implement the simplest material law you have to edit at least five files. If you add new files and folders in the project you have to deal with cmake scripts and all challenges related to it.</p><p>Moreover, the program is only partially maintained. This results in valuable research findings being underutilized, and Peridynamics, as a result, finds limited application outside of specific niche problems. There is a significant need for software that combines functionality, easy installation, and seamless integration. </p><h2 id="Questions?"><a class="docs-heading-anchor" href="#Questions?">Questions?</a><a id="Questions?-1"></a><a class="docs-heading-anchor-permalink" href="#Questions?" title="Permalink"></a></h2><p>If there is something you expect PeriLab to be capable of, but cannot figure out how to do, please reach out with questions in Domains/Data on <a href="https://github.com/PeriHub/PeriLab.jl/discussions">Discourse</a>.</p><p>Please report bugs by <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/issues/new">opening an issue</a>.</p><p>You can follow the <strong>source</strong> links throughout the documentation to jump right to the source files on GitHub to make pull requests for improving the documentation and function capabilities.</p><p>Please review <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/CONTRIBUTING.md">PeriLab contributing guidelines</a> before submitting your first PR!</p><p>Information on specific versions can be found on the <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/CHANGELOG.md">Release page</a>.</p><h2 id="Package-Manual"><a class="docs-heading-anchor" href="#Package-Manual">Package Manual</a><a id="Package-Manual-1"></a><a class="docs-heading-anchor-permalink" href="#Package-Manual" title="Permalink"></a></h2><ul><li><a href="man/basics/#First-Steps-with-PeriLab">First Steps with PeriLab</a></li><li class="no-marker"><ul><li><a href="man/basics/#Setting-up-the-Environment">Setting up the Environment</a></li></ul></li><li><a href="man/getting_started/#Getting-Started">Getting Started</a></li><li class="no-marker"><ul><li><a href="man/getting_started/#Installation">Installation</a></li><li><a href="man/getting_started/#Using-PeriLab">Using <code>PeriLab</code></a></li><li><a href="man/getting_started/#Using-PeriLab-with-multiple-processors-(MPI)">Using <code>PeriLab</code> with multiple processors (MPI)</a></li><li><a href="man/getting_started/#Training">Training</a></li><li><a href="man/getting_started/#Index">Index</a></li><li><a href="man/getting_started/#Functions">Functions</a></li></ul></li></ul><h2 id="API"><a class="docs-heading-anchor" href="#API">API</a><a id="API-1"></a><a class="docs-heading-anchor-permalink" href="#API" title="Permalink"></a></h2><p>Only exported (i.e. available for use without <code>PeriLab.</code> qualifier after loading the PeriLab.jl package with <code>using PeriLab</code>) types and functions are considered a part of the public API of the PeriLab.jl package. In general all such objects are documented in this manual (in case some documentation is missing please kindly report an issue <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/issues/new">here</a>).</p></article><nav class="docs-footer"><a class="docs-footer-nextpage" href="man/basics/">First Steps with PeriLab »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/index.md.license b/dev/index.md.license
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+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/lib/faq.md.license b/dev/lib/faq.md.license
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+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>FAQ · PeriLab</title><meta name="title" content="FAQ · PeriLab"/><meta property="og:title" content="FAQ · PeriLab"/><meta property="twitter:title" content="FAQ · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/lib/faq/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/lib/faq/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/lib/faq/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="../.."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../../assets/documenter.js"></script><script src="../../search_index.js"></script><script src="../../siteinfo.js"></script><script src="../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../functions/">Functions</a></li><li><a class="tocitem" href="../io_functions/">IO Functions</a></li><li><a class="tocitem" href="../physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li class="is-active"><a class="tocitem" href>FAQ</a><ul class="internal"><li><a class="tocitem" href="#General-Questions"><span>General Questions</span></a></li><li><a class="tocitem" href="#Installation-and-Setup"><span>Installation and Setup</span></a></li><li><a class="tocitem" href="#Simulation-and-Analysis"><span>Simulation and Analysis</span></a></li><li><a class="tocitem" href="#Troubleshooting"><span>Troubleshooting</span></a></li><li><a class="tocitem" href="#Additional-Assistance"><span>Additional Assistance</span></a></li><li><a class="tocitem" href="#Contributions"><span>Contributions</span></a></li></ul></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>FAQ</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>FAQ</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/lib/faq.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="PeriLab-Frequently-Asked-Questions-(FAQ)"><a class="docs-heading-anchor" href="#PeriLab-Frequently-Asked-Questions-(FAQ)">PeriLab - Frequently Asked Questions (FAQ)</a><a id="PeriLab-Frequently-Asked-Questions-(FAQ)-1"></a><a class="docs-heading-anchor-permalink" href="#PeriLab-Frequently-Asked-Questions-(FAQ)" title="Permalink"></a></h1><h2 id="General-Questions"><a class="docs-heading-anchor" href="#General-Questions">General Questions</a><a id="General-Questions-1"></a><a class="docs-heading-anchor-permalink" href="#General-Questions" title="Permalink"></a></h2><h3 id="What-is-PeriLab?"><a class="docs-heading-anchor" href="#What-is-PeriLab?">What is PeriLab?</a><a id="What-is-PeriLab?-1"></a><a class="docs-heading-anchor-permalink" href="#What-is-PeriLab?" title="Permalink"></a></h3><p>PeriLab is a peridynamic simulation software designed for different kind of mechanical problems.</p><h2 id="Installation-and-Setup"><a class="docs-heading-anchor" href="#Installation-and-Setup">Installation and Setup</a><a id="Installation-and-Setup-1"></a><a class="docs-heading-anchor-permalink" href="#Installation-and-Setup" title="Permalink"></a></h2><h3 id="What-are-the-system-requirements-for-installing-PeriLab?"><a class="docs-heading-anchor" href="#What-are-the-system-requirements-for-installing-PeriLab?">What are the system requirements for installing PeriLab?</a><a id="What-are-the-system-requirements-for-installing-PeriLab?-1"></a><a class="docs-heading-anchor-permalink" href="#What-are-the-system-requirements-for-installing-PeriLab?" title="Permalink"></a></h3><p>In order to install PeriLab, you will need to have a recent version of Julia or Docker installed on your system.</p><h3 id="How-do-I-update-my-PeriLab-software?"><a class="docs-heading-anchor" href="#How-do-I-update-my-PeriLab-software?">How do I update my PeriLab software?</a><a id="How-do-I-update-my-PeriLab-software?-1"></a><a class="docs-heading-anchor-permalink" href="#How-do-I-update-my-PeriLab-software?" title="Permalink"></a></h3><p>To update PeriLab you just need to run <code>julia -e &quot;using Pkg; Pkg.update()&quot;</code> or pull the latest version of the PeriLab Docker image.</p><h2 id="Simulation-and-Analysis"><a class="docs-heading-anchor" href="#Simulation-and-Analysis">Simulation and Analysis</a><a id="Simulation-and-Analysis-1"></a><a class="docs-heading-anchor-permalink" href="#Simulation-and-Analysis" title="Permalink"></a></h2><h3 id="How-can-I-generate-my-own-input-mesh?"><a class="docs-heading-anchor" href="#How-can-I-generate-my-own-input-mesh?">How can I generate my own input mesh?</a><a id="How-can-I-generate-my-own-input-mesh?-1"></a><a class="docs-heading-anchor-permalink" href="#How-can-I-generate-my-own-input-mesh?" title="Permalink"></a></h3><p>There are multiple options to generate your own input mesh:</p><ul><li><p>Use the <a href="https://gitlab.com/dlr-perihub/Perihub.jl">Perihub</a> framework to generate your own input mesh.</p></li><li><p>Generate your own input mesh with julia, <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/tree/main/examples/Training/meshing/mesh.jl?ref_type=heads">here</a> is an example.</p></li><li><p>Use an existing Abaqus Inputfile (.inp).</p></li><li><p>Transfer your mesh using <a href="https://github.com/nschloe/meshio">meshio</a></p></li><li><p>Create a feature issue and let us know what you need.</p></li></ul><h3 id="What-to-do-with-my-results?"><a class="docs-heading-anchor" href="#What-to-do-with-my-results?">What to do with my results?</a><a id="What-to-do-with-my-results?-1"></a><a class="docs-heading-anchor-permalink" href="#What-to-do-with-my-results?" title="Permalink"></a></h3><p>First of all congratulations 🎉 on the success of your simulation. Now, you can take a look at your results. To do that, you can use <a href="https://www.paraview.org/">ParaView</a> it&#39;s free and very powerful.</p><h3 id="Can-I-customize-parameters-for-my-simulations-in-PeriLab?"><a class="docs-heading-anchor" href="#Can-I-customize-parameters-for-my-simulations-in-PeriLab?">Can I customize parameters for my simulations in PeriLab?</a><a id="Can-I-customize-parameters-for-my-simulations-in-PeriLab?-1"></a><a class="docs-heading-anchor-permalink" href="#Can-I-customize-parameters-for-my-simulations-in-PeriLab?" title="Permalink"></a></h3><p>Yes, PeriLab allows users to customize various parameters to tailor simulations based on their specific requirements.</p><h2 id="Troubleshooting"><a class="docs-heading-anchor" href="#Troubleshooting">Troubleshooting</a><a id="Troubleshooting-1"></a><a class="docs-heading-anchor-permalink" href="#Troubleshooting" title="Permalink"></a></h2><h3 id="I&#39;m-experiencing-technical-issues-with-PeriLab.-What-should-I-do?"><a class="docs-heading-anchor" href="#I&#39;m-experiencing-technical-issues-with-PeriLab.-What-should-I-do?">I&#39;m experiencing technical issues with PeriLab. What should I do?</a><a id="I&#39;m-experiencing-technical-issues-with-PeriLab.-What-should-I-do?-1"></a><a class="docs-heading-anchor-permalink" href="#I&#39;m-experiencing-technical-issues-with-PeriLab.-What-should-I-do?" title="Permalink"></a></h3><p>If you encounter technical issues, please create an issue and describe it in detail.</p><h2 id="Additional-Assistance"><a class="docs-heading-anchor" href="#Additional-Assistance">Additional Assistance</a><a id="Additional-Assistance-1"></a><a class="docs-heading-anchor-permalink" href="#Additional-Assistance" title="Permalink"></a></h2><p>If your question is not addressed here, please feel free to <a href="mailto:christian.willberg@dlr.de">contact us</a> or create an issue for further assistance.</p><h2 id="Contributions"><a class="docs-heading-anchor" href="#Contributions">Contributions</a><a id="Contributions-1"></a><a class="docs-heading-anchor-permalink" href="#Contributions" title="Permalink"></a></h2><p>Contributions are always welcomed, take a look at the <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/CONTRIBUTING.md">Contributing Guidelines</a></p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../devLog/">« Dev Log</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/lib/functions.md.license b/dev/lib/functions.md.license
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--- /dev/null
+++ b/dev/lib/functions.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/lib/functions/index.html b/dev/lib/functions/index.html
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Functions · PeriLab</title><meta name="title" content="Functions · PeriLab"/><meta property="og:title" content="Functions · PeriLab"/><meta property="twitter:title" content="Functions · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/lib/functions/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/lib/functions/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/lib/functions/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="../.."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../../assets/documenter.js"></script><script src="../../search_index.js"></script><script src="../../siteinfo.js"></script><script src="../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li class="is-active"><a class="tocitem" href>Functions</a><ul class="internal"><li><a class="tocitem" href="#Index"><span>Index</span></a></li><li><a class="tocitem" href="#Data_manager"><span>Data_manager</span></a></li><li><a class="tocitem" href="#Solver"><span>Solver</span></a></li><li><a class="tocitem" href="#Verlet"><span>Verlet</span></a></li><li><a class="tocitem" href="#Boundary_conditions"><span>Boundary_conditions</span></a></li></ul></li><li><a class="tocitem" href="../io_functions/">IO Functions</a></li><li><a class="tocitem" href="../physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">API</a></li><li class="is-active"><a href>Functions</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Functions</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/lib/functions.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="Functions"><a class="docs-heading-anchor" href="#Functions">Functions</a><a id="Functions-1"></a><a class="docs-heading-anchor-permalink" href="#Functions" title="Permalink"></a></h1><h2 id="Index"><a class="docs-heading-anchor" href="#Index">Index</a><a id="Index-1"></a><a class="docs-heading-anchor-permalink" href="#Index" title="Permalink"></a></h2><ul><li><a href="#PeriLab.Data_manager.check_property"><code>PeriLab.Data_manager.check_property</code></a></li><li><a href="#PeriLab.Data_manager.create_bond_field"><code>PeriLab.Data_manager.create_bond_field</code></a></li><li><a href="#PeriLab.Data_manager.create_constant_bond_field"><code>PeriLab.Data_manager.create_constant_bond_field</code></a></li><li><a href="#PeriLab.Data_manager.create_constant_node_field"><code>PeriLab.Data_manager.create_constant_node_field</code></a></li><li><a href="#PeriLab.Data_manager.create_field"><code>PeriLab.Data_manager.create_field</code></a></li><li><a href="#PeriLab.Data_manager.create_node_field"><code>PeriLab.Data_manager.create_node_field</code></a></li><li><a href="#PeriLab.Data_manager.get_NP1_to_N_Dict"><code>PeriLab.Data_manager.get_NP1_to_N_Dict</code></a></li><li><a href="#PeriLab.Data_manager.get_all_field_keys"><code>PeriLab.Data_manager.get_all_field_keys</code></a></li><li><a href="#PeriLab.Data_manager.get_aniso_crit_values"><code>PeriLab.Data_manager.get_aniso_crit_values</code></a></li><li><a href="#PeriLab.Data_manager.get_block_list"><code>PeriLab.Data_manager.get_block_list</code></a></li><li><a href="#PeriLab.Data_manager.get_comm"><code>PeriLab.Data_manager.get_comm</code></a></li><li><a href="#PeriLab.Data_manager.get_crit_values_matrix"><code>PeriLab.Data_manager.get_crit_values_matrix</code></a></li><li><a href="#PeriLab.Data_manager.get_dof"><code>PeriLab.Data_manager.get_dof</code></a></li><li><a href="#PeriLab.Data_manager.get_field"><code>PeriLab.Data_manager.get_field</code></a></li><li><a href="#PeriLab.Data_manager.get_field_type"><code>PeriLab.Data_manager.get_field_type</code></a></li><li><a href="#PeriLab.Data_manager.get_inverse_nlist"><code>PeriLab.Data_manager.get_inverse_nlist</code></a></li><li><a href="#PeriLab.Data_manager.get_local_nodes"><code>PeriLab.Data_manager.get_local_nodes</code></a></li><li><a href="#PeriLab.Data_manager.get_max_rank"><code>PeriLab.Data_manager.get_max_rank</code></a></li><li><a href="#PeriLab.Data_manager.get_nlist"><code>PeriLab.Data_manager.get_nlist</code></a></li><li><a href="#PeriLab.Data_manager.get_nnodes"><code>PeriLab.Data_manager.get_nnodes</code></a></li><li><a href="#PeriLab.Data_manager.get_nnsets"><code>PeriLab.Data_manager.get_nnsets</code></a></li><li><a href="#PeriLab.Data_manager.get_nsets"><code>PeriLab.Data_manager.get_nsets</code></a></li><li><a href="#PeriLab.Data_manager.get_num_responder"><code>PeriLab.Data_manager.get_num_responder</code></a></li><li><a href="#PeriLab.Data_manager.get_overlap_map"><code>PeriLab.Data_manager.get_overlap_map</code></a></li><li><a href="#PeriLab.Data_manager.get_physics_options"><code>PeriLab.Data_manager.get_physics_options</code></a></li><li><a href="#PeriLab.Data_manager.get_properties"><code>PeriLab.Data_manager.get_properties</code></a></li><li><a href="#PeriLab.Data_manager.get_property"><code>PeriLab.Data_manager.get_property</code></a></li><li><a href="#PeriLab.Data_manager.get_rank"><code>PeriLab.Data_manager.get_rank</code></a></li><li><a href="#PeriLab.Data_manager.get_synch_fields"><code>PeriLab.Data_manager.get_synch_fields</code></a></li><li><a href="#PeriLab.Data_manager.init_property"><code>PeriLab.Data_manager.init_property</code></a></li><li><a href="#PeriLab.Data_manager.loc_to_glob"><code>PeriLab.Data_manager.loc_to_glob</code></a></li><li><a href="#PeriLab.Data_manager.rotation_data"><code>PeriLab.Data_manager.rotation_data</code></a></li><li><a href="#PeriLab.Data_manager.set_aniso_crit_values"><code>PeriLab.Data_manager.set_aniso_crit_values</code></a></li><li><a href="#PeriLab.Data_manager.set_block_list"><code>PeriLab.Data_manager.set_block_list</code></a></li><li><a href="#PeriLab.Data_manager.set_comm"><code>PeriLab.Data_manager.set_comm</code></a></li><li><a href="#PeriLab.Data_manager.set_crit_values_matrix"><code>PeriLab.Data_manager.set_crit_values_matrix</code></a></li><li><a href="#PeriLab.Data_manager.set_distribution"><code>PeriLab.Data_manager.set_distribution</code></a></li><li><a href="#PeriLab.Data_manager.set_dof"><code>PeriLab.Data_manager.set_dof</code></a></li><li><a href="#PeriLab.Data_manager.set_glob_to_loc"><code>PeriLab.Data_manager.set_glob_to_loc</code></a></li><li><a href="#PeriLab.Data_manager.set_inverse_nlist"><code>PeriLab.Data_manager.set_inverse_nlist</code></a></li><li><a href="#PeriLab.Data_manager.set_max_rank"><code>PeriLab.Data_manager.set_max_rank</code></a></li><li><a href="#PeriLab.Data_manager.set_nnodes"><code>PeriLab.Data_manager.set_nnodes</code></a></li><li><a href="#PeriLab.Data_manager.set_nnsets"><code>PeriLab.Data_manager.set_nnsets</code></a></li><li><a href="#PeriLab.Data_manager.set_nset"><code>PeriLab.Data_manager.set_nset</code></a></li><li><a href="#PeriLab.Data_manager.set_num_controller"><code>PeriLab.Data_manager.set_num_controller</code></a></li><li><a href="#PeriLab.Data_manager.set_num_responder"><code>PeriLab.Data_manager.set_num_responder</code></a></li><li><a href="#PeriLab.Data_manager.set_overlap_map"><code>PeriLab.Data_manager.set_overlap_map</code></a></li><li><a href="#PeriLab.Data_manager.set_physics_options"><code>PeriLab.Data_manager.set_physics_options</code></a></li><li><a href="#PeriLab.Data_manager.set_properties"><code>PeriLab.Data_manager.set_properties</code></a></li><li><a href="#PeriLab.Data_manager.set_property"><code>PeriLab.Data_manager.set_property</code></a></li><li><a href="#PeriLab.Data_manager.set_rank"><code>PeriLab.Data_manager.set_rank</code></a></li><li><a href="#PeriLab.Data_manager.set_synch"><code>PeriLab.Data_manager.set_synch</code></a></li><li><a href="#PeriLab.Data_manager.switch_NP1_to_N"><code>PeriLab.Data_manager.switch_NP1_to_N</code></a></li><li><a href="#PeriLab.Data_manager.synch_manager"><code>PeriLab.Data_manager.synch_manager</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.apply_bc"><code>PeriLab.Solver.Boundary_conditions.apply_bc</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.boundary_condition"><code>PeriLab.Solver.Boundary_conditions.boundary_condition</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.check_valid_bcs"><code>PeriLab.Solver.Boundary_conditions.check_valid_bcs</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.clean_up"><code>PeriLab.Solver.Boundary_conditions.clean_up</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.eval_bc"><code>PeriLab.Solver.Boundary_conditions.eval_bc</code></a></li><li><a href="#PeriLab.Solver.Boundary_conditions.init_BCs"><code>PeriLab.Solver.Boundary_conditions.init_BCs</code></a></li><li><a href="#PeriLab.Solver.Verlet.compute_crititical_time_step"><code>PeriLab.Solver.Verlet.compute_crititical_time_step</code></a></li><li><a href="#PeriLab.Solver.Verlet.compute_mechanical_critical_time_step"><code>PeriLab.Solver.Verlet.compute_mechanical_critical_time_step</code></a></li><li><a href="#PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step"><code>PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step</code></a></li><li><a href="#PeriLab.Solver.Verlet.get_cs_denominator"><code>PeriLab.Solver.Verlet.get_cs_denominator</code></a></li><li><a href="#PeriLab.Solver.Verlet.get_integration_steps"><code>PeriLab.Solver.Verlet.get_integration_steps</code></a></li><li><a href="#PeriLab.Solver.Verlet.init_solver"><code>PeriLab.Solver.Verlet.init_solver</code></a></li><li><a href="#PeriLab.Solver.Verlet.run_solver"><code>PeriLab.Solver.Verlet.run_solver</code></a></li><li><a href="#PeriLab.Solver.Verlet.test_timestep"><code>PeriLab.Solver.Verlet.test_timestep</code></a></li><li><a href="#PeriLab.Solver.get_block_nodes"><code>PeriLab.Solver.get_block_nodes</code></a></li><li><a href="#PeriLab.Solver.init"><code>PeriLab.Solver.init</code></a></li><li><a href="#PeriLab.Solver.set_density"><code>PeriLab.Solver.set_density</code></a></li><li><a href="#PeriLab.Solver.set_horizon"><code>PeriLab.Solver.set_horizon</code></a></li><li><a href="#PeriLab.Solver.solver"><code>PeriLab.Solver.solver</code></a></li><li><a href="#PeriLab.Solver.synchronise_field"><code>PeriLab.Solver.synchronise_field</code></a></li></ul><h2 id="Data_manager"><a class="docs-heading-anchor" href="#Data_manager">Data_manager</a><a id="Data_manager-1"></a><a class="docs-heading-anchor-permalink" href="#Data_manager" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_comm" href="#PeriLab.Data_manager.get_comm"><code>PeriLab.Data_manager.get_comm</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_comm()</code></pre><p>Get the MPI communicator</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L91-L95">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_comm" href="#PeriLab.Data_manager.set_comm"><code>PeriLab.Data_manager.set_comm</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_comm(comm::MPI.Comm)</code></pre><p>Set the MPI communicator</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: MPI communicator</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L101-L108">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.check_property" href="#PeriLab.Data_manager.check_property"><code>PeriLab.Data_manager.check_property</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_property(block_id::Int64, property::String)</code></pre><p>Checks if the specified <code>property</code> exists for the given <code>block_id</code>.</p><p><strong>Arguments</strong></p><ul><li><code>block_id::Int64</code>: The ID of the block.</li><li><code>property::String</code>: The name of the property to check.</li></ul><p><strong>Returns</strong></p><ul><li><code>Bool</code>: <code>true</code> if the property exists, <code>false</code> otherwise.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L118-L128">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.create_bond_field" href="#PeriLab.Data_manager.create_bond_field"><code>PeriLab.Data_manager.create_bond_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_bond_field(name::String, type::Type, dof::Int64)</code></pre><p>Creates a bond field with the given name, data type, and degree of freedom.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the bond field.</li><li><code>vartype::Type</code>: The data type of the bond field.</li><li><code>dof::Int64</code>: The degrees of freedom per bond.</li><li><code>VectorOrArray::String</code> (optional) - Vector or Materix; Default is vector</li></ul><p><strong>Returns</strong></p><ul><li><code>bond_field::Field</code>: The created bond field for the current time step.</li><li><code>bond_field_np1::Field</code>: The created bond field for the next time step.</li></ul><p>Example:</p><pre><code class="language-julia hljs">create_bond_field(&quot;stress&quot;, Float64, 6)  # creates a stress bond field with 6 degrees of freedom</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L138-L157">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.create_constant_bond_field" href="#PeriLab.Data_manager.create_constant_bond_field"><code>PeriLab.Data_manager.create_constant_bond_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_constant_bond_field(name::String, type::Type, dof::Int64, default_value::Union{Int64,Float64,Bool}=0))</code></pre><p>Creates a constant bond field with the given name, data type, and degree of freedom.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the bond field.</li><li><code>vartype::Type</code>: The data type of the bond field.</li><li><code>dof::Int64</code>: The degrees of freedom per bond.</li><li>default_value::Union{Int64,Float64,Bool}=0) (optional) - filled with zero or false</li></ul><p><strong>Returns</strong></p><ul><li><code>constant_bond_field::Field</code>: The created constant bond field.</li></ul><p>Example:</p><pre><code class="language-julia hljs">create_constant_bond_field(&quot;density&quot;, Float64, 1)  # creates a density constant bond field</code></pre><pre><code class="nohighlight hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L168-L186">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.create_constant_node_field" href="#PeriLab.Data_manager.create_constant_node_field"><code>PeriLab.Data_manager.create_constant_node_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_constant_node_field(name::String, type::Type, dof::Int64)</code></pre><p>Creates a constant node field with the given name, data type, and degree of freedom.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the node field.</li><li><code>vartype::Type</code>: The data type of the node field.</li><li><code>dof::Int64</code>: The degrees of freedom per node.</li><li><code>VectorOrArray::String</code> (optional) - Vector or Materix; Default is vector</li></ul><p><strong>Returns</strong></p><ul><li><code>constant_node_field::Field</code>: The created constant node field.</li></ul><p>Example:</p><pre><code class="language-julia hljs">create_constant_node_field(&quot;temperature&quot;, Float64, 1)  # creates a temperature constant node field</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L221-L239">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.create_field" href="#PeriLab.Data_manager.create_field"><code>PeriLab.Data_manager.create_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_field(name::String, vartype::Type, bondNode::String, dof::Int64, default_value::Any=0)</code></pre><p>Create a field with the given <code>name</code> for the specified <code>vartype</code>. If the field already exists, return the existing field. If the field does not exist, create a new field with the specified characteristics.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the field.</li><li><code>vartype::Type</code>: The data type of the field.</li><li><code>dof::Int64</code>: The degrees of freedom per node.</li><li><code>default_value::Any</code>: The default value of the field.</li></ul><p><strong>Returns</strong></p><p>The field with the given <code>name</code> and specified characteristics.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L247-L260">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.create_node_field" href="#PeriLab.Data_manager.create_node_field"><code>PeriLab.Data_manager.create_node_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_node_field(name::String, type::Type, dof::Int64)</code></pre><p>Creates a node field with the given name, data type, and degree of freedom.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the node field.</li><li><code>type::Type</code>: The data type of the node field.</li><li><code>dof::Int64</code>: The degree of freedom of each node.</li><li><code>VectorOrArray::String</code> (optional) - Vector or Materix; Default is vector</li></ul><p><strong>Returns</strong></p><ul><li><code>node_field::Field</code>: The created node field for the current time step.</li><li><code>node_field_np1::Field</code>: The created node field for the next time step.</li></ul><p>Example:</p><pre><code class="language-julia hljs">create_node_field(&quot;displacement&quot;, Float64, 3)  # creates a displacement node field with 3 degrees of freedom</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L326-L344">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_all_field_keys" href="#PeriLab.Data_manager.get_all_field_keys"><code>PeriLab.Data_manager.get_all_field_keys</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_all_field_keys()</code></pre><p>Returns a list of all field keys.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L362-L366">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_block_list" href="#PeriLab.Data_manager.get_block_list"><code>PeriLab.Data_manager.get_block_list</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_block_list()</code></pre><p>Returns a list of all block IDs.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L372-L376">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_crit_values_matrix" href="#PeriLab.Data_manager.get_crit_values_matrix"><code>PeriLab.Data_manager.get_crit_values_matrix</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_crit_values_matrix()</code></pre><p>Retrieves the critical values matrix.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L382-L386">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_aniso_crit_values" href="#PeriLab.Data_manager.get_aniso_crit_values"><code>PeriLab.Data_manager.get_aniso_crit_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_aniso_crit_values()</code></pre><p>Retrieves the critical values matrix.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L392-L396">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_dof" href="#PeriLab.Data_manager.get_dof"><code>PeriLab.Data_manager.get_dof</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_dof()</code></pre><p>Retrieves the degree of freedom (dof) value.</p><p><strong>Returns</strong></p><ul><li><code>dof</code> (integer): The current degree of freedom value.</li></ul><p>Example:</p><pre><code class="language-julia hljs">get_dof()  # returns the current degree of freedom</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L402-L414">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_field" href="#PeriLab.Data_manager.get_field"><code>PeriLab.Data_manager.get_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_field(name::String, time::String)</code></pre><p>Returns the field with the given name and time.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the field.</li><li><code>time::String</code>: The time of the field.</li></ul><p><strong>Returns</strong></p><ul><li><code>field::Field</code>: The field with the given name and time.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L420-L430">source</a></section><section><div><pre><code class="language-julia hljs">get_field(name::String, throw_error::Bool=true)</code></pre><p>Returns the field with the given name.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the field.</li><li><code>throw_error::Bool=true</code>: Whether to throw an error if the field does not exist.</li></ul><p><strong>Returns</strong></p><ul><li><code>field::Field</code>: The field with the given name.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L440-L450">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_field_type" href="#PeriLab.Data_manager.get_field_type"><code>PeriLab.Data_manager.get_field_type</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_field_type()</code></pre><p>Get the type of a field</p><p><strong>Returns</strong></p><ul><li><code>get_field_type</code> (string): returns the type of a field</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L493-L499">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_inverse_nlist" href="#PeriLab.Data_manager.get_inverse_nlist"><code>PeriLab.Data_manager.get_inverse_nlist</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_inverse_nlist()</code></pre><p>Get the inverse of the neighborhood list.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L510-L514">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_local_nodes" href="#PeriLab.Data_manager.get_local_nodes"><code>PeriLab.Data_manager.get_local_nodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_local_nodes()</code></pre><p>Determines the local node numbering.</p><p><strong>Returns</strong></p><ul><li><code>get_local_nodes</code> (array): returns local nodes.</li></ul><p>Example:</p><pre><code class="language-julia hljs">get_local_nodes()  # returns local nodes or if they do not exist at the core an empty array</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L520-L532">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_nlist" href="#PeriLab.Data_manager.get_nlist"><code>PeriLab.Data_manager.get_nlist</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_nlist()</code></pre><p>Get the neighborhood list.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L545-L549">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_nnodes" href="#PeriLab.Data_manager.get_nnodes"><code>PeriLab.Data_manager.get_nnodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_nnodes()</code></pre><p>Retrieves the number of nodes.</p><p><strong>Returns</strong></p><ul><li><code>num_controller::Int64</code> : The current number of nodes.</li></ul><p>Example:</p><pre><code class="language-julia hljs">get_nnodes()  # returns the current number of nodes </code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L563-L575">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_NP1_to_N_Dict" href="#PeriLab.Data_manager.get_NP1_to_N_Dict"><code>PeriLab.Data_manager.get_NP1_to_N_Dict</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_NP1_to_N_Dict()</code></pre><p>Get the NP1 to N dictionary</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L581-L585">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_nnsets" href="#PeriLab.Data_manager.get_nnsets"><code>PeriLab.Data_manager.get_nnsets</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_nnsets()</code></pre><p>Get the number of node sets.</p><p><strong>Returns</strong></p><ul><li><code>nnsets::Int</code>: The number of node sets.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L596-L603">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_nsets" href="#PeriLab.Data_manager.get_nsets"><code>PeriLab.Data_manager.get_nsets</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_nsets()</code></pre><p>Get the node sets</p><p><strong>Returns</strong></p><ul><li><code>nsets::Dict{String,Vector{Int64}}</code>: The node sets dictionary.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L609-L616">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_num_responder" href="#PeriLab.Data_manager.get_num_responder"><code>PeriLab.Data_manager.get_num_responder</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_num_responder()</code></pre><p>Get the the number of responder nodes</p><p><strong>Returns</strong></p><ul><li><code>num_responder::Int64</code>: The number of responder nodes</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L635-L642">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_overlap_map" href="#PeriLab.Data_manager.get_overlap_map"><code>PeriLab.Data_manager.get_overlap_map</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_overlap_map()</code></pre><p>Get the overlap map</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L648-L652">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_synch_fields" href="#PeriLab.Data_manager.get_synch_fields"><code>PeriLab.Data_manager.get_synch_fields</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_synch_fields()</code></pre><p>Get the fields to synchronize</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L658-L662">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_physics_options" href="#PeriLab.Data_manager.get_physics_options"><code>PeriLab.Data_manager.get_physics_options</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_physics_options()</code></pre><p>Get the physics options</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L668-L672">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_properties" href="#PeriLab.Data_manager.get_properties"><code>PeriLab.Data_manager.get_properties</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_properties(block_id::Int64, property::String)</code></pre><p>This function retrieves the value of a specified <code>property</code> for a given <code>block_id</code> if it exists in the properties dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>block_id</code>::Int64: The identifier of the block for which to retrieve the property.</li><li><code>property</code>::String: The dictionary entrycontaining the properties for the blocks.</li></ul><p><strong>Returns</strong></p><ul><li><code>property_value</code>::Any: The value associated with the specified <code>property</code> for the given <code>block_id</code>.</li><li><code>Dict()</code>: An empty dictionary if the specified <code>property</code> does not exist for the given <code>block_id</code>.</li></ul><p><strong>Example</strong></p><p>```julia block_properties = Dict(     1 =&gt; Dict(&quot;color&quot; =&gt; &quot;red&quot;, &quot;size&quot; =&gt; 10),     2 =&gt; Dict(&quot;color&quot; =&gt; &quot;blue&quot;, &quot;height&quot; =&gt; 20) )</p><p><strong>Retrieve the &#39;color&#39; property for block 1</strong></p><p>color<em>value = get</em>properties(1, &quot;color&quot;)  # Returns &quot;red&quot;</p><p><strong>Try to retrieve a non-existent property for block 2</strong></p><p>non<em>existent</em>value = get_properties(2, &quot;width&quot;)  # Returns an empty dictionary</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L689-L714">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_property" href="#PeriLab.Data_manager.get_property"><code>PeriLab.Data_manager.get_property</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_property(block_id::Int64, property::String, value_name::String)</code></pre><p>This function retrieves a specific <code>value_name</code> associated with a specified <code>property</code> for a given <code>block_id</code> if it exists in the properties dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>block_id</code>::Int64: The identifier of the block for which to retrieve the property.</li><li><code>property</code>::String: The String property type (e.g. Material model) for the blocks.</li><li><code>value_name</code>::String: The name of the value within the specified <code>property</code>.</li></ul><p><strong>Returns</strong></p><ul><li><code>value</code>::Any: The value associated with the specified <code>value_name</code> within the <code>property</code> for the given <code>block_id</code>.</li><li><code>nothing</code>: If the specified <code>block_id</code>, <code>property</code>, or <code>value_name</code> does not exist in the dictionary.</li></ul><p><strong>Example</strong></p><p>```julia</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L723-L740">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_rank" href="#PeriLab.Data_manager.get_rank"><code>PeriLab.Data_manager.get_rank</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_rank()</code></pre><p>This function returns the rank of the core.</p><p><strong>Returns</strong></p><ul><li><code>rank</code>::Any: The value of the <code>rank</code> variable.</li></ul><p><strong>Example</strong></p><p>```julia current<em>rank = get</em>rank()</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L753-L764">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.get_max_rank" href="#PeriLab.Data_manager.get_max_rank"><code>PeriLab.Data_manager.get_max_rank</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_max_rank()</code></pre><p>This function returns the maximal rank of MPI the <code>max_rank</code>.</p><p><strong>Returns</strong></p><ul><li><code>max_rank</code>::Number: The value of the <code>max_rank</code> variable.</li></ul><p><strong>Example</strong></p><p>```julia rank = get<em>max</em>rank()</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L770-L781">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.loc_to_glob" href="#PeriLab.Data_manager.loc_to_glob"><code>PeriLab.Data_manager.loc_to_glob</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">loc_to_glob(range::UnitRange{Int64})</code></pre><p>Converts the local index to the global index.</p><p><strong>Arguments</strong></p><ul><li><code>range::UnitRange{Int64}</code>: The range of the local index.</li></ul><p>Example:</p><pre><code class="language-julia hljs">loc_to_glob(1:10)  # converts the local index to the global index</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L813-L825">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.init_property" href="#PeriLab.Data_manager.init_property"><code>PeriLab.Data_manager.init_property</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_property()</code></pre><p>This function initializes the properties dictionary.</p><p><strong>Returns</strong></p><ul><li><code>keys(properties[1])</code>: The keys of the properties dictionary.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L831-L838">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.rotation_data" href="#PeriLab.Data_manager.rotation_data"><code>PeriLab.Data_manager.rotation_data</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">rotation_data()</code></pre><p>Check if the &quot;Angles&quot; field is present in the datamanager&#39;s field keys. If present, return true and retrieve the value of the &quot;Angles&quot; field. If not present, return false and nothing.</p><p><strong>Input</strong></p><p>element<em>or</em>node::String=&quot;Node&quot; :  &quot;Node&quot; or &quot;Element&quot; angles; Node is default</p><p><strong>Returns</strong></p><ul><li><code>Tuple{Bool, Union{Nothing, Any}}</code>: A tuple containing a Boolean value indicating whether the &quot;Angles&quot; field is present (<code>true</code> or <code>false</code>), and the value of the &quot;Angles&quot; field if present; otherwise, <code>nothing</code>.</li></ul><p><strong>Example</strong></p><p>```julia result, angles = rotation_data() if result     println(&quot;Angles field is present. Value: &quot;, angles) else     println(&quot;Angles field is not present.&quot;) end</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L848-L871">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_block_list" href="#PeriLab.Data_manager.set_block_list"><code>PeriLab.Data_manager.set_block_list</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_block_list(blocks::Union{SubArray,Vector{Int64}})</code></pre><p>Sets the block list globally.</p><p><strong>Arguments</strong></p><ul><li><code>blocks::Union{SubArray,Vector{Int64}}</code>: The block list.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L887-L894">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_crit_values_matrix" href="#PeriLab.Data_manager.set_crit_values_matrix"><code>PeriLab.Data_manager.set_crit_values_matrix</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_crit_values_matrix(crit_values::Array{Float64,3})</code></pre><p>Sets the critical values matrix globally.</p><p><strong>Arguments</strong></p><ul><li><code>crit_values::Array{Float64,3}</code>: The critical values matrix.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L899-L906">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_aniso_crit_values" href="#PeriLab.Data_manager.set_aniso_crit_values"><code>PeriLab.Data_manager.set_aniso_crit_values</code></a> — <span class="docstring-category">Function</span></header><section><div><p>set<em>aniso</em>crit<em>values(crit</em>values::Dict{Int64,Any})</p><p>Sets the anisotropic critical values globally.</p><p><strong>Arguments</strong></p><ul><li><code>crit_values::Dict{Int64,Any}</code>: The critical values.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L911-L918">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_distribution" href="#PeriLab.Data_manager.set_distribution"><code>PeriLab.Data_manager.set_distribution</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_distribution(values::Vector{Int64})</code></pre><p>Sets the distribution globally.</p><p><strong>Arguments</strong></p><ul><li><code>values::Vector{Int64}</code>: The distribution.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L923-L930">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_dof" href="#PeriLab.Data_manager.set_dof"><code>PeriLab.Data_manager.set_dof</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_dof(n::Int64)</code></pre><p>Sets the degree of freedom (dof) value globally.</p><p><strong>Arguments</strong></p><ul><li><code>n::Int64</code>: The value to set as the degree of freedom.</li></ul><p>Example:</p><pre><code class="language-julia hljs">set_dof(3)  # sets the degree of freedom to 3</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L935-L947">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_glob_to_loc" href="#PeriLab.Data_manager.set_glob_to_loc"><code>PeriLab.Data_manager.set_glob_to_loc</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_glob_to_loc(dict)</code></pre><p>Sets the global-to-local mapping dict globally.</p><p><strong>Arguments</strong></p><ul><li><code>dict</code> (array): The dict representing the global-to-local mapping.</li></ul><p>Example:</p><pre><code class="language-julia hljs">set_glob_to_loc([1, 3, 5])  # sets the global-to-local mapping dict</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L972-L984">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_inverse_nlist" href="#PeriLab.Data_manager.set_inverse_nlist"><code>PeriLab.Data_manager.set_inverse_nlist</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_inverse_nlist(inv_nlist::Vector{Dict{Int64,Int64}})</code></pre><p>Sets the inverse nlist globally.</p><p><strong>Arguments</strong></p><ul><li><code>inv_nlist::Vector{Dict{Int64,Int64}}</code>: The inverse nlist.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L989-L996">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_nnodes" href="#PeriLab.Data_manager.set_nnodes"><code>PeriLab.Data_manager.set_nnodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_nnodes()</code></pre><p>Sets the number all nodes of one core globally.</p><p><strong>Arguments</strong></p><p>Example: ```</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1001-L1010">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_num_controller" href="#PeriLab.Data_manager.set_num_controller"><code>PeriLab.Data_manager.set_num_controller</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_num_controller(n::Int64)</code></pre><p>Sets the number of controller nodes globally. For one core the number of nodes is equal to the number of controller nodes.</p><p><strong>Arguments</strong></p><ul><li><code>n::Int64</code>: The value to set as the number of nodes.</li></ul><p>Example:</p><pre><code class="language-julia hljs">set_num_controller(10)  # sets the number of nodes to 10</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1017-L1029">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_nnsets" href="#PeriLab.Data_manager.set_nnsets"><code>PeriLab.Data_manager.set_nnsets</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_nnsets(n::Int64)</code></pre><p>Set the number of node sets.</p><p><strong>Arguments</strong></p><ul><li><code>n::Int64</code>: The number of node sets to be set.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1035-L1042">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_nset" href="#PeriLab.Data_manager.set_nset"><code>PeriLab.Data_manager.set_nset</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_nset(name, nodes)</code></pre><p>Set the nodes associated with a named node set.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name of the node set.</li><li><code>nodes::Vector{Int}</code>: The node indices associated with the node set.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1048-L1055">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_num_responder" href="#PeriLab.Data_manager.set_num_responder"><code>PeriLab.Data_manager.set_num_responder</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_num_responder(n::Int64)</code></pre><p>Sets the number of responder nodes globally. For one core the number of responder is zero. responder hold the information of the neighbors, of one node, but are not evaluated.</p><p><strong>Arguments</strong></p><ul><li><code>n::Int64</code>: The value to set as the number of nodes.</li></ul><p>Example:</p><pre><code class="language-julia hljs">set_num_responder(10)  # sets the number of responder nodes to 10</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1089-L1101">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_overlap_map" href="#PeriLab.Data_manager.set_overlap_map"><code>PeriLab.Data_manager.set_overlap_map</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_overlap_map(topo)</code></pre><p>Sets the overlap map globally.</p><p><strong>Arguments</strong></p><ul><li><code>topo</code>: The overlap map.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1107-L1114">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_physics_options" href="#PeriLab.Data_manager.set_physics_options"><code>PeriLab.Data_manager.set_physics_options</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_physics_options(values::Dict{String,Bool})</code></pre><p>Sets the physics options globally.</p><p><strong>Arguments</strong></p><ul><li><code>values::Dict{String,Bool}</code>: The physics options.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1119-L1126">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_property" href="#PeriLab.Data_manager.set_property"><code>PeriLab.Data_manager.set_property</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_property(block_id, property, value_name, value)</code></pre><p>Sets the value of a specified <code>property</code> for a given <code>block_id</code>.</p><p><strong>Arguments</strong></p><ul><li><code>block_id</code>::Int64: The identifier of the block for which to set the property.</li><li><code>property</code>::String: The name of the property.</li><li><code>value_name</code>::String: The name of the value within the specified <code>property</code>.</li><li><code>value</code>::Any: The value to set for the specified <code>value_name</code>.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1131-L1141">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_properties" href="#PeriLab.Data_manager.set_properties"><code>PeriLab.Data_manager.set_properties</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_properties(block_id, property, values)</code></pre><p>Sets the values of a specified <code>property</code> for a given <code>block_id</code>.</p><p><strong>Arguments</strong></p><ul><li><code>block_id</code>::Int64: The identifier of the block for which to set the property.</li><li><code>property</code>::String: The name of the property.</li><li><code>values</code>::Any: The values to set for the specified <code>property</code>.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1155-L1164">source</a></section><section><div><pre><code class="language-julia hljs">set_properties(property, values)</code></pre><p>Sets the values of a specified <code>property</code> for a all <code>blocks</code>. E.g. for FEM, because it corresponds not to a block yet,</p><p><strong>Arguments</strong></p><ul><li><code>property</code>::String: The name of the property.</li><li><code>values</code>::Any: The values to set for the specified <code>property</code>.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1170-L1178">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_rank" href="#PeriLab.Data_manager.set_rank"><code>PeriLab.Data_manager.set_rank</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_rank(value::Int64)</code></pre><p>Sets the rank globally.</p><p><strong>Arguments</strong></p><ul><li><code>value::Int64</code>: The value to set as the rank.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1186-L1193">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_max_rank" href="#PeriLab.Data_manager.set_max_rank"><code>PeriLab.Data_manager.set_max_rank</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_max_rank(value::Int64)</code></pre><p>Sets the maximum rank globally.</p><p><strong>Arguments</strong></p><ul><li><code>value::Int64</code>: The value to set as the maximum rank.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1203-L1210">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.set_synch" href="#PeriLab.Data_manager.set_synch"><code>PeriLab.Data_manager.set_synch</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_synch(name, download_from_cores, upload_to_cores)</code></pre><p>Sets the synchronization dictionary globally.</p><p><strong>Arguments</strong></p><ul><li><code>name</code>::String: The name of the field.</li><li><code>download_from_cores</code>::Bool: Whether to download the field from the cores.</li><li><code>upload_to_cores</code>::Bool: Whether to upload the field to the cores.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1239-L1248">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.switch_NP1_to_N" href="#PeriLab.Data_manager.switch_NP1_to_N"><code>PeriLab.Data_manager.switch_NP1_to_N</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">switch_NP1_to_N()</code></pre><p>Switches the fields from NP1 to N.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1262-L1266">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Data_manager.synch_manager" href="#PeriLab.Data_manager.synch_manager"><code>PeriLab.Data_manager.synch_manager</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synch_manager(synchronise_field, direction::String)</code></pre><p>Synchronises the fields.</p><p><strong>Arguments</strong></p><ul><li><code>synchronise_field</code>: The function to synchronise the field.</li><li><code>direction::String</code>: The direction of the synchronisation.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/data_manager.jl#L1304-L1312">source</a></section></article><h2 id="Solver"><a class="docs-heading-anchor" href="#Solver">Solver</a><a id="Solver-1"></a><a class="docs-heading-anchor-permalink" href="#Solver" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.init" href="#PeriLab.Solver.init"><code>PeriLab.Solver.init</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init(params::Dict, datamanager::Module)</code></pre><p>Initialize the solver</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>datamanager::Module</code>: Datamanager</li><li><code>to::TimerOutputs.TimerOutput</code>: A timer output</li></ul><p><strong>Returns</strong></p><ul><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes.</li><li><code>bcs::Dict{Any,Any}</code>: A dictionary containing boundary conditions.</li><li><code>datamanager::Module</code>: The data manager module that provides access to data fields and properties.</li><li><code>solver_options::Dict{String,Any}</code>: A dictionary containing solver options.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L29-L43">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.get_block_nodes" href="#PeriLab.Solver.get_block_nodes"><code>PeriLab.Solver.get_block_nodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_block_nodes(block_ids, nnodes)</code></pre><p>Returns a dictionary mapping block IDs to collections of nodes.</p><p><strong>Arguments</strong></p><ul><li><code>block_ids::Vector{Int64}</code>: A vector of block IDs</li><li><code>nnodes::Int64</code>: The number of nodes</li></ul><p><strong>Returns</strong></p><ul><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L87-L97">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.set_density" href="#PeriLab.Solver.set_density"><code>PeriLab.Solver.set_density</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_density(params::Dict, block_nodes::Dict, density::SubArray)</code></pre><p>Sets the density of the nodes in the dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_nodes::Dict</code>: A dictionary mapping block IDs to collections of nodes</li><li><code>density::SubArray</code>: The density</li></ul><p><strong>Returns</strong></p><ul><li><code>density::SubArray</code>: The density</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L106-L117">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.set_horizon" href="#PeriLab.Solver.set_horizon"><code>PeriLab.Solver.set_horizon</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_horizon(params::Dict, block_nodes::Dict, horizon::SubArray)</code></pre><p>Sets the horizon of the nodes in the dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_nodes::Dict</code>: A dictionary mapping block IDs to collections of nodes</li><li><code>horizon::SubArray</code>: The horizon</li></ul><p><strong>Returns</strong></p><ul><li><code>horizon::SubArray</code>: The horizon</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L125-L136">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.solver" href="#PeriLab.Solver.solver"><code>PeriLab.Solver.solver</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">solver(solver_options::Dict{String,Any}, block_nodes::Dict{Int64,Vector{Int64}}, bcs::Dict{Any,Any}, datamanager::Module, outputs::Dict{Int64,Dict{}}, result_files::Vector{Any}, write_results, to, silent::Bool)</code></pre><p>Runs the solver.</p><p><strong>Arguments</strong></p><ul><li><code>solver_options::Dict{String,Any}</code>: The solver options</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes</li><li><code>bcs::Dict{Any,Any}</code>: The boundary conditions</li><li><code>datamanager::Module</code>: The data manager module</li><li><code>outputs::Dict{Int64,Dict{}}</code>: A dictionary for output settings</li><li><code>result_files::Vector{Any}</code>: A vector of result files</li><li><code>write_results</code>: A function to write simulation results</li><li><code>to::TimerOutputs.TimerOutput</code>: A timer output</li><li><code>silent::Bool</code>: A boolean flag to suppress progress bars</li></ul><p><strong>Returns</strong></p><ul><li><code>result_files</code>: A vector of updated result files</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L144-L161">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.synchronise_field" href="#PeriLab.Solver.synchronise_field"><code>PeriLab.Solver.synchronise_field</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synchronise_field(comm, synch_fields::Dict, overlap_map, get_field, synch_field::String, direction::String)</code></pre><p>Synchronises field.</p><p><strong>Arguments</strong></p><ul><li><code>comm</code>: The MPI communicator</li><li><code>synch_fields::Dict</code>: A dictionary of fields</li><li><code>overlap_map</code>: The overlap map</li><li><code>get_field</code>: The function to get the field</li><li><code>synch_field::String</code>: The field</li><li><code>direction::String</code>: The direction</li></ul><p><strong>Returns</strong></p><ul><li><code>nothing</code></li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Solver_control.jl#L172-L186">source</a></section></article><h2 id="Verlet"><a class="docs-heading-anchor" href="#Verlet">Verlet</a><a id="Verlet-1"></a><a class="docs-heading-anchor-permalink" href="#Verlet" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step" href="#PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step"><code>PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_thermodynamic_critical_time_step(nodes::Union{SubArray,Vector{Int64}}, datamanager::Module, lambda::Float64, Cv::Float64)</code></pre><p>Calculate the critical time step for a thermodynamic simulation based on  [<a href="../references/#OterkusS2014">7</a>].</p><p>This function iterates over a collection of nodes and computes the critical time step for each node using provided input data and parameters.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: The collection of nodes to calculate the critical time step for.</li><li><code>datamanager::Module</code>: The data manager module that provides access to required data fields.</li><li><code>lambda::Float64</code>: The material parameter used in the calculations.</li><li><code>Cv::Float64</code>: The heat capacity at constant volume used in the calculations.</li></ul><p><strong>Returns</strong></p><ul><li><code>Float64</code>: The calculated critical time step for the thermodynamic simulation.</li></ul><p><strong>Dependencies</strong></p><p>This function depends on the following data fields from the <code>datamanager</code> module:</p><ul><li><code>get_dof()</code>: Returns the degree of freedom.</li><li><code>get_nlist()</code>: Returns the neighbor list.</li><li><code>get_field(&quot;Density&quot;)</code>: Returns the density field.</li><li><code>get_field(&quot;Bond Geometry&quot;)</code>: Returns the bond geometry field.</li><li><code>get_field(&quot;Volume&quot;)</code>: Returns the volume field.</li><li><code>get_field(&quot;Number of Neighbors&quot;)</code>: Returns the number of neighbors field.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L30-L54">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.get_cs_denominator" href="#PeriLab.Solver.Verlet.get_cs_denominator"><code>PeriLab.Solver.Verlet.get_cs_denominator</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_cs_denominator(volume::Union{SubArray,Vector{Float64},Vector{Int64}}, undeformed_bond::Union{SubArray,Vector{Float64},Vector{Int64}})</code></pre><p>Calculate the denominator for the critical time step calculation.</p><p><strong>Arguments</strong></p><ul><li><code>volume::Union{SubArray,Vector{Float64},Vector{Int64}}</code>: The volume field.</li><li><code>undeformed_bond::Union{SubArray,Vector{Float64},Vector{Int64}}</code>: The undeformed bond field.</li></ul><p><strong>Returns</strong></p><ul><li><code>Float64</code>: The denominator for the critical time step calculation.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L76-L86">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.compute_mechanical_critical_time_step" href="#PeriLab.Solver.Verlet.compute_mechanical_critical_time_step"><code>PeriLab.Solver.Verlet.compute_mechanical_critical_time_step</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_mechanical_critical_time_step(nodes::Union{SubArray,Vector{Int64}}, datamanager::Module, bulkModulus::Float64)</code></pre><p>Calculate the critical time step for a mechanical simulation using a bond-based approximation [<a href="../references/#LittlewoodDJ2013">8</a>].</p><p>This function iterates over a collection of nodes and computes the critical time step for each node based on the given input data and parameters.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: The collection of nodes to calculate the critical time step for.</li><li><code>datamanager::Module</code>: The data manager module that provides access to required data fields.</li><li><code>bulkModulus::Float64</code>: The bulk modulus used in the calculations.</li></ul><p><strong>Returns</strong></p><ul><li><code>Float64</code>: The calculated critical time step for the mechanical simulation.</li></ul><p><strong>Dependencies</strong></p><p>This function depends on the following data fields from the <code>datamanager</code> module:</p><ul><li><code>get_nlist()</code>: Returns the neighbor list.</li><li><code>get_field(&quot;Density&quot;)</code>: Returns the density field.</li><li><code>get_field(&quot;Bond Geometry&quot;)</code>: Returns the bond geometry field.</li><li><code>get_field(&quot;Volume&quot;)</code>: Returns the volume field.</li><li><code>get_field(&quot;Horizon&quot;)</code>: Returns the horizon field.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L91-L113">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.test_timestep" href="#PeriLab.Solver.Verlet.test_timestep"><code>PeriLab.Solver.Verlet.test_timestep</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">test_timestep(t::Float64, critical_time_step::Float64)</code></pre><p>Compare a time step <code>t</code> with a critical time step <code>critical_time_step</code> and update <code>critical_time_step</code> if <code>t</code> is smaller.</p><p><strong>Arguments</strong></p><ul><li><code>t::Float64</code>: The time step to compare with <code>critical_time_step</code>.</li><li><code>critical_time_step::Float64</code>: The current critical time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>critical_time_step::Float64</code>: The updated critical time step, which is either the original <code>critical_time_step</code> or <code>t</code>, whichever is smaller.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L133-L144">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.compute_crititical_time_step" href="#PeriLab.Solver.Verlet.compute_crititical_time_step"><code>PeriLab.Solver.Verlet.compute_crititical_time_step</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_crititical_time_step(datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, mechanical::Bool, thermo::Bool)</code></pre><p>Calculate the critical time step for a simulation considering both mechanical and thermodynamic aspects.</p><p>This function computes the critical time step by considering mechanical and thermodynamic properties of different blocks. The resulting critical time step is based on the smallest critical time step found among the blocks.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The data manager module that provides access to required data fields and properties.</li><li><code>block_nodes::Dict{Int64, Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes.</li><li><code>mechanical::Bool</code>: If <code>true</code>, mechanical properties are considered in the calculation.</li><li><code>thermo::Bool</code>: If <code>true</code>, thermodynamic properties are considered in the calculation.</li></ul><p><strong>Returns</strong></p><ul><li><code>Float64</code>: The calculated critical time step based on the smallest critical time step found among the blocks.</li></ul><p><strong>Dependencies</strong></p><p>This function may depend on the following functions:</p><ul><li><code>compute_thermodynamic_critical_time_step</code>: Used if <code>thermo</code> is <code>true</code> to calculate thermodynamic critical time steps.</li><li><code>compute_mechanical_critical_time_step</code>: Used if <code>mechanical</code> is <code>true</code> to calculate mechanical critical time steps.</li><li>The availability of specific properties from the data manager module.</li></ul><p><strong>Errors</strong></p><ul><li>If required properties are not available in the data manager, it may raise an error message.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L152-L176">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.init_solver" href="#PeriLab.Solver.Verlet.init_solver"><code>PeriLab.Solver.Verlet.init_solver</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_solver(params::Dict, datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, mechanical::Bool, thermo::Bool)</code></pre><p>Initialize the Verlet solver for a simulation.</p><p>This function sets up the Verlet solver for a simulation by initializing various parameters and calculating the time step based on provided parameters or critical time step calculations.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: A dictionary containing simulation parameters.</li><li><code>datamanager::Module</code>: The data manager module that provides access to required data fields and properties.</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes.</li><li><code>mechanical::Bool</code>: If <code>true</code>, mechanical properties are considered in the calculation.</li><li><code>thermo::Bool</code>: If <code>true</code>, thermodynamic properties are considered in the calculation.</li></ul><p><strong>Returns</strong></p><p>A tuple <code>(initial_time, dt, nsteps, numerical_damping)</code> where:</p><ul><li><code>initial_time::Float64</code>: The initial time for the simulation.</li><li><code>dt::Float64</code>: The time step for the simulation.</li><li><code>nsteps::Int64</code>: The number of time integration steps.</li><li><code>numerical_damping::Float64</code>: The numerical damping factor.</li><li><code>max_damage::Float64</code>: The maximum damage in the simulation.</li></ul><p><strong>Dependencies</strong></p><p>This function may depend on the following functions:</p><ul><li><code>get_initial_time</code>, <code>get_final_time</code>, <code>get_safety_factor</code>, <code>get_fixed_dt</code>: Used to retrieve simulation parameters.</li><li><code>compute_crititical_time_step</code>: Used to calculate the critical time step if <code>dt</code> is not fixed.</li><li><code>get_integration_steps</code>: Used to determine the number of integration steps and adjust the time step.</li><li><code>find_and_set_core_value_min</code> and <code>find_and_set_core_value_max</code>: Used to set core values in a distributed computing environment.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L207-L235">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.get_integration_steps" href="#PeriLab.Solver.Verlet.get_integration_steps"><code>PeriLab.Solver.Verlet.get_integration_steps</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_integration_steps(initial_time::Float64, end_time::Float64, dt::Float64)</code></pre><p>Calculate the number of integration steps and the adjusted time step for a numerical integration process.</p><p><strong>Arguments</strong></p><ul><li><code>initial_time::Float64</code>: The initial time for the integration.</li><li><code>end_time::Float64</code>: The final time for the integration.</li><li><code>dt::Float64</code>: The time step size.</li></ul><p><strong>Returns</strong></p><p>A tuple <code>(nsteps, dt)</code> where:</p><ul><li><code>nsteps::Int64</code>: The number of integration steps required to cover the specified time range.</li><li><code>dt::Float64</code>: The adjusted time step size to evenly divide the time range.</li></ul><p><strong>Errors</strong></p><ul><li>Throws an error if the <code>dt</code> is less than or equal to zero.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L282-L299">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Verlet.run_solver" href="#PeriLab.Solver.Verlet.run_solver"><code>PeriLab.Solver.Verlet.run_solver</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">run_solver(
+    solver_options::Dict{String,Any},
+    block_nodes::Dict{Int64,Vector{Int64}},
+    bcs::Dict{Any,Any},
+    datamanager::Module,
+    outputs::Dict{Int64,Dict{}},
+    result_files::Vector{Any},
+    synchronise_field,
+    write_results,
+    to::TimerOutputs.TimerOutput,
+    silent::Bool
+)</code></pre><p>Run the Verlet solver for a simulation based on the strategy provided in [<a href="../references/#BobaruF2016">1</a>] and  [<a href="../references/#LittlewoodDJ2023">2</a>].</p><p>This function performs the Verlet solver simulation, updating various data fields and properties over a specified number of time steps.</p><p><strong>Arguments</strong></p><ul><li><code>solver_options::Dict{String,Any}</code>: A dictionary containing solver options and parameters.</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: A dictionary mapping block IDs to collections of nodes.</li><li><code>bcs::Dict{Any,Any}</code>: A dictionary containing boundary conditions.</li><li><code>datamanager::Module</code>: The data manager module that provides access to data fields and properties.</li><li><code>outputs::Dict{Int64,Dict{}}</code>: A dictionary for output settings.</li><li><code>result_files::Vector{Any}</code>: A vector of result files.</li><li><code>synchronise_field</code>: A function for synchronization.</li><li><code>write_results</code>: A function to write simulation results.</li><li><code>to::TimerOutputs.TimerOutput</code>: A timer output.</li><li><code>silent::Bool</code>: A boolean flag to suppress progress bars.</li></ul><p><strong>Returns</strong></p><ul><li><code>result_files</code>: A vector of updated result files.</li></ul><p><strong>Dependencies</strong></p><p>This function depends on various data fields and properties from the <code>datamanager</code> module, as well as several helper functions. It also relies on solver options and boundary conditions provided in the input parameters.</p><p><strong>Function Workflow</strong></p><ol><li>Initialize simulation parameters and data fields.</li><li>Perform Verlet integration over a specified number of time steps.</li><li>Update data fields and properties based on the solver options.</li><li>Write simulation results using the <code>write_results</code> function.</li></ol></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Solver/Verlet.jl#L310-L351">source</a></section></article><h2 id="Boundary_conditions"><a class="docs-heading-anchor" href="#Boundary_conditions">Boundary_conditions</a><a id="Boundary_conditions-1"></a><a class="docs-heading-anchor-permalink" href="#Boundary_conditions" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.check_valid_bcs" href="#PeriLab.Solver.Boundary_conditions.check_valid_bcs"><code>PeriLab.Solver.Boundary_conditions.check_valid_bcs</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_valid_bcs(bcs::Dict{String,Any}, datamanager::Module</code></pre><p>Check if the boundary conditions are valid</p><p><strong>Arguments</strong></p><ul><li><code>bcs::Dict{String,Any}</code>: The boundary conditions</li><li><code>datamanager::Module</code>: The data manager module</li></ul><p><strong>Returns</strong></p><ul><li><code>working_bcs::Dict{String,Any}</code>: The valid boundary conditions</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L11-L21">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.init_BCs" href="#PeriLab.Solver.Boundary_conditions.init_BCs"><code>PeriLab.Solver.Boundary_conditions.init_BCs</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_BCs(params::Dict, datamanager)</code></pre><p>Initialize the boundary conditions</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>datamanager::Module</code>: Datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>bcs::Dict{Any,Any}</code>: The boundary conditions</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L53-L63">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.boundary_condition" href="#PeriLab.Solver.Boundary_conditions.boundary_condition"><code>PeriLab.Solver.Boundary_conditions.boundary_condition</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">boundary_condition(params::Dict, datamanager)</code></pre><p>Initialize the boundary condition</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>datamanager::Module</code>: Datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>bcs_out::Dict{Any,Any}</code>: The boundary conditions</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L70-L80">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.apply_bc" href="#PeriLab.Solver.Boundary_conditions.apply_bc"><code>PeriLab.Solver.Boundary_conditions.apply_bc</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">apply_bc(bcs::Dict, datamanager::Module, time::Float64)</code></pre><p>Apply the boundary conditions</p><p><strong>Arguments</strong></p><ul><li><code>bcs::Dict{Any,Any}</code>: The boundary conditions</li><li><code>datamanager::Module</code>: Datamanager</li><li><code>time::Float64</code>: The current time</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: Datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L107-L118">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.clean_up" href="#PeriLab.Solver.Boundary_conditions.clean_up"><code>PeriLab.Solver.Boundary_conditions.clean_up</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">clean_up(bc::String)</code></pre><p>Clean up the boundary condition</p><p><strong>Arguments</strong></p><ul><li><code>bc::String</code>: The boundary condition</li></ul><p><strong>Returns</strong></p><ul><li><code>bc::String</code>: The cleaned up boundary condition</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L145-L154">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Boundary_conditions.eval_bc" href="#PeriLab.Solver.Boundary_conditions.eval_bc"><code>PeriLab.Solver.Boundary_conditions.eval_bc</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">eval_bc(field_values::Union{SubArray,Vector{Float64},Vector{Int64}}, bc::Union{Float64,Float64,Int64,String}, coordinates::Matrix{Float64}, time::Float64, dof::Int64)</code></pre><p>Working with if-statements &quot;if t&gt;2 0 else 20 end&quot; works for scalars. If you want to evaluate a vector, please use the Julia notation as input &quot;ifelse.(x .&gt; y, 10, 20)&quot;</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/BC_manager.jl#L174-L180">source</a></section></article></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../man/bond_filter/">« Bond-Filter</a><a class="docs-footer-nextpage" href="../io_functions/">IO Functions »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
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+SPDX-License-Identifier: BSD-3-Clause
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+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>IO Functions · PeriLab</title><meta name="title" content="IO Functions · PeriLab"/><meta property="og:title" content="IO Functions · PeriLab"/><meta property="twitter:title" content="IO Functions · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/lib/io_functions/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/lib/io_functions/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/lib/io_functions/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" 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class="tocitem" href="../../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../functions/">Functions</a></li><li class="is-active"><a class="tocitem" href>IO Functions</a><ul class="internal"><li><a class="tocitem" href="#Index"><span>Index</span></a></li><li><a class="tocitem" href="#IO"><span>IO</span></a></li><li><a class="tocitem" href="#Read_Mesh"><span>Read_Mesh</span></a></li><li><a class="tocitem" href="#Geometry"><span>Geometry</span></a></li><li><a class="tocitem" href="#Read*Input*Deck"><span>Read<em>Input</em>Deck</span></a></li><li><a class="tocitem" 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class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">API</a></li><li class="is-active"><a href>IO Functions</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>IO Functions</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/lib/io_functions.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="IO-Functions"><a class="docs-heading-anchor" href="#IO-Functions">IO - Functions</a><a id="IO-Functions-1"></a><a class="docs-heading-anchor-permalink" href="#IO-Functions" title="Permalink"></a></h1><h2 id="Index"><a class="docs-heading-anchor" href="#Index">Index</a><a id="Index-1"></a><a class="docs-heading-anchor-permalink" href="#Index" title="Permalink"></a></h2><ul><li><a href="#PeriLab.IO.Geometry.bond_geometry"><code>PeriLab.IO.Geometry.bond_geometry</code></a></li><li><a href="#PeriLab.IO.Geometry.deformation_gradient"><code>PeriLab.IO.Geometry.deformation_gradient</code></a></li><li><a href="#PeriLab.IO.Geometry.rotation_tensor"><code>PeriLab.IO.Geometry.rotation_tensor</code></a></li><li><a href="#PeriLab.IO.Geometry.shape_tensor"><code>PeriLab.IO.Geometry.shape_tensor</code></a></li><li><a href="#PeriLab.IO.Geometry.strain"><code>PeriLab.IO.Geometry.strain</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.check_for_duplicates"><code>PeriLab.IO.Parameter_Handling.check_for_duplicates</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_all_keys"><code>PeriLab.IO.Parameter_Handling.get_all_keys</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_block_models"><code>PeriLab.IO.Parameter_Handling.get_block_models</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_bond_filters"><code>PeriLab.IO.Parameter_Handling.get_bond_filters</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_computes"><code>PeriLab.IO.Parameter_Handling.get_computes</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_computes_names"><code>PeriLab.IO.Parameter_Handling.get_computes_names</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_density"><code>PeriLab.IO.Parameter_Handling.get_density</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_final_time"><code>PeriLab.IO.Parameter_Handling.get_final_time</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_fixed_dt"><code>PeriLab.IO.Parameter_Handling.get_fixed_dt</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_flush_file"><code>PeriLab.IO.Parameter_Handling.get_flush_file</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_header"><code>PeriLab.IO.Parameter_Handling.get_header</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_heat_capacity"><code>PeriLab.IO.Parameter_Handling.get_heat_capacity</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_horizon"><code>PeriLab.IO.Parameter_Handling.get_horizon</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_initial_time"><code>PeriLab.IO.Parameter_Handling.get_initial_time</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_max_damage"><code>PeriLab.IO.Parameter_Handling.get_max_damage</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_mesh_name"><code>PeriLab.IO.Parameter_Handling.get_mesh_name</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_model_parameter"><code>PeriLab.IO.Parameter_Handling.get_model_parameter</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_node_set"><code>PeriLab.IO.Parameter_Handling.get_node_set</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_node_sets"><code>PeriLab.IO.Parameter_Handling.get_node_sets</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_number_of_blocks"><code>PeriLab.IO.Parameter_Handling.get_number_of_blocks</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_numerical_damping"><code>PeriLab.IO.Parameter_Handling.get_numerical_damping</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_output_fieldnames"><code>PeriLab.IO.Parameter_Handling.get_output_fieldnames</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_output_filenames"><code>PeriLab.IO.Parameter_Handling.get_output_filenames</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_output_frequency"><code>PeriLab.IO.Parameter_Handling.get_output_frequency</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_output_type"><code>PeriLab.IO.Parameter_Handling.get_output_type</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_output_variables"><code>PeriLab.IO.Parameter_Handling.get_output_variables</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_outputs"><code>PeriLab.IO.Parameter_Handling.get_outputs</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_physics_option"><code>PeriLab.IO.Parameter_Handling.get_physics_option</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_safety_factor"><code>PeriLab.IO.Parameter_Handling.get_safety_factor</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_solver_name"><code>PeriLab.IO.Parameter_Handling.get_solver_name</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_solver_options"><code>PeriLab.IO.Parameter_Handling.get_solver_options</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_topology_name"><code>PeriLab.IO.Parameter_Handling.get_topology_name</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_values"><code>PeriLab.IO.Parameter_Handling.get_values</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.get_write_after_damage"><code>PeriLab.IO.Parameter_Handling.get_write_after_damage</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.validate_structure_recursive"><code>PeriLab.IO.Parameter_Handling.validate_structure_recursive</code></a></li><li><a href="#PeriLab.IO.Parameter_Handling.validate_yaml"><code>PeriLab.IO.Parameter_Handling.validate_yaml</code></a></li><li><a href="#PeriLab.IO._init_overlap_map_"><code>PeriLab.IO._init_overlap_map_</code></a></li><li><a href="#PeriLab.IO.apply_bond_filters"><code>PeriLab.IO.apply_bond_filters</code></a></li><li><a href="#PeriLab.IO.area_of_polygon"><code>PeriLab.IO.area_of_polygon</code></a></li><li><a href="#PeriLab.IO.bond_intersect_infinite_plane"><code>PeriLab.IO.bond_intersect_infinite_plane</code></a></li><li><a href="#PeriLab.IO.bond_intersect_rectangle_plane"><code>PeriLab.IO.bond_intersect_rectangle_plane</code></a></li><li><a href="#PeriLab.IO.bond_intersects_disc"><code>PeriLab.IO.bond_intersects_disc</code></a></li><li><a href="#PeriLab.IO.calculate_block"><code>PeriLab.IO.calculate_block</code></a></li><li><a href="#PeriLab.IO.calculate_nodelist"><code>PeriLab.IO.calculate_nodelist</code></a></li><li><a href="#PeriLab.IO.check_for_duplicate_in_dataframe"><code>PeriLab.IO.check_for_duplicate_in_dataframe</code></a></li><li><a href="#PeriLab.IO.check_mesh_elements"><code>PeriLab.IO.check_mesh_elements</code></a></li><li><a href="#PeriLab.IO.check_types_in_dataframe"><code>PeriLab.IO.check_types_in_dataframe</code></a></li><li><a href="#PeriLab.IO.clearNP1"><code>PeriLab.IO.clearNP1</code></a></li><li><a href="#PeriLab.IO.close_result_file"><code>PeriLab.IO.close_result_file</code></a></li><li><a href="#PeriLab.IO.close_result_files"><code>PeriLab.IO.close_result_files</code></a></li><li><a href="#PeriLab.IO.create_and_distribute_bond_norm"><code>PeriLab.IO.create_and_distribute_bond_norm</code></a></li><li><a href="#PeriLab.IO.create_distribution"><code>PeriLab.IO.create_distribution</code></a></li><li><a href="#PeriLab.IO.create_distribution_neighbor_based"><code>PeriLab.IO.create_distribution_neighbor_based</code></a></li><li><a href="#PeriLab.IO.create_distribution_node_based"><code>PeriLab.IO.create_distribution_node_based</code></a></li><li><a href="#PeriLab.IO.create_neighborhoodlist"><code>PeriLab.IO.create_neighborhoodlist</code></a></li><li><a href="#PeriLab.IO.create_overlap_map"><code>PeriLab.IO.create_overlap_map</code></a></li><li><a href="#PeriLab.IO.create_result_file"><code>PeriLab.IO.create_result_file</code></a></li><li><a href="#PeriLab.IO.define_nsets"><code>PeriLab.IO.define_nsets</code></a></li><li><a href="#PeriLab.IO.delete_files"><code>PeriLab.IO.delete_files</code></a></li><li><a href="#PeriLab.IO.disk_filter"><code>PeriLab.IO.disk_filter</code></a></li><li><a href="#PeriLab.IO.distribute_neighborhoodlist_to_cores"><code>PeriLab.IO.distribute_neighborhoodlist_to_cores</code></a></li><li><a href="#PeriLab.IO.distribution_to_cores"><code>PeriLab.IO.distribution_to_cores</code></a></li><li><a href="#PeriLab.IO.find_and_set_core_value_avg"><code>PeriLab.IO.find_and_set_core_value_avg</code></a></li><li><a href="#PeriLab.IO.find_and_set_core_value_max"><code>PeriLab.IO.find_and_set_core_value_max</code></a></li><li><a href="#PeriLab.IO.find_and_set_core_value_min"><code>PeriLab.IO.find_and_set_core_value_min</code></a></li><li><a href="#PeriLab.IO.find_and_set_core_value_sum"><code>PeriLab.IO.find_and_set_core_value_sum</code></a></li><li><a href="#PeriLab.IO.find_global_core_value!"><code>PeriLab.IO.find_global_core_value!</code></a></li><li><a href="#PeriLab.IO.gather_values"><code>PeriLab.IO.gather_values</code></a></li><li><a href="#PeriLab.IO.get_block_nodes"><code>PeriLab.IO.get_block_nodes</code></a></li><li><a href="#PeriLab.IO.get_bond_geometry"><code>PeriLab.IO.get_bond_geometry</code></a></li><li><a href="#PeriLab.IO.get_file_size"><code>PeriLab.IO.get_file_size</code></a></li><li><a href="#PeriLab.IO.get_global_values"><code>PeriLab.IO.get_global_values</code></a></li><li><a href="#PeriLab.IO.get_local_element_topology"><code>PeriLab.IO.get_local_element_topology</code></a></li><li><a href="#PeriLab.IO.get_local_neighbors"><code>PeriLab.IO.get_local_neighbors</code></a></li><li><a href="#PeriLab.IO.get_local_overlap_map"><code>PeriLab.IO.get_local_overlap_map</code></a></li><li><a href="#PeriLab.IO.get_number_of_neighbornodes"><code>PeriLab.IO.get_number_of_neighbornodes</code></a></li><li><a href="#PeriLab.IO.get_paraview_coordinates"><code>PeriLab.IO.get_paraview_coordinates</code></a></li><li><a href="#PeriLab.IO.get_results_mapping"><code>PeriLab.IO.get_results_mapping</code></a></li><li><a href="#PeriLab.IO.get_vector"><code>PeriLab.IO.get_vector</code></a></li><li><a href="#PeriLab.IO.glob_to_loc"><code>PeriLab.IO.glob_to_loc</code></a></li><li><a href="#PeriLab.IO.global_value_avg"><code>PeriLab.IO.global_value_avg</code></a></li><li><a href="#PeriLab.IO.global_value_max"><code>PeriLab.IO.global_value_max</code></a></li><li><a href="#PeriLab.IO.global_value_min"><code>PeriLab.IO.global_value_min</code></a></li><li><a href="#PeriLab.IO.global_value_sum"><code>PeriLab.IO.global_value_sum</code></a></li><li><a href="#PeriLab.IO.init_data"><code>PeriLab.IO.init_data</code></a></li><li><a href="#PeriLab.IO.init_orientations"><code>PeriLab.IO.init_orientations</code></a></li><li><a href="#PeriLab.IO.init_results_in_exodus"><code>PeriLab.IO.init_results_in_exodus</code></a></li><li><a href="#PeriLab.IO.init_write_results"><code>PeriLab.IO.init_write_results</code></a></li><li><a href="#PeriLab.IO.initialize_data"><code>PeriLab.IO.initialize_data</code></a></li><li><a href="#PeriLab.IO.load_and_evaluate_mesh"><code>PeriLab.IO.load_and_evaluate_mesh</code></a></li><li><a href="#PeriLab.IO.local_nodes_from_dict"><code>PeriLab.IO.local_nodes_from_dict</code></a></li><li><a href="#PeriLab.IO.merge_exodus_file"><code>PeriLab.IO.merge_exodus_file</code></a></li><li><a href="#PeriLab.IO.merge_exodus_files"><code>PeriLab.IO.merge_exodus_files</code></a></li><li><a href="#PeriLab.IO.neighbors"><code>PeriLab.IO.neighbors</code></a></li><li><a href="#PeriLab.IO.node_distribution"><code>PeriLab.IO.node_distribution</code></a></li><li><a href="#PeriLab.IO.open_result_file"><code>PeriLab.IO.open_result_file</code></a></li><li><a href="#PeriLab.IO.paraview_specifics"><code>PeriLab.IO.paraview_specifics</code></a></li><li><a href="#PeriLab.IO.read_input"><code>PeriLab.IO.read_input</code></a></li><li><a href="#PeriLab.IO.read_input_file"><code>PeriLab.IO.read_input_file</code></a></li><li><a href="#PeriLab.IO.read_mesh"><code>PeriLab.IO.read_mesh</code></a></li><li><a href="#PeriLab.IO.rectangular_plane_filter"><code>PeriLab.IO.rectangular_plane_filter</code></a></li><li><a href="#PeriLab.IO.recv_vector_from_root"><code>PeriLab.IO.recv_vector_from_root</code></a></li><li><a href="#PeriLab.IO.send_single_value_from_vector"><code>PeriLab.IO.send_single_value_from_vector</code></a></li><li><a href="#PeriLab.IO.send_value"><code>PeriLab.IO.send_value</code></a></li><li><a href="#PeriLab.IO.send_vector_from_root_to_core_i"><code>PeriLab.IO.send_vector_from_root_to_core_i</code></a></li><li><a href="#PeriLab.IO.send_vectors_to_cores"><code>PeriLab.IO.send_vectors_to_cores</code></a></li><li><a href="#PeriLab.IO.set_dof"><code>PeriLab.IO.set_dof</code></a></li><li><a href="#PeriLab.IO.show_block_summary"><code>PeriLab.IO.show_block_summary</code></a></li><li><a href="#PeriLab.IO.split_vector"><code>PeriLab.IO.split_vector</code></a></li><li><a href="#PeriLab.IO.synch_controller_bonds_to_responder"><code>PeriLab.IO.synch_controller_bonds_to_responder</code></a></li><li><a href="#PeriLab.IO.synch_controller_bonds_to_responder_flattened"><code>PeriLab.IO.synch_controller_bonds_to_responder_flattened</code></a></li><li><a href="#PeriLab.IO.synch_controller_to_responder"><code>PeriLab.IO.synch_controller_to_responder</code></a></li><li><a href="#PeriLab.IO.synch_responder_to_controller"><code>PeriLab.IO.synch_responder_to_controller</code></a></li><li><a href="#PeriLab.IO.write_global_results_in_csv"><code>PeriLab.IO.write_global_results_in_csv</code></a></li><li><a href="#PeriLab.IO.write_global_results_in_exodus"><code>PeriLab.IO.write_global_results_in_exodus</code></a></li><li><a href="#PeriLab.IO.write_nodal_results_in_exodus"><code>PeriLab.IO.write_nodal_results_in_exodus</code></a></li><li><a href="#PeriLab.IO.write_results"><code>PeriLab.IO.write_results</code></a></li><li><a href="#PeriLab.IO.write_step_and_time"><code>PeriLab.IO.write_step_and_time</code></a></li><li><a href="#PeriLab.Logging_module.init_logging"><code>PeriLab.Logging_module.init_logging</code></a></li><li><a href="#PeriLab.Logging_module.print_table"><code>PeriLab.Logging_module.print_table</code></a></li><li><a href="#PeriLab.Logging_module.progress_filter"><code>PeriLab.Logging_module.progress_filter</code></a></li><li><a href="#PeriLab.Logging_module.set_result_files"><code>PeriLab.Logging_module.set_result_files</code></a></li><li><a href="#PeriLab.Solver.Helpers.check_inf_or_nan"><code>PeriLab.Solver.Helpers.check_inf_or_nan</code></a></li><li><a href="#PeriLab.Solver.Helpers.find_active"><code>PeriLab.Solver.Helpers.find_active</code></a></li><li><a href="#PeriLab.Solver.Helpers.find_files_with_ending"><code>PeriLab.Solver.Helpers.find_files_with_ending</code></a></li><li><a href="#PeriLab.Solver.Helpers.find_indices"><code>PeriLab.Solver.Helpers.find_indices</code></a></li><li><a href="#PeriLab.Solver.Helpers.find_inverse_bond_id"><code>PeriLab.Solver.Helpers.find_inverse_bond_id</code></a></li><li><a href="#PeriLab.Solver.Helpers.get_active_update_nodes"><code>PeriLab.Solver.Helpers.get_active_update_nodes</code></a></li><li><a href="#PeriLab.Solver.Helpers.get_fourth_order"><code>PeriLab.Solver.Helpers.get_fourth_order</code></a></li><li><a href="#PeriLab.Solver.Helpers.matrix_style"><code>PeriLab.Solver.Helpers.matrix_style</code></a></li><li><a href="#PeriLab.Solver.Helpers.progress_bar"><code>PeriLab.Solver.Helpers.progress_bar</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics"><code>PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.find_jl_files"><code>PeriLab.Solver.Physics.Material.Set_modules.find_jl_files</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.find_module_files"><code>PeriLab.Solver.Physics.Material.Set_modules.find_module_files</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.include_files"><code>PeriLab.Solver.Physics.Material.Set_modules.include_files</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.compute"><code>PeriLab.Solver.Physics.Pre_calculation.compute</code></a></li><li><a href="#PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation"><code>PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation</code></a></li></ul><h2 id="IO"><a class="docs-heading-anchor" href="#IO">IO</a><a id="IO-1"></a><a class="docs-heading-anchor-permalink" href="#IO" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.merge_exodus_files" href="#PeriLab.IO.merge_exodus_files"><code>PeriLab.IO.merge_exodus_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">merge_exodus_files(result_files::Vector{Any}, output_dir::String)</code></pre><p>Merges exodus output files</p><p><strong>Arguments</strong></p><ul><li><code>result_files::Vector{Any}</code>: The result files</li><li><code>output_dir::String</code>: The file directory</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L35-L43">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.open_result_file" href="#PeriLab.IO.open_result_file"><code>PeriLab.IO.open_result_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">open_result_file(result_file::Dict)</code></pre><p>Opens the result file</p><p><strong>Arguments</strong></p><ul><li><code>result_file::Dict</code>: The result file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L61-L68">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.close_result_file" href="#PeriLab.IO.close_result_file"><code>PeriLab.IO.close_result_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">close_result_file(result_file::Dict)</code></pre><p>Closes the result file</p><p><strong>Arguments</strong></p><ul><li><code>result_file::Dict</code>: The result file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L77-L84">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.close_result_files" href="#PeriLab.IO.close_result_files"><code>PeriLab.IO.close_result_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">close_result_files(result_files::Vector{Dict})</code></pre><p>Closes the result files</p><p><strong>Arguments</strong></p><ul><li><code>result_files::Vector{Dict}</code>: The result files</li></ul><p><strong>Returns</strong></p><ul><li><code>true</code>: File is closed</li><li><code>false</code>: File was already closed</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L91-L101">source</a></section><section><div><pre><code class="language-julia hljs">close_result_files(result_files::Vector{Dict}, outputs::Dict{Int64,Dict{}})</code></pre><p>Closes the result files if the flush_file flag is not set</p><p><strong>Arguments</strong></p><ul><li><code>result_files::Vector{Dict}</code>: The result files</li><li><code>outputs::Dict{Int64,Dict{}}</code>: The output settings</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L114-L123">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.delete_files" href="#PeriLab.IO.delete_files"><code>PeriLab.IO.delete_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">delete_files(result_files::Vector{Dict})</code></pre><p>Deletes the result files</p><p><strong>Arguments</strong></p><ul><li><code>result_files</code>: The result files</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L132-L139">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_file_size" href="#PeriLab.IO.get_file_size"><code>PeriLab.IO.get_file_size</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_file_size(result_files::Vector{Dict})</code></pre><p>Gets the file size of the result files</p><p><strong>Arguments</strong></p><ul><li><code>result_files</code>: The result files</li></ul><p><strong>Returns</strong></p><ul><li><code>total_file_size</code>: The total file size</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L152-L161">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.clearNP1" href="#PeriLab.IO.clearNP1"><code>PeriLab.IO.clearNP1</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">clearNP1(name::String)</code></pre><p>Clears the NP1 from the name</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name</li></ul><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The cleared name</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L171-L180">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_results_mapping" href="#PeriLab.IO.get_results_mapping"><code>PeriLab.IO.get_results_mapping</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_results_mapping(params::Dict, path::String, datamanager::Module)</code></pre><p>Gets the results mapping</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>path::String</code>: The path</li><li><code>datamanager::Module</code>: The datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>output_mapping::Dict{Int64,Dict{}}</code>: The results mapping</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L188-L199">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.initialize_data" href="#PeriLab.IO.initialize_data"><code>PeriLab.IO.initialize_data</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">initialize_data(filename::String, filedirectory::String, datamanager::Module, comm::MPI.Comm, to::TimerOutputs.TimerOutput)</code></pre><p>Initialize data.</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The name of the input file.</li><li><code>filedirectory::String</code>: The directory of the input file.</li><li><code>datamanager::Module</code>: The datamanager</li><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>to::TimerOutputs.TimerOutput</code>: The TimerOutput</li></ul><p><strong>Returns</strong></p><ul><li><code>data::Dict</code>: The data</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L277-L290">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.init_orientations" href="#PeriLab.IO.init_orientations"><code>PeriLab.IO.init_orientations</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_orientations(datamanager::Module)</code></pre><p>Initialize orientations.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L303-L310">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.init_write_results" href="#PeriLab.IO.init_write_results"><code>PeriLab.IO.init_write_results</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_write_results(params::Dict, output_dir::String, path::String, datamanager::Module, nsteps::Int64, PERILAB_VERSION::String)</code></pre><p>Initialize write results.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>output_dir::String</code>: The output directory.</li><li><code>path::String</code>: The path</li><li><code>datamanager::Module</code>: The datamanager</li><li><code>nsteps::Int64</code>: The number of steps</li></ul><p><strong>Returns</strong></p><ul><li><code>result_files::Array</code>: The result files</li><li><code>outputs::Dict</code>: The outputs</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L330-L344">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.write_results" href="#PeriLab.IO.write_results"><code>PeriLab.IO.write_results</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">write_results(result_files::Vector{Any}, time::Float64, max_damage::Float64, outputs::Dict, datamanager::Module)</code></pre><p>Write results.</p><p><strong>Arguments</strong></p><ul><li><code>result_files::Vector{Any}</code>: The result files</li><li><code>time::Float64</code>: The time</li><li><code>max_damage::Float64</code>: The maximum damage</li><li><code>outputs::Dict</code>: The outputs</li><li><code>datamanager::Module</code>: The datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>result_files::Vector{Any}</code>: The result files</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L403-L416">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_global_values" href="#PeriLab.IO.get_global_values"><code>PeriLab.IO.get_global_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_global_values(output::Dict, datamanager::Module)</code></pre><p>Get global values.</p><p><strong>Arguments</strong></p><ul><li><code>output::Dict</code>: The output</li><li><code>datamanager::Module</code>: The datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>global_values::Vector</code>: The global values</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L459-L469">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.find_global_core_value!" href="#PeriLab.IO.find_global_core_value!"><code>PeriLab.IO.find_global_core_value!</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_global_core_value!(global_value::Union{Int64,Float64}, calculation_type::String, nnodes::Int64, datamanager::Module)</code></pre><p>Find global core value.</p><p><strong>Arguments</strong></p><ul><li><code>global_value::Union{Int64,Float64}</code>: The global value</li><li><code>calculation_type::String</code>: The calculation type</li><li><code>nnodes::Int64</code>: The number of nodes</li><li><code>datamanager::Module</code>: The datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>global_value::Union{Int64,Float64}</code>: The global value</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L499-L511">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.show_block_summary" href="#PeriLab.IO.show_block_summary"><code>PeriLab.IO.show_block_summary</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">show_block_summary(solver_options::Dict, params::Dict, log_file::String, silent::Bool, comm::MPI.Comm, datamanager::Module)</code></pre><p>Show block summary.</p><p><strong>Arguments</strong></p><ul><li><code>solver_options::Dict</code>: The solver options</li><li><code>params::Dict</code>: The params</li><li><code>log_file::String</code>: The log file</li><li><code>silent::Bool</code>: The silent flag</li><li><code>comm::MPI.Comm</code>: The comm</li><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/IO.jl#L545-L557">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.calculate_nodelist" href="#PeriLab.IO.calculate_nodelist"><code>PeriLab.IO.calculate_nodelist</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">calculate_nodelist(datamanager::Module, fieldKey::String, dof::Union{Int64,Vector{Int64}}, calculation_type::String, node_set::Vector{Int64})</code></pre><p>Calculate the global value of a field for a given set of nodes.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>fieldKey::String</code>: Field key.</li><li><code>dof::Union{Int64,Vector{Int64}}</code>: Degree of freedom</li><li><code>calculation_type::String</code>: Calculation type.</li><li><code>node_set::Vector{Int64}</code>: Node set.</li></ul><p><strong>Returns</strong></p><ul><li><code>value::Vector</code>: Global value.</li><li><code>nnodes::Int64</code>: Number of nodes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L5-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.calculate_block" href="#PeriLab.IO.calculate_block"><code>PeriLab.IO.calculate_block</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">calculate_block(datamanager::Module, fieldKey::String, dof::Int64, calculation_type::String, block::Int64)</code></pre><p>Calculate the global value of a field for a given block.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>fieldKey::String</code>: Field key.</li><li><code>dof::Union{Int64,Vector{Int64}}</code>: Degree of freedom</li><li><code>calculation_type::String</code>: Calculation type.</li><li><code>block::Int64</code>: Block number.</li></ul><p><strong>Returns</strong></p><ul><li><code>value::Float64</code>: Global value.</li><li><code>nnodes::Int64</code>: Number of nodes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L61-L75">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.global_value_sum" href="#PeriLab.IO.global_value_sum"><code>PeriLab.IO.global_value_sum</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">global_value_sum(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Calculate the global sum of a field for given nodes.</p><p><strong>Arguments</strong></p><ul><li><code>field::SubArray</code>: Field.</li><li><code>dof::Union{Int64,Vector{Int64}</code>: Degree of freedom</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>returnValue::Vector</code>: Global value.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L123-L134">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.global_value_max" href="#PeriLab.IO.global_value_max"><code>PeriLab.IO.global_value_max</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">global_value_max(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Calculate the global maximum of a field for given nodes.</p><p><strong>Arguments</strong></p><ul><li><code>field::SubArray</code>: Field.</li><li><code>dof::Union{Int64,Vector{Int64}}</code>: Degree of freedom</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>returnValue::Vector</code>: Global value.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L149-L160">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.global_value_min" href="#PeriLab.IO.global_value_min"><code>PeriLab.IO.global_value_min</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">global_value_min(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Calculate the global minimum of a field for given nodes.</p><p><strong>Arguments</strong></p><ul><li><code>field::SubArray</code>: Field.</li><li><code>dof::Union{Int64,Vector{Int64}}</code>: Degree of freedom</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>returnValue::Vector</code>: Global value.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L170-L181">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.global_value_avg" href="#PeriLab.IO.global_value_avg"><code>PeriLab.IO.global_value_avg</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">global_value_avg(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Calculate the global average of a field for given nodes.</p><p><strong>Arguments</strong></p><ul><li><code>field::SubArray</code>: Field.</li><li><code>dof::Union{Int64,Vector{Int64}}</code>: Degree of freedom</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>returnValue::Vector</code>: Global value.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Compute/compute_global_values.jl#L192-L203">source</a></section></article><h2 id="Read_Mesh"><a class="docs-heading-anchor" href="#Read_Mesh">Read_Mesh</a><a id="Read_Mesh-1"></a><a class="docs-heading-anchor-permalink" href="#Read_Mesh" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.init_data" href="#PeriLab.IO.init_data"><code>PeriLab.IO.init_data</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_data(params::Dict, path::String, datamanager::Module, comm::MPI.Comm, to::TimerOutput)</code></pre><p>Initializes the data for the mesh.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters for the simulation.</li><li><code>path::String</code>: The path to the mesh file.</li><li><code>datamanager::Data_manager</code>: The data manager.</li><li><code>comm::MPI.Comm</code>: The MPI communicator.</li><li><code>to::TimerOutput</code>: The timer output.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: The data manager.</li><li><code>params::Dict</code>: The parameters for the simulation.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L20-L34">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_and_distribute_bond_norm" href="#PeriLab.IO.create_and_distribute_bond_norm"><code>PeriLab.IO.create_and_distribute_bond_norm</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_and_distribute_bond_norm(comm::MPI.Comm, datamanager::Module, nlist_filtered_ids::Vector{Vector{Int64}}, distribution::Vector{Int64}, bond_norm::Vector{Float64}, dof::Int64)</code></pre><p>Create and distribute the bond norm</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: MPI communicator</li><li><code>datamanager::Module</code>: Data manager</li><li><code>nlist_filtered_ids::Vector{Vector{Int64}}</code>: The filtered neighborhood list</li><li><code>distribution::Vector{Int64}</code>: The distribution</li><li><code>bond_norm::Vector{Float64}</code>: The bond norm</li><li><code>dof::Int64</code>: The degree of freedom</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L113-L125">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_local_element_topology" href="#PeriLab.IO.get_local_element_topology"><code>PeriLab.IO.get_local_element_topology</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_local_element_topology(datamanager::Module, topology::Vector{Vector{Int64}}, distribution::Vector{Int64})</code></pre><p>Get the local element topology</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>topology::Vector{Vector{Int64}}</code>: The topology</li><li><code>distribution::Vector{Int64}</code>: The distribution</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L133-L144">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_local_overlap_map" href="#PeriLab.IO.get_local_overlap_map"><code>PeriLab.IO.get_local_overlap_map</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_local_overlap_map()</code></pre><p>Changes entries in the overlap map from the global numbering to the local computer core one.</p><p><strong>Arguments</strong></p><ul><li><code>overlap_map::Dict{Int64, Dict{Int64, String}}</code>: overlap map with global nodes.</li><li><code>distribution::Vector{Vector{Int64}}</code>: global nodes distribution at cores, needed for the gobal to local mapping</li><li><code>ranks Array{Int64}</code> : number of used computer cores</li></ul><p><strong>Returns</strong></p><ul><li><code>overlap_map::Dict{Int64, Dict{Int64, String}}</code>: returns overlap map with local nodes.</li></ul><p>Example:</p><pre><code class="language-julia hljs">get_local_overlap_map(overlap_map, distribution, ranks)  # returns local nodes </code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L168-L184">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.local_nodes_from_dict" href="#PeriLab.IO.local_nodes_from_dict"><code>PeriLab.IO.local_nodes_from_dict</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">local_nodes_from_dict(glob_to_loc::Dict{Int,Int}, global_nodes::Vector{Int64})</code></pre><p>Changes entries in the overlap map from the global numbering to the local computer core one.</p><p><strong>Arguments</strong></p><ul><li><code>glob_to_loc::Dict{Int,Int}</code>: global to local mapping</li><li><code>global_nodes::Vector{Int64}</code>: global nodes</li></ul><p><strong>Returns</strong></p><ul><li><code>overlap_map::Dict{Int64, Dict{Int64, String}}</code>: returns overlap map with local nodes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L201-L211">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.distribute_neighborhoodlist_to_cores" href="#PeriLab.IO.distribute_neighborhoodlist_to_cores"><code>PeriLab.IO.distribute_neighborhoodlist_to_cores</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">distribute_neighborhoodlist_to_cores(comm::MPI.Comm, datamanager::Module, nlist, distribution)</code></pre><p>Distributes the neighborhood list to the cores.</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: MPI communicator</li><li><code>datamanager::Module</code>: Data manager</li><li><code>nlist</code>: neighborhood list</li><li><code>distribution Array{Int64}</code>: global nodes distribution at cores</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: data manager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L216-L228">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_local_neighbors" href="#PeriLab.IO.get_local_neighbors"><code>PeriLab.IO.get_local_neighbors</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_local_neighbors(mapping, nlistCore)</code></pre><p>Gets the local neighborhood list from the global neighborhood list</p><p><strong>Arguments</strong></p><ul><li><code>mapping</code>: mapping function</li><li><code>nlistCore</code>: global neighborhood list</li></ul><p><strong>Returns</strong></p><ul><li><code>nlistCore</code>: local neighborhood list</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L253-L263">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_bond_geometry" href="#PeriLab.IO.get_bond_geometry"><code>PeriLab.IO.get_bond_geometry</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_bond_geometry(datamanager::Module)</code></pre><p>Gets the bond geometry</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: Data manager</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: data manager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L271-L280">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.define_nsets" href="#PeriLab.IO.define_nsets"><code>PeriLab.IO.define_nsets</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">define_nsets(nsets::Dict{String,Vector{Any,Int64}}, datamanager::Module)</code></pre><p>Defines the node sets</p><p><strong>Arguments</strong></p><ul><li><code>nsets::Dict{String,Vector{Any,Int64}}</code>: Node sets read from files</li><li><code>datamanager::Module</code>: Data manager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L291-L299">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.distribution_to_cores" href="#PeriLab.IO.distribution_to_cores"><code>PeriLab.IO.distribution_to_cores</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">distribution_to_cores(comm::MPI.Comm, datamanager::Module, mesh, distribution, dof::Int64)</code></pre><p>Distributes the mesh data to the cores</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: MPI communicator</li><li><code>datamanager::Module</code>: Data manager</li><li><code>mesh</code>: Mesh</li><li><code>distribution Array{Int64}</code>: global nodes distribution at cores</li><li><code>dof::Int64</code>: Degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: data manager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L307-L320">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.check_mesh_elements" href="#PeriLab.IO.check_mesh_elements"><code>PeriLab.IO.check_mesh_elements</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_mesh_elements(mesh, dof)</code></pre><p>Process and analyze mesh data to create an dictionary containing information about mesh elements for further processing.</p><p><strong>Arguments</strong></p><ul><li><code>mesh::DataFrame</code>: The input mesh data represented as a DataFrame.</li><li><code>dof::Int64</code>: The degrees of freedom (DOF) for the mesh elements.</li></ul><p><strong>Returns</strong></p><p>A dictionary containing information about mesh elements, which can be used for further processing or uploading.</p><p><strong>Example</strong></p><p>```julia mesh<em>data = DataFrame(x1 = [1.0, 2.0, 3.0], x2 = [4.0, 5.0, 6.0], volume = [10.0, 20.0, 30.0]) dof = 3 result = check</em>mesh<em>elements(mesh</em>data, dof)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L351-L370">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.read_mesh" href="#PeriLab.IO.read_mesh"><code>PeriLab.IO.read_mesh</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">read_mesh(filename::String, params::Dict)</code></pre><p>Read mesh data from a file and return it as a DataFrame.</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The path to the mesh file.</li><li><code>params::Dict</code>: The input parameters.</li></ul><p><strong>Returns</strong></p><ul><li><code>mesh::DataFrame</code>: The mesh data as a DataFrame.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L467-L477">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.area_of_polygon" href="#PeriLab.IO.area_of_polygon"><code>PeriLab.IO.area_of_polygon</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">area_of_polygon(vertices)</code></pre><p>Calculate the area of a polygon.</p><p><strong>Arguments</strong></p><ul><li><code>vertices</code>: The vertices of the polygon.</li></ul><p><strong>Returns</strong></p><ul><li><code>area</code>: The area of the polygon.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L588-L597">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.set_dof" href="#PeriLab.IO.set_dof"><code>PeriLab.IO.set_dof</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_dof(mesh::DataFrame)</code></pre><p>Set the degrees of freedom (DOF) for the mesh elements.</p><p><strong>Arguments</strong></p><ul><li><code>mesh::DataFrame</code>: The input mesh data represented as a DataFrame.</li></ul><p><strong>Returns</strong></p><ul><li><code>dof::Int64</code>: The degrees of freedom (DOF) for the mesh elements.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L610-L619">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.load_and_evaluate_mesh" href="#PeriLab.IO.load_and_evaluate_mesh"><code>PeriLab.IO.load_and_evaluate_mesh</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">load_and_evaluate_mesh(params::Dict, path::String, ranksize::Int64, to::TimerOutput)</code></pre><p>Load and evaluate the mesh data.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The input parameters.</li><li><code>path::String</code>: The path to the mesh file.</li><li><code>ranksize::Int64</code>: The number of ranks.</li><li><code>to::TimerOutput</code>: The timer output</li></ul><p><strong>Returns</strong></p><ul><li><code>distribution::Array{Int64,1}</code>: The distribution of the mesh elements.</li><li><code>mesh::DataFrame</code>: The mesh data as a DataFrame.</li><li><code>ntype::Dict</code>: The type of the mesh elements.</li><li><code>overlap_map::Array{Array{Int64,1},1}</code>: The overlap map of the mesh elements.</li><li><code>nlist::Array{Array{Int64,1},1}</code>: The neighborhood list of the mesh elements.</li><li><code>dof::Int64</code>: The degrees of freedom (DOF) for the mesh elements.</li><li><code>nsets::Dict</code>: The node sets</li><li><code>topology::Int64</code>::Array{Int64,nelement:nodes}`: The topology of elements.</li><li><code>el_distribution::Array{Int64,1}</code>: The distribution of the finite elements.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L731-L751">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_neighborhoodlist" href="#PeriLab.IO.create_neighborhoodlist"><code>PeriLab.IO.create_neighborhoodlist</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_neighborhoodlist(mesh::DataFrame, params::Dict, dof::Int64)</code></pre><p>Create the neighborhood list of the mesh elements.</p><p><strong>Arguments</strong></p><ul><li><code>mesh::DataFrame</code>: The input mesh data represented as a DataFrame.</li><li><code>params::Dict</code>: The input parameters.</li><li><code>dof::Int64</code>: The degrees of freedom (DOF) for the mesh elements.</li></ul><p><strong>Returns</strong></p><ul><li><code>nlist::Array{Array{Int64,1},1}</code>: The neighborhood list of the mesh elements.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L837-L848">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_number_of_neighbornodes" href="#PeriLab.IO.get_number_of_neighbornodes"><code>PeriLab.IO.get_number_of_neighbornodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_number_of_neighbornodes(nlist::Vector{Vector{Int64}})</code></pre><p>Get the number of neighbors for each node.</p><p><strong>Arguments</strong></p><ul><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list of the mesh elements.</li></ul><p><strong>Returns</strong></p><ul><li><code>lenNlist::Vector{Int64}</code>: The number of neighbors for each node.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L854-L863">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.node_distribution" href="#PeriLab.IO.node_distribution"><code>PeriLab.IO.node_distribution</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">node_distribution(nlist::Vector{Vector{Int64}}, size::Int64)</code></pre><p>Create the distribution of the nodes.</p><p><strong>Arguments</strong></p><ul><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list of the mesh elements.</li><li><code>size::Int64</code>: The number of ranks.</li><li><code>distribution_type::String</code>: The distribution type.</li></ul><p><strong>Returns</strong></p><ul><li><code>distribution::Vector{Vector{Int64}}</code>: The distribution of the nodes.</li><li><code>ptc::Vector{Int64}</code>: Defines at which core / rank each node lies.</li><li><code>ntype::Dict</code>: The type of the nodes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L927-L940">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO._init_overlap_map_" href="#PeriLab.IO._init_overlap_map_"><code>PeriLab.IO._init_overlap_map_</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">_init_overlap_map_(size)</code></pre><p>Initialize the overlap map.</p><p><strong>Arguments</strong></p><ul><li><code>size::Int64</code>: The number of ranks.</li></ul><p><strong>Returns</strong></p><ul><li><code>overlap_map::Dict{Int64,Dict{Int64,Dict{String,Vector{Int64}}}}</code>: The overlap map.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L989-L998">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_overlap_map" href="#PeriLab.IO.create_overlap_map"><code>PeriLab.IO.create_overlap_map</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_overlap_map(distribution, ptc, size)</code></pre><p>Create the overlap map.</p><p><strong>Arguments</strong></p><ul><li><code>distribution::Array{Int64,1}</code>: The distribution of the nodes.</li><li><code>ptc::Array{Int64,1}</code>: The number of nodes in each rank.</li><li><code>size::Int64</code>: The number of ranks.</li></ul><p><strong>Returns</strong></p><ul><li><code>overlap_map::Dict{Int64,Dict{Int64,Dict{String,Vector{Int64}}}}</code>: The overlap map.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1014-L1025">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_distribution" href="#PeriLab.IO.create_distribution"><code>PeriLab.IO.create_distribution</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_distribution(nnodes::Int64, size::Int64)</code></pre><p>Calculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded</p><p><strong>Arguments</strong></p><ul><li><code>nnodes::Int64</code>: The number of nodes.</li><li><code>size::Int64</code>: The number of cores.</li></ul><p><strong>Returns</strong></p><ul><li><code>distribution::Array{Int64,1}</code>: The distribution of the nodes.</li><li><code>point_to_core::Array{Int64,1}</code>: The number of nodes in each rank.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1186-L1197">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_distribution_node_based" href="#PeriLab.IO.create_distribution_node_based"><code>PeriLab.IO.create_distribution_node_based</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_distribution_node_based(nnodes::Int64,nlist::Vector{Vector{Int64}}, size::Int64)</code></pre><p>Calculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded</p><p><strong>Arguments</strong></p><ul><li><code>nnodes::Int64</code>: The number of nodes.</li><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list.</li><li><code>size::Int64</code>: The number of cores.</li></ul><p><strong>Returns</strong></p><ul><li><code>distribution::Array{Int64,1}</code>: The distribution of the nodes.</li><li><code>point_to_core::Array{Int64,1}</code>: The number of nodes in each rank.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1049-L1061">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_distribution_neighbor_based" href="#PeriLab.IO.create_distribution_neighbor_based"><code>PeriLab.IO.create_distribution_neighbor_based</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_distribution_neighbor_based(nnodes::Int64,nlist::Vector{Vector{Int64}}, size::Int64)</code></pre><p>Calculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded</p><p><strong>Arguments</strong></p><ul><li><code>nnodes::Int64</code>: The number of nodes.</li><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list.</li><li><code>size::Int64</code>: The number of cores.</li></ul><p><strong>Returns</strong></p><ul><li><code>distribution::Array{Int64,1}</code>: The distribution of the nodes.</li><li><code>point_to_core::Array{Int64,1}</code>: The number of nodes in each rank.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1115-L1127">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.neighbors" href="#PeriLab.IO.neighbors"><code>PeriLab.IO.neighbors</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">neighbors(mesh, params::Dict, coor)</code></pre><p>Compute the neighbor list for each node in a mesh based on their proximity using a BallTree data structure.</p><p><strong>Arguments</strong></p><ul><li><code>mesh</code>: A mesh data structure containing the coordinates and other information.</li><li><code>params</code>: paramss needed for computing the neighbor list.</li><li><code>coor</code>: A vector of coordinate names along which to compute the neighbor list.</li></ul><p><strong>Returns</strong></p><p>An array of neighbor lists, where each element represents the neighbors of a node in the mesh.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1219-L1231">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.bond_intersects_disc" href="#PeriLab.IO.bond_intersects_disc"><code>PeriLab.IO.bond_intersects_disc</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">bond_intersects_disc(p0::Vector{Float64}, p1::Vector{Float64}, center::Vector{Float64}, normal::Vector{Float64}, radius::Float64)</code></pre><p>Check if a line segment intersects a disk.</p><p><strong>Arguments</strong></p><ul><li><code>p0::Vector{Float64}</code>: The start point of the line segment.</li><li><code>p1::Vector{Float64}</code>: The end point of the line segment.</li><li><code>center::Vector{Float64}</code>: The center of the disk.</li><li><code>normal::Vector{Float64}</code>: The normal of the plane.</li><li><code>radius::Float64</code>: The radius of the disk.</li></ul><p><strong>Returns</strong></p><ul><li><code>Bool</code>: True if the line segment intersects the disk, False otherwise.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1252-L1265">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.bond_intersect_infinite_plane" href="#PeriLab.IO.bond_intersect_infinite_plane"><code>PeriLab.IO.bond_intersect_infinite_plane</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">bond_intersect_infinite_plane(p0::Vector{Float64}, p1::Vector{Float64}, lower_left_corner::Vector{Float64}, normal::Vector{Float64})</code></pre><p>Check if a line segment intersects an infinite plane.</p><p><strong>Arguments</strong></p><ul><li><code>p0::Vector{Float64}</code>: The start point of the line segment.</li><li><code>p1::Vector{Float64}</code>: The end point of the line segment.</li><li><code>lower_left_corner::Vector{Float64}</code>: The lower left corner of the plane.</li><li><code>normal::Vector{Float64}</code>: The normal of the plane.</li></ul><p><strong>Returns</strong></p><ul><li><code>Bool</code>: True if the line segment intersects the plane, False otherwise.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1296-L1308">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.bond_intersect_rectangle_plane" href="#PeriLab.IO.bond_intersect_rectangle_plane"><code>PeriLab.IO.bond_intersect_rectangle_plane</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">bond_intersect_rectangle_plane(x::Vector{Float64}, lower_left_corner::Vector{Float64}, bottom_unit_vector::Vector{Float64}, normal::Vector{Float64}, side_length::Float64, bottom_length::Float64)</code></pre><p>Check if a bond intersects a rectangle plane.</p><p><strong>Arguments</strong></p><ul><li><code>x::Vector{Float64}</code>: The point.</li><li><code>lower_left_corner::Vector{Float64}</code>: The lower left corner of the rectangle.</li><li><code>bottom_unit_vector::Vector{Float64}</code>: The unit vector along the bottom of the rectangle.</li><li><code>normal::Vector{Float64}</code>: The normal of the plane.</li><li><code>side_length::Float64</code>: The side length of the rectangle.</li><li><code>bottom_length::Float64</code>: The bottom length of the rectangle.</li></ul><p><strong>Returns</strong></p><ul><li><code>Bool</code>: True if the point is inside the rectangle, False otherwise.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1330-L1344">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.apply_bond_filters" href="#PeriLab.IO.apply_bond_filters"><code>PeriLab.IO.apply_bond_filters</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">apply_bond_filters(nlist::Vector{Vector{Int64}}, mesh::DataFrame, params::Dict, dof::Int64)</code></pre><p>Apply the bond filters to the neighborhood list.</p><p><strong>Arguments</strong></p><ul><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list.</li><li><code>mesh::DataFrame</code>: The mesh.</li><li><code>params::Dict</code>: The parameters.</li><li><code>dof::Int64</code>: The degrees of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>nlist::Vector{Vector{Int64}}</code>: The filtered neighborhood list.</li><li><code>nlist_filtered_ids::Vector{Vector{Int64}}</code>: The filtered neighborhood list.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1361-L1374">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.disk_filter" href="#PeriLab.IO.disk_filter"><code>PeriLab.IO.disk_filter</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">disk_filter(nnodes::Int64, data::Matrix{Float64}, filter::Dict, nlist::Vector{Vector{Int64}}, dof::Int64)</code></pre><p>Apply the disk filter to the neighborhood list.</p><p><strong>Arguments</strong></p><ul><li><code>nnodes::Int64</code>: The number of nodes.</li><li><code>data::Matrix{Float64}</code>: The data.</li><li><code>filter::Dict</code>: The filter.</li><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list.</li><li><code>dof::Int64</code>: The degrees of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>filter_flag::Vector{Bool}</code>: The filter flag.</li><li><code>normal::Vector{Float64}</code>: The normal vector of the disk.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1428-L1442">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.rectangular_plane_filter" href="#PeriLab.IO.rectangular_plane_filter"><code>PeriLab.IO.rectangular_plane_filter</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">rectangular_plane_filter(nnodes::Int64, data::Matrix{Float64}, filter::Dict, nlist::Vector{Vector{Int64}}, dof::Int64)</code></pre><p>Apply the rectangular plane filter to the neighborhood list.</p><p><strong>Arguments</strong></p><ul><li><code>nnodes::Int64</code>: The number of nodes.</li><li><code>data::Matrix{Float64}</code>: The data.</li><li><code>filter::Dict</code>: The filter.</li><li><code>nlist::Vector{Vector{Int64}}</code>: The neighborhood list.</li><li><code>dof::Int64</code>: The degrees of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>filter_flag::Vector{Bool}</code>: The filter flag.</li><li><code>normal::Vector{Float64}</code>: The normal vector of the disk.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1465-L1479">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.glob_to_loc" href="#PeriLab.IO.glob_to_loc"><code>PeriLab.IO.glob_to_loc</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">glob_to_loc(distribution)</code></pre><p>Get the global to local mapping</p><p><strong>Arguments</strong></p><ul><li><code>distribution</code>: The distribution</li></ul><p><strong>Returns</strong></p><ul><li><code>glob_to_loc</code>: The global to local mapping</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L1511-L1520">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.check_for_duplicate_in_dataframe" href="#PeriLab.IO.check_for_duplicate_in_dataframe"><code>PeriLab.IO.check_for_duplicate_in_dataframe</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_for_duplicate_in_dataframe(mesh::DataFrame)</code></pre><p>check duplicated entries and throws an error if one is there. If not everything is ok.</p><p><strong>Arguments</strong></p><ul><li><code>mesh::DataFrame</code>: The input mesh data represented as a DataFrame.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L628-L635">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.check_types_in_dataframe" href="#PeriLab.IO.check_types_in_dataframe"><code>PeriLab.IO.check_types_in_dataframe</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_types_in_dataframe(mesh::DataFrame)</code></pre><p>check if block_id in mesh contains only int.</p><p><strong>Arguments</strong></p><ul><li><code>mesh::DataFrame</code>: The input mesh data represented as a DataFrame.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/mesh_data.jl#L645-L652">source</a></section></article><h2 id="Geometry"><a class="docs-heading-anchor" href="#Geometry">Geometry</a><a id="Geometry-1"></a><a class="docs-heading-anchor-permalink" href="#Geometry" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Geometry.bond_geometry" href="#PeriLab.IO.Geometry.bond_geometry"><code>PeriLab.IO.Geometry.bond_geometry</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs"> bond_geometry(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, nlist, coor, undeformed_bond)</code></pre><p>Calculate bond geometries between nodes based on their coordinates.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: A vector of integers representing node IDs.</li><li><code>dof::Int64</code>: An integer representing the degrees of freedom.</li><li><code>nlist</code>: A data structure (e.g., a list or array) representing neighboring node IDs for each node.</li><li><code>coor</code>: A matrix representing the coordinates of each node.</li><li><code>undeformed_bond</code>: A preallocated array or data structure to store bond geometries.</li></ul><p><strong>Output</strong></p><ul><li><code>undeformed_bond</code>: An updated <code>undeformed_bond</code> array with calculated bond geometries.</li></ul><p><strong>Description</strong></p><p>This function calculates bond geometries between nodes. For each node in <code>nodes</code>, it computes the bond vector between the node and its neighboring nodes based on their coordinates. It also calculates the distance (magnitude) of each bond vector.</p><p>If the distance of any bond vector is found to be zero, indicating identical point coordinates, an error is raised.</p><p><strong>Example</strong></p><p>```julia  nodes = [1, 2, 3]  dof = 2  nlist = [[2, 3], [1, 3], [1, 2]]  coor = [0.0 0.0; 1.0 0.0; 0.0 1.0]  undeformed_bond = zeros(Float64, length(nodes), length(nlist[1]), dof + 1)</p><p>undeformed<em>bond(nodes, dof, nlist, coor, undeformed</em>bond)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/geometry.jl#L11-L40">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Geometry.shape_tensor" href="#PeriLab.IO.Geometry.shape_tensor"><code>PeriLab.IO.Geometry.shape_tensor</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">shape_tensor(nodes::Union{SubArray, Vector{Int64}}, dof::Int64, nlist, volume, omega, bond_damage, undeformed_bond, shapeTensor, inverse_shape_tensor)</code></pre><p>Calculate the shape tensor and its inverse for a set of nodes in a computational mechanics context.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: A vector of integers representing node IDs.</li><li><code>dof::Int64</code>: An integer representing the degrees of freedom.</li><li><code>nlist</code>: A data structure (e.g., a list or array) representing neighboring node IDs for each node.</li><li><code>volume</code>: A vector or array containing volume information for each node.</li><li><code>omega</code>: A vector or array containing omega information for each node.</li><li><code>bond_damage</code>: A data structure representing bond damage for each node.</li><li><code>undeformed_bond</code>: A data structure representing bond geometries for each node.</li><li><code>shapeTensor</code>: A preallocated 3D array to store the shape tensors for each node.</li><li><code>inverse_shape_tensor</code>: A preallocated 3D array to store the inverse shape tensors for each node.</li></ul><p><strong>Output</strong></p><ul><li><code>shapeTensor</code>: An updated <code>shapeTensor</code> array with calculated shape tensors.</li><li><code>inverse_shape_tensor</code>: An updated <code>inverse_shape_tensor</code> array with calculated inverse shape tensors.</li></ul><p><strong>Description</strong></p><p>This function calculates the shape tensor and its inverse for a set of nodes in a computational mechanics context. The shape tensor is a key quantity used in continuum mechanics to describe material deformation. It is calculated based on bond damage, bond geometries, volume, and omega information for each node.</p><p>For each node in <code>nodes</code>, the function iterates through degrees of freedom (<code>dof</code>) and computes elements of the shape tensor. The inverse of the shape tensor is also calculated and stored in <code>inverse_shape_tensor</code>.</p><p><strong>Example</strong></p><p>```julia nodes = [1, 2, 3] dof = 3 nlist = [[2, 3], [1, 3], [1, 2]] volume = [0.1, 0.2, 0.3] omega = [0.5, 0.4, 0.6] bond<em>damage = zeros(Float64, length(nodes), length(nlist[1])) undeformed</em>bond = rand(Float64, length(nodes), length(nlist[1]), dof) shapeTensor = zeros(Float64, length(nodes), dof, dof) inverse<em>shape</em>tensor = zeros(Float64, length(nodes), dof, dof)</p><p>shape<em>tensor(nodes, dof, nlist, volume, omega, bond</em>damage, undeformed<em>bond, shapeTensor, inverse</em>shape_tensor)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/geometry.jl#L62-L100">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Geometry.deformation_gradient" href="#PeriLab.IO.Geometry.deformation_gradient"><code>PeriLab.IO.Geometry.deformation_gradient</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">deformation_gradient(nodes::Union{SubArray, Vector{Int64}}, dof::Int64, nlist, volume, omega, bond_damage, undeformed_bond, deformed_bond, inverse_shape_tensor, deformation_gradient)</code></pre><p>Calculate the deformation gradient tensor for a set of nodes in a computational mechanics context.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: A vector of integers representing node IDs.</li><li><code>dof::Int64</code>: An integer representing the degrees of freedom.</li><li><code>nlist</code>: A data structure (e.g., a list or array) representing neighboring node IDs for each node.</li><li><code>volume</code>: A vector or array containing volume information for each node.</li><li><code>omega</code>: A vector or array containing omega information for each node.</li><li><code>bond_damage</code>: A data structure representing bond damage for each node.</li><li><code>undeformed_bond</code>: A data structure representing bond geometries for each node.</li><li><code>deformed_bond</code>: A data structure representing deformed bond properties for each node.</li><li><code>inverse_shape_tensor</code>: A data structure representing the inverse shape tensors for each node.</li><li><code>deformation_gradient</code>: A preallocated 3D array to store the deformation gradient tensors for each node.</li></ul><p><strong>Output</strong></p><ul><li><code>deformation_gradient</code>: An updated <code>deformation_gradient</code> array with calculated deformation gradient tensors.</li></ul><p><strong>Description</strong></p><p>This function calculates the deformation gradient tensor for a set of nodes in a computational mechanics context. The deformation gradient tensor characterizes the deformation of a material.</p><p>For each node in <code>nodes</code>, the function iterates through degrees of freedom (<code>dof</code>) and computes elements of the deformation gradient tensor based on bond damage, deformed bond properties, bond geometries, volume, and omega information. The calculated deformation gradient tensor is stored in <code>deformation_gradient</code>.</p><p><strong>Example</strong></p><p>```julia nodes = [1, 2, 3] dof = 3 nlist = [[2, 3], [1, 3], [1, 2]] volume = [0.1, 0.2, 0.3] omega = [0.5, 0.4, 0.6] bond<em>damage = zeros(Float64, length(nodes), length(nlist[1])) undeformed</em>bond = rand(Float64, length(nodes), length(nlist[1]), dof) deformed<em>bond = rand(Float64, length(nodes), length(nlist[1]), dof) inverse</em>shape<em>tensor = rand(Float64, length(nodes), dof, dof) deformation</em>gradient = zeros(Float64, length(nodes), dof, dof)</p><p>deformation<em>gradient(nodes, dof, nlist, volume, omega, bond</em>damage, undeformed<em>bond, deformed</em>bond, inverse<em>shape</em>tensor, deformation_gradient)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/geometry.jl#L121-L160">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Geometry.strain" href="#PeriLab.IO.Geometry.strain"><code>PeriLab.IO.Geometry.strain</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">function strain(nodes::Union{SubArray, Vector{Int64}}, deformation_gradient, strain)</code></pre><p>Calculate strains for specified nodes based on deformation gradients.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: List of nodes</li><li><code>deformation_gradient</code>: Deformation gradient at current time step (2D or 3D array).</li></ul><p><strong>Returns</strong></p><ul><li>Updated <code>strain</code> array containing strains.</li></ul><p>This function iterates over the specified nodes and computes strain at each node using the given deformation gradients.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/geometry.jl#L175-L190">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Geometry.rotation_tensor" href="#PeriLab.IO.Geometry.rotation_tensor"><code>PeriLab.IO.Geometry.rotation_tensor</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">function rotation_tensor(angles::Vector{Float64})</code></pre><p>Creates the rotation tensor for 2D or 3D applications. Uses Rotations.jl package.</p><p><strong>Arguments</strong></p><ul><li><code>angles::Vector{Float64}</code>: Vector of angles definede in degrees of length one or three</li></ul><p><strong>Returns</strong></p><ul><li>Rotation tensor</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/geometry.jl#L199-L210">source</a></section></article><h2 id="Read*Input*Deck"><a class="docs-heading-anchor" href="#Read*Input*Deck">Read<em>Input</em>Deck</a><a id="Read*Input*Deck-1"></a><a class="docs-heading-anchor-permalink" href="#Read*Input*Deck" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.read_input" href="#PeriLab.IO.read_input"><code>PeriLab.IO.read_input</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">read_input(filename::String)</code></pre><p>Reads the input deck from a yaml file</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The name of the yaml file</li></ul><p><strong>Returns</strong></p><ul><li><code>params::Dict{String,Any}</code>: The parameters read from the yaml file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/read_inputdeck.jl#L10-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.read_input_file" href="#PeriLab.IO.read_input_file"><code>PeriLab.IO.read_input_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">read_input_file(filename::String)</code></pre><p>Reads the input deck from a yaml file</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The name of the yaml file</li></ul><p><strong>Returns</strong></p><ul><li><code>params::Dict{String,Any}</code>: The parameters read from the yaml file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/read_inputdeck.jl#L32-L41">source</a></section></article><h2 id="MPI"><a class="docs-heading-anchor" href="#MPI">MPI</a><a id="MPI-1"></a><a class="docs-heading-anchor-permalink" href="#MPI" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.send_single_value_from_vector" href="#PeriLab.IO.send_single_value_from_vector"><code>PeriLab.IO.send_single_value_from_vector</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">send_single_value_from_vector(comm::MPI.Comm, controller::Int64, values::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}, type::Type)</code></pre><p>Sends a single value from a vector to a controller</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>controller::Int64</code>: The controller</li><li><code>values::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The values</li><li><code>type::Type</code>: The type</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L7-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.synch_responder_to_controller" href="#PeriLab.IO.synch_responder_to_controller"><code>PeriLab.IO.synch_responder_to_controller</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synch_responder_to_controller(comm::MPI.Comm, overlapnodes, vector, dof)</code></pre><p>Synch the responder to the controller</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>overlapnodes::Dict</code>: The overlap nodes</li><li><code>vector::Vector</code>: The vector</li><li><code>dof::Int</code>: The degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>vector::Vector</code>: The vector</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L70-L82">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.synch_controller_to_responder" href="#PeriLab.IO.synch_controller_to_responder"><code>PeriLab.IO.synch_controller_to_responder</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synch_controller_to_responder(comm::MPI.Comm, overlapnodes, vector, dof)</code></pre><p>Synch the controller to the responder</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>overlapnodes::Dict</code>: The overlap nodes</li><li><code>vector::Vector</code>: The vector</li><li><code>dof::Int</code>: The degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>vector::Vector</code>: The vector</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L128-L140">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.synch_controller_bonds_to_responder" href="#PeriLab.IO.synch_controller_bonds_to_responder"><code>PeriLab.IO.synch_controller_bonds_to_responder</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synch_controller_bonds_to_responder(comm::MPI.Comm, overlapnodes, array, dof)</code></pre><p>Synch the controller bonds to the responder</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>overlapnodes::Dict</code>: The overlap nodes</li><li><code>array::Array</code>: The array</li><li><code>dof::Int</code>: The degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>array::Array</code>: The array</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L180-L192">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.split_vector" href="#PeriLab.IO.split_vector"><code>PeriLab.IO.split_vector</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">split_vector(input, row_nums, dof)</code></pre><p>Split a vector into a vector of matrices</p><p><strong>Arguments</strong></p><ul><li><code>input::Vector</code>: The input vector</li><li><code>row_nums::Vector</code>: The row numbers</li><li><code>dof::Int</code>: The degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>result::Vector</code>: The result vector</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L235-L246">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.synch_controller_bonds_to_responder_flattened" href="#PeriLab.IO.synch_controller_bonds_to_responder_flattened"><code>PeriLab.IO.synch_controller_bonds_to_responder_flattened</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">synch_controller_bonds_to_responder_flattened(comm::MPI.Comm, overlapnodes, array, dof)</code></pre><p>Synch the controller bonds to the responder</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>overlapnodes::Dict</code>: The overlap nodes</li><li><code>array::Array</code>: The array</li><li><code>dof::Int</code>: The degree of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>array::Array</code>: The array</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L257-L269">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.send_vectors_to_cores" href="#PeriLab.IO.send_vectors_to_cores"><code>PeriLab.IO.send_vectors_to_cores</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">send_vectors_to_cores(comm::MPI.Comm, controller, values, type)</code></pre><p>Sends a vector to a controller</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>controller::Int64</code>: The controller</li><li><code>values::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The values</li><li><code>type::Type</code>: The type</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L302-L314">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.send_vector_from_root_to_core_i" href="#PeriLab.IO.send_vector_from_root_to_core_i"><code>PeriLab.IO.send_vector_from_root_to_core_i</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">send_vector_from_root_to_core_i(comm::MPI.Comm, send_msg, recv_msg, distribution)</code></pre><p>Sends a vector from the root to the core i</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>send_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The send message</li><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The receive message</li><li><code>distribution::Vector{Int64}</code>: The distribution</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L341-L353">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.send_value" href="#PeriLab.IO.send_value"><code>PeriLab.IO.send_value</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">send_value(comm::MPI.Comm, controller, send_msg)</code></pre><p>Sends a value to a controller</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>controller::Int64</code>: The controller</li><li><code>send_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The send message</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L367-L378">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_vector" href="#PeriLab.IO.get_vector"><code>PeriLab.IO.get_vector</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_vector(comm::MPI.Comm, vector, topo)</code></pre><p>Gets a vector from all cores</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>vector::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The vector</li><li><code>topo::Vector{Vector{Tuple{Int64,Int64}}}</code>: The topology</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L390-L401">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.recv_vector_from_root" href="#PeriLab.IO.recv_vector_from_root"><code>PeriLab.IO.recv_vector_from_root</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">recv_vector_from_root(comm::MPI.Comm, recv_msg)</code></pre><p>Receives a vector from the root</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The receive message</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L417-L427">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.find_and_set_core_value_min" href="#PeriLab.IO.find_and_set_core_value_min"><code>PeriLab.IO.find_and_set_core_value_min</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_and_set_core_value_min(comm::MPI.Comm, value::Union{Float64,Int64})</code></pre><p>Find and set core value min</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>value::Union{Float64,Int64}</code>: The value</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L436-L446">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.find_and_set_core_value_max" href="#PeriLab.IO.find_and_set_core_value_max"><code>PeriLab.IO.find_and_set_core_value_max</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_and_set_core_value_max(comm::MPI.Comm, value::Union{Float64,Int64})</code></pre><p>Find and set core value max</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>value::Union{Float64,Int64}</code>: The value</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L451-L461">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.find_and_set_core_value_sum" href="#PeriLab.IO.find_and_set_core_value_sum"><code>PeriLab.IO.find_and_set_core_value_sum</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_and_set_core_value_sum(comm::MPI.Comm, value::Union{Float64,Int64})</code></pre><p>Find and set core value sum</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>value::Union{Float64,Int64}</code>: The value</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L466-L476">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.find_and_set_core_value_avg" href="#PeriLab.IO.find_and_set_core_value_avg"><code>PeriLab.IO.find_and_set_core_value_avg</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_and_set_core_value_avg(comm::MPI.Comm, value::Union{Float64,Int64})</code></pre><p>Find and set core value avg</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>value::Union{Float64,Int64}</code>: The value</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L481-L491">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.gather_values" href="#PeriLab.IO.gather_values"><code>PeriLab.IO.gather_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">gather_values(comm::MPI.Comm, value::Any)</code></pre><p>Gather values</p><p><strong>Arguments</strong></p><ul><li><code>comm::MPI.Comm</code>: The MPI communicator</li><li><code>value::Any</code>: The value</li></ul><p><strong>Returns</strong></p><ul><li><code>recv_msg::Any</code>: The received message</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/MPI_communication/MPI_communication.jl#L497-L507">source</a></section></article><h2 id="Write*Exodus*Results"><a class="docs-heading-anchor" href="#Write*Exodus*Results">Write<em>Exodus</em>Results</a><a id="Write*Exodus*Results-1"></a><a class="docs-heading-anchor-permalink" href="#Write*Exodus*Results" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.create_result_file" href="#PeriLab.IO.create_result_file"><code>PeriLab.IO.create_result_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_result_file(filename::Union{AbstractString,String}, num_nodes::Int64, num_dim::Int64, num_elem_blks::Int64, num_node_sets::Int64)</code></pre><p>Creates a exodus file for the results</p><p><strong>Arguments</strong></p><ul><li><code>filename::Union{AbstractString,String}</code>: The name of the file to create</li><li><code>num_nodes::Int64</code>: The number of nodes</li><li><code>num_dim::Int64</code>: The number of dimensions</li><li><code>num_elem_blks::Int64</code>: The number of element blocks</li><li><code>num_node_sets::Int64</code>: The number of node sets</li></ul><p><strong>Returns</strong></p><ul><li><code>result_file::Dict{String,Any}</code>: A dictionary containing the filename and the exodus file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L12-L25">source</a></section><section><div><pre><code class="language-julia hljs">create_result_file(filename::String, outputs::Dict)</code></pre><p>Creates a csv file for the results</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The name of the file to create</li><li><code>outputs::Dict</code>: The outputs dictionary</li></ul><p><strong>Returns</strong></p><ul><li><code>Dict</code>: The result file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/csv_export.jl#L8-L18">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.paraview_specifics" href="#PeriLab.IO.paraview_specifics"><code>PeriLab.IO.paraview_specifics</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">paraview_specifics(dof::Int64)</code></pre><p>Returns the paraview specific dof</p><p><strong>Arguments</strong></p><ul><li><code>dof::Int64</code>: The degrees of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>paraview_specifics::String</code>: The paraview specific dof</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L47-L56">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_paraview_coordinates" href="#PeriLab.IO.get_paraview_coordinates"><code>PeriLab.IO.get_paraview_coordinates</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_paraview_coordinates(dof::Int64, refDof::Int64)</code></pre><p>Returns the paraview specific dof</p><p><strong>Arguments</strong></p><ul><li><code>dof::Int64</code>: The degrees of freedom</li><li><code>refDof::Int64</code>: The reference degrees of freedom</li></ul><p><strong>Returns</strong></p><ul><li><code>paraview_specifics::String</code>: The paraview specific dof</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L62-L72">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.get_block_nodes" href="#PeriLab.IO.get_block_nodes"><code>PeriLab.IO.get_block_nodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_block_nodes(block_Id::Union{SubArray,Vector{Int64}}, block::Int64)</code></pre><p>Returns the nodes of a block</p><p><strong>Arguments</strong></p><ul><li><code>block_Id::Union{SubArray,Vector{Int64}}</code>: The block Id</li><li><code>block::Int64</code>: The block</li></ul><p><strong>Returns</strong></p><ul><li><code>nodes::Vector{Int64}</code>: The nodes of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L90-L100">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.init_results_in_exodus" href="#PeriLab.IO.init_results_in_exodus"><code>PeriLab.IO.init_results_in_exodus</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_results_in_exodus(exo::ExodusDatabase, output::Dict{}, coords::Union{Matrix{Int64},Matrix{Float64}}, block_Id::Vector{Int64}, uniqueBlocks::Vector{Int64}, nsets::Dict{String,Vector{Int64}}, global_ids::Vector{Int64}, PERILAB_VERSION::String)</code></pre><p>Initializes the results in exodus</p><p><strong>Arguments</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus database</li><li><code>output::Dict{String,Any}</code>: The output</li><li><code>coords::Union{Matrix{Int64},Matrix{Float64}}</code>: The coordinates</li><li><code>block_Id::Vector{Int64}</code>: The block Id</li><li><code>uniqueBlocks::Vector{Int64}</code>: The unique blocks</li><li><code>nsets::Dict{String,Vector{Int64}}</code>: The node sets</li><li><code>global_ids::Vector{Int64}</code>: The global ids</li></ul><p><strong>Returns</strong></p><ul><li><code>result_file::Dict{String,Any}</code>: The result file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L106-L121">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.write_step_and_time" href="#PeriLab.IO.write_step_and_time"><code>PeriLab.IO.write_step_and_time</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">write_step_and_time(exo::ExodusDatabase, step::Int64, time::Float64)</code></pre><p>Writes the step and time in the exodus file</p><p><strong>Arguments</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li><li><code>step::Int64</code>: The step</li><li><code>time::Float64</code>: The time</li></ul><p><strong>Returns</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L187-L198">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.write_nodal_results_in_exodus" href="#PeriLab.IO.write_nodal_results_in_exodus"><code>PeriLab.IO.write_nodal_results_in_exodus</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">write_nodal_results_in_exodus(exo::ExodusDatabase, step::Int64, output::Dict, datamanager::Module)</code></pre><p>Writes the nodal results in the exodus file</p><p><strong>Arguments</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li><li><code>step::Int64</code>: The step</li><li><code>output::Dict</code>: The output</li><li><code>datamanager::Module</code>: The datamanager</li></ul><p><strong>Returns</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L204-L216">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.write_global_results_in_exodus" href="#PeriLab.IO.write_global_results_in_exodus"><code>PeriLab.IO.write_global_results_in_exodus</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">write_global_results_in_exodus(exo::ExodusDatabase, step::Int64, output::Dict, global_values)</code></pre><p>Writes the global results in the exodus file</p><p><strong>Arguments</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li><li><code>step::Int64</code>: The step</li><li><code>output::Dict</code>: The output</li><li><code>global_values</code>: The global values</li></ul><p><strong>Returns</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L235-L247">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.merge_exodus_file" href="#PeriLab.IO.merge_exodus_file"><code>PeriLab.IO.merge_exodus_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">merge_exodus_file(file_name::Union{AbstractString,String})</code></pre><p>Merges the exodus file</p><p><strong>Arguments</strong></p><ul><li><code>file_name::Union{AbstractString,String}</code>: The name of the file to merge</li></ul><p><strong>Returns</strong></p><ul><li><code>exo::ExodusDatabase</code>: The exodus file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/exodus_export.jl#L256-L265">source</a></section></article><h2 id="Write*CSV*Results"><a class="docs-heading-anchor" href="#Write*CSV*Results">Write<em>CSV</em>Results</a><a id="Write*CSV*Results-1"></a><a class="docs-heading-anchor-permalink" href="#Write*CSV*Results" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.write_global_results_in_csv" href="#PeriLab.IO.write_global_results_in_csv"><code>PeriLab.IO.write_global_results_in_csv</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">write_global_results_in_csv(csv_file::IOStream, time::Float64, global_values)</code></pre><p>Writes the global results to the csv file</p><p><strong>Arguments</strong></p><ul><li><code>csv_file::IOStream</code>: The csv file</li><li><code>global_values</code>: The global values</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/csv_export.jl#L36-L44">source</a></section></article><h2 id="Helpers"><a class="docs-heading-anchor" href="#Helpers">Helpers</a><a id="Helpers-1"></a><a class="docs-heading-anchor-permalink" href="#Helpers" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.find_indices" href="#PeriLab.Solver.Helpers.find_indices"><code>PeriLab.Solver.Helpers.find_indices</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_indices(vector, what)</code></pre><p>Returns the indices of <code>vector</code> that are equal to <code>what</code>.</p><p><strong>Arguments</strong></p><ul><li><code>vector::Vector</code>: The vector to search in.</li><li><code>what</code>: The value to search for.</li></ul><p><strong>Returns</strong></p><ul><li><code>indices::Vector</code>: The indices of <code>vector</code> that are equal to <code>what</code>.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L22-L32">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.find_active" href="#PeriLab.Solver.Helpers.find_active"><code>PeriLab.Solver.Helpers.find_active</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_active(active::Vector{Bool})</code></pre><p>Returns the indices of <code>active</code> that are true.</p><p><strong>Arguments</strong></p><ul><li><code>active::Vector{Bool}</code>: The vector to search in.</li></ul><p><strong>Returns</strong></p><ul><li><code>indices::Vector</code>: The indices of <code>active</code> that are true.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L37-L46">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.get_active_update_nodes" href="#PeriLab.Solver.Helpers.get_active_update_nodes"><code>PeriLab.Solver.Helpers.get_active_update_nodes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_active_update_nodes(active::SubArray, update_list::SubArray, block_nodes::Dict{Int64,Vector{Int64}}, block::Int64)</code></pre><p>Returns the active nodes and the update nodes.</p><p><strong>Arguments</strong></p><ul><li><code>active::SubArray</code>: The active vector.</li><li><code>update_list::SubArray</code>: The update vector.</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: The vector to search in.</li><li><code>block::Int64</code>: The block_id.</li></ul><p><strong>Returns</strong></p><ul><li><code>active_nodes::Vector{Int64}</code>: The nodes of <code>active</code> that are true.</li><li><code>update_nodes::Vector{Int64}</code>: The nodes of <code>update</code> that are true.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L51-L64">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.find_files_with_ending" href="#PeriLab.Solver.Helpers.find_files_with_ending"><code>PeriLab.Solver.Helpers.find_files_with_ending</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_files_with_ending(folder_path::AbstractString, file_ending::AbstractString)</code></pre><p>Returns a list of files in <code>folder_path</code> that end with <code>file_ending</code>.</p><p><strong>Arguments</strong></p><ul><li><code>folder_path::AbstractString</code>: The path to the folder.</li><li><code>file_ending::AbstractString</code>: The ending of the files.</li></ul><p><strong>Returns</strong></p><ul><li><code>file_list::Vector{String}</code>: The list of files that end with <code>file_ending</code>.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L81-L91">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.check_inf_or_nan" href="#PeriLab.Solver.Helpers.check_inf_or_nan"><code>PeriLab.Solver.Helpers.check_inf_or_nan</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_inf_or_nan(array, msg)</code></pre><p>Checks if the sum of the array is finite. If not, an error is raised.</p><p><strong>Arguments</strong></p><ul><li><code>array</code>: The array to check.</li><li><code>msg</code>: The error message to raise.</li></ul><p><strong>Returns</strong></p><ul><li><code>Bool</code>: <code>true</code> if the sum of the array is finite, <code>false</code> otherwise.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L97-L107">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.matrix_style" href="#PeriLab.Solver.Helpers.matrix_style"><code>PeriLab.Solver.Helpers.matrix_style</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">matrix_style(A)</code></pre><p>Include a scalar or an array and reshape it to style needed for LinearAlgebra package</p><p><strong>Arguments</strong></p><ul><li><code>A</code>: The array or scalar to reshape</li></ul><p><strong>Returns</strong></p><ul><li><code>Array</code>: The reshaped array</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L116-L125">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.progress_bar" href="#PeriLab.Solver.Helpers.progress_bar"><code>PeriLab.Solver.Helpers.progress_bar</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">progress_bar(rank::Int64, nsteps::Int64, silent::Bool)</code></pre><p>Create a progress bar if the rank is 0. The progress bar ranges from 1 to nsteps + 1.</p><p><strong>Arguments</strong></p><ul><li>rank::Int64: An integer to determine if the progress bar should be created.</li><li>nsteps::Int64: The total number of steps in the progress bar.</li><li>silent::Bool: de/activates the progress bar</li></ul><p><strong>Returns</strong></p><ul><li>ProgressBar or UnitRange: If rank is 0, a ProgressBar object is returned. Otherwise, a range from 1 to nsteps + 1 is returned.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L208-L219">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.get_fourth_order" href="#PeriLab.Solver.Helpers.get_fourth_order"><code>PeriLab.Solver.Helpers.get_fourth_order</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_fourth_order(CVoigt, dof)</code></pre><p>Constructs a symmetric fourth-order tensor from a Voigt notation vector. It uses Tensors.jl package.</p><p>This function takes a Voigt notation vector <code>CVoigt</code> and the degree of freedom <code>dof</code>  to create a symmetric fourth-order tensor. The <code>CVoigt</code> vector contains components  that represent the tensor in Voigt notation, and <code>dof</code> specifies the dimension  of the tensor.</p><p><strong>Arguments</strong></p><ul><li><code>CVoigt::Matrix{Float64}</code>: A vector containing components of the tensor in Voigt notation.</li><li><code>dof::Int64</code>: The dimension of the resulting symmetric fourth-order tensor.</li></ul><p><strong>Returns</strong></p><ul><li><code>SymmetricFourthOrderTensor{dof}</code>: A symmetric fourth-order tensor of dimension <code>dof</code>.</li></ul><p><strong>Example</strong></p><p>```julia CVoigt = [1.0, 2.0, 3.0, 4.0, 5.0, 6.0] dof = 3 result = get<em>fourth</em>order(CVoigt, dof)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L135-L157">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Helpers.find_inverse_bond_id" href="#PeriLab.Solver.Helpers.find_inverse_bond_id"><code>PeriLab.Solver.Helpers.find_inverse_bond_id</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_inverse_bond_id(nlist::SubArray)</code></pre><p>Finds the inverse of the bond id in the nlist.</p><p><strong>Arguments</strong></p><ul><li><code>nlist::SubArray</code>: The nlist to find the inverse of.</li></ul><p><strong>Returns</strong></p><ul><li><code>inverse_nlist::Vector{Dict{Int64,Int64}}</code>: The inverse nlist.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/helpers.jl#L162-L171">source</a></section></article><h2 id="Pre_calculation"><a class="docs-heading-anchor" href="#Pre_calculation">Pre_calculation</a><a id="Pre_calculation-1"></a><a class="docs-heading-anchor-permalink" href="#Pre_calculation" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.compute" href="#PeriLab.Solver.Physics.Pre_calculation.compute"><code>PeriLab.Solver.Physics.Pre_calculation.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, options, time::Float64, dt::Float64)</code></pre><p>Compute the pre-calculation.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>options</code>: Options.</li><li><code>time::Float64</code>: Time.</li><li><code>dt::Float64</code>: Time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/Pre_Calculation_Factory.jl#L21-L34">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation" href="#PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation"><code>PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_pre_calculation(datamanager::Module, options::Dict)</code></pre><p>Initialize the pre-calculation.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>options::Dict</code>: Options.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/Pre_Calculation_Factory.jl#L55-L65">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute" href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, time::Float64)</code></pre><p>Compute the bond deformation.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes</code>: List of nodes.</li><li><code>time</code>: Time.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/bond_deformation.jl#L10-L21">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute" href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager, nodes)</code></pre><p>Compute the bond deformation gradient.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes</code>: List of nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/bond_deformation_gradient.jl#L9-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute" href="#PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager, nodes)</code></pre><p>Compute the bond shape tensor.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes</code>: List of nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/bond_shapeTensor.jl#L9-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute" href="#PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Compute the deformation gradient.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes</code>: List of nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/deformation_gradient.jl#L9-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute" href="#PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute"><code>PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Compute the shape tensor.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Pre_calculation/shapeTensor.jl#L10-L20">source</a></section></article><h2 id="parameter_handling"><a class="docs-heading-anchor" href="#parameter_handling">parameter_handling</a><a id="parameter_handling-1"></a><a class="docs-heading-anchor-permalink" href="#parameter_handling" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.validate_yaml" href="#PeriLab.IO.Parameter_Handling.validate_yaml"><code>PeriLab.IO.Parameter_Handling.validate_yaml</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">validate_yaml(params::Dict)</code></pre><p>Validates the parameters against the expected structure</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling.jl#L279-L288">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.validate_structure_recursive" href="#PeriLab.IO.Parameter_Handling.validate_structure_recursive"><code>PeriLab.IO.Parameter_Handling.validate_structure_recursive</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">validate_structure_recursive(expected::Dict, actual::Dict, validate::Bool, checked_keys::Array, path::String=&quot;&quot;)</code></pre><p>Validates the parameters against the expected structure</p><p><strong>Arguments</strong></p><ul><li><code>expected::Dict</code>: The expected structure</li><li><code>actual::Dict</code>: The actual structure</li><li><code>validate::Bool</code>: The validation results</li><li><code>checked_keys::Array</code>: The keys that have been checked</li><li><code>path::String</code>: The current path</li></ul><p><strong>Returns</strong></p><ul><li><code>validate::Bool</code>: The validation result</li><li><code>checked_keys::Array</code>: The keys that have been checked</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling.jl#L199-L213">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_all_keys" href="#PeriLab.IO.Parameter_Handling.get_all_keys"><code>PeriLab.IO.Parameter_Handling.get_all_keys</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_all_keys(params::Dict)</code></pre><p>Get all the keys in the parameters</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>keys_list::Array</code>: The keys list</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling.jl#L258-L267">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_density" href="#PeriLab.IO.Parameter_Handling.get_density"><code>PeriLab.IO.Parameter_Handling.get_density</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_density(params::Dict, block_id::Int64)</code></pre><p>Get the density of a block.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: The ID of the block</li></ul><p><strong>Returns</strong></p><ul><li><code>density::Float64</code>: The density of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L12-L22">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_heat_capacity" href="#PeriLab.IO.Parameter_Handling.get_heat_capacity"><code>PeriLab.IO.Parameter_Handling.get_heat_capacity</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_heat_capacity(params::Dict, block_id::Int64)</code></pre><p>Get the heat capacity of a block.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: The ID of the block</li></ul><p><strong>Returns</strong></p><ul><li><code>heat_capacity::Float64</code>: The heat capacity of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L27-L37">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_horizon" href="#PeriLab.IO.Parameter_Handling.get_horizon"><code>PeriLab.IO.Parameter_Handling.get_horizon</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_horizon(params::Dict, block_id::Int64)</code></pre><p>Get the horizon of a block.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: The ID of the block</li></ul><p><strong>Returns</strong></p><ul><li><code>horizon::Float64</code>: The horizon of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L42-L52">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_values" href="#PeriLab.IO.Parameter_Handling.get_values"><code>PeriLab.IO.Parameter_Handling.get_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_values(params::Dict, block_id::Int64, valueName::String)</code></pre><p>Get the value of a block.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: The ID of the block</li><li><code>valueName::String</code>: The name of the value</li></ul><p><strong>Returns</strong></p><ul><li><code>value::Float64</code>: The value of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L57-L68">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_number_of_blocks" href="#PeriLab.IO.Parameter_Handling.get_number_of_blocks"><code>PeriLab.IO.Parameter_Handling.get_number_of_blocks</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_number_of_blocks(params::Dict)</code></pre><p>Get the number of blocks.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li></ul><p><strong>Returns</strong></p><ul><li><code>number_of_blocks::Int64</code>: The number of blocks</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L81-L90">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_block_models" href="#PeriLab.IO.Parameter_Handling.get_block_models"><code>PeriLab.IO.Parameter_Handling.get_block_models</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_block_models(params::Dict, block_id::Int64)</code></pre><p>Get the models of a block.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: The ID of the block</li></ul><p><strong>Returns</strong></p><ul><li><code>modelDict::Dict{String,String}</code>: The models of the block</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_blocks.jl#L100-L110">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_computes_names" href="#PeriLab.IO.Parameter_Handling.get_computes_names"><code>PeriLab.IO.Parameter_Handling.get_computes_names</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_computes_names(params::Dict)</code></pre><p>Get the names of the computes.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>computes_names::Vector{String}</code>: The names of the computes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_computes.jl#L10-L19">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_output_variables" href="#PeriLab.IO.Parameter_Handling.get_output_variables"><code>PeriLab.IO.Parameter_Handling.get_output_variables</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_output_variables(output::String, variables::Vector)</code></pre><p>Get the output variable.</p><p><strong>Arguments</strong></p><ul><li><code>output::String</code>: The output variable.</li><li><code>variables::Vector</code>: The variables.</li></ul><p><strong>Returns</strong></p><ul><li><code>output::String</code>: The output variable.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_computes.jl#L28-L39">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_computes" href="#PeriLab.IO.Parameter_Handling.get_computes"><code>PeriLab.IO.Parameter_Handling.get_computes</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_computes(params::Dict, variables::Vector{String})</code></pre><p>Get the computes.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li><li><code>variables::Vector{String}</code>: The variables.</li></ul><p><strong>Returns</strong></p><ul><li><code>computes::Dict{String,Dict{Any,Any}}</code>: The computes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_computes.jl#L49-L59">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_node_set" href="#PeriLab.IO.Parameter_Handling.get_node_set"><code>PeriLab.IO.Parameter_Handling.get_node_set</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_node_set(computes::Dict, path::String, params::Dict)</code></pre><p>Get the node set.</p><p><strong>Arguments</strong></p><ul><li><code>computes::Dict</code>: The computes dictionary.</li><li><code>path::String</code>: The path to the mesh.</li><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>nodeset::Vector</code>: The node set.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_computes.jl#L76-L87">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_mesh_name" href="#PeriLab.IO.Parameter_Handling.get_mesh_name"><code>PeriLab.IO.Parameter_Handling.get_mesh_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_mesh_name(params::Dict)</code></pre><p>Returns the name of the mesh file from the parameters</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li></ul><p><strong>Returns</strong></p><ul><li><code>String</code>: The name of the mesh file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_mesh.jl#L35-L44">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_topology_name" href="#PeriLab.IO.Parameter_Handling.get_topology_name"><code>PeriLab.IO.Parameter_Handling.get_topology_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_topology_name(params::Dict)</code></pre><p>Returns the name of the topology file from the parameters</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li></ul><p><strong>Returns</strong></p><ul><li><code>check::Bool</code>: Whether the topology file is defined</li><li><code>topoFile::String</code>: The name of the topology file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_mesh.jl#L54-L64">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_bond_filters" href="#PeriLab.IO.Parameter_Handling.get_bond_filters"><code>PeriLab.IO.Parameter_Handling.get_bond_filters</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_bond_filters(params::Dict)</code></pre><p>Returns the bond filters from the parameters</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li></ul><p><strong>Returns</strong></p><ul><li><code>check::Bool</code>: Whether the bond filters are defined</li><li><code>bfList::Dict{String,Dict{String,Any}}</code>: The bond filters</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_mesh.jl#L74-L84">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_node_sets" href="#PeriLab.IO.Parameter_Handling.get_node_sets"><code>PeriLab.IO.Parameter_Handling.get_node_sets</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_node_sets(params::Dict, path::String)</code></pre><p>Returns the node sets from the parameters</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>path::String</code>: The path to the mesh file</li></ul><p><strong>Returns</strong></p><ul><li><code>nsets::Dict{String,Any}</code>: The node sets</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_mesh.jl#L118-L128">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.check_for_duplicates" href="#PeriLab.IO.Parameter_Handling.check_for_duplicates"><code>PeriLab.IO.Parameter_Handling.check_for_duplicates</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_for_duplicates(filenames)</code></pre><p>Check for duplicate filenames.</p><p><strong>Arguments</strong></p><ul><li><code>filenames::Vector{String}</code>: The filenames</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L14-L21">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_output_filenames" href="#PeriLab.IO.Parameter_Handling.get_output_filenames"><code>PeriLab.IO.Parameter_Handling.get_output_filenames</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_output_filenames(params::Dict, output_dir::String)</code></pre><p>Gets the output filenames.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>output_dir::String</code>: The file directory</li></ul><p><strong>Returns</strong></p><ul><li><code>filenames::Vector{String}</code>: The filenames</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L37-L47">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_output_type" href="#PeriLab.IO.Parameter_Handling.get_output_type"><code>PeriLab.IO.Parameter_Handling.get_output_type</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_output_type(outputs::Dict, output::String)</code></pre><p>Gets the output type.</p><p><strong>Arguments</strong></p><ul><li><code>outputs::Dict</code>: The outputs</li><li><code>output::String</code>: The output</li></ul><p><strong>Returns</strong></p><ul><li><code>output_type::String</code>: The output type</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L71-L81">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_flush_file" href="#PeriLab.IO.Parameter_Handling.get_flush_file"><code>PeriLab.IO.Parameter_Handling.get_flush_file</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_flush_file(outputs::Dict, output::String)</code></pre><p>Gets the flush file.</p><p><strong>Arguments</strong></p><ul><li><code>outputs::Dict</code>: The outputs</li><li><code>output::String</code>: The output</li></ul><p><strong>Returns</strong></p><ul><li><code>flush_file::Bool</code>: The flush file</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L91-L101">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_write_after_damage" href="#PeriLab.IO.Parameter_Handling.get_write_after_damage"><code>PeriLab.IO.Parameter_Handling.get_write_after_damage</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_write_after_damage(outputs::Dict, output::String)</code></pre><p>Get the write after damage.</p><p><strong>Arguments</strong></p><ul><li><code>outputs::Dict</code>: The outputs</li><li><code>output::String</code>: The output</li></ul><p><strong>Returns</strong></p><ul><li><code>write_after_damage::Bool</code>: The value</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L106-L116">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_output_fieldnames" href="#PeriLab.IO.Parameter_Handling.get_output_fieldnames"><code>PeriLab.IO.Parameter_Handling.get_output_fieldnames</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_output_fieldnames(outputs::Dict, variables::Vector{String}, computes::Vector{String}, output_type::String)</code></pre><p>Gets the output fieldnames.</p><p><strong>Arguments</strong></p><ul><li><code>outputs::Dict</code>: The outputs</li><li><code>variables::Vector{String}</code>: The variables</li><li><code>computes::Vector{String}</code>: The computes</li><li><code>output_type::String</code>: The output type</li></ul><p><strong>Returns</strong></p><ul><li><code>output_fieldnames::Vector{String}</code>: The output fieldnames</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L121-L133">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_outputs" href="#PeriLab.IO.Parameter_Handling.get_outputs"><code>PeriLab.IO.Parameter_Handling.get_outputs</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_outputs(params::Dict, variables::Vector{String}, compute_names::Vector{String})</code></pre><p>Gets the outputs.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>variables::Vector{String}</code>: The variables</li><li><code>compute_names::Vector{String}</code>: The compute names</li></ul><p><strong>Returns</strong></p><ul><li><code>outputs::Dict</code>: The outputs</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L161-L172">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_output_frequency" href="#PeriLab.IO.Parameter_Handling.get_output_frequency"><code>PeriLab.IO.Parameter_Handling.get_output_frequency</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_output_frequency(params::Dict, nsteps::Int64)</code></pre><p>Gets the output frequency.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>nsteps::Int64</code>: The number of steps</li></ul><p><strong>Returns</strong></p><ul><li><code>freq::Vector{Int64}</code>: The output frequency</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_output.jl#L191-L201">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_model_parameter" href="#PeriLab.IO.Parameter_Handling.get_model_parameter"><code>PeriLab.IO.Parameter_Handling.get_model_parameter</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_model_parameter(params, model, id)</code></pre><p>Retrieve a model parameter from a dictionary of parameters.</p><p>This function retrieves a specific model parameter from a dictionary of parameters based on the provided model and identifier (id).</p><p><strong>Arguments</strong></p><ul><li><p><code>params::Dict</code>: A dictionary containing various parameters.</p></li><li><p><code>model::String</code>: The model type for which the parameter is sought.</p></li><li><p><code>id::String</code>: The identifier (name) of the specific model parameter.</p></li></ul><p><strong>Returns</strong></p><ul><li><code>parameter::Any</code>: The retrieved model parameter, or <code>nothing</code> if the parameter is not found.</li></ul><p><strong>Errors</strong></p><ul><li><p>If the specified model is defined in blocks but no model definition block exists, an error message is logged, and the function returns <code>nothing</code>.</p></li><li><p>If the model with the given identifier is defined in blocks but missing in the model&#39;s definition, an error message is logged, and the function returns <code>nothing</code>.</p></li></ul><p><strong>Example</strong></p><p>```julia params = Dict(     &quot;Physics&quot; =&gt; Dict(         &quot;Models&quot; =&gt; Dict(             &quot;ModelA&quot; =&gt; 42,             &quot;ModelB&quot; =&gt; 24         )     ) )</p><p>model = &quot;Models&quot; id = &quot;ModelA&quot;</p><p>result = get<em>model</em>parameter(params, model, id) if result !== nothing     println(&quot;Parameter id: result&quot;) else     println(&quot;Parameter not found.&quot;) end</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_physics.jl#L9-L55">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_physics_option" href="#PeriLab.IO.Parameter_Handling.get_physics_option"><code>PeriLab.IO.Parameter_Handling.get_physics_option</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_physics_option(params, options)</code></pre><p>Process physics-related options based on the provided parameters.</p><p>This function processes physics-related options based on the parameters dictionary and updates the options dictionary accordingly.</p><p><strong>Arguments</strong></p><ul><li><p><code>params::Dict</code>: A dictionary containing various parameters, including physics-related information.</p></li><li><p><code>options::Dict</code>: A dictionary containing options to be updated based on the physics parameters.</p></li></ul><p><strong>Returns</strong></p><ul><li><code>updated_options::Dict</code>: A dictionary containing updated options based on the physics parameters.</li></ul><p><strong>Errors</strong></p><ul><li><p>If the &#39;Pre Calculation&#39; section exists in the &#39;Physics&#39; block but does not contain required options, an error message is logged.</p></li><li><p>If a material model is missing the &#39;Material Model&#39; specification, an error message is logged.</p></li></ul><p><strong>Example</strong></p><p>```julia params = Dict(     &quot;Physics&quot; =&gt; Dict(         &quot;Pre Calculation&quot; =&gt; Dict(             &quot;Option1&quot; =&gt; true,             &quot;Option2&quot; =&gt; false         ),         &quot;Material Models&quot; =&gt; Dict(             1 =&gt; Dict(                 &quot;Material Model&quot; =&gt; &quot;Correspondence&quot;             ),             2 =&gt; Dict(                 &quot;Material Model&quot; =&gt; &quot;Bond Associated&quot;             )         )     ) )</p><p>options = Dict(     &quot;Option1&quot; =&gt; false,     &quot;Option2&quot; =&gt; true )</p><p>updated<em>options = get</em>physics<em>option(params, options) println(&quot;Updated Options: &quot;, updated</em>options)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_physics.jl#L90-L140">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_solver_name" href="#PeriLab.IO.Parameter_Handling.get_solver_name"><code>PeriLab.IO.Parameter_Handling.get_solver_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_solver_name(params::Dict)</code></pre><p>Get the name of the solver</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>solver_name::String</code>: The name of the solver</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L14-L23">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_initial_time" href="#PeriLab.IO.Parameter_Handling.get_initial_time"><code>PeriLab.IO.Parameter_Handling.get_initial_time</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_initial_time(params::Dict)</code></pre><p>Get the initial time</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>initial_time::Float64</code>: The initial time</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L34-L43">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_final_time" href="#PeriLab.IO.Parameter_Handling.get_final_time"><code>PeriLab.IO.Parameter_Handling.get_final_time</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_final_time(params::Dict)</code></pre><p>Get the final time</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>final_time::Float64</code>: The final time</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L53-L62">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_safety_factor" href="#PeriLab.IO.Parameter_Handling.get_safety_factor"><code>PeriLab.IO.Parameter_Handling.get_safety_factor</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_safety_factor(params::Dict)</code></pre><p>Get the safety factor</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>safety_factor::Float64</code>: The safety factor</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L71-L80">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_fixed_dt" href="#PeriLab.IO.Parameter_Handling.get_fixed_dt"><code>PeriLab.IO.Parameter_Handling.get_fixed_dt</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_fixed_dt(params::Dict)</code></pre><p>Get the fixed time step</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>fixed_dt::Float64</code>: The fixed time step</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L85-L94">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_numerical_damping" href="#PeriLab.IO.Parameter_Handling.get_numerical_damping"><code>PeriLab.IO.Parameter_Handling.get_numerical_damping</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_numerical_damping(params::Dict)</code></pre><p>Get the numerical damping</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>numerical_damping::Float64</code>: The numerical damping</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L114-L123">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_max_damage" href="#PeriLab.IO.Parameter_Handling.get_max_damage"><code>PeriLab.IO.Parameter_Handling.get_max_damage</code></a> — <span class="docstring-category">Function</span></header><section><div><p>get<em>max</em>damage(params::Dict)</p><p>Get the maximum damage.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>write_after_damage::Bool</code>: The value</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L128-L137">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_solver_options" href="#PeriLab.IO.Parameter_Handling.get_solver_options"><code>PeriLab.IO.Parameter_Handling.get_solver_options</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_solver_options(params::Dict)</code></pre><p>Get the solver options</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters dictionary.</li></ul><p><strong>Returns</strong></p><ul><li><code>solver_options::Dict</code>: The solver options</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_solver.jl#L142-L151">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.IO.Parameter_Handling.get_header" href="#PeriLab.IO.Parameter_Handling.get_header"><code>PeriLab.IO.Parameter_Handling.get_header</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_header(filename::Union{String,AbstractString})</code></pre><p>Returns the header line and the header.</p><p><strong>Arguments</strong></p><ul><li><code>filename::Union{String,AbstractString}</code>: The filename of the file.</li></ul><p><strong>Returns</strong></p><ul><li><code>header_line::Int</code>: The header line.</li><li><code>header::Vector{String}</code>: The header.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Support/Parameters/parameter_handling_mesh.jl#L94-L104">source</a></section></article><h2 id="Set_modules"><a class="docs-heading-anchor" href="#Set_modules">Set_modules</a><a id="Set_modules-1"></a><a class="docs-heading-anchor-permalink" href="#Set_modules" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.find_jl_files" href="#PeriLab.Solver.Physics.Material.Set_modules.find_jl_files"><code>PeriLab.Solver.Physics.Material.Set_modules.find_jl_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_jl_files(directory::AbstractString)</code></pre><p>Recursively find Julia files (.jl) in a directory.</p><p>This function recursively searches for Julia source files with the &quot;.jl&quot; extension in the specified directory and its subdirectories. It returns a vector of file paths for all the found .jl files.</p><p><strong>Arguments</strong></p><ul><li><code>directory::AbstractString</code>: The directory in which to search for .jl files.</li></ul><p><strong>Returns</strong></p><p>A vector of strings, where each string is a file path to a .jl file found in the specified directory and its subdirectories.</p><p><strong>Example</strong></p><p>```julia jl<em>files = find</em>jl<em>files(&quot;/path/to/modules&quot;) for jl</em>file in jl<em>files     println(&quot;Found Julia file: &quot;, jl</em>file) end</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Module_inclusion/set_Modules.jl#L9-L31">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.find_module_files" href="#PeriLab.Solver.Physics.Material.Set_modules.find_module_files"><code>PeriLab.Solver.Physics.Material.Set_modules.find_module_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">find_module_files(directory::AbstractString, specific::String)</code></pre><p>Search for Julia modules containing a specific function in a given directory.</p><p>This function searches for Julia modules (files with <code>.jl</code> extension) in the specified directory and checks if they contain a specific function. It returns a list of dictionaries where each dictionary contains the file path and the name of the module where the specific function is found.</p><p><strong>Arguments</strong></p><ul><li><code>directory::AbstractString</code>: The directory to search for Julia modules.</li><li><code>specific::String</code>: The name of the specific function to search for.</li></ul><p><strong>Returns</strong></p><p>An array of dictionaries, where each dictionary has the following keys:</p><ul><li><code>&quot;File&quot;</code>: The file path to the module where the specific function is found.</li><li><code>&quot;Module Name&quot;</code>: The name of the module where the specific function is found.</li></ul><p><strong>Example</strong></p><p>```julia result = find<em>module</em>files(&quot;/path/to/modules&quot;, &quot;my<em>function&quot;) for module</em>info in result     println(&quot;Function found in module: &quot;, module<em>info[&quot;Module Name&quot;])     println(&quot;Module file path: &quot;, module</em>info[&quot;File&quot;]) end</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Module_inclusion/set_Modules.jl#L56-L82">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.include_files" href="#PeriLab.Solver.Physics.Material.Set_modules.include_files"><code>PeriLab.Solver.Physics.Material.Set_modules.include_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">include_files(module_list::Vector{Any})</code></pre><p>Include files specified in a list of modules.</p><p>This function iterates over a list of modules and includes the files specified in each module&#39;s &quot;File&quot; key.</p><p><strong>Arguments</strong></p><ul><li><code>module_list::Vector{Any}</code>: A list of modules where each module is expected to be a dictionary-like object with a &quot;File&quot; key specifying the file path.</li></ul><p><strong>Examples</strong></p><p>```julia include_files([Dict(&quot;File&quot; =&gt; &quot;module1.jl&quot;), Dict(&quot;File&quot; =&gt; &quot;module2.jl&quot;)])</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Module_inclusion/set_Modules.jl#L105-L120">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics" href="#PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics"><code>PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_module_specifics(name::String, module_list::Dict{String,AbstractString}(),specifics::Dict{String,String}(), values::Tuple)</code></pre><p>Searches for a specific function within a list of modules and calls that function if found.</p><p>This function iterates over a list of modules specified in <code>module_list</code> and looks for a module-specific function specified in the <code>specifics</code> dictionary. If the module and function are found, it calls that function with the provided <code>values</code> tuple.</p><p><strong>Arguments</strong></p><ul><li><code>name::String</code>: The name to match against the module names.</li><li><code>module_list::Dict{String, AbstractString}</code>: A dictionary of module names mapped to abstract strings.</li><li><code>specifics::Dict{String, String}</code>: A dictionary specifying the module-specific function to call for each module.</li><li><code>values::Tuple</code>: A tuple of values to be passed as arguments to the module-specific function.</li></ul><p><strong>Example</strong></p><p>```julia module<em>list = Dict(&quot;Module1&quot; =&gt; &quot;Module1Name&quot;, &quot;Module2&quot; =&gt; &quot;Module2Name&quot;) specifics = Dict(&quot;Module1Name&quot; =&gt; &quot;module1</em>function&quot;, &quot;Module2Name&quot; =&gt; &quot;module2<em>function&quot;) values = (arg1, arg2) create</em>module<em>specifics(&quot;Module1Name&quot;, module</em>list, specifics, values)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Module_inclusion/set_Modules.jl#L127-L146">source</a></section><section><div><pre><code class="language-julia hljs">create_module_specifics(name::String, module_list::Dict{String,AbstractString}(),specifics::Dict{String,String}())
+# Returns: the function itself</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Core/Module_inclusion/set_Modules.jl#L159-L162">source</a></section></article><h2 id="Logging_module"><a class="docs-heading-anchor" href="#Logging_module">Logging_module</a><a id="Logging_module-1"></a><a class="docs-heading-anchor-permalink" href="#Logging_module" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Logging_module.set_result_files" href="#PeriLab.Logging_module.set_result_files"><code>PeriLab.Logging_module.set_result_files</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_result_files(result_files_temp::Vector{Dict})</code></pre><p>Set the result files.</p><p><strong>Arguments</strong></p><ul><li><code>result_files_temp::Vector{Dict}</code>: The result files.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/logging.jl#L58-L65">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Logging_module.print_table" href="#PeriLab.Logging_module.print_table"><code>PeriLab.Logging_module.print_table</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">print_table(data::Matrix, datamanager::Module)</code></pre><p>Print the table.</p><p><strong>Arguments</strong></p><ul><li><code>data::Matrix</code>: The data.</li><li><code>datamanager::Module</code>: The data manager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/logging.jl#L103-L111">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Logging_module.progress_filter" href="#PeriLab.Logging_module.progress_filter"><code>PeriLab.Logging_module.progress_filter</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">progress_filter(log_args)</code></pre><p>Filter progress messages.</p><p><strong>Arguments</strong></p><ul><li><code>log_args</code>: The log arguments.</li></ul><p><strong>Returns</strong></p><ul><li><code>true</code>: If the message is not a progress message.</li><li><code>false</code>: If the message is a progress message.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/logging.jl#L159-L169">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Logging_module.init_logging" href="#PeriLab.Logging_module.init_logging"><code>PeriLab.Logging_module.init_logging</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_logging(filename::String, debug::Bool, silent::Bool, rank::Int64, size::Int64)</code></pre><p>Initialize the logging.</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The filename.</li><li><code>debug::Bool</code>: If debug is true.</li><li><code>silent::Bool</code>: If silent is true.</li><li><code>rank::Int64</code>: The rank.</li><li><code>size::Int64</code>: The size.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/IO/logging.jl#L185-L196">source</a></section></article></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../functions/">« Functions</a><a class="docs-footer-nextpage" href="../physics_functions/">Physics Functions »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label 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Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
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+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
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+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Physics Functions · PeriLab</title><meta name="title" content="Physics Functions · PeriLab"/><meta property="og:title" content="Physics Functions · PeriLab"/><meta property="twitter:title" content="Physics Functions · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/lib/physics_functions/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/lib/physics_functions/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/lib/physics_functions/"/><script data-outdated-warner src="../../assets/warner.js"></script><link 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src="../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + 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class="tocitem" href="#Damage"><span>Damage</span></a></li><li><a class="tocitem" href="#Material"><span>Material</span></a></li><li><a class="tocitem" href="#Thermal"><span>Thermal</span></a></li></ul></li></ul></li><li><a class="tocitem" href="../references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">API</a></li><li class="is-active"><a href>Physics Functions</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Physics Functions</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/lib/physics_functions.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="Physics-Functions"><a class="docs-heading-anchor" href="#Physics-Functions">Physics - Functions</a><a id="Physics-Functions-1"></a><a class="docs-heading-anchor-permalink" href="#Physics-Functions" title="Permalink"></a></h1><h2 id="Index"><a class="docs-heading-anchor" href="#Index">Index</a><a id="Index-1"></a><a class="docs-heading-anchor-permalink" href="#Index" title="Permalink"></a></h2><ul><li><a href="#PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon"><code>PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon</code></a></li><li><a href="#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage</code></a></li><li><a href="#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation</code></a></li><li><a href="#PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name</code></a></li><li><a href="#PeriLab.Solver.Damage.damage_index"><code>PeriLab.Solver.Damage.damage_index</code></a></li><li><a href="#PeriLab.Solver.Damage.init_aniso_crit_values"><code>PeriLab.Solver.Damage.init_aniso_crit_values</code></a></li><li><a href="#PeriLab.Solver.Damage.init_interface_crit_values"><code>PeriLab.Solver.Damage.init_interface_crit_values</code></a></li><li><a href="#PeriLab.Solver.Damage.set_bond_damage"><code>PeriLab.Solver.Damage.set_bond_damage</code></a></li><li><a href="#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name"><code>PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name</code></a></li><li><a href="#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model"><code>PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model</code></a></li><li><a href="#PeriLab.Solver.Physics.Additive.init_additive_model_fields"><code>PeriLab.Solver.Physics.Additive.init_additive_model_fields</code></a></li><li><a href="#PeriLab.Solver.Physics.Damage.init_damage_model_fields"><code>PeriLab.Solver.Physics.Damage.init_damage_model_fields</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.calculate_von_mises_stress"><code>PeriLab.Solver.Physics.Material.calculate_von_mises_stress</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.check_material_symmetry"><code>PeriLab.Solver.Physics.Material.check_material_symmetry</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.check_symmetry"><code>PeriLab.Solver.Physics.Material.check_symmetry</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.determine_isotropic_parameter"><code>PeriLab.Solver.Physics.Material.determine_isotropic_parameter</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.distribute_force_densities"><code>PeriLab.Solver.Physics.Material.distribute_force_densities</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.distribute_forces"><code>PeriLab.Solver.Physics.Material.distribute_forces</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.get_Hooke_matrix"><code>PeriLab.Solver.Physics.Material.get_Hooke_matrix</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.get_all_elastic_moduli"><code>PeriLab.Solver.Physics.Material.get_all_elastic_moduli</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.get_symmetry"><code>PeriLab.Solver.Physics.Material.get_symmetry</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.get_von_mises_stress"><code>PeriLab.Solver.Physics.Material.get_von_mises_stress</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.init_material_model_fields"><code>PeriLab.Solver.Physics.Material.init_material_model_fields</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.matrix_to_voigt"><code>PeriLab.Solver.Physics.Material.matrix_to_voigt</code></a></li><li><a href="#PeriLab.Solver.Physics.Material.voigt_to_matrix"><code>PeriLab.Solver.Physics.Material.voigt_to_matrix</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.distribute_heat_flows"><code>PeriLab.Solver.Physics.Thermal.distribute_heat_flows</code></a></li><li><a href="#PeriLab.Solver.Physics.Thermal.init_thermal_model_fields"><code>PeriLab.Solver.Physics.Thermal.init_thermal_model_fields</code></a></li><li><a href="#PeriLab.Solver.Physics.compute_damage_pre_calculation"><code>PeriLab.Solver.Physics.compute_damage_pre_calculation</code></a></li><li><a href="#PeriLab.Solver.Physics.compute_models"><code>PeriLab.Solver.Physics.compute_models</code></a></li><li><a href="#PeriLab.Solver.Physics.get_block_model_definition"><code>PeriLab.Solver.Physics.get_block_model_definition</code></a></li><li><a href="#PeriLab.Solver.Physics.init_models"><code>PeriLab.Solver.Physics.init_models</code></a></li><li><a href="#PeriLab.Solver.Physics.init_pre_calculation"><code>PeriLab.Solver.Physics.init_pre_calculation</code></a></li><li><a href="#PeriLab.Solver.Physics.read_properties"><code>PeriLab.Solver.Physics.read_properties</code></a></li><li><a href="#PeriLab.Solver.Physics.set_heat_capacity"><code>PeriLab.Solver.Physics.set_heat_capacity</code></a></li></ul><h2 id="Physics"><a class="docs-heading-anchor" href="#Physics">Physics</a><a id="Physics-1"></a><a class="docs-heading-anchor-permalink" href="#Physics" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.compute_models" href="#PeriLab.Solver.Physics.compute_models"><code>PeriLab.Solver.Physics.compute_models</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_models(datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, dt::Float64, time::Float64, options::Dict, synchronise_field, to::TimerOutput)</code></pre><p>Computes the physics models</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: The block nodes</li><li><code>dt::Float64</code>: The time step</li><li><code>time::Float64</code>: The current time</li><li><code>options::Dict</code>: The options</li><li><code>synchronise_field</code>: The synchronise field</li><li><code>to::TimerOutput</code>: The timer output</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L38-L53">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.compute_damage_pre_calculation" href="#PeriLab.Solver.Physics.compute_damage_pre_calculation"><code>PeriLab.Solver.Physics.compute_damage_pre_calculation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_damage_pre_calculation(datamanager::Module, options::Dict, nodes::Union{SubArray,Vector{Int64}}, block::Int64, synchronise_field, time::Float64, dt::Float64)</code></pre><p>Compute the damage pre calculation</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>block::Int64</code>: Block number</li><li><code>synchronise_field</code>: Synchronise function to distribute parameter through cores.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li><li><code>to::TimerOutput</code>: The timer output.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L124-L139">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.get_block_model_definition" href="#PeriLab.Solver.Physics.get_block_model_definition"><code>PeriLab.Solver.Physics.get_block_model_definition</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_block_model_definition(params::Dict, block_id::Int64, prop_keys::Vector{String}, properties)</code></pre><p>Get block model definition</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: Parameters.</li><li><code>block_id::Int64</code>: Block id.</li><li><code>prop_keys::Vector{String}</code>: Property keys.</li><li><code>properties</code>: Properties function.</li></ul><p><strong>Returns</strong></p><ul><li><code>properties</code>: Properties function.    </li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L157-L169">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.init_material_model_fields" href="#PeriLab.Solver.Physics.Material.init_material_model_fields"><code>PeriLab.Solver.Physics.Material.init_material_model_fields</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_material_model_fields(datamanager::Module)</code></pre><p>Initialize material model fields</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Factory.jl#L23-L32">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Damage.init_damage_model_fields" href="#PeriLab.Solver.Physics.Damage.init_damage_model_fields"><code>PeriLab.Solver.Physics.Damage.init_damage_model_fields</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_damage_model_fields(datamanager::Module)</code></pre><p>Initialize damage model fields</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>params::Dict</code>: Parameters.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_Factory.jl#L19-L29">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.init_models" href="#PeriLab.Solver.Physics.init_models"><code>PeriLab.Solver.Physics.init_models</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_models(params::Dict, datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, solver_options::Dict)</code></pre><p>Initialize models</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: Parameters.</li><li><code>datamanager::Module</code>: Datamanager.</li><li><code>block_nodes::Dict{Int64,Vector{Int64}}</code>: block nodes.</li><li><code>solver_options::Dict</code>: Solver options.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L183-L195">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.init_thermal_model_fields" href="#PeriLab.Solver.Physics.Thermal.init_thermal_model_fields"><code>PeriLab.Solver.Physics.Thermal.init_thermal_model_fields</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_thermal_model_fields(datamanager::Module)</code></pre><p>Initialize thermal model fields</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/Thermal_Factory.jl#L15-L24">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Additive.init_additive_model_fields" href="#PeriLab.Solver.Physics.Additive.init_additive_model_fields"><code>PeriLab.Solver.Physics.Additive.init_additive_model_fields</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_additive_model_fields(datamanager::Module)</code></pre><p>Initialize additive model fields</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Additive/Additive_Factory.jl#L18-L27">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.init_pre_calculation" href="#PeriLab.Solver.Physics.init_pre_calculation"><code>PeriLab.Solver.Physics.init_pre_calculation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_pre_calculation(datamanager::Module, options)</code></pre><p>Initialize pre-calculation</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>options</code>: Options.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L258-L268">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.read_properties" href="#PeriLab.Solver.Physics.read_properties"><code>PeriLab.Solver.Physics.read_properties</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">read_properties(params::Dict, datamanager::Module, material_model::Bool)</code></pre><p>Read properties</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: Parameters.</li><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>material_model::Bool</code>: Material model.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L273-L284">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.set_heat_capacity" href="#PeriLab.Solver.Physics.set_heat_capacity"><code>PeriLab.Solver.Physics.set_heat_capacity</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_heat_capacity(params::Dict, block_nodes::Dict, heat_capacity::SubArray)</code></pre><p>Sets the heat capacity of the nodes in the dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>params::Dict</code>: The parameters</li><li><code>block_nodes::Dict</code>: The block nodes</li><li><code>heat_capacity::SubArray</code>: The heat capacity array</li></ul><p><strong>Returns</strong></p><ul><li><code>heat_capacity::SubArray</code>: The heat capacity array</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Physics_Factory.jl#L306-L317">source</a></section></article><h2 id="Additive"><a class="docs-heading-anchor" href="#Additive">Additive</a><a id="Additive-1"></a><a class="docs-heading-anchor-permalink" href="#Additive" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name" href="#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name"><code>PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">additive_name()</code></pre><p>Gives the additive name. It is needed for comparison with the yaml input deck.</p><p><strong>Arguments</strong></p><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The name of the additive model.</li></ul><p>Example:</p><pre><code class="language-julia hljs">println(additive_name())
+&quot;additive Template&quot;</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Additive/Additive_template/additive_template.jl#L10-L25">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model" href="#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model"><code>PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_additive_model(datamanager, nodes, additive_parameter, time, dt)</code></pre><p>Calculates the additive model. This template has to be copied, the file renamed and edited by the user to create a new additive. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>additive parameter::Dict(String, Any)</code>: Dictionary with additive parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p>Example: <code>julia</code></p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Additive/Additive_template/additive_template.jl#L30-L46">source</a></section></article><h2 id="Damage"><a class="docs-heading-anchor" href="#Damage">Damage</a><a id="Damage-1"></a><a class="docs-heading-anchor-permalink" href="#Damage" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name" href="#PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">damage_name()</code></pre><p>Gives the damage name. It is needed for comparison with the yaml input deck.</p><p><strong>Arguments</strong></p><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The name of the damage.</li></ul><p>Example:</p><pre><code class="language-julia hljs">println(damage_name())
+&quot;Damage Template&quot;</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_template/damage_template.jl#L9-L24">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage" href="#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage</code></a> — <span class="docstring-category">Function</span></header><section><div><p>c ompute<em>damage(datamanager, nodes, damage</em>parameter, block, time, dt)</p><p>Calculates the damage criterion of each bond. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>damage_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li><li><code>block::Int64</code>: Block number</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_template/damage_template.jl#L29-L46">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation" href="#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation"><code>PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_damage_pre_calculation(datamanager, nodes, synchronise_field, time, dt)</code></pre><p>Pre computes values needed for the damage calculation.Calculates the damage criterion of each bond. This template has to be copied, the file renamed and edited by the user to create a new damages. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>block::Int64</code>: Block number</li><li><code>synchronise_field</code>: Synchronise function to distribute parameter through cores.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_template/damage_template.jl#L56-L73">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.damage_index" href="#PeriLab.Solver.Damage.damage_index"><code>PeriLab.Solver.Damage.damage_index</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">damage_index(datamanager,::Union{SubArray, Vector{Int64})</code></pre><p>Function calculates the damage index related to the neighborhood volume for a set of corresponding nodes.  The damage index is defined as damaged volume in relation the neighborhood volume. damageIndex = sum<em>i (brokenBonds</em>i * volume_i) / volumeNeighborhood</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: all model data</li><li><code>nodes::Union{SubArray, Vector{Int64}}</code>: corresponding nodes to this model</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_Factory.jl#L119-L129">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.set_bond_damage" href="#PeriLab.Solver.Damage.set_bond_damage"><code>PeriLab.Solver.Damage.set_bond_damage</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">set_bond_damage(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Set the bond damage field to the bond damage field</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_Factory.jl#L165-L175">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.init_interface_crit_values" href="#PeriLab.Solver.Damage.init_interface_crit_values"><code>PeriLab.Solver.Damage.init_interface_crit_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_interface_crit_values(datamanager::Module, params::Dict, block_id::Int64)</code></pre><p>Initialize the critical values</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: current block</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_Factory.jl#L185-L196">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.init_aniso_crit_values" href="#PeriLab.Solver.Damage.init_aniso_crit_values"><code>PeriLab.Solver.Damage.init_aniso_crit_values</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">init_aniso_crit_values(datamanager::Module, params::Dict, block_id::Int64)</code></pre><p>Initialize the anisotropic critical values</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>params::Dict</code>: The parameters</li><li><code>block_id::Int64</code>: current block</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Damage_Factory.jl#L218-L229">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon" href="#PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon"><code>PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_quad_horizon(horizon::Float64, dof::Int64)</code></pre><p>Get the quadric of the horizon.</p><p><strong>Arguments</strong></p><ul><li><code>horizon::Float64</code>: The horizon of the block.</li><li><code>dof::Int64</code>: The degree of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>quad_horizon::Float64</code>: The quadric of the horizon.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Damage/Energy_release.jl#L199-L209">source</a></section></article><h2 id="Material"><a class="docs-heading-anchor" href="#Material">Material</a><a id="Material-1"></a><a class="docs-heading-anchor-permalink" href="#Material" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model" href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model</code></a> — <span class="docstring-category">Function</span></header><section><div><p>init<em>material</em>model(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict)</p><p>Initializes the material model.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>material_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_template/material_template.jl#L32-L44">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name" href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">material_name()</code></pre><p>Gives the material name. It is needed for comparison with the yaml input deck.</p><p><strong>Arguments</strong></p><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The name of the material.</li></ul><p>Example:</p><pre><code class="language-julia hljs">println(material_name())
+&quot;Material Template&quot;</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_template/material_template.jl#L49-L64">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces" href="#PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces"><code>PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_forces(datamanager, nodes, material_parameter, time, dt, to::TimerOutput)</code></pre><p>Calculates the force densities of the material. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>material_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_template/material_template.jl#L69-L85">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.determine_isotropic_parameter" href="#PeriLab.Solver.Physics.Material.determine_isotropic_parameter"><code>PeriLab.Solver.Physics.Material.determine_isotropic_parameter</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">determine_isotropic_parameter(prop::Dict)</code></pre><p>Determine the isotropic parameter.</p><p><strong>Arguments</strong></p><ul><li><code>prop::Dict</code>: The material property.</li></ul><p><strong>Returns</strong></p><ul><li><code>prop::Dict</code>: The material property.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Factory.jl#L135-L144">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.check_material_symmetry" href="#PeriLab.Solver.Physics.Material.check_material_symmetry"><code>PeriLab.Solver.Physics.Material.check_material_symmetry</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_material_symmetry(dof::Int64, prop::Dict)</code></pre><p>Check the symmetry of the material.</p><p><strong>Arguments</strong></p><ul><li><code>dof::Int64</code>: The degree of freedom.</li><li><code>prop::Dict</code>: The material property.</li></ul><p><strong>Returns</strong></p><ul><li><code>prop::Dict</code>: The material property.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Factory.jl#L149-L159">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.distribute_force_densities" href="#PeriLab.Solver.Physics.Material.distribute_force_densities"><code>PeriLab.Solver.Physics.Material.distribute_force_densities</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">distribute_force_densities(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Distribute the force densities.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Factory.jl#L164-L174">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.calculate_von_mises_stress" href="#PeriLab.Solver.Physics.Material.calculate_von_mises_stress"><code>PeriLab.Solver.Physics.Material.calculate_von_mises_stress</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">calculate_von_mises_stress(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Calculate the von Mises stress.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Factory.jl#L193-L203">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.get_all_elastic_moduli" href="#PeriLab.Solver.Physics.Material.get_all_elastic_moduli"><code>PeriLab.Solver.Physics.Material.get_all_elastic_moduli</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_all_elastic_moduli(parameter::Union{Dict{Any,Any},Dict{String,Any}})</code></pre><p>Returns the elastic moduli of the material.</p><p><strong>Arguments</strong></p><ul><li><code>parameter::Union{Dict{Any,Any},Dict{String,Any}}</code>: The material parameter.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L7-L14">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.get_Hooke_matrix" href="#PeriLab.Solver.Physics.Material.get_Hooke_matrix"><code>PeriLab.Solver.Physics.Material.get_Hooke_matrix</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_Hooke_matrix(parameter, symmetry, dof)</code></pre><p>Returns the Hooke matrix of the material.</p><p><strong>Arguments</strong></p><ul><li><code>parameter::Union{Dict{Any,Any},Dict{String,Any}}</code>: The material parameter.</li><li><code>symmetry::String</code>: The symmetry of the material.</li><li><code>dof::Int64</code>: The degree of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>matrix::Matrix{Float64}</code>: The Hooke matrix.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L82-L93">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.distribute_forces" href="#PeriLab.Solver.Physics.Material.distribute_forces"><code>PeriLab.Solver.Physics.Material.distribute_forces</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">distribute_forces(nodes::Union{SubArray,Vector{Int64}}, nlist::SubArray, nlist_filtered_ids::SubArray, bond_force::SubArray, volume::SubArray, bond_damage::SubArray, displacements::SubArray, bond_norm::SubArray, force_densities::SubArray)</code></pre><p>Distribute the forces on the nodes</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes.</li><li><code>nlist::SubArray</code>: The neighbor list.</li><li><code>nlist_filtered_ids::SubArray</code>:  The filtered neighbor list.</li><li><code>bond_force::SubArray</code>: The bond forces.</li><li><code>volume::SubArray</code>: The volumes.</li><li><code>bond_damage::SubArray</code>: The bond damage.</li><li><code>displacements::SubArray</code>: The displacements.</li><li><code>bond_norm::SubArray</code>: The pre defined bond normal.</li><li><code>force_densities::SubArray</code>: The force densities.</li></ul><p><strong>Returns</strong></p><ul><li><code>force_densities::SubArray</code>: The force densities.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L193-L210">source</a></section><section><div><pre><code class="language-julia hljs">distribute_forces(nodes::Union{SubArray,Vector{Int64}}, nlist::SubArray, bond_force::SubArray, volume::SubArray, bond_damage::SubArray, force_densities::SubArray)</code></pre><p>Distribute the forces on the nodes</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes.</li><li><code>nlist::SubArray</code>: The neighbor list.</li><li><code>bond_force::SubArray</code>: The bond forces.</li><li><code>volume::SubArray</code>: The volumes.</li><li><code>bond_damage::SubArray</code>: The bond damage.</li><li><code>force_densities::SubArray</code>: The force densities.</li></ul><p><strong>Returns</strong></p><ul><li><code>force_densities::SubArray</code>: The force densities.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L233-L247">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.matrix_to_voigt" href="#PeriLab.Solver.Physics.Material.matrix_to_voigt"><code>PeriLab.Solver.Physics.Material.matrix_to_voigt</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">matrix_to_voigt(matrix)</code></pre><p>Convert a 2x2 or 3x3 matrix to Voigt notation (6x1 vector)</p><p><strong>Arguments</strong></p><ul><li><code>matrix::Matrix{Float64}</code>: The matrix.</li></ul><p><strong>Returns</strong></p><ul><li><code>voigt::Vector{Float64}</code>: The Voigt notation.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L258-L267">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.voigt_to_matrix" href="#PeriLab.Solver.Physics.Material.voigt_to_matrix"><code>PeriLab.Solver.Physics.Material.voigt_to_matrix</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">voigt_to_matrix(voigt::Union{Vector{Float64},Vector{Int64}})</code></pre><p>Convert a Voigt notation (6x1 or 3x1 vector) to a 2x2 or 3x3 matrix</p><p><strong>Arguments</strong></p><ul><li><code>voigt::Vector{Float64}</code>: The Voigt notation.</li></ul><p><strong>Returns</strong></p><ul><li><code>matrix::Matrix{Float64}</code>: The matrix.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L279-L288">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.check_symmetry" href="#PeriLab.Solver.Physics.Material.check_symmetry"><code>PeriLab.Solver.Physics.Material.check_symmetry</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">check_symmetry(prop::Dict, dof::Int64)</code></pre><p>Check if the symmetry information is present in the material dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>prop::Dict</code>: A dictionary containing material information.</li><li><code>dof::Int64</code>: The number of degrees of freedom.</li></ul><p><strong>Returns</strong></p><ul><li><code>true</code>: If the symmetry information is present.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L302-L312">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.get_symmetry" href="#PeriLab.Solver.Physics.Material.get_symmetry"><code>PeriLab.Solver.Physics.Material.get_symmetry</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_symmetry(material::Dict)</code></pre><p>Return the symmetry information from the given material dictionary.</p><p><strong>Arguments</strong></p><ul><li><code>material::Dict</code>: A dictionary containing material information.</li></ul><p><strong>Returns</strong></p><ul><li>If the key &quot;Symmetry&quot; is present in the dictionary, the corresponding value is returned.</li><li>If the key is not present, the default value &quot;3D&quot; is returned.</li></ul><p><strong>Example</strong></p><p>```julia material<em>dict = Dict(&quot;Symmetry&quot; =&gt; &quot;Cubic&quot;, &quot;Color&quot; =&gt; &quot;Red&quot;) symmetry = get</em>sym(material_dict)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L382-L398">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.get_von_mises_stress" href="#PeriLab.Solver.Physics.Material.get_von_mises_stress"><code>PeriLab.Solver.Physics.Material.get_von_mises_stress</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_von_mises_stress(von_Mises_stress::Float64, dof::Int64, stress_NP1::Matrix{Float64})</code></pre><p><strong>Arguments</strong></p><ul><li><code>von_Mises_stress::Float64</code>: Von Mises stress</li><li><code>dof::Int64</code>: Degree of freedom.</li><li><code>stress_NP1::Matrix{Float64}</code>: Stress.</li></ul><p><strong>returns</strong></p><ul><li><code>spherical_stress_NP1::Float64</code>: Spherical stress</li><li><code>deviatoric_stress_NP1::Matrix{Float64}</code>: Deviatoric stress</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/material_basis.jl#L412-L422">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic" href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">elastic(nodes, dof, undeformed_bond, deformed_bond, bond_damage, theta, weighted_volume, omega, material, bond_force)</code></pre><p>Calculate the elastic bond force for each node.</p><p><span>$F = \omega \cdot \theta \cdot (\frac{3K}{V} - \frac{\frac{15B}{V}}{3} \cdot \zeta + \alpha \cdot stretch)$</span> [<a href="../references/#WillbergC2023">4</a>] for 3D, plane stress and plane strain it is refered to [<a href="../references/#BobaruF2016">1</a>] page 152; Eq. (6.12); after (6.21) and after (6.23)</p><p><strong>Arguments</strong></p><ul><li>nodes: array of node IDs</li><li>dof: number of degrees of freedom</li><li>undeformed_bond: dictionary of bond geometries for each node</li><li>deformed_bond: dictionary of deformed bond geometries for each node</li><li>bond_damage: dictionary of bond damages for each node</li><li>theta: dictionary of theta values for each node</li><li>weighted_volume: dictionary of weighted volumes for each node</li><li>omega: dictionary of omega values for each node</li><li>material: dictionary of material properties</li><li>bond_force: dictionary to store the calculated bond forces for each node</li></ul><p><strong>Returns</strong></p><ul><li>bond_force: dictionary of calculated bond forces for each node</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/PD_Solid_Elastic.jl#L114-L136">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params" href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">calculate_symmetry_params(symmetry::String, shear_modulus::Float64, bulk_modulus::Float64)</code></pre><p>Calculate the symmetry parameters based on the given material symmetry. These parameters are defined in [<a href="../references/#BobaruF2016">1</a>] Section 6.3, 6.3.1.1 and 6.3.1.2.</p><p><strong>Arguments</strong></p><ul><li><code>symmetry::String</code>: Symmetry of the material.</li><li><code>shear_modulus::Float64</code>: Shear modulus.</li><li><code>bulk_modulus::Float64</code>: Bulk modulus.</li></ul><p><strong>Returns</strong></p><ul><li><code>alpha::Float64</code>: Alpha parameter.</li><li><code>gamma::Float64</code>: Gamma parameter.</li><li><code>kappa::Float64</code>: Kappa parameter.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Ordinary/Ordinary.jl#L80-L94">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume" href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_weighted_volume(nodes::Union{SubArray,Vector{Int64}}, 
+                        nlist::SubArray, 
+                        undeformed_bond::SubArray, 
+                        bond_damage::SubArray, 
+                        omega::SubArray, 
+                        volume::SubArray)</code></pre><p>Compute the weighted volume for each node, [<a href="../references/#SillingSA2007">9</a>]. Taken from Peridigm -&gt; but adding the bond_damage; this is missing in Peridigm, but should be there.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Vector of node indices or a subarray representing the indices of the nodes.</li><li><code>nlist::SubArray</code>: Subarray representing the neighbor list for each node.</li><li><code>undeformed_bond::SubArray</code>: Subarray representing the undeformed bonds.</li><li><code>bond_damage::SubArray</code>: Subarray representing the bond damage.</li><li><code>omega::SubArray</code>: Subarray representing the weights for each bond.</li><li><code>volume::SubArray</code>: Subarray representing the volume for each node.</li></ul><p><strong>Returns</strong></p><ul><li><code>weighted_volume::Vector{Float64}</code>: Vector containing the computed weighted volume for each node.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Ordinary/Ordinary.jl#L12-L33">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation" href="#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation"><code>PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_dilatation(nodes::Union{SubArray,Vector{Int64}}, nneighbors::SubArray, nlist::SubArray, undeformed_bond::SubArray, deformed_bond::SubArray, bond_damage::SubArray, volume::SubArray, weighted_volume::Vector{Float64}, omega::SubArray, theta::SubArray)</code></pre><p>Calculate the dilatation for each node, [<a href="../references/#SillingSA2007">9</a>].</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: Nodes.</li><li><code>nneighbors::SubArray</code>: Number of neighbors.</li><li><code>nlist::SubArray</code>: Neighbor list.</li><li><code>undeformed_bond::SubArray</code>: Bond geometry.</li><li><code>deformed_bond::SubArray</code>: Deformed bond geometry.</li><li><code>bond_damage::SubArray</code>: Bond damage.</li><li><code>volume::SubArray</code>: Volume.</li><li><code>weighted_volume::SubArray</code>: Weighted volume.</li><li><code>omega::SubArray</code>: Influence function.</li><li><code>theta::SubArray</code>: Dilatation.</li></ul><p><strong>Returns</strong></p><ul><li><code>theta::Vector{Float64}</code>: Dilatation.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Ordinary/Ordinary.jl#L107-L125">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">zero_energy_mode_compensation(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict, time::Float64, dt::Float64)</code></pre><p>Global - J. Wan et al., &quot;Improved method for zero-energy mode suppression in peridynamic correspondence model in Acta Mechanica Sinica https://doi.org/10.1007/s10409-019-00873-y</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>material_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence.jl#L151-L164">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">calculate_bond_force(nodes::Union{SubArray,Vector{Int64}}, deformation_gradient::SubArray, undeformed_bond::SubArray, bond_damage::SubArray, inverse_shape_tensor::SubArray, stress_NP1::SubArray, bond_force::SubArray)</code></pre><p>Calculate bond forces for specified nodes based on deformation gradients.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>deformation_gradient::SubArray</code>: Deformation gradient.</li><li><code>undeformed_bond::SubArray</code>: Undeformed bond geometry.</li><li><code>bond_damage::SubArray</code>: Bond damage.</li><li><code>inverse_shape_tensor::SubArray</code>: Inverse shape tensor.</li><li><code>stress_NP1::SubArray</code>: Stress at time step n+1.</li><li><code>bond_force::SubArray</code>: Bond force.</li></ul><p><strong>Returns</strong></p><ul><li><code>bond_force::SubArray</code>: Bond force.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence.jl#L178-L193">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">rotate(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, matrix::Union{SubArray,Array{Float64,3}}, angles::SubArray, back::Bool)</code></pre><p>Rotates the matrix.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>dof::Int64</code>: Degree of freedom.</li><li><code>matrix::Union{SubArray,Array{Float64,3}}</code>: Matrix.</li><li><code>angles::SubArray</code>: Angles.</li><li><code>back::Bool</code>: Back.</li></ul><p><strong>Returns</strong></p><ul><li><code>matrix::SubArray</code>: Matrix.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence.jl#L211-L224">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">rotate_second_order_tensor(angles::Union{Vector{Float64},Vector{Int64}}, tensor::Matrix{Float64}, dof::Int64, back::Bool)</code></pre><p>Rotates the second order tensor.</p><p><strong>Arguments</strong></p><ul><li><code>angles::Union{Vector{Float64},Vector{Int64}}</code>: Angles.</li><li><code>tensor::Matrix{Float64}</code>: Second order tensor.</li><li><code>dof::Int64</code>: Degree of freedom.</li><li><code>back::Bool</code>: Back.</li></ul><p><strong>Returns</strong></p><ul><li><code>tensor::Matrix{Float64}</code>: Second order tensor.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence.jl#L232-L244">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_stresses(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, dof::Int64, material_parameter::Dict, time::Float64, dt::Float64, strain_increment::SubArray, stress_N::SubArray, stress_NP1::SubArray)</code></pre><p>Calculates the stresses of the material. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>dof::Int64</code>: Degrees of freedom</li><li><code>material_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li><li><code>strainInc::Union{Array{Float64,3},Array{Float64,6}}</code>: Strain increment.</li><li><code>stress_N::SubArray</code>: Stress of step N.</li><li><code>stress_NP1::SubArray</code>: Stress of step N+1.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>stress_NP1::SubArray</code>: updated stresses</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence_Elastic.jl#L70-L91">source</a></section><section><div><pre><code class="language-julia hljs">compute_stresses(datamanager::Module, dof::Int64, material_parameter::Dict, time::Float64, dt::Float64, strain_increment::SubArray, stress_N::SubArray, stress_NP1::SubArray)</code></pre><p>Calculates the stresses of a single node. Needed for FEM. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>dof::Int64</code>: Degrees of freedom</li><li><code>material_parameter::Dict(String, Any)</code>: Dictionary with material parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li><li><code>strainInc::Union{Array{Float64,3},Array{Float64,6}}</code>: Strain increment.</li><li><code>stress_N::SubArray</code>: Stress of step N.</li><li><code>stress_NP1::SubArray</code>: Stress of step N+1.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>stress_NP1::SubArray</code>: updated stresses</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence_Elastic.jl#L103-L123">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">correspondence_name()</code></pre><p>Gives the material name. It is needed for comparison with the yaml input deck.</p><p><strong>Arguments</strong></p><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The name of the material.</li></ul><p>Example:</p><pre><code class="language-julia hljs">println(material_name())
+&quot;Material Template&quot;</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Correspondence_Elastic.jl#L50-L65">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">control_name()</code></pre><p>Returns the name of the zero energy control</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L16-L20">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_control(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict, time::Float64, dt::Float64)</code></pre><p>Computes the zero energy control</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li><li><code>material_parameter::Dict</code>: The material parameter</li><li><code>time::Float64</code>: The current time</li><li><code>dt::Float64</code>: The current time step</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L25-L38">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_zero_energy_mode_force(nodes::Union{SubArray,Vector{Int64}}, zStiff::SubArray, deformation_gradient::SubArray, undeformed_bond::SubArray, deformed_bond::SubArray, bond_force::SubArray)</code></pre><p>Computes the zero energy mode force</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li><li><code>zStiff::SubArray</code>: The zero energy stiffness</li><li><code>deformation_gradient::SubArray</code>: The deformation gradient</li><li><code>undeformed_bond::SubArray</code>: The bond geometry</li><li><code>deformed_bond::SubArray</code>: The bond geometry at the next time step</li><li><code>bond_force::SubArray</code>: The bond force</li></ul><p><strong>Returns</strong></p><ul><li><code>bond_force::SubArray</code>: The bond force</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L54-L68">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">create_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt::Union{StaticArraysCore.MMatrix,Matrix{Float64}}, angles::Vector{Float64}, Kinv::SubArray, zStiff::SubArray, rotation::Bool)</code></pre><p>Creates the zero energy mode stiffness</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li><li><code>dof::Int64</code>: The degree of freedom</li><li><code>CVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}</code>: The Voigt matrix</li><li><code>angles::Vector{Float64}</code>: The angles</li><li><code>Kinv::SubArray</code>: The inverse shape tensor</li><li><code>zStiff::SubArray</code>: The zero energy stiffness</li><li><code>rotation::Bool</code>: The rotation</li></ul><p><strong>Returns</strong></p><ul><li><code>zStiff::SubArray</code>: The zero energy stiffness</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L76-L91">source</a></section><section><div><pre><code class="language-julia hljs">create_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt, Kinv, zStiff)</code></pre><p>Creates the zero energy mode stiffness</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li><li><code>dof::Int64</code>: The degree of freedom</li><li><code>CVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}</code>: The Voigt matrix</li><li><code>Kinv::SubArray</code>: The inverse shape tensor</li><li><code>zStiff::SubArray</code>: The zero energy stiffness</li></ul><p><strong>Returns</strong></p><ul><li><code>zStiff::SubArray</code>: The zero energy stiffness</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L99-L112">source</a></section><section><div><pre><code class="language-julia hljs">create_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt::Union{StaticArraysCore.MMatrix,Matrix{Float64}}, angles::SubArray, Kinv::SubArray, zStiff::SubArray)</code></pre><p>Creates the zero energy mode stiffness</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li><li><code>dof::Int64</code>: The degree of freedom</li><li><code>CVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}</code>: The Voigt matrix</li><li><code>angles::SubArray</code>: The angles</li><li><code>Kinv::SubArray</code>: The inverse shape tensor</li><li><code>zStiff::SubArray</code>: The zero energy stiffness</li></ul><p><strong>Returns</strong></p><ul><li><code>zStiff::SubArray</code>: The zero energy stiffness</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L123-L137">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor" href="#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor"><code>PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">rotate_fourth_order_tensor(angles::Union{Vector{Float64},Vector{Int64}}, C::Array{Float64,4}, dof::Int64, back::Bool)</code></pre><p>Rotates the fourth order tensor</p><p><strong>Arguments</strong></p><ul><li><code>angles::Union{Vector{Float64},Vector{Int64}}</code>: The angles</li><li><code>C::Array{Float64,4}</code>: The fourth order tensor</li><li><code>dof::Int64</code>: The degree of freedom</li><li><code>back::Bool</code>: The back</li></ul><p><strong>Returns</strong></p><ul><li><code>C::Array{Float64,4}</code>: The fourth order tensor</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Material/Material_Models/Zero_Energy_Control/global_control.jl#L149-L161">source</a></section></article><h2 id="Thermal"><a class="docs-heading-anchor" href="#Thermal">Thermal</a><a id="Thermal-1"></a><a class="docs-heading-anchor-permalink" href="#Thermal" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">thermal_model_name()</code></pre><p>Gives the thermal model name. It is needed for comparison with the yaml input deck.</p><p><strong>Arguments</strong></p><p><strong>Returns</strong></p><ul><li><code>name::String</code>: The name of the thermal flow model.</li></ul><p>Example:</p><pre><code class="language-julia hljs">println(flow_name())
+&quot;Thermal Template&quot;</code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/Thermal_template/thermal_template.jl#L10-L25">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_thermal_model(datamanager, nodes, thermal_parameter, time, dt)</code></pre><p>Calculates the thermal behavior of the material. This template has to be copied, the file renamed and edited by the user to create a new flow. Additional files can be called from here using include and <code>import .any_module</code> or <code>using .any_module</code>. Make sure that you return the datamanager.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: List of block nodes.</li><li><code>flow parameter::Dict(String, Any)</code>: Dictionary with flow parameter.</li><li><code>time::Float64</code>: The current time.</li><li><code>dt::Float64</code>: The current time step.</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Data_manager</code>: Datamanager.</li></ul><p>Example:</p><pre><code class="language-julia hljs"></code></pre></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/Thermal_template/thermal_template.jl#L30-L46">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.distribute_heat_flows" href="#PeriLab.Solver.Physics.Thermal.distribute_heat_flows"><code>PeriLab.Solver.Physics.Thermal.distribute_heat_flows</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">distribute_heat_flows(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})</code></pre><p>Distribute the heat flow Note: is included, because also additional heat flow influences can be included as well here and it might be important for bond-associated formulations.</p><p><strong>Arguments</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: The nodes</li></ul><p><strong>Returns</strong></p><ul><li><code>datamanager::Module</code>: The datamanager</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/Thermal_Factory.jl#L91-L102">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume</code></a> — <span class="docstring-category">Function</span></header><section><div><p>calculate<em>specific</em>volume(iID::Int64, nlist::SubArray, coordinates::Union{SubArray,Vector{Float64}}, volume::SubArray, surface_nodes::Union{SubArray,Vector{Bool}})</p><p>Calculates the specific volume.</p><p><strong>Arguments</strong></p><ul><li><code>iID::Int64</code>: The index of the node.</li><li><code>nlist::SubArray</code>: The neighbor list.</li><li><code>coordinates::Union{SubArray,Vector{Float64}}</code>: The coordinates of the nodes.</li><li><code>volume::SubArray</code>: The volume of the nodes.</li><li><code>surface_nodes::Union{SubArray,Vector{Bool}}</code>: The surface nodes.</li></ul><p><strong>Returns</strong></p><ul><li><code>specific_volume::Union{SubArray,Vector{Bool}}</code>: The surface nodes.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/heat_transfer.jl#L99-L112">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">thermal_deformation(nodes, alpha, temperature, undeformed_bond, thermal_deformation)</code></pre><p>Calculate thermal deformation for a set of nodes.</p><p>This function calculates thermal deformation for a specified set of nodes based on the given inputs, including the nodes, thermal expansion coefficient (alpha), nodal temperatures, undeformed bond information, and the resulting thermal deformation.</p><p><strong>Arguments</strong></p><ul><li><p><code>nodes::Union{SubArray, Vector{Int64}}</code>: A collection of node indices where thermal deformation is to be calculated.</p></li><li><p><code>alpha::Union{Matrix{Float64},Matrix{Int64}}</code>: The thermal expansion matrix, representing the material&#39;s response to temperature changes.</p></li><li><p><code>temperature::SubArray</code>: A SubArray containing nodal temperatures for the specified nodes.</p></li><li><p><code>undeformed_bond::SubArray</code>: A SubArray containing information about the undeformed bond geometry.</p></li><li><p><code>thermal_deformation::SubArray</code>: A SubArray to store the calculated thermal deformation for each node.</p></li></ul><p><strong>Returns</strong></p><ul><li><code>thermal_deformation::SubArray</code>: A SubArray containing the calculated thermal deformation for the specified nodes.</li></ul><p><strong>Notes</strong></p><ul><li>The thermal deformation is calculated based on the formula: <code>thermal_deformation[iID] = alpha * temperature[iID] * undeformed_bond[iID]</code>.</li></ul><p><strong>Example</strong></p><p>```julia nodes = [1, 2, 3] alpha = [1.3 0.0; 0.0 1.3] # Example thermal expansion coefficient temperature = SubArray(...) # Provide temperature data undeformed<em>bond = SubArray(...) # Provide undeformed bond geometry data thermal</em>deformation = SubArray(zeros(3, 3)) # Initialize thermal_deformation with zeros</p><p>result = thermal<em>deformation(nodes, alpha, temperature, undeformed</em>bond, thermal_deformation)</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/thermal_expansion.jl#L113-L150">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence</code></a> — <span class="docstring-category">Function</span></header><section><div><p>[<a href="../references/#BrighentiR2021">10</a>] is a prototype with some errors</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/thermal_flow.jl#L129-L132">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based" href="#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based"><code>PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">compute_heat_flow_state_bond_based(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, nlist::SubArray,
+  lambda::Union{Float64, Int64}, bond_damage::SubArray, undeformed_bond::SubArray, horizon::SubArray,
+  temperature::SubArray, heat_flow::SubArray)</code></pre><p>Calculate heat flow based on a bond-based model for thermal analysis.</p><p><strong>Arguments</strong></p><ul><li><code>nodes::Union{SubArray,Vector{Int64}}</code>: An array of node indices for which heat flow should be computed.</li><li><code>dof::Int64</code>: The degree of freedom, either 2 or 3, indicating whether the analysis is 2D or 3D.</li><li><code>nlist::SubArray</code>: A SubArray representing the neighbor list for each node.</li><li><code>lambda::Union{Float64, Int64}</code>: The thermal conductivity.</li><li><code>apply_print_bed::Bool</code>: A boolean indicating whether the print bed should be applied to the thermal conductivity.</li><li><code>t_bed::Float64</code>: The thickness of the print bed.</li><li><code>lambda_bed::Float64</code>: The thermal conductivity of the print bed.</li><li><code>bond_damage::SubArray</code>: A SubArray representing the damage state of bonds between nodes.</li><li><code>undeformed_bond::SubArray</code>: A SubArray representing the geometry of the bonds.</li><li><code>horizon::SubArray</code>: A SubArray representing the horizon for each node.</li><li><code>temperature::SubArray</code>: A SubArray representing the temperature at each node.</li><li><code>heat_flow::SubArray</code>: A SubArray where the computed heat flow values will be stored.</li></ul><p><strong>Returns</strong></p><ul><li><code>heat_flow</code>: updated bond heat flow values will be stored.</li></ul><p><strong>Description</strong></p><p>This function calculates the heat flow between neighboring nodes based on a bond-based model for thermal analysis [<a href="../references/#OterkusS2014b">11</a>]. It considers various parameters, including thermal conductivity, damage state of bonds, geometry of bonds, horizons, temperature, and volume. The calculated bond heat flow values are stored in the <code>heat_flow</code> array.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/Physics/Thermal/thermal_flow.jl#L156-L183">source</a></section></article></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../io_functions/">« IO Functions</a><a class="docs-footer-nextpage" href="../references/">References »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/lib/references.md.license b/dev/lib/references.md.license
new file mode 100644
index 000000000..e2c8c6448
--- /dev/null
+++ b/dev/lib/references.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/lib/references/index.html b/dev/lib/references/index.html
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>References · PeriLab</title><meta name="title" content="References · PeriLab"/><meta property="og:title" content="References · PeriLab"/><meta property="twitter:title" content="References · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/lib/references/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/lib/references/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/lib/references/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link 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href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../functions/">Functions</a></li><li><a class="tocitem" href="../io_functions/">IO Functions</a></li><li><a class="tocitem" href="../physics_functions/">Physics Functions</a></li></ul></li><li class="is-active"><a class="tocitem" href>References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>References</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>References</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/lib/references.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><div class="citation canonical"><dl><dt>[1]</dt><dd><div id="BobaruF2016">F. Bobaru, J. T. Foster, P. H. Geubelle and S. A. Silling. <em>Handbook of Peridynamic Modeling</em>. <em>Advances in Applied Mathematics</em> (CRC Press, 2016).</div></dd><dt>[2]</dt><dd><div id="LittlewoodDJ2023">D. J. Littlewood, M. L. Parks, J. T. Foster, J. A. Mitchell and P. Diehl. <a href="https://doi.org/10.1007/s42102-023-00100-0"><em>The Peridigm Meshfree Peridynamics Code</em></a>. <a href="https://doi.org/10.1007/s42102-023-00100-0">Journal of Peridynamics and Nonlocal Modeling</a> (2023).</div></dd><dt>[3]</dt><dd><div id="WillbergC2019">C. Willberg, L. Wiedemann and M. Rädel. <em>A mode-dependent energy-based damage model for peridynamics and its implementation</em>. <a href="https://doi.org/10.2140/jomms.2019.14.193">Journal of Mechanics of Materials and Structures <strong>14</strong>, 193–217</a> (2019).</div></dd><dt>[4]</dt><dd><div id="WillbergC2023">C. Willberg, J.-T. Hesse, M. Garbade, M. Rädel, F. Heinecke, A. Schuster and A. Pernatii. <a href="https://www.sciencedirect.com/science/article/pii/S2352711023000183"><em>A user material interface for the Peridynamic Peridigm framework</em></a>. <a href="https://doi.org/10.1016/j.softx.2023.101322">SoftwareX <strong>21</strong>, 101322</a> (2023).</div></dd><dt>[5]</dt><dd><div id="HesseJA2023">J.-T. Hesse, C. Willberg, R. Hein and F. Winkelmann. <a href="https://onlinelibrary.wiley.com/doi/abs/10.1002/pamm.202300033"><em>Peridynamic framework to model additive manufacturing processes</em></a>. <a href="https://doi.org/10.1002/pamm.202300033">PAMM <strong>n/a</strong>, e202300033</a> (2023), <a href="https://arxiv.org/abs/https://onlinelibrary.wiley.com/doi/pdf/10.1002/pamm.202300033">arXiv:https://onlinelibrary.wiley.com/doi/pdf/10.1002/pamm.202300033</a>.</div></dd><dt>[6]</dt><dd><div id="WillbergC2024">C. Willberg, J.-T. Hesse and A. Pernatii. <em>PeriLab</em>. SoftwareX (2024).</div></dd><dt>[7]</dt><dd><div id="OterkusS2014">S. Oterkus, E. Madenci and A. Agwai. <a href="https://www.sciencedirect.com/science/article/pii/S0022509613002196"><em>Fully coupled peridynamic thermomechanics</em></a>. <a href="https://doi.org/10.1016/j.jmps.2013.10.011">Journal of the Mechanics and Physics of Solids <strong>64</strong>, 1–23</a> (2014).</div></dd><dt>[8]</dt><dd><div id="LittlewoodDJ2013">D. J. Littlewood, T. Shelton and J. D. Thomas. <a href="https://www.osti.gov/biblio/1140383"><em>Estimation of the Critical Time Step for Peridynamic Models.</em></a> (2013).</div></dd><dt>[9]</dt><dd><div id="SillingSA2007">S. A. Silling, M. Epton, O. Weckner, J. Xu and E. Askari. <em>Peridynamic States and Constitutive Modeling</em>. <a href="https://doi.org/10.1007/s10659-007-9125-1">Journal of Elasticity <strong>88</strong>, 151–184</a> (2007).</div></dd><dt>[10]</dt><dd><div id="BrighentiR2021">R. Brighenti, M. A. Zeleke and M. B. Ageze. <em>A Review of Peridynamics (PD) Theory of Diffusion Based Problems</em>. <a href="https://doi.org/10.1155/2021/7782326">Journal of Engineering, 20</a> (2021).</div></dd><dt>[11]</dt><dd><div id="OterkusS2014b">S. Oterkus, E. Madenci and A. Agwai. <a href="https://www.sciencedirect.com/science/article/pii/S0021999114000540"><em>Peridynamic thermal diffusion</em></a>. <a href="https://doi.org/10.1016/j.jcp.2014.01.027">Journal of Computational Physics <strong>265</strong>, 71–96</a> (2014).</div></dd></dl></div></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../physics_functions/">« Physics Functions</a><a class="docs-footer-nextpage" href="../../devLog/">Dev Log »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/man/basics.md.license b/dev/man/basics.md.license
new file mode 100644
index 000000000..e2c8c6448
--- /dev/null
+++ b/dev/man/basics.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>First Steps with PeriLab · PeriLab</title><meta name="title" content="First Steps with PeriLab · PeriLab"/><meta property="og:title" content="First Steps with PeriLab · PeriLab"/><meta property="twitter:title" content="First Steps with PeriLab · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/man/basics/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/man/basics/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/man/basics/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="../.."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../../assets/documenter.js"></script><script src="../../search_index.js"></script><script src="../../siteinfo.js"></script><script src="../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li class="is-active"><a class="tocitem" href>First Steps with PeriLab</a><ul class="internal"><li><a class="tocitem" href="#Setting-up-the-Environment"><span>Setting up the Environment</span></a></li></ul></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../getting_started/">Getting Started</a></li><li><a class="tocitem" href="../input_yaml/">Input File</a></li><li><a class="tocitem" href="../mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>First Steps with PeriLab</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>First Steps with PeriLab</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/man/basics.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="First-Steps-with-PeriLab"><a class="docs-heading-anchor" href="#First-Steps-with-PeriLab">First Steps with PeriLab</a><a id="First-Steps-with-PeriLab-1"></a><a class="docs-heading-anchor-permalink" href="#First-Steps-with-PeriLab" title="Permalink"></a></h1><h2 id="Setting-up-the-Environment"><a class="docs-heading-anchor" href="#Setting-up-the-Environment">Setting up the Environment</a><a id="Setting-up-the-Environment-1"></a><a class="docs-heading-anchor-permalink" href="#Setting-up-the-Environment" title="Permalink"></a></h2><p>If want to use the PeriLab package you need to install it first. You can do it using the following commands:</p><pre><code class="language-julia hljs">using Pkg
+
+Pkg.add(&quot;PeriLab&quot;)</code></pre><p>or</p><pre><code class="language-julia hljs">julia&gt; ] # &#39;]&#39; should be pressed
+
+(@v1.9) pkg&gt; add PeriLab</code></pre><p>Additionally, it is recommended to check the version of PeriLab that you have installed with the <code>status</code> command.</p><pre><code class="language-julia hljs">julia&gt; ]
+
+(@v1.9) pkg&gt; status PeriLab
+      Status `~\v1.6\Project.toml`
+  [a93c6f00] PeriLab v1.0.0</code></pre><p>Throughout the rest of the tutorial we will assume that you have installed the PeriLab package and have already typed <code>using PeriLab</code> which loads the package:</p><pre><code class="language-julia hljs">using PeriLab</code></pre><p>If you want to make sure everything works as expected you can run the tests bundled with PeriLab, but be warned that it will take more than 30 minutes:</p><pre><code class="language-julia hljs">using Pkg
+
+Pkg.test(&quot;PeriLab&quot;) # Warning! This will take more than 30 minutes.</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../">« Introduction</a><a class="docs-footer-nextpage" href="../getting_started/">Getting Started »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/man/bond_filter.md.license b/dev/man/bond_filter.md.license
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--- /dev/null
+++ b/dev/man/bond_filter.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Bond-Filter · PeriLab</title><meta name="title" content="Bond-Filter · PeriLab"/><meta property="og:title" content="Bond-Filter · PeriLab"/><meta property="twitter:title" content="Bond-Filter · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/man/bond_filter/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/man/bond_filter/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/man/bond_filter/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" 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href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../getting_started/">Getting Started</a></li><li><a class="tocitem" href="../input_yaml/">Input File</a></li><li><a class="tocitem" href="../mesh_input/">Mesh and Nodesets</a></li><li class="is-active"><a class="tocitem" href>Bond-Filter</a><ul class="internal"><li><a class="tocitem" href="#Rectangular-Plane"><span>Rectangular Plane</span></a></li><li><a class="tocitem" href="#Disk"><span>Disk</span></a></li></ul></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">User Guide</a></li><li class="is-active"><a href>Bond-Filter</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Bond-Filter</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/man/bond_filter.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="Bond-Filters"><a class="docs-heading-anchor" href="#Bond-Filters">Bond-Filters</a><a id="Bond-Filters-1"></a><a class="docs-heading-anchor-permalink" href="#Bond-Filters" title="Permalink"></a></h1><h2 id="Rectangular-Plane"><a class="docs-heading-anchor" href="#Rectangular-Plane">Rectangular Plane</a><a id="Rectangular-Plane-1"></a><a class="docs-heading-anchor-permalink" href="#Rectangular-Plane" title="Permalink"></a></h2><p>For a recangular plane following parameters needs to be defined:</p><ul><li><p><strong>Normal X/Y/Z</strong>: Numeric values representing normal components. (Float64 or Int64)</p></li><li><p><strong>Lower Left Corner X/Y/Z</strong>: Numeric values representing lower left corner components. (Float64 or Int64)</p></li><li><p><strong>Bottom Unit Vector X/Y/Z</strong>: Numeric values representing bottom unit vector components. (Float64 or Int64)</p></li><li><p><strong>Bottom Length</strong>: Numeric value representing the bottom length. (Float64 or Int64)</p></li><li><p><strong>Side Length</strong>: Numeric value representing the side length. (Float64 or Int64)</p></li></ul><p><img src="../../assets/Discretization_BondFilters_RectangularPlane.png" alt="Discretization_BondFilters_RectangularPlane"/></p><h2 id="Disk"><a class="docs-heading-anchor" href="#Disk">Disk</a><a id="Disk-1"></a><a class="docs-heading-anchor-permalink" href="#Disk" title="Permalink"></a></h2><p>For a disk following parameters needs to be defined:</p><ul><li><p><strong>Normal X/Y/Z</strong>: Numeric values representing normal components. (Float64 or Int64)</p></li><li><p><strong>Center X/Y/Z</strong>: Numeric values representing center components. (Float64 or Int64)</p></li><li><p><strong>Radius</strong>: Numeric value representing the radius. (Float64 or Int64)</p></li></ul></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../mesh_input/">« Mesh and Nodesets</a><a class="docs-footer-nextpage" href="../../lib/functions/">Functions »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/man/getting_started.md.license b/dev/man/getting_started.md.license
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--- /dev/null
+++ b/dev/man/getting_started.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/man/getting_started/index.html b/dev/man/getting_started/index.html
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Getting Started · PeriLab</title><meta name="title" content="Getting Started · PeriLab"/><meta property="og:title" content="Getting Started · PeriLab"/><meta property="twitter:title" content="Getting Started · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/man/getting_started/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/man/getting_started/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/man/getting_started/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="../.."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../../assets/documenter.js"></script><script src="../../search_index.js"></script><script src="../../siteinfo.js"></script><script src="../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li class="is-active"><a class="tocitem" href>Getting Started</a><ul class="internal"><li><a class="tocitem" href="#Installation"><span>Installation</span></a></li><li><a class="tocitem" href="#Using-PeriLab"><span>Using <code>PeriLab</code></span></a></li><li><a class="tocitem" href="#Using-PeriLab-with-multiple-processors-(MPI)"><span>Using <code>PeriLab</code> with multiple processors (MPI)</span></a></li><li><a class="tocitem" href="#Training"><span>Training</span></a></li><li><a class="tocitem" href="#Index"><span>Index</span></a></li><li><a class="tocitem" href="#Functions"><span>Functions</span></a></li></ul></li><li><a class="tocitem" href="../input_yaml/">Input File</a></li><li><a class="tocitem" href="../mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">User Guide</a></li><li class="is-active"><a href>Getting Started</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Getting Started</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/man/getting_started.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="Getting-Started"><a class="docs-heading-anchor" href="#Getting-Started">Getting Started</a><a id="Getting-Started-1"></a><a class="docs-heading-anchor-permalink" href="#Getting-Started" title="Permalink"></a></h1><h2 id="Installation"><a class="docs-heading-anchor" href="#Installation">Installation</a><a id="Installation-1"></a><a class="docs-heading-anchor-permalink" href="#Installation" title="Permalink"></a></h2><p>The PeriLab package is available through the Julia package system and can be installed using the following commands:</p><pre><code class="language-julia hljs">using Pkg
+Pkg.add(&quot;PeriLab&quot;)</code></pre><p>Throughout the rest of this tutorial, we will assume that you have installed the PeriLab package and have already typed <code>using PeriLab</code> to bring all of the relevant variables into your current namespace.</p><h2 id="Using-PeriLab"><a class="docs-heading-anchor" href="#Using-PeriLab">Using <code>PeriLab</code></a><a id="Using-PeriLab-1"></a><a class="docs-heading-anchor-permalink" href="#Using-PeriLab" title="Permalink"></a></h2><p>The simplest way to run the <code>PeriLab</code> simulation core is to use a provided example import the module and go. </p><pre><code class="language-julia hljs">using PeriLab
+
+PeriLab.get_examples()
+PeriLab.main(&quot;examples/DCB/DCBmodel.yaml&quot;)</code></pre><p>The main functionalities for the <code>yaml</code> input deck is given in</p><pre><code class="nohighlight hljs">&quot;examples/functionalities.yaml&quot;</code></pre><h2 id="Using-PeriLab-with-multiple-processors-(MPI)"><a class="docs-heading-anchor" href="#Using-PeriLab-with-multiple-processors-(MPI)">Using <code>PeriLab</code> with multiple processors (MPI)</a><a id="Using-PeriLab-with-multiple-processors-(MPI)-1"></a><a class="docs-heading-anchor-permalink" href="#Using-PeriLab-with-multiple-processors-(MPI)" title="Permalink"></a></h2><p>In order to run <code>PeriLab</code> for large scale problems <a href="https://juliaparallel.org/MPI.jl/stable/usage/">MPI</a> needs to be installed:</p><pre><code class="language-sh hljs">$ julia
+julia&gt; using MPI
+julia&gt; MPI.install_mpiexecjl()</code></pre><p>Run PeriLab with two processors:</p><pre><code class="language-sh hljs">$ mpiexecjl -n 2 julia -e &quot;using PeriLab; PeriLab.main()&quot; Dogbone.yaml -v</code></pre><h2 id="Training"><a class="docs-heading-anchor" href="#Training">Training</a><a id="Training-1"></a><a class="docs-heading-anchor-permalink" href="#Training" title="Permalink"></a></h2><p>The training input is given under the examples folder. The documentation and a video will follow.</p><h2 id="Index"><a class="docs-heading-anchor" href="#Index">Index</a><a id="Index-1"></a><a class="docs-heading-anchor-permalink" href="#Index" title="Permalink"></a></h2><ul></ul><h2 id="Functions"><a class="docs-heading-anchor" href="#Functions">Functions</a><a id="Functions-1"></a><a class="docs-heading-anchor-permalink" href="#Functions" title="Permalink"></a></h2><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.main" href="#PeriLab.main"><code>PeriLab.main</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">main()</code></pre><p>Entry point for the PeriLab application.</p><p>This function serves as the entry point for the PeriLab application. It calls the core <code>main</code> function with the provided arguments.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/PeriLab.jl#L141-L147">source</a></section><section><div><pre><code class="language-julia hljs">main(filename::String, output_dir::String=&quot;&quot;, dry_run::Bool=false, verbose::Bool=false, debug::Bool=false, silent::Bool=false)</code></pre><p>Entry point for the PeriLab application.</p><p>This function serves as the entry point for the PeriLab application. It calls the core <code>main</code> function with the provided arguments.</p><p><strong>Arguments</strong></p><ul><li><code>filename::String</code>: The filename of the input file.</li><li><code>output_dir::String</code>: The output directory.</li><li><code>dry_run::Bool=false</code>: Whether to run in dry-run mode.</li><li><code>verbose::Bool=false</code>: Whether to run in verbose mode.</li><li><code>debug::Bool=false</code>: Whether to run in debug mode.</li><li><code>silent::Bool=false</code>: Whether to run in silent mode.</li></ul></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/PeriLab.jl#L174-L188">source</a></section></article><article class="docstring"><header><a class="docstring-article-toggle-button fa-solid fa-chevron-down" href="javascript:;" title="Collapse docstring"></a><a class="docstring-binding" id="PeriLab.get_examples" href="#PeriLab.get_examples"><code>PeriLab.get_examples</code></a> — <span class="docstring-category">Function</span></header><section><div><pre><code class="language-julia hljs">get_examples()</code></pre><p>Copy the examples folder to the current directory.</p></div><a class="docs-sourcelink" target="_blank" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/ea97b1515bb1d29e5292433923ac053839e9e99e/src/PeriLab.jl#L160-L164">source</a></section></article></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../basics/">« First Steps with PeriLab</a><a class="docs-footer-nextpage" href="../input_yaml/">Input File »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/man/input_yaml.md.license b/dev/man/input_yaml.md.license
new file mode 100644
index 000000000..e2c8c6448
--- /dev/null
+++ b/dev/man/input_yaml.md.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Input File · PeriLab</title><meta name="title" content="Input File · PeriLab"/><meta property="og:title" content="Input File · PeriLab"/><meta property="twitter:title" content="Input File · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/man/input_yaml/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/man/input_yaml/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/man/input_yaml/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link 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class="tocitem" href="../basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../getting_started/">Getting Started</a></li><li class="is-active"><a class="tocitem" href>Input File</a><ul class="internal"><li><a class="tocitem" href="#PeriLab"><span><code>PeriLab</code></span></a></li><li><a class="tocitem" href="#FEM-(optional)"><span><code>FEM (optional)</code></span></a></li><li><a class="tocitem" href="#Boundary-Conditions-(optional)"><span><code>Boundary Conditions (optional)</code></span></a></li><li><a class="tocitem" href="#Compute-Class-Parameters-(optional)"><span><code>Compute Class Parameters (optional)</code></span></a></li><li><a class="tocitem" href="#Discretization"><span><code>Discretization</code></span></a></li><li><a class="tocitem" href="#Outputs-(optional)"><span><code>Outputs (optional)</code></span></a></li><li><a class="tocitem" href="#Physics-(optional)"><span><code>Physics (optional)</code></span></a></li><li><a class="tocitem" href="#Solver"><span><code>Solver</code></span></a></li></ul></li><li><a class="tocitem" href="../mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">User Guide</a></li><li class="is-active"><a href>Input File</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Input File</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/man/input_yaml.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="PeriLab-Configuration-File"><a class="docs-heading-anchor" href="#PeriLab-Configuration-File">PeriLab Configuration File</a><a id="PeriLab-Configuration-File-1"></a><a class="docs-heading-anchor-permalink" href="#PeriLab-Configuration-File" title="Permalink"></a></h1><p>The PeriLab configuration file is a YAML file used to specify the parameters for running simulations in the PeriLab software. This structure represents the global configuration for PeriLab.</p><h2 id="PeriLab"><a class="docs-heading-anchor" href="#PeriLab"><code>PeriLab</code></a><a id="PeriLab-1"></a><a class="docs-heading-anchor-permalink" href="#PeriLab" title="Permalink"></a></h2><ul><li><strong>Blocks</strong>: List of block configurations.<ul><li><strong><em>block</em>id_</strong>: Block-specific parameters.<ul><li>Density: Numeric value representing density. (Float64 or Int64)</li><li>Horizon: Numeric value representing horizon. (Float64 or Int64)</li><li>Specific Heat Capacity: Numeric value representing specific heat capacity. (Float64 or Int64, optional)</li><li>Material Model: String representing the material model. (optional)</li><li>Damage Model: String representing the damage model. (optional)</li><li>Thermal Model: String representing the thermal model. (optional)</li><li>Additive Model: String representing the additive model. (optional)</li></ul></li></ul></li></ul><h2 id="FEM-(optional)"><a class="docs-heading-anchor" href="#FEM-(optional)"><code>FEM (optional)</code></a><a id="FEM-(optional)-1"></a><a class="docs-heading-anchor-permalink" href="#FEM-(optional)" title="Permalink"></a></h2><ul><li><strong>Element Type</strong>: String representing the type of finite element.</li><li><strong>Degree</strong>: Numeric value representing the degree. (String or Int64)</li><li><strong>Material Model</strong>: String representing the material model.</li></ul><h2 id="Boundary-Conditions-(optional)"><a class="docs-heading-anchor" href="#Boundary-Conditions-(optional)"><code>Boundary Conditions (optional)</code></a><a id="Boundary-Conditions-(optional)-1"></a><a class="docs-heading-anchor-permalink" href="#Boundary-Conditions-(optional)" title="Permalink"></a></h2><ul><li><strong><em>Own</em>Name_</strong>: List of boundary condition configurations.<ul><li><strong>Coordinate</strong>: String representing the coordinate.</li><li><strong>Node Set</strong>: String representing the node set.</li><li><strong>Type</strong>: String representing the type of boundary condition.</li><li><strong>Value</strong>: Numeric value, string, or a combination representing the boundary condition value. (Float64, Int64, String)</li></ul></li></ul><h2 id="Compute-Class-Parameters-(optional)"><a class="docs-heading-anchor" href="#Compute-Class-Parameters-(optional)"><code>Compute Class Parameters (optional)</code></a><a id="Compute-Class-Parameters-(optional)-1"></a><a class="docs-heading-anchor-permalink" href="#Compute-Class-Parameters-(optional)" title="Permalink"></a></h2><ul><li><strong><em>Own</em>Name_</strong>: List of compute class parameters.<ul><li><strong>Block</strong>: String representing the block.</li><li><strong>Node Set</strong>: String representing the node set.</li><li><strong>Calculation Type</strong>: String representing the calculation type.</li><li><strong>Compute Class</strong>: String representing the compute class.</li><li><strong>Variable</strong>: String representing the variable.</li></ul></li></ul><h2 id="Discretization"><a class="docs-heading-anchor" href="#Discretization"><code>Discretization</code></a><a id="Discretization-1"></a><a class="docs-heading-anchor-permalink" href="#Discretization" title="Permalink"></a></h2><ul><li><strong>Input Mesh File</strong>: String representing the input mesh file.</li><li><strong>Input External Topology</strong>: External topology parameters. (optional)<ul><li><strong>File</strong>: String representing the external topology file.</li><li><strong>Add Neighbor Search</strong>: Boolean indicating whether to add neighbor search. (optional)</li></ul></li><li><strong>Node Sets</strong>: Dictionary of node sets. (optional)<ul><li><strong><em>Own</em>Name_</strong>: Numeric value or string representing the node set. (Int64 or String)</li></ul></li><li><strong>Type</strong>: String representing the type of discretization.</li><li><strong>Distribution Type</strong>: String representing the distribution type. (optional)</li><li><strong>Surface Extrusion</strong>: Extrusion parameters. (optional)<ul><li><strong>Direction</strong>: String representing the extrusion direction.</li><li><strong>Step</strong>: Numeric value representing the extrusion step. (Float64 or Int64)</li><li><strong>Number</strong>: Numeric value representing the extrusion number. (Float64 or Int64)</li></ul></li><li><strong>Bond Filters</strong>: List of bond filter configurations. (optional)<ul><li><strong><em>Own</em>Name_</strong>: Bond filter parameters.<ul><li><strong>Type</strong>: String representing the bond filter type.</li><li><strong>Normal X/Y/Z</strong>: Numeric values representing normal components. (Float64 or Int64)</li><li><strong>Lower Left Corner X/Y/Z</strong>: Numeric values representing lower-left corner components. (Float64 or Int64)</li><li><strong>Bottom Unit Vector X/Y/Z</strong>: Numeric values representing bottom unit vector components. (Float64 or Int64)</li><li><strong>Center X/Y/Z</strong>: Numeric values representing center components. (Float64 or Int64)</li><li><strong>Radius</strong>: Numeric value representing the radius. (Float64 or Int64)</li><li><strong>Bottom Length</strong>: Numeric value representing the bottom length. (Float64 or Int64)</li><li><strong>Side Length</strong>: Numeric value representing the side length. (Float64 or Int64)</li><li><strong>Allow Contact</strong>: Boolean indicating whether to allow contact. (optional)</li></ul></li></ul></li></ul><h2 id="Outputs-(optional)"><a class="docs-heading-anchor" href="#Outputs-(optional)"><code>Outputs (optional)</code></a><a id="Outputs-(optional)-1"></a><a class="docs-heading-anchor-permalink" href="#Outputs-(optional)" title="Permalink"></a></h2><ul><li><strong><em>Own</em>Name_</strong>: List of output configurations.<ul><li><strong>Flush File</strong>: Boolean indicating whether to flush the output file. (optional)</li><li><strong>Output Frequency</strong>: Integer representing the output frequency.</li><li><strong>Number of Output Steps</strong>: Integer representing the number of output steps.</li><li><strong>Output File Type</strong>: String representing the output file type. (optional)</li><li><strong>Output Filename</strong>: String representing the output filename.</li><li><strong>Write After Damage</strong>: Boolean indicating whether to write after damage. (optional)</li><li><strong>Output Variables</strong>: Dictionary of output variables.<ul><li><strong><em>Own</em>Name_</strong>: Boolean indicating whether to output the variable.</li></ul></li></ul></li></ul><h2 id="Physics-(optional)"><a class="docs-heading-anchor" href="#Physics-(optional)"><code>Physics (optional)</code></a><a id="Physics-(optional)-1"></a><a class="docs-heading-anchor-permalink" href="#Physics-(optional)" title="Permalink"></a></h2><ul><li><strong>Damage Models</strong>: Dictionary of damage models. (optional)<ul><li><strong><em>Own</em>Name_</strong>: List of damage model configurations.<ul><li><strong>Critical Value</strong>: Numeric value representing the critical value. (Float64 or Int64)</li><li><strong>Damage Model</strong>: String representing the damage model.</li><li><strong>Interblock Damage</strong>: Dictionary of interblock damage parameters.<ul><li><strong><em>Own</em>Name_</strong>: Numeric value representing interblock damage. (Float64 or Int64, required)</li></ul></li><li><strong>Anisotropic Damage</strong>: Dictionary of anisotropic damage parameters.<ul><li><strong>Critical Value X/Y</strong>: Numeric values representing critical values in X and Y directions. (Float64 or Int64, required)</li></ul></li></ul></li></ul></li><li><strong>Material Models</strong>: Dictionary of material models. (optional)<ul><li><strong><em>Own</em>Name_</strong>: List of material model configurations.<ul><li><strong>Material Model</strong>: String representing the material model.</li><li><strong>Symmetry</strong>: String representing the symmetry. (optional)</li><li><strong>Poisson&#39;s Ratio/Young&#39;s Modulus/Bulk Modulus/Shear Modulus</strong>: Numeric values representing material properties. (Float64 or Int64, optional)</li><li><strong>Yield Stress</strong>: Numeric value representing the yield stress. (Float64 or Int64, optional)</li><li><strong>Zero Energy Control</strong>: String representing zero energy control. (optional)</li><li><strong>C11/C12/.../C66</strong>: Numeric values representing material constants. (Float64 or Int64, optional)</li></ul></li></ul></li><li><strong>Thermal Models</strong>: Dictionary of thermal models. (optional)<ul><li><strong><em>Own</em>Name_</strong>: List of thermal model configurations.<ul><li><strong>Thermal Model</strong>: String representing the thermal model.</li><li><strong>Type</strong>: String representing the type of thermal model. (optional)</li><li><strong>Heat Transfer Coefficient/Environmental Temperature/Thermal Conductivity/Thermal Expansion Coefficient/Thermal Conductivity Print Bed/Print Bed Temperature</strong>: Numeric values representing thermal parameters. (Float64 or Int64, optional)</li></ul></li></ul></li><li><strong>Additive Models</strong>: Dictionary of additive models. (optional)<ul><li><strong><em>Own</em>Name_</strong>: List of additive model configurations.<ul><li><strong>Additive Model</strong>: String representing the additive model.</li><li><strong>Print Temperature</strong>: Numeric value representing the print temperature. (Float64 or Int64, optional)</li></ul></li></ul></li><li><strong>Pre Calculation</strong>: Dictionary of pre-calculation parameters.<ul><li><strong>Bond Associated Deformation Gradient/Bond Associated Shape Tensor/Deformation Gradient/Deformed Bond Geometry/Shape Tensor</strong>: Boolean values indicating whether to calculate the respective parameter. (optional)</li></ul></li></ul><h2 id="Solver"><a class="docs-heading-anchor" href="#Solver"><code>Solver</code></a><a id="Solver-1"></a><a class="docs-heading-anchor-permalink" href="#Solver" title="Permalink"></a></h2><ul><li><strong>Solve For Displacement/Material Models/Damage Models/Thermal Models/Additive Models</strong>: Boolean values indicating whether to solve for the respective components. (optional)</li><li><strong>Maximum Damage</strong>: Numeric value representing the maximum damage. (Float64, optional)</li><li><strong>Final Time/Initial Time</strong>: Numeric values representing the final and initial time. (Float64 or Int64, required)</li><li><strong>Numerical Damping</strong>: Numeric value representing numerical damping. (Float64 or Int64, optional)</li><li><strong>Verlet</strong>: Dictionary of Verlet solver parameters.<ul><li><strong>Safety Factor/Fixed dt/Number of Steps</strong>: Numeric values representing Verlet solver parameters. (Float64 or Int64, optional)</li></ul></li><li><strong>External</strong>: Dictionary of external solver parameters.<ul><li><strong>Number of Steps</strong>: Numeric value representing the number of steps. (Int64, optional)</li></ul></li></ul></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../getting_started/">« Getting Started</a><a class="docs-footer-nextpage" href="../mesh_input/">Mesh and Nodesets »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/man/mesh_input.md.license b/dev/man/mesh_input.md.license
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+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
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+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Mesh and Nodesets · PeriLab</title><meta name="title" content="Mesh and Nodesets · PeriLab"/><meta property="og:title" content="Mesh and Nodesets · PeriLab"/><meta property="twitter:title" content="Mesh and Nodesets · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/man/mesh_input/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/man/mesh_input/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/man/mesh_input/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" 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href="../../">Introduction</a></li><li><a class="tocitem" href="../basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../getting_started/">Getting Started</a></li><li><a class="tocitem" href="../input_yaml/">Input File</a></li><li class="is-active"><a class="tocitem" href>Mesh and Nodesets</a><ul class="internal"><li><a class="tocitem" href="#Header"><span>Header</span></a></li><li><a class="tocitem" href="#Data-Lines"><span>Data Lines</span></a></li><li class="toplevel"><a class="tocitem" href="#Nodeset-Input-File-Structure"><span>Nodeset Input File Structure</span></a></li><li><a class="tocitem" href="#Header-2"><span>Header</span></a></li><li><a class="tocitem" href="#Data-Lines-2"><span>Data Lines</span></a></li></ul></li><li><a class="tocitem" href="../bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">User Guide</a></li><li class="is-active"><a href>Mesh and Nodesets</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Mesh and Nodesets</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/man/mesh_input.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="Mesh-Input-File-Structure"><a class="docs-heading-anchor" href="#Mesh-Input-File-Structure">Mesh Input File Structure</a><a id="Mesh-Input-File-Structure-1"></a><a class="docs-heading-anchor-permalink" href="#Mesh-Input-File-Structure" title="Permalink"></a></h1><p>The mesh input file is a text file used to define the geometry of the simulation domain. The file has a header and subsequent lines representing individual nodes with their corresponding coordinates, block IDs, volumes, and optional user-defined values. Below is an example of the structure:</p><h2 id="Header"><a class="docs-heading-anchor" href="#Header">Header</a><a id="Header-1"></a><a class="docs-heading-anchor-permalink" href="#Header" title="Permalink"></a></h2><p>The header of the mesh input file specifies the format of the subsequent data columns. In this example, the header consists of the following columns:</p><ul><li><code>x</code>: X-coordinate of the node.</li><li><code>y</code>: Y-coordinate of the node.</li><li><code>z</code> (Optional): Z-coordinate of the node (if applicable).</li><li><code>block_id</code>: Block ID to which the node belongs.</li><li><code>volume</code>: Volume associated with the node.</li><li><code>user_defined_1</code>, <code>user_defined_2</code>, ... (Optional): User-defined values associated with the node.</li></ul><h2 id="Data-Lines"><a class="docs-heading-anchor" href="#Data-Lines">Data Lines</a><a id="Data-Lines-1"></a><a class="docs-heading-anchor-permalink" href="#Data-Lines" title="Permalink"></a></h2><p>The data lines represent individual nodes in the mesh, with values corresponding to the columns specified in the header.</p><p>Example Data Lines:</p><pre><code class="language-plaintext hljs">header: x y block_id volume
+0.0 0.0 1 1.0E-02
+0.1 0.0 1 1.0E-02
+0.1 0.1 1 1.0E-02
+...</code></pre><h1 id="Nodeset-Input-File-Structure"><a class="docs-heading-anchor" href="#Nodeset-Input-File-Structure">Nodeset Input File Structure</a><a id="Nodeset-Input-File-Structure-1"></a><a class="docs-heading-anchor-permalink" href="#Nodeset-Input-File-Structure" title="Permalink"></a></h1><p>The nodeset input file is a text file used to define sets of nodes in the simulation domain. The file has a header and subsequent lines representing individual node global IDs that belong to the nodeset. Below is an example of the structure:</p><h2 id="Header-2"><a class="docs-heading-anchor" href="#Header-2">Header</a><a class="docs-heading-anchor-permalink" href="#Header-2" title="Permalink"></a></h2><p>The header of the nodeset input file specifies the format of the subsequent data columns. In this example, the header consists of the following column:</p><ul><li><code>global_id</code>: Global ID of the node.</li></ul><h2 id="Data-Lines-2"><a class="docs-heading-anchor" href="#Data-Lines-2">Data Lines</a><a class="docs-heading-anchor-permalink" href="#Data-Lines-2" title="Permalink"></a></h2><p>The data lines represent individual nodes in the nodeset, with values corresponding to the columns specified in the header.</p><p>Example Data Lines:</p><pre><code class="language-plaintext hljs">header: global_id
+1
+2
+11
+12</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../input_yaml/">« Input File</a><a class="docs-footer-nextpage" href="../bond_filter/">Bond-Filter »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. Using Julia version 1.10.2.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/objects.inv b/dev/objects.inv
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diff --git a/dev/refs.bib b/dev/refs.bib
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--- /dev/null
+++ b/dev/refs.bib
@@ -0,0 +1,222 @@
+
+@article{HesseJA2023,
+author = {Hesse, Jan-Timo and Willberg, Christian and Hein, Robert and Winkelmann, Felix},
+title = {Peridynamic framework to model additive manufacturing processes},
+journal = {PAMM},
+volume = {n/a},
+year = {2023},
+number = {n/a},
+pages = {e202300033},
+doi = {https://doi.org/10.1002/pamm.202300033},
+url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/pamm.202300033},
+eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/pamm.202300033},
+abstract = {Abstract This paper introduces a novel framework for analyzing additive manufacturing processes. By employing a peridynamic mesh-free implementation, it overcomes certain limitations encountered with finite element-based approaches in regard to defects and fractures. The framework includes the implementation of thermodynamical material behavior and a novel boundary detection algorithm, as the outer surface area will undergo changes during the manufacturing process. The proposed methods are thoroughly validated, and a comprehensive example is provided as a demonstration.}
+}
+
+
+@Book{WillbergC2013,
+  title     = {{Development of a new isogeometric finite element and its application for Lamb wave based structural health monitoring}},
+  publisher = {VDI Verlag, ISBN: 978-3-18-344620-9},
+  year      = {2013},
+  author    = {Willberg, Christian},
+  address   = {D\"{u}sseldorf},
+  edition   = {Fortschrit},
+  abstract  = {Structural Health Monitoring (SHM) is a new, rapidly developing technology
+	for the mon- itoring of engineering structures. The main features
+	are permanent and automatic as- sessment of the structural integrity
+	by built-in devices such that non-destructive testing becomes an
+	integral part of the structure. Therefore, SHM aims at damage detection
+	and loads monitoring by intrinsic means of the structure. The tasks
+	can be defined similar to those of conventional non-destructive testing:
+	damage detection, localisation and further characterisation. Consequently,
+	this leads in an increased safety and a reduction of the maintenance
+	costs. Among different approaches, the use of ultrasonic Lamb waves
+	is an attractive method for structural health monitoring. Lamb waves
+	are able to propagate over large distances, thus wide areas of a
+	structure can be monitored. Because Lamb waves sensitively interact
+	with defects, they offer a chance for defect detection and further
+	characterization. The use of embedded or surface-attached piezoceramic
+	elements as actuators and sensors for generation and reception of
+	Lamb waves is an attractive way for designing smart SHM structures.
+	To gain a better understanding of the physics of Lamb wave, e.g.
+	interaction, damages, excitation process, efficient models are needed.
+	Furthermore, in future these models can be used to develop and optimize
+	an actuator-sensor grid for SHM systems in complex structures, e.g.
+	airplanes. Therefore, SHM applications call for both efficient and
+	powerful numerical tools to predict the behavior of Lamb waves. The
+	mesh density required to obtain good quality solutions has to be
+	rather fine both spatial and temporal. This results in enormous computational
+	costs (computational time and memory storage requirements) when ultrasonic
+	wave propagation problems are solved in the time domain. Furthermore,
+	in future design process one has to deal with complex structures.
+	To resolve the issue of complex structures the thesis utilize the
+	idea of the isogeometric element concept. The isogeometric approach
+	utilizes the non-uniform rational B-spline (NURBS) functions of the
+	geometrical description of the computer aided design (CAD) software.
+	Therefore, no meshing in the todays common way is needed. To model
+	the complete SHM structure including actuators and sensors, in this
+	thesis a three-dimensional isogeometric piezoelectric finite element
+	is developed, tested in several benchmarks and compared to other
+	numerical higher order approaches with respect to their ability to
+	model Lamb wave propagation problems. The research results are used
+	to recommend an optimal discretization scheme. To illustrate the
+	advantage of the new iso- geometric finite element two SHM specific
+	problems are investigated, namely the dynamic behavior of a piezoceramic
+	actuator and the material induced continuous mode conversion. Both
+	problems are studied numerically as well as experimentally.},
+  doi       = {10.25673/3921},
+  file      = {:H$\backslash$:/Eigene Dateien/diss/VDI/vdi\_Doktorarbeit\_Willberg.pdf:pdf},
+  keywords  = {own},
+  school    = {Otto-von-Guericke-University of Magdeburg, Fortschritt-Berichte VDI Reihe 20, Nr. 446, D\"{u}sseldorf: VDI Verlag, ISBN: 978-3-18-344620-9},
+  url       = {http://dx.doi.org/10.25673/3921},
+}
+
+@article{WillbergC2024,
+title = {PeriLab},
+journal = {SoftwareX},
+volume = {},
+pages = {},
+year = {2024},
+issn = {2352-7110},
+doi = {h},
+url = {},
+author = {Christian Willberg and Jan-Timo Hesse and Anna Pernatii},
+keywords = {},
+abstract = {}
+}
+
+
+@article{WillbergC2023,
+title = {A user material interface for the Peridynamic Peridigm framework},
+journal = {SoftwareX},
+volume = {21},
+pages = {101322},
+year = {2023},
+issn = {2352-7110},
+doi = {https://doi.org/10.1016/j.softx.2023.101322},
+url = {https://www.sciencedirect.com/science/article/pii/S2352711023000183},
+author = {Christian Willberg and Jan-Timo Hesse and Marc Garbade and Martin Rädel and Falk Heinecke and Andreas Schuster and Anna Pernatii},
+keywords = {Peridynamics, User material, UMAT, Interface, Material modeling, Damage model},
+abstract = {User materials (UMAT) in finite element codes allow the researchers or engineers to apply their own material routines. Simple software interfaces are specified to represent the material behavior in software. In order to use these already existing and often validated models to Peridynamics a UMAT interface is presented. It allows the simplified use of already existing material routines in the peridynamic framework Peridigm. The interface is based on the Abaqus UMAT definition and allows the integration of Fortran routines directly into Peridigm. The integration of already existing UMAT routines based in Peridigm eliminates the need for redevelopment and reprogramming material models from classical continuum mechanics theory. In addition, the same material model implementations are applicable in finite element as well as peridynamic simulations. This opens up new possibilities for analysis, verification and comparison. With this interface many material routines can be reused and applied to progressive failure analysis. The source code is stored in a GitHub repository.}
+}
+@article{WillbergC2019,
+  author  = {Christian Willberg and Lasse Wiedemann and Martin R{\"a}del},
+  title   = {A mode-dependent energy-based damage model for peridynamics and its implementation},
+  journal = {Journal of Mechanics of Materials and Structures},
+  year    = {2019},
+  volume  = {14},
+  number  = {2},
+  pages   = {193--217},
+  doi     = {10.2140/jomms.2019.14.193},
+  issn    = {1559-3959},
+}
+@article{FosterJT2011,
+  author  = {John T. Foster and Stewart A. Silling and Weinong Chen},
+  title   = {An Energy based Failure Criterion for use with Peridynamic States},
+  journal = {International Journal for Multiscale Computational Engineering},
+  year    = {2011},
+  volume  = {9},
+  number  = {6},
+  pages   = {675--688},
+  doi     = {10.1615/IntJMultCompEng.2011002407},
+  issn    = {0020-7683},
+}
+@article{OterkusS2014,
+title = {Fully coupled peridynamic thermomechanics},
+journal = {Journal of the Mechanics and Physics of Solids},
+volume = {64},
+pages = {1-23},
+year = {2014},
+issn = {0022-5096},
+doi = {https://doi.org/10.1016/j.jmps.2013.10.011},
+url = {https://www.sciencedirect.com/science/article/pii/S0022509613002196},
+author = {Selda Oterkus and Erdogan Madenci and Abigail Agwai},
+keywords = {Peridynamics, Thermal, Deformation, Coupled, Thermomechanics},
+abstract = {This study concerns the derivation of the coupled peridynamic (PD) thermomechanics equations based on thermodynamic considerations. The generalized peridynamic model for fully coupled thermomechanics is derived using the conservation of energy and the free-energy function. Subsequently, the bond-based coupled PD thermomechanics equations are obtained by reducing the generalized formulation. These equations are also cast into their nondimensional forms. After describing the numerical solution scheme, solutions to certain coupled thermomechanical problems with known previous solutions are presented.}
+}
+@article{OterkusS2014b,
+title = {Peridynamic thermal diffusion},
+journal = {Journal of Computational Physics},
+volume = {265},
+pages = {71-96},
+year = {2014},
+issn = {0021-9991},
+doi = {https://doi.org/10.1016/j.jcp.2014.01.027},
+url = {https://www.sciencedirect.com/science/article/pii/S0021999114000540},
+author = {Selda Oterkus and Erdogan Madenci and Abigail Agwai},
+keywords = {Thermal, Conduction, Diffusion, Peridynamics, Nonlocal},
+abstract = {This study presents the derivation of ordinary state-based peridynamic heat conduction equation based on the Lagrangian formalism. The peridynamic heat conduction parameters are related to those of the classical theory. An explicit time stepping scheme is adopted for numerical solution of various benchmark problems with known solutions. It paves the way for applying the peridynamic theory to other physical fields such as neutronic diffusion and electrical potential distribution.}
+}
+
+@Article{BrighentiR2021,
+  author   = {Roberto Brighenti and Migbar Assefa Zeleke and Mesfin Belayneh Ageze},
+  journal  = {Journal of Engineering},
+  title    = {{A Review of Peridynamics (PD) Theory of Diffusion Based Problems}},
+  year     = {2021},
+  pages    = {20},
+  doi      = {10.1155/2021/7782326},
+}
+
+@article{LittlewoodDJ2013,
+title = {Estimation of the Critical Time Step for Peridynamic Models.},
+author = {Littlewood, David John and Shelton, Timothy and Thomas, Jesse David},
+doi = {},
+url = {https://www.osti.gov/biblio/1140383}, 
+journal = {},
+number = {},
+year = {2013},
+month = {7}
+} 
+
+@book{BobaruF2016,
+  Title                    = {Handbook of Peridynamic Modeling},
+  Author                   = {Bobaru, Florin and Foster, John T. and Geubelle, P. H. and Silling, Stewart A.},
+  Series                   = {Advances in Applied Mathematics},
+  Publisher                = {CRC Press},
+  ISBN                     = {978-1315355948},
+  Year                     = {2016},
+}
+
+@Article{SillingSA2007,
+  Title                    = {Peridynamic States and Constitutive Modeling},
+  Author                   = {Silling, Stewart A. and Epton, M. and Weckner, Olaf and Xu, J. and Askari, Ebrahim},
+  Journal                  = {Journal of Elasticity},
+  Year                     = {2007},
+  Volume                   = {88},
+  Pages                    = {151--184},
+  Doi                      = {10.1007/s10659-007-9125-1},
+}
+
+
+@Article{SillingSA2000,
+  author   = {Silling, Stewart A.},
+  journal  = {Journal of the Mechanics and Physics of Solids},
+  title    = {Reformulation of elasticity theory for discontinuities and long-range forces},
+  year     = {2000},
+  issn     = {00225096},
+  number   = {1},
+  pages    = {175--209},
+  volume   = {48},
+  doi      = {10.1016/S0022-5096(99)00029-0},
+  keywords = {dynamics, elastic material, fracture, stability and bifurcation, stress waves},
+}
+
+
+
+@Article{LittlewoodDJ2023,
+author={Littlewood, David J.
+and Parks, Michael L.
+and Foster, John T.
+and Mitchell, John A.
+and Diehl, Patrick},
+title={The Peridigm Meshfree Peridynamics Code},
+journal={Journal of Peridynamics and Nonlocal Modeling},
+year={2023},
+month={May},
+day={08},
+abstract={Peridigm is a meshfree peridynamics code written in C++ for use on large-scale parallel computers. It was originally developed at Sandia National Laboratories and is currently managed as an open-source, community driven software project. Its primary features include bond-based, state-based, and non-ordinary state-based constitutive models, bond failure laws, contact, and support for explicit and implicit time integration. To date, Peridigm has been used primarily by methods developers focused on solid mechanics and material failure. Peridigm utilizes foundational software components from Sandia's Trilinos project and was designed for extensibility. This paper provides an overview of the solution methods implemented in Peridigm, a discussion of its software infrastructure, and demonstrates the use of Peridigm for the solution of several example problems.},
+issn={2522-8978},
+doi={10.1007/s42102-023-00100-0},
+url={https://doi.org/10.1007/s42102-023-00100-0}
+}
+
diff --git a/dev/refs.bib.license b/dev/refs.bib.license
new file mode 100644
index 000000000..e2c8c6448
--- /dev/null
+++ b/dev/refs.bib.license
@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/search_index.js b/dev/search_index.js
new file mode 100644
index 000000000..a22d1d766
--- /dev/null
+++ b/dev/search_index.js
@@ -0,0 +1,3 @@
+var documenterSearchIndex = {"docs":
+[{"location":"lib/io_functions/#IO-Functions","page":"IO Functions","title":"IO - Functions","text":"","category":"section"},{"location":"lib/io_functions/#Index","page":"IO Functions","title":"Index","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"Pages = [\"io_functions.md\"]","category":"page"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#IO","page":"IO Functions","title":"IO","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"merge_exodus_files\nopen_result_file\nclose_result_file\nclose_result_files\ndelete_files\nget_file_size\nclearNP1\nget_results_mapping\ninitialize_data\ninit_orientations\ninit_write_results\nwrite_results\nget_global_values\nfind_global_core_value!\nshow_block_summary\ncalculate_nodelist\ncalculate_block\nglobal_value_sum\nglobal_value_max\nglobal_value_min\nglobal_value_avg","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.merge_exodus_files","page":"IO Functions","title":"PeriLab.IO.merge_exodus_files","text":"merge_exodus_files(result_files::Vector{Any}, output_dir::String)\n\nMerges exodus output files\n\nArguments\n\nresult_files::Vector{Any}: The result files\noutput_dir::String: The file directory\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.open_result_file","page":"IO Functions","title":"PeriLab.IO.open_result_file","text":"open_result_file(result_file::Dict)\n\nOpens the result file\n\nArguments\n\nresult_file::Dict: The result file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.close_result_file","page":"IO Functions","title":"PeriLab.IO.close_result_file","text":"close_result_file(result_file::Dict)\n\nCloses the result file\n\nArguments\n\nresult_file::Dict: The result file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.close_result_files","page":"IO Functions","title":"PeriLab.IO.close_result_files","text":"close_result_files(result_files::Vector{Dict})\n\nCloses the result files\n\nArguments\n\nresult_files::Vector{Dict}: The result files\n\nReturns\n\ntrue: File is closed\nfalse: File was already closed\n\n\n\n\n\nclose_result_files(result_files::Vector{Dict}, outputs::Dict{Int64,Dict{}})\n\nCloses the result files if the flush_file flag is not set\n\nArguments\n\nresult_files::Vector{Dict}: The result files\noutputs::Dict{Int64,Dict{}}: The output settings\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.delete_files","page":"IO Functions","title":"PeriLab.IO.delete_files","text":"delete_files(result_files::Vector{Dict})\n\nDeletes the result files\n\nArguments\n\nresult_files: The result files\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_file_size","page":"IO Functions","title":"PeriLab.IO.get_file_size","text":"get_file_size(result_files::Vector{Dict})\n\nGets the file size of the result files\n\nArguments\n\nresult_files: The result files\n\nReturns\n\ntotal_file_size: The total file size\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.clearNP1","page":"IO Functions","title":"PeriLab.IO.clearNP1","text":"clearNP1(name::String)\n\nClears the NP1 from the name\n\nArguments\n\nname::String: The name\n\nReturns\n\nname::String: The cleared 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outputs\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.write_results","page":"IO Functions","title":"PeriLab.IO.write_results","text":"write_results(result_files::Vector{Any}, time::Float64, max_damage::Float64, outputs::Dict, datamanager::Module)\n\nWrite results.\n\nArguments\n\nresult_files::Vector{Any}: The result files\ntime::Float64: The time\nmax_damage::Float64: The maximum damage\noutputs::Dict: The outputs\ndatamanager::Module: The datamanager\n\nReturns\n\nresult_files::Vector{Any}: The result files\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_global_values","page":"IO Functions","title":"PeriLab.IO.get_global_values","text":"get_global_values(output::Dict, datamanager::Module)\n\nGet global values.\n\nArguments\n\noutput::Dict: The output\ndatamanager::Module: The datamanager\n\nReturns\n\nglobal_values::Vector: The global 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params\nlog_file::String: The log file\nsilent::Bool: The silent flag\ncomm::MPI.Comm: The comm\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.calculate_nodelist","page":"IO Functions","title":"PeriLab.IO.calculate_nodelist","text":"calculate_nodelist(datamanager::Module, fieldKey::String, dof::Union{Int64,Vector{Int64}}, calculation_type::String, node_set::Vector{Int64})\n\nCalculate the global value of a field for a given set of nodes.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nfieldKey::String: Field key.\ndof::Union{Int64,Vector{Int64}}: Degree of freedom\ncalculation_type::String: Calculation type.\nnode_set::Vector{Int64}: Node set.\n\nReturns\n\nvalue::Vector: Global value.\nnnodes::Int64: Number of nodes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.calculate_block","page":"IO Functions","title":"PeriLab.IO.calculate_block","text":"calculate_block(datamanager::Module, fieldKey::String, dof::Int64, calculation_type::String, block::Int64)\n\nCalculate the global value of a field for a given block.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nfieldKey::String: Field key.\ndof::Union{Int64,Vector{Int64}}: Degree of freedom\ncalculation_type::String: Calculation type.\nblock::Int64: Block number.\n\nReturns\n\nvalue::Float64: Global value.\nnnodes::Int64: Number of nodes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.global_value_sum","page":"IO Functions","title":"PeriLab.IO.global_value_sum","text":"global_value_sum(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})\n\nCalculate the global sum of a field for given nodes.\n\nArguments\n\nfield::SubArray: Field.\ndof::Union{Int64,Vector{Int64}: Degree of freedom\nnodes::Union{SubArray,Vector{Int64}}: Nodes.\n\nReturns\n\nreturnValue::Vector: Global value.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.global_value_max","page":"IO Functions","title":"PeriLab.IO.global_value_max","text":"global_value_max(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})\n\nCalculate the global maximum of a field for given nodes.\n\nArguments\n\nfield::SubArray: Field.\ndof::Union{Int64,Vector{Int64}}: Degree of freedom\nnodes::Union{SubArray,Vector{Int64}}: Nodes.\n\nReturns\n\nreturnValue::Vector: Global value.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.global_value_min","page":"IO Functions","title":"PeriLab.IO.global_value_min","text":"global_value_min(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})\n\nCalculate the global minimum of a field for given nodes.\n\nArguments\n\nfield::SubArray: Field.\ndof::Union{Int64,Vector{Int64}}: Degree of freedom\nnodes::Union{SubArray,Vector{Int64}}: Nodes.\n\nReturns\n\nreturnValue::Vector: Global value.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.global_value_avg","page":"IO Functions","title":"PeriLab.IO.global_value_avg","text":"global_value_avg(field::SubArray, dof::Union{Int64,Vector{Int64}}, nodes::Union{SubArray,Vector{Int64}})\n\nCalculate the global average of a field for given nodes.\n\nArguments\n\nfield::SubArray: Field.\ndof::Union{Int64,Vector{Int64}}: Degree of freedom\nnodes::Union{SubArray,Vector{Int64}}: Nodes.\n\nReturns\n\nreturnValue::Vector: Global value.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#Read_Mesh","page":"IO Functions","title":"Read_Mesh","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"init_data\ncreate_and_distribute_bond_norm\nget_local_element_topology\nget_local_overlap_map\nlocal_nodes_from_dict\ndistribute_neighborhoodlist_to_cores\nget_local_neighbors\nget_bond_geometry\ndefine_nsets\ndistribution_to_cores\ncheck_mesh_elements\nread_mesh\narea_of_polygon\nset_dof\nload_and_evaluate_mesh\ncreate_neighborhoodlist\nget_number_of_neighbornodes\nnode_distribution\n_init_overlap_map_\ncreate_overlap_map\ncreate_distribution\ncreate_distribution_node_based\ncreate_distribution_neighbor_based\nneighbors\nbond_intersects_disc\nbond_intersect_infinite_plane\nbond_intersect_rectangle_plane\napply_bond_filters\ndisk_filter\nrectangular_plane_filter\nglob_to_loc\ncheck_for_duplicate_in_dataframe\ncheck_types_in_dataframe","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.init_data","page":"IO Functions","title":"PeriLab.IO.init_data","text":"init_data(params::Dict, path::String, datamanager::Module, comm::MPI.Comm, to::TimerOutput)\n\nInitializes the data for the mesh.\n\nArguments\n\nparams::Dict: The parameters for the simulation.\npath::String: The path to the mesh file.\ndatamanager::Data_manager: The data manager.\ncomm::MPI.Comm: The MPI communicator.\nto::TimerOutput: The timer output.\n\nReturns\n\ndatamanager::Data_manager: The data manager.\nparams::Dict: The parameters for the simulation.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_and_distribute_bond_norm","page":"IO Functions","title":"PeriLab.IO.create_and_distribute_bond_norm","text":"create_and_distribute_bond_norm(comm::MPI.Comm, datamanager::Module, nlist_filtered_ids::Vector{Vector{Int64}}, distribution::Vector{Int64}, bond_norm::Vector{Float64}, dof::Int64)\n\nCreate and distribute the bond norm\n\nArguments\n\ncomm::MPI.Comm: MPI communicator\ndatamanager::Module: Data manager\nnlist_filtered_ids::Vector{Vector{Int64}}: The filtered neighborhood list\ndistribution::Vector{Int64}: The distribution\nbond_norm::Vector{Float64}: The bond norm\ndof::Int64: The degree of freedom\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_local_element_topology","page":"IO Functions","title":"PeriLab.IO.get_local_element_topology","text":"get_local_element_topology(datamanager::Module, topology::Vector{Vector{Int64}}, distribution::Vector{Int64})\n\nGet the local element topology\n\nArguments\n\ndatamanager::Module: The datamanager\ntopology::Vector{Vector{Int64}}: The topology\ndistribution::Vector{Int64}: The distribution\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_local_overlap_map","page":"IO Functions","title":"PeriLab.IO.get_local_overlap_map","text":"get_local_overlap_map()\n\nChanges entries in the overlap map from the global numbering to the local computer core one.\n\nArguments\n\noverlap_map::Dict{Int64, Dict{Int64, String}}: overlap map with global nodes.\ndistribution::Vector{Vector{Int64}}: global nodes distribution at cores, needed for the gobal to local mapping\nranks Array{Int64} : number of used computer cores\n\nReturns\n\noverlap_map::Dict{Int64, Dict{Int64, String}}: returns overlap map with local nodes.\n\nExample:\n\nget_local_overlap_map(overlap_map, distribution, ranks)  # returns local nodes \n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.local_nodes_from_dict","page":"IO Functions","title":"PeriLab.IO.local_nodes_from_dict","text":"local_nodes_from_dict(glob_to_loc::Dict{Int,Int}, global_nodes::Vector{Int64})\n\nChanges entries in the overlap map from the global numbering to the local computer core one.\n\nArguments\n\nglob_to_loc::Dict{Int,Int}: global to local mapping\nglobal_nodes::Vector{Int64}: global nodes\n\nReturns\n\noverlap_map::Dict{Int64, Dict{Int64, String}}: returns overlap map with local nodes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.distribute_neighborhoodlist_to_cores","page":"IO Functions","title":"PeriLab.IO.distribute_neighborhoodlist_to_cores","text":"distribute_neighborhoodlist_to_cores(comm::MPI.Comm, datamanager::Module, nlist, distribution)\n\nDistributes the neighborhood list to the cores.\n\nArguments\n\ncomm::MPI.Comm: MPI communicator\ndatamanager::Module: Data manager\nnlist: neighborhood list\ndistribution Array{Int64}: global nodes distribution at cores\n\nReturns\n\ndatamanager::Module: data manager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_local_neighbors","page":"IO Functions","title":"PeriLab.IO.get_local_neighbors","text":"get_local_neighbors(mapping, nlistCore)\n\nGets the local neighborhood list from the global neighborhood list\n\nArguments\n\nmapping: mapping function\nnlistCore: global neighborhood list\n\nReturns\n\nnlistCore: local neighborhood list\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_bond_geometry","page":"IO Functions","title":"PeriLab.IO.get_bond_geometry","text":"get_bond_geometry(datamanager::Module)\n\nGets the bond geometry\n\nArguments\n\ndatamanager::Module: Data manager\n\nReturns\n\ndatamanager::Module: data manager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.define_nsets","page":"IO Functions","title":"PeriLab.IO.define_nsets","text":"define_nsets(nsets::Dict{String,Vector{Any,Int64}}, datamanager::Module)\n\nDefines the node sets\n\nArguments\n\nnsets::Dict{String,Vector{Any,Int64}}: Node sets read from files\ndatamanager::Module: Data manager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.distribution_to_cores","page":"IO Functions","title":"PeriLab.IO.distribution_to_cores","text":"distribution_to_cores(comm::MPI.Comm, datamanager::Module, mesh, distribution, dof::Int64)\n\nDistributes the mesh data to the cores\n\nArguments\n\ncomm::MPI.Comm: MPI communicator\ndatamanager::Module: Data manager\nmesh: Mesh\ndistribution Array{Int64}: global nodes distribution at cores\ndof::Int64: Degree of freedom\n\nReturns\n\ndatamanager::Module: data manager\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.check_mesh_elements","page":"IO Functions","title":"PeriLab.IO.check_mesh_elements","text":"check_mesh_elements(mesh, dof)\n\nProcess and analyze mesh data to create an dictionary containing information about mesh elements for further processing.\n\nArguments\n\nmesh::DataFrame: The input mesh data represented as a DataFrame.\ndof::Int64: The degrees of freedom (DOF) for the mesh elements.\n\nReturns\n\nA dictionary containing information about mesh elements, which can be used for further processing or uploading.\n\nExample\n\n```julia meshdata = DataFrame(x1 = [1.0, 2.0, 3.0], x2 = [4.0, 5.0, 6.0], volume = [10.0, 20.0, 30.0]) dof = 3 result = checkmeshelements(meshdata, dof)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.read_mesh","page":"IO Functions","title":"PeriLab.IO.read_mesh","text":"read_mesh(filename::String, params::Dict)\n\nRead mesh data from a file and return it as a DataFrame.\n\nArguments\n\nfilename::String: The path to the mesh file.\nparams::Dict: The input parameters.\n\nReturns\n\nmesh::DataFrame: The mesh data as a DataFrame.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.area_of_polygon","page":"IO Functions","title":"PeriLab.IO.area_of_polygon","text":"area_of_polygon(vertices)\n\nCalculate the area of a polygon.\n\nArguments\n\nvertices: The vertices of the polygon.\n\nReturns\n\narea: The area of the polygon.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.set_dof","page":"IO Functions","title":"PeriLab.IO.set_dof","text":"set_dof(mesh::DataFrame)\n\nSet the degrees of freedom (DOF) for the mesh elements.\n\nArguments\n\nmesh::DataFrame: The input mesh data represented as a DataFrame.\n\nReturns\n\ndof::Int64: The degrees of freedom (DOF) for the mesh elements.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.load_and_evaluate_mesh","page":"IO Functions","title":"PeriLab.IO.load_and_evaluate_mesh","text":"load_and_evaluate_mesh(params::Dict, path::String, ranksize::Int64, to::TimerOutput)\n\nLoad and evaluate the mesh data.\n\nArguments\n\nparams::Dict: The input parameters.\npath::String: The path to the mesh file.\nranksize::Int64: The number of ranks.\nto::TimerOutput: The timer output\n\nReturns\n\ndistribution::Array{Int64,1}: The distribution of the mesh elements.\nmesh::DataFrame: The mesh data as a DataFrame.\nntype::Dict: The type of the mesh elements.\noverlap_map::Array{Array{Int64,1},1}: The overlap map of the mesh elements.\nnlist::Array{Array{Int64,1},1}: The neighborhood list of the mesh elements.\ndof::Int64: The degrees of freedom (DOF) for the mesh elements.\nnsets::Dict: The node sets\ntopology::Int64::Array{Int64,nelement:nodes}`: The topology of elements.\nel_distribution::Array{Int64,1}: The distribution of the finite elements.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_neighborhoodlist","page":"IO Functions","title":"PeriLab.IO.create_neighborhoodlist","text":"create_neighborhoodlist(mesh::DataFrame, params::Dict, dof::Int64)\n\nCreate the neighborhood list of the mesh elements.\n\nArguments\n\nmesh::DataFrame: The input mesh data represented as a DataFrame.\nparams::Dict: The input parameters.\ndof::Int64: The degrees of freedom (DOF) for the mesh elements.\n\nReturns\n\nnlist::Array{Array{Int64,1},1}: The neighborhood list of the mesh elements.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_number_of_neighbornodes","page":"IO Functions","title":"PeriLab.IO.get_number_of_neighbornodes","text":"get_number_of_neighbornodes(nlist::Vector{Vector{Int64}})\n\nGet the number of neighbors for each node.\n\nArguments\n\nnlist::Vector{Vector{Int64}}: The neighborhood list of the mesh elements.\n\nReturns\n\nlenNlist::Vector{Int64}: The number of neighbors for each node.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.node_distribution","page":"IO Functions","title":"PeriLab.IO.node_distribution","text":"node_distribution(nlist::Vector{Vector{Int64}}, size::Int64)\n\nCreate the distribution of the nodes.\n\nArguments\n\nnlist::Vector{Vector{Int64}}: The neighborhood list of the mesh elements.\nsize::Int64: The number of ranks.\ndistribution_type::String: The distribution type.\n\nReturns\n\ndistribution::Vector{Vector{Int64}}: The distribution of the nodes.\nptc::Vector{Int64}: Defines at which core / rank each node lies.\nntype::Dict: The type of the nodes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO._init_overlap_map_","page":"IO Functions","title":"PeriLab.IO._init_overlap_map_","text":"_init_overlap_map_(size)\n\nInitialize the overlap map.\n\nArguments\n\nsize::Int64: The number of ranks.\n\nReturns\n\noverlap_map::Dict{Int64,Dict{Int64,Dict{String,Vector{Int64}}}}: The overlap map.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_overlap_map","page":"IO Functions","title":"PeriLab.IO.create_overlap_map","text":"create_overlap_map(distribution, ptc, size)\n\nCreate the overlap map.\n\nArguments\n\ndistribution::Array{Int64,1}: The distribution of the nodes.\nptc::Array{Int64,1}: The number of nodes in each rank.\nsize::Int64: The number of ranks.\n\nReturns\n\noverlap_map::Dict{Int64,Dict{Int64,Dict{String,Vector{Int64}}}}: The overlap map.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_distribution","page":"IO Functions","title":"PeriLab.IO.create_distribution","text":"create_distribution(nnodes::Int64, size::Int64)\n\nCalculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded\n\nArguments\n\nnnodes::Int64: The number of nodes.\nsize::Int64: The number of cores.\n\nReturns\n\ndistribution::Array{Int64,1}: The distribution of the nodes.\npoint_to_core::Array{Int64,1}: The number of nodes in each rank.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_distribution_node_based","page":"IO Functions","title":"PeriLab.IO.create_distribution_node_based","text":"create_distribution_node_based(nnodes::Int64,nlist::Vector{Vector{Int64}}, size::Int64)\n\nCalculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded\n\nArguments\n\nnnodes::Int64: The number of nodes.\nnlist::Vector{Vector{Int64}}: The neighborhood list.\nsize::Int64: The number of cores.\n\nReturns\n\ndistribution::Array{Int64,1}: The distribution of the nodes.\npoint_to_core::Array{Int64,1}: The number of nodes in each rank.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.create_distribution_neighbor_based","page":"IO Functions","title":"PeriLab.IO.create_distribution_neighbor_based","text":"create_distribution_neighbor_based(nnodes::Int64,nlist::Vector{Vector{Int64}}, size::Int64)\n\nCalculate the initial size of each chunk for a nearly equal number of nodes vs. cores this algorithm might lead to the problem, that the last core is not equally loaded\n\nArguments\n\nnnodes::Int64: The number of nodes.\nnlist::Vector{Vector{Int64}}: The neighborhood list.\nsize::Int64: The number of cores.\n\nReturns\n\ndistribution::Array{Int64,1}: The distribution of the nodes.\npoint_to_core::Array{Int64,1}: The number of nodes in each rank.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.neighbors","page":"IO Functions","title":"PeriLab.IO.neighbors","text":"neighbors(mesh, params::Dict, coor)\n\nCompute the neighbor list for each node in a mesh based on their proximity using a BallTree data structure.\n\nArguments\n\nmesh: A mesh data structure containing the coordinates and other information.\nparams: paramss needed for computing the neighbor list.\ncoor: A vector of coordinate names along which to compute the neighbor list.\n\nReturns\n\nAn array of neighbor lists, where each element represents the neighbors of a node in the mesh.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.bond_intersects_disc","page":"IO Functions","title":"PeriLab.IO.bond_intersects_disc","text":"bond_intersects_disc(p0::Vector{Float64}, p1::Vector{Float64}, center::Vector{Float64}, normal::Vector{Float64}, radius::Float64)\n\nCheck if a line segment intersects a disk.\n\nArguments\n\np0::Vector{Float64}: The start point of the line segment.\np1::Vector{Float64}: The end point of the line segment.\ncenter::Vector{Float64}: The center of the disk.\nnormal::Vector{Float64}: The normal of the plane.\nradius::Float64: The radius of the disk.\n\nReturns\n\nBool: True if the line segment intersects the disk, False otherwise.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.bond_intersect_infinite_plane","page":"IO Functions","title":"PeriLab.IO.bond_intersect_infinite_plane","text":"bond_intersect_infinite_plane(p0::Vector{Float64}, p1::Vector{Float64}, lower_left_corner::Vector{Float64}, normal::Vector{Float64})\n\nCheck if a line segment intersects an infinite plane.\n\nArguments\n\np0::Vector{Float64}: The start point of the line segment.\np1::Vector{Float64}: The end point of the line segment.\nlower_left_corner::Vector{Float64}: The lower left corner of the plane.\nnormal::Vector{Float64}: The normal of the plane.\n\nReturns\n\nBool: True if the line segment intersects the plane, False otherwise.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.bond_intersect_rectangle_plane","page":"IO Functions","title":"PeriLab.IO.bond_intersect_rectangle_plane","text":"bond_intersect_rectangle_plane(x::Vector{Float64}, lower_left_corner::Vector{Float64}, bottom_unit_vector::Vector{Float64}, normal::Vector{Float64}, side_length::Float64, bottom_length::Float64)\n\nCheck if a bond intersects a rectangle plane.\n\nArguments\n\nx::Vector{Float64}: The point.\nlower_left_corner::Vector{Float64}: The lower left corner of the rectangle.\nbottom_unit_vector::Vector{Float64}: The unit vector along the bottom of the rectangle.\nnormal::Vector{Float64}: The normal of the plane.\nside_length::Float64: The side length of the rectangle.\nbottom_length::Float64: The bottom length of the rectangle.\n\nReturns\n\nBool: True if the point is inside the rectangle, False otherwise.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.apply_bond_filters","page":"IO Functions","title":"PeriLab.IO.apply_bond_filters","text":"apply_bond_filters(nlist::Vector{Vector{Int64}}, mesh::DataFrame, params::Dict, dof::Int64)\n\nApply the bond filters to the neighborhood list.\n\nArguments\n\nnlist::Vector{Vector{Int64}}: The neighborhood list.\nmesh::DataFrame: The mesh.\nparams::Dict: The parameters.\ndof::Int64: The degrees of freedom.\n\nReturns\n\nnlist::Vector{Vector{Int64}}: The filtered neighborhood list.\nnlist_filtered_ids::Vector{Vector{Int64}}: The filtered neighborhood list.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.disk_filter","page":"IO Functions","title":"PeriLab.IO.disk_filter","text":"disk_filter(nnodes::Int64, data::Matrix{Float64}, filter::Dict, nlist::Vector{Vector{Int64}}, dof::Int64)\n\nApply the disk filter to the neighborhood list.\n\nArguments\n\nnnodes::Int64: The number of nodes.\ndata::Matrix{Float64}: The data.\nfilter::Dict: The filter.\nnlist::Vector{Vector{Int64}}: The neighborhood list.\ndof::Int64: The degrees of freedom.\n\nReturns\n\nfilter_flag::Vector{Bool}: The filter flag.\nnormal::Vector{Float64}: The normal vector of the disk.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.rectangular_plane_filter","page":"IO Functions","title":"PeriLab.IO.rectangular_plane_filter","text":"rectangular_plane_filter(nnodes::Int64, data::Matrix{Float64}, filter::Dict, nlist::Vector{Vector{Int64}}, dof::Int64)\n\nApply the rectangular plane filter to the neighborhood list.\n\nArguments\n\nnnodes::Int64: The number of nodes.\ndata::Matrix{Float64}: The data.\nfilter::Dict: The filter.\nnlist::Vector{Vector{Int64}}: The neighborhood list.\ndof::Int64: The degrees of freedom.\n\nReturns\n\nfilter_flag::Vector{Bool}: The filter flag.\nnormal::Vector{Float64}: The normal vector of the disk.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.glob_to_loc","page":"IO Functions","title":"PeriLab.IO.glob_to_loc","text":"glob_to_loc(distribution)\n\nGet the global to local mapping\n\nArguments\n\ndistribution: The distribution\n\nReturns\n\nglob_to_loc: The global to local mapping\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.check_for_duplicate_in_dataframe","page":"IO Functions","title":"PeriLab.IO.check_for_duplicate_in_dataframe","text":"check_for_duplicate_in_dataframe(mesh::DataFrame)\n\ncheck duplicated entries and throws an error if one is there. If not everything is ok.\n\nArguments\n\nmesh::DataFrame: The input mesh data represented as a DataFrame.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.check_types_in_dataframe","page":"IO Functions","title":"PeriLab.IO.check_types_in_dataframe","text":"check_types_in_dataframe(mesh::DataFrame)\n\ncheck if block_id in mesh contains only int.\n\nArguments\n\nmesh::DataFrame: The input mesh data represented as a DataFrame.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO.Geometry","category":"page"},{"location":"lib/io_functions/#Geometry","page":"IO Functions","title":"Geometry","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"bond_geometry\nshape_tensor\ndeformation_gradient\nstrain\nrotation_tensor","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.Geometry.bond_geometry","page":"IO Functions","title":"PeriLab.IO.Geometry.bond_geometry","text":" bond_geometry(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, nlist, coor, undeformed_bond)\n\nCalculate bond geometries between nodes based on their coordinates.\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: A vector of integers representing node IDs.\ndof::Int64: An integer representing the degrees of freedom.\nnlist: A data structure (e.g., a list or array) representing neighboring node IDs for each node.\ncoor: A matrix representing the coordinates of each node.\nundeformed_bond: A preallocated array or data structure to store bond geometries.\n\nOutput\n\nundeformed_bond: An updated undeformed_bond array with calculated bond geometries.\n\nDescription\n\nThis function calculates bond geometries between nodes. For each node in nodes, it computes the bond vector between the node and its neighboring nodes based on their coordinates. It also calculates the distance (magnitude) of each bond vector.\n\nIf the distance of any bond vector is found to be zero, indicating identical point coordinates, an error is raised.\n\nExample\n\n```julia  nodes = [1, 2, 3]  dof = 2  nlist = [[2, 3], [1, 3], [1, 2]]  coor = [0.0 0.0; 1.0 0.0; 0.0 1.0]  undeformed_bond = zeros(Float64, length(nodes), length(nlist[1]), dof + 1)\n\nundeformedbond(nodes, dof, nlist, coor, undeformedbond)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Geometry.shape_tensor","page":"IO Functions","title":"PeriLab.IO.Geometry.shape_tensor","text":"shape_tensor(nodes::Union{SubArray, Vector{Int64}}, dof::Int64, nlist, volume, omega, bond_damage, undeformed_bond, shapeTensor, inverse_shape_tensor)\n\nCalculate the shape tensor and its inverse for a set of nodes in a computational mechanics context.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: A vector of integers representing node IDs.\ndof::Int64: An integer representing the degrees of freedom.\nnlist: A data structure (e.g., a list or array) representing neighboring node IDs for each node.\nvolume: A vector or array containing volume information for each node.\nomega: A vector or array containing omega information for each node.\nbond_damage: A data structure representing bond damage for each node.\nundeformed_bond: A data structure representing bond geometries for each node.\nshapeTensor: A preallocated 3D array to store the shape tensors for each node.\ninverse_shape_tensor: A preallocated 3D array to store the inverse shape tensors for each node.\n\nOutput\n\nshapeTensor: An updated shapeTensor array with calculated shape tensors.\ninverse_shape_tensor: An updated inverse_shape_tensor array with calculated inverse shape tensors.\n\nDescription\n\nThis function calculates the shape tensor and its inverse for a set of nodes in a computational mechanics context. The shape tensor is a key quantity used in continuum mechanics to describe material deformation. It is calculated based on bond damage, bond geometries, volume, and omega information for each node.\n\nFor each node in nodes, the function iterates through degrees of freedom (dof) and computes elements of the shape tensor. The inverse of the shape tensor is also calculated and stored in inverse_shape_tensor.\n\nExample\n\n```julia nodes = [1, 2, 3] dof = 3 nlist = [[2, 3], [1, 3], [1, 2]] volume = [0.1, 0.2, 0.3] omega = [0.5, 0.4, 0.6] bonddamage = zeros(Float64, length(nodes), length(nlist[1])) undeformedbond = rand(Float64, length(nodes), length(nlist[1]), dof) shapeTensor = zeros(Float64, length(nodes), dof, dof) inverseshapetensor = zeros(Float64, length(nodes), dof, dof)\n\nshapetensor(nodes, dof, nlist, volume, omega, bonddamage, undeformedbond, shapeTensor, inverseshape_tensor)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Geometry.deformation_gradient","page":"IO Functions","title":"PeriLab.IO.Geometry.deformation_gradient","text":"deformation_gradient(nodes::Union{SubArray, Vector{Int64}}, dof::Int64, nlist, volume, omega, bond_damage, undeformed_bond, deformed_bond, inverse_shape_tensor, deformation_gradient)\n\nCalculate the deformation gradient tensor for a set of nodes in a computational mechanics context.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: A vector of integers representing node IDs.\ndof::Int64: An integer representing the degrees of freedom.\nnlist: A data structure (e.g., a list or array) representing neighboring node IDs for each node.\nvolume: A vector or array containing volume information for each node.\nomega: A vector or array containing omega information for each node.\nbond_damage: A data structure representing bond damage for each node.\nundeformed_bond: A data structure representing bond geometries for each node.\ndeformed_bond: A data structure representing deformed bond properties for each node.\ninverse_shape_tensor: A data structure representing the inverse shape tensors for each node.\ndeformation_gradient: A preallocated 3D array to store the deformation gradient tensors for each node.\n\nOutput\n\ndeformation_gradient: An updated deformation_gradient array with calculated deformation gradient tensors.\n\nDescription\n\nThis function calculates the deformation gradient tensor for a set of nodes in a computational mechanics context. The deformation gradient tensor characterizes the deformation of a material.\n\nFor each node in nodes, the function iterates through degrees of freedom (dof) and computes elements of the deformation gradient tensor based on bond damage, deformed bond properties, bond geometries, volume, and omega information. The calculated deformation gradient tensor is stored in deformation_gradient.\n\nExample\n\n```julia nodes = [1, 2, 3] dof = 3 nlist = [[2, 3], [1, 3], [1, 2]] volume = [0.1, 0.2, 0.3] omega = [0.5, 0.4, 0.6] bonddamage = zeros(Float64, length(nodes), length(nlist[1])) undeformedbond = rand(Float64, length(nodes), length(nlist[1]), dof) deformedbond = rand(Float64, length(nodes), length(nlist[1]), dof) inverseshapetensor = rand(Float64, length(nodes), dof, dof) deformationgradient = zeros(Float64, length(nodes), dof, dof)\n\ndeformationgradient(nodes, dof, nlist, volume, omega, bonddamage, undeformedbond, deformedbond, inverseshapetensor, deformation_gradient)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Geometry.strain","page":"IO Functions","title":"PeriLab.IO.Geometry.strain","text":"function strain(nodes::Union{SubArray, Vector{Int64}}, deformation_gradient, strain)\n\nCalculate strains for specified nodes based on deformation gradients.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: List of nodes\ndeformation_gradient: Deformation gradient at current time step (2D or 3D array).\n\nReturns\n\nUpdated strain array containing strains.\n\nThis function iterates over the specified nodes and computes strain at each node using the given deformation gradients.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Geometry.rotation_tensor","page":"IO Functions","title":"PeriLab.IO.Geometry.rotation_tensor","text":"function rotation_tensor(angles::Vector{Float64})\n\nCreates the rotation tensor for 2D or 3D applications. Uses Rotations.jl package.\n\nArguments\n\nangles::Vector{Float64}: Vector of angles definede in degrees of length one or three\n\nReturns\n\nRotation tensor\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#Read*Input*Deck","page":"IO Functions","title":"ReadInputDeck","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"read_input\nread_input_file","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.read_input","page":"IO Functions","title":"PeriLab.IO.read_input","text":"read_input(filename::String)\n\nReads the input deck from a yaml file\n\nArguments\n\nfilename::String: The name of the yaml file\n\nReturns\n\nparams::Dict{String,Any}: The parameters read from the yaml file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.read_input_file","page":"IO Functions","title":"PeriLab.IO.read_input_file","text":"read_input_file(filename::String)\n\nReads the input deck from a yaml file\n\nArguments\n\nfilename::String: The name of the yaml file\n\nReturns\n\nparams::Dict{String,Any}: The parameters read from the yaml file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#MPI","page":"IO Functions","title":"MPI","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"send_single_value_from_vector\nsynch_responder_to_controller\nsynch_controller_to_responder\nsynch_controller_bonds_to_responder\nsplit_vector\nsynch_controller_bonds_to_responder_flattened\nsend_vectors_to_cores\nsend_vector_from_root_to_core_i\nsend_value\nget_vector\nrecv_vector_from_root\nfind_and_set_core_value_min\nfind_and_set_core_value_max\nfind_and_set_core_value_sum\nfind_and_set_core_value_avg\ngather_values","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.send_single_value_from_vector","page":"IO Functions","title":"PeriLab.IO.send_single_value_from_vector","text":"send_single_value_from_vector(comm::MPI.Comm, controller::Int64, values::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}, type::Type)\n\nSends a single value from a vector to a controller\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\ncontroller::Int64: The controller\nvalues::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The values\ntype::Type: The type\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.synch_responder_to_controller","page":"IO Functions","title":"PeriLab.IO.synch_responder_to_controller","text":"synch_responder_to_controller(comm::MPI.Comm, overlapnodes, vector, dof)\n\nSynch the responder to the controller\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\noverlapnodes::Dict: The overlap nodes\nvector::Vector: The vector\ndof::Int: The degree of freedom\n\nReturns\n\nvector::Vector: The vector\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.synch_controller_to_responder","page":"IO Functions","title":"PeriLab.IO.synch_controller_to_responder","text":"synch_controller_to_responder(comm::MPI.Comm, overlapnodes, vector, dof)\n\nSynch the controller to the responder\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\noverlapnodes::Dict: The overlap nodes\nvector::Vector: The vector\ndof::Int: The degree of freedom\n\nReturns\n\nvector::Vector: The vector\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.synch_controller_bonds_to_responder","page":"IO Functions","title":"PeriLab.IO.synch_controller_bonds_to_responder","text":"synch_controller_bonds_to_responder(comm::MPI.Comm, overlapnodes, array, dof)\n\nSynch the controller bonds to the responder\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\noverlapnodes::Dict: The overlap nodes\narray::Array: The array\ndof::Int: The degree of freedom\n\nReturns\n\narray::Array: The array\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.split_vector","page":"IO Functions","title":"PeriLab.IO.split_vector","text":"split_vector(input, row_nums, dof)\n\nSplit a vector into a vector of matrices\n\nArguments\n\ninput::Vector: The input vector\nrow_nums::Vector: The row numbers\ndof::Int: The degree of freedom\n\nReturns\n\nresult::Vector: The result vector\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.synch_controller_bonds_to_responder_flattened","page":"IO Functions","title":"PeriLab.IO.synch_controller_bonds_to_responder_flattened","text":"synch_controller_bonds_to_responder_flattened(comm::MPI.Comm, overlapnodes, array, dof)\n\nSynch the controller bonds to the responder\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\noverlapnodes::Dict: The overlap nodes\narray::Array: The array\ndof::Int: The degree of freedom\n\nReturns\n\narray::Array: The array\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.send_vectors_to_cores","page":"IO Functions","title":"PeriLab.IO.send_vectors_to_cores","text":"send_vectors_to_cores(comm::MPI.Comm, controller, values, type)\n\nSends a vector to a controller\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\ncontroller::Int64: The controller\nvalues::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The values\ntype::Type: The type\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.send_vector_from_root_to_core_i","page":"IO Functions","title":"PeriLab.IO.send_vector_from_root_to_core_i","text":"send_vector_from_root_to_core_i(comm::MPI.Comm, send_msg, recv_msg, distribution)\n\nSends a vector from the root to the core i\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nsend_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The send message\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The receive message\ndistribution::Vector{Int64}: The distribution\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.send_value","page":"IO Functions","title":"PeriLab.IO.send_value","text":"send_value(comm::MPI.Comm, controller, send_msg)\n\nSends a value to a controller\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\ncontroller::Int64: The controller\nsend_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The send message\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_vector","page":"IO Functions","title":"PeriLab.IO.get_vector","text":"get_vector(comm::MPI.Comm, vector, topo)\n\nGets a vector from all cores\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvector::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The vector\ntopo::Vector{Vector{Tuple{Int64,Int64}}}: The topology\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.recv_vector_from_root","page":"IO Functions","title":"PeriLab.IO.recv_vector_from_root","text":"recv_vector_from_root(comm::MPI.Comm, recv_msg)\n\nReceives a vector from the root\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The receive message\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.find_and_set_core_value_min","page":"IO Functions","title":"PeriLab.IO.find_and_set_core_value_min","text":"find_and_set_core_value_min(comm::MPI.Comm, value::Union{Float64,Int64})\n\nFind and set core value min\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvalue::Union{Float64,Int64}: The value\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.find_and_set_core_value_max","page":"IO Functions","title":"PeriLab.IO.find_and_set_core_value_max","text":"find_and_set_core_value_max(comm::MPI.Comm, value::Union{Float64,Int64})\n\nFind and set core value max\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvalue::Union{Float64,Int64}: The value\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.find_and_set_core_value_sum","page":"IO Functions","title":"PeriLab.IO.find_and_set_core_value_sum","text":"find_and_set_core_value_sum(comm::MPI.Comm, value::Union{Float64,Int64})\n\nFind and set core value sum\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvalue::Union{Float64,Int64}: The value\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.find_and_set_core_value_avg","page":"IO Functions","title":"PeriLab.IO.find_and_set_core_value_avg","text":"find_and_set_core_value_avg(comm::MPI.Comm, value::Union{Float64,Int64})\n\nFind and set core value avg\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvalue::Union{Float64,Int64}: The value\n\nReturns\n\nrecv_msg::Union{Int64,Vector{Float64},Vector{Int64},Vector{Bool}}: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.gather_values","page":"IO Functions","title":"PeriLab.IO.gather_values","text":"gather_values(comm::MPI.Comm, value::Any)\n\nGather values\n\nArguments\n\ncomm::MPI.Comm: The MPI communicator\nvalue::Any: The value\n\nReturns\n\nrecv_msg::Any: The received message\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#Write*Exodus*Results","page":"IO Functions","title":"WriteExodusResults","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"create_result_file\nparaview_specifics\nget_paraview_coordinates\nget_block_nodes\ninit_results_in_exodus\nwrite_step_and_time\nwrite_nodal_results_in_exodus\nwrite_global_results_in_exodus\nmerge_exodus_file","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.create_result_file","page":"IO Functions","title":"PeriLab.IO.create_result_file","text":"create_result_file(filename::Union{AbstractString,String}, num_nodes::Int64, num_dim::Int64, num_elem_blks::Int64, num_node_sets::Int64)\n\nCreates a exodus file for the results\n\nArguments\n\nfilename::Union{AbstractString,String}: The name of the file to create\nnum_nodes::Int64: The number of nodes\nnum_dim::Int64: The number of dimensions\nnum_elem_blks::Int64: The number of element blocks\nnum_node_sets::Int64: The number of node sets\n\nReturns\n\nresult_file::Dict{String,Any}: A dictionary containing the filename and the exodus file\n\n\n\n\n\ncreate_result_file(filename::String, outputs::Dict)\n\nCreates a csv file for the results\n\nArguments\n\nfilename::String: The name of the file to create\noutputs::Dict: The outputs dictionary\n\nReturns\n\nDict: The result file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.paraview_specifics","page":"IO Functions","title":"PeriLab.IO.paraview_specifics","text":"paraview_specifics(dof::Int64)\n\nReturns the paraview specific dof\n\nArguments\n\ndof::Int64: The degrees of freedom\n\nReturns\n\nparaview_specifics::String: The paraview specific dof\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_paraview_coordinates","page":"IO Functions","title":"PeriLab.IO.get_paraview_coordinates","text":"get_paraview_coordinates(dof::Int64, refDof::Int64)\n\nReturns the paraview specific dof\n\nArguments\n\ndof::Int64: The degrees of freedom\nrefDof::Int64: The reference degrees of freedom\n\nReturns\n\nparaview_specifics::String: The paraview specific dof\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.get_block_nodes","page":"IO Functions","title":"PeriLab.IO.get_block_nodes","text":"get_block_nodes(block_Id::Union{SubArray,Vector{Int64}}, block::Int64)\n\nReturns the nodes of a block\n\nArguments\n\nblock_Id::Union{SubArray,Vector{Int64}}: The block Id\nblock::Int64: The block\n\nReturns\n\nnodes::Vector{Int64}: The nodes of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.init_results_in_exodus","page":"IO Functions","title":"PeriLab.IO.init_results_in_exodus","text":"init_results_in_exodus(exo::ExodusDatabase, output::Dict{}, coords::Union{Matrix{Int64},Matrix{Float64}}, block_Id::Vector{Int64}, uniqueBlocks::Vector{Int64}, nsets::Dict{String,Vector{Int64}}, global_ids::Vector{Int64}, PERILAB_VERSION::String)\n\nInitializes the results in exodus\n\nArguments\n\nexo::ExodusDatabase: The exodus database\noutput::Dict{String,Any}: The output\ncoords::Union{Matrix{Int64},Matrix{Float64}}: The coordinates\nblock_Id::Vector{Int64}: The block Id\nuniqueBlocks::Vector{Int64}: The unique blocks\nnsets::Dict{String,Vector{Int64}}: The node sets\nglobal_ids::Vector{Int64}: The global ids\n\nReturns\n\nresult_file::Dict{String,Any}: The result file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.write_step_and_time","page":"IO Functions","title":"PeriLab.IO.write_step_and_time","text":"write_step_and_time(exo::ExodusDatabase, step::Int64, time::Float64)\n\nWrites the step and time in the exodus file\n\nArguments\n\nexo::ExodusDatabase: The exodus file\nstep::Int64: The step\ntime::Float64: The time\n\nReturns\n\nexo::ExodusDatabase: The exodus file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.write_nodal_results_in_exodus","page":"IO Functions","title":"PeriLab.IO.write_nodal_results_in_exodus","text":"write_nodal_results_in_exodus(exo::ExodusDatabase, step::Int64, output::Dict, datamanager::Module)\n\nWrites the nodal results in the exodus file\n\nArguments\n\nexo::ExodusDatabase: The exodus file\nstep::Int64: The step\noutput::Dict: The output\ndatamanager::Module: The datamanager\n\nReturns\n\nexo::ExodusDatabase: The exodus file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.write_global_results_in_exodus","page":"IO Functions","title":"PeriLab.IO.write_global_results_in_exodus","text":"write_global_results_in_exodus(exo::ExodusDatabase, step::Int64, output::Dict, global_values)\n\nWrites the global results in the exodus file\n\nArguments\n\nexo::ExodusDatabase: The exodus file\nstep::Int64: The step\noutput::Dict: The output\nglobal_values: The global values\n\nReturns\n\nexo::ExodusDatabase: The exodus file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.merge_exodus_file","page":"IO Functions","title":"PeriLab.IO.merge_exodus_file","text":"merge_exodus_file(file_name::Union{AbstractString,String})\n\nMerges the exodus file\n\nArguments\n\nfile_name::Union{AbstractString,String}: The name of the file to merge\n\nReturns\n\nexo::ExodusDatabase: The exodus file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO","category":"page"},{"location":"lib/io_functions/#Write*CSV*Results","page":"IO Functions","title":"WriteCSVResults","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"write_global_results_in_csv","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.write_global_results_in_csv","page":"IO Functions","title":"PeriLab.IO.write_global_results_in_csv","text":"write_global_results_in_csv(csv_file::IOStream, time::Float64, global_values)\n\nWrites the global results to the csv file\n\nArguments\n\ncsv_file::IOStream: The csv file\nglobal_values: The global values\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.Solver.Helpers","category":"page"},{"location":"lib/io_functions/#Helpers","page":"IO Functions","title":"Helpers","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"find_indices\nfind_active\nget_active_update_nodes\nfind_files_with_ending\ncheck_inf_or_nan\nmatrix_style\nprogress_bar\nget_fourth_order\nfind_inverse_bond_id","category":"page"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.find_indices","page":"IO Functions","title":"PeriLab.Solver.Helpers.find_indices","text":"find_indices(vector, what)\n\nReturns the indices of vector that are equal to what.\n\nArguments\n\nvector::Vector: The vector to search in.\nwhat: The value to search for.\n\nReturns\n\nindices::Vector: The indices of vector that are equal to what.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.find_active","page":"IO Functions","title":"PeriLab.Solver.Helpers.find_active","text":"find_active(active::Vector{Bool})\n\nReturns the indices of active that are true.\n\nArguments\n\nactive::Vector{Bool}: The vector to search in.\n\nReturns\n\nindices::Vector: The indices of active that are true.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.get_active_update_nodes","page":"IO Functions","title":"PeriLab.Solver.Helpers.get_active_update_nodes","text":"get_active_update_nodes(active::SubArray, update_list::SubArray, block_nodes::Dict{Int64,Vector{Int64}}, block::Int64)\n\nReturns the active nodes and the update nodes.\n\nArguments\n\nactive::SubArray: The active vector.\nupdate_list::SubArray: The update vector.\nblock_nodes::Dict{Int64,Vector{Int64}}: The vector to search in.\nblock::Int64: The block_id.\n\nReturns\n\nactive_nodes::Vector{Int64}: The nodes of active that are true.\nupdate_nodes::Vector{Int64}: The nodes of update that are true.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.find_files_with_ending","page":"IO Functions","title":"PeriLab.Solver.Helpers.find_files_with_ending","text":"find_files_with_ending(folder_path::AbstractString, file_ending::AbstractString)\n\nReturns a list of files in folder_path that end with file_ending.\n\nArguments\n\nfolder_path::AbstractString: The path to the folder.\nfile_ending::AbstractString: The ending of the files.\n\nReturns\n\nfile_list::Vector{String}: The list of files that end with file_ending.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.check_inf_or_nan","page":"IO Functions","title":"PeriLab.Solver.Helpers.check_inf_or_nan","text":"check_inf_or_nan(array, msg)\n\nChecks if the sum of the array is finite. If not, an error is raised.\n\nArguments\n\narray: The array to check.\nmsg: The error message to raise.\n\nReturns\n\nBool: true if the sum of the array is finite, false otherwise.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.matrix_style","page":"IO Functions","title":"PeriLab.Solver.Helpers.matrix_style","text":"matrix_style(A)\n\nInclude a scalar or an array and reshape it to style needed for LinearAlgebra package\n\nArguments\n\nA: The array or scalar to reshape\n\nReturns\n\nArray: The reshaped array\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.progress_bar","page":"IO Functions","title":"PeriLab.Solver.Helpers.progress_bar","text":"progress_bar(rank::Int64, nsteps::Int64, silent::Bool)\n\nCreate a progress bar if the rank is 0. The progress bar ranges from 1 to nsteps + 1.\n\nArguments\n\nrank::Int64: An integer to determine if the progress bar should be created.\nnsteps::Int64: The total number of steps in the progress bar.\nsilent::Bool: de/activates the progress bar\n\nReturns\n\nProgressBar or UnitRange: If rank is 0, a ProgressBar object is returned. Otherwise, a range from 1 to nsteps + 1 is returned.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.get_fourth_order","page":"IO Functions","title":"PeriLab.Solver.Helpers.get_fourth_order","text":"get_fourth_order(CVoigt, dof)\n\nConstructs a symmetric fourth-order tensor from a Voigt notation vector. It uses Tensors.jl package.\n\nThis function takes a Voigt notation vector CVoigt and the degree of freedom dof  to create a symmetric fourth-order tensor. The CVoigt vector contains components  that represent the tensor in Voigt notation, and dof specifies the dimension  of the tensor.\n\nArguments\n\nCVoigt::Matrix{Float64}: A vector containing components of the tensor in Voigt notation.\ndof::Int64: The dimension of the resulting symmetric fourth-order tensor.\n\nReturns\n\nSymmetricFourthOrderTensor{dof}: A symmetric fourth-order tensor of dimension dof.\n\nExample\n\n```julia CVoigt = [1.0, 2.0, 3.0, 4.0, 5.0, 6.0] dof = 3 result = getfourthorder(CVoigt, dof)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Helpers.find_inverse_bond_id","page":"IO Functions","title":"PeriLab.Solver.Helpers.find_inverse_bond_id","text":"find_inverse_bond_id(nlist::SubArray)\n\nFinds the inverse of the bond id in the nlist.\n\nArguments\n\nnlist::SubArray: The nlist to find the inverse of.\n\nReturns\n\ninverse_nlist::Vector{Dict{Int64,Int64}}: The inverse nlist.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.Solver.Physics.Pre_calculation","category":"page"},{"location":"lib/io_functions/#Pre_calculation","page":"IO Functions","title":"Pre_calculation","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"compute\ninit_pre_calculation\nBond_Deformation.compute\nBond_Deformation_Gradient.compute\nBond_Shape_Tensor.compute\nDeformation_Gradient.compute\nShape_Tensor.compute","category":"page"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.compute","text":"compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, options, time::Float64, dt::Float64)\n\nCompute the pre-calculation.\n\nArguments\n\ndatamanager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\noptions: Options.\ntime::Float64: Time.\ndt::Float64: Time step.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.init_pre_calculation","text":"init_pre_calculation(datamanager::Module, options::Dict)\n\nInitialize the pre-calculation.\n\nArguments\n\ndatamanager: Datamanager.\noptions::Dict: Options.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation.compute","text":"compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, time::Float64)\n\nCompute the bond deformation.\n\nArguments\n\ndatamanager: Datamanager.\nnodes: List of nodes.\ntime: Time.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.Bond_Deformation_Gradient.compute","text":"compute(datamanager, nodes)\n\nCompute the bond deformation gradient.\n\nArguments\n\ndatamanager: Datamanager.\nnodes: List of nodes.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.Bond_Shape_Tensor.compute","text":"compute(datamanager, nodes)\n\nCompute the bond shape tensor.\n\nArguments\n\ndatamanager: Datamanager.\nnodes: List of nodes.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.Deformation_Gradient.compute","text":"compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nCompute the deformation gradient.\n\nArguments\n\ndatamanager: Datamanager.\nnodes: List of nodes.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute","page":"IO Functions","title":"PeriLab.Solver.Physics.Pre_calculation.Shape_Tensor.compute","text":"compute(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nCompute the shape tensor.\n\nArguments\n\ndatamanager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\n\nReturns\n\ndatamanager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.IO.Parameter_Handling","category":"page"},{"location":"lib/io_functions/#parameter_handling","page":"IO Functions","title":"parameter_handling","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"validate_yaml\nvalidate_structure_recursive\nget_all_keys\nget_density\nget_heat_capacity\nget_horizon\nget_values\nget_number_of_blocks\nget_block_models\nget_computes_names\nget_output_variables\nget_computes\nget_node_set\nget_mesh_name\nget_topology_name\nget_bond_filters\nget_node_sets\ncheck_for_duplicates\nget_output_filenames\nget_output_type\nget_flush_file\nget_write_after_damage\nget_output_fieldnames\nget_outputs\nget_output_frequency\nget_model_parameter\nget_physics_option\nget_solver_name\nget_initial_time\nget_final_time\nget_safety_factor\nget_fixed_dt\nget_numerical_damping\nget_max_damage\nget_solver_options\nget_header","category":"page"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.validate_yaml","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.validate_yaml","text":"validate_yaml(params::Dict)\n\nValidates the parameters against the expected structure\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nparams::Dict: The parameters dictionary.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.validate_structure_recursive","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.validate_structure_recursive","text":"validate_structure_recursive(expected::Dict, actual::Dict, validate::Bool, checked_keys::Array, path::String=\"\")\n\nValidates the parameters against the expected structure\n\nArguments\n\nexpected::Dict: The expected structure\nactual::Dict: The actual structure\nvalidate::Bool: The validation results\nchecked_keys::Array: The keys that have been checked\npath::String: The current path\n\nReturns\n\nvalidate::Bool: The validation result\nchecked_keys::Array: The keys that have been checked\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_all_keys","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_all_keys","text":"get_all_keys(params::Dict)\n\nGet all the keys in the parameters\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nkeys_list::Array: The keys list\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_density","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_density","text":"get_density(params::Dict, block_id::Int64)\n\nGet the density of a block.\n\nArguments\n\nparams::Dict: The parameters\nblock_id::Int64: The ID of the block\n\nReturns\n\ndensity::Float64: The density of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_heat_capacity","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_heat_capacity","text":"get_heat_capacity(params::Dict, block_id::Int64)\n\nGet the heat capacity of a block.\n\nArguments\n\nparams::Dict: The parameters\nblock_id::Int64: The ID of the block\n\nReturns\n\nheat_capacity::Float64: The heat capacity of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_horizon","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_horizon","text":"get_horizon(params::Dict, block_id::Int64)\n\nGet the horizon of a block.\n\nArguments\n\nparams::Dict: The parameters\nblock_id::Int64: The ID of the block\n\nReturns\n\nhorizon::Float64: The horizon of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_values","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_values","text":"get_values(params::Dict, block_id::Int64, valueName::String)\n\nGet the value of a block.\n\nArguments\n\nparams::Dict: The parameters\nblock_id::Int64: The ID of the block\nvalueName::String: The name of the value\n\nReturns\n\nvalue::Float64: The value of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_number_of_blocks","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_number_of_blocks","text":"get_number_of_blocks(params::Dict)\n\nGet the number of blocks.\n\nArguments\n\nparams::Dict: The parameters\n\nReturns\n\nnumber_of_blocks::Int64: The number of blocks\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_block_models","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_block_models","text":"get_block_models(params::Dict, block_id::Int64)\n\nGet the models of a block.\n\nArguments\n\nparams::Dict: The parameters\nblock_id::Int64: The ID of the block\n\nReturns\n\nmodelDict::Dict{String,String}: The models of the block\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_computes_names","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_computes_names","text":"get_computes_names(params::Dict)\n\nGet the names of the computes.\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\ncomputes_names::Vector{String}: The names of the computes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_output_variables","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_output_variables","text":"get_output_variables(output::String, variables::Vector)\n\nGet the output variable.\n\nArguments\n\noutput::String: The output variable.\nvariables::Vector: The variables.\n\nReturns\n\noutput::String: The output variable.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_computes","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_computes","text":"get_computes(params::Dict, variables::Vector{String})\n\nGet the computes.\n\nArguments\n\nparams::Dict: The parameters dictionary.\nvariables::Vector{String}: The variables.\n\nReturns\n\ncomputes::Dict{String,Dict{Any,Any}}: The computes.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_node_set","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_node_set","text":"get_node_set(computes::Dict, path::String, params::Dict)\n\nGet the node set.\n\nArguments\n\ncomputes::Dict: The computes dictionary.\npath::String: The path to the mesh.\nparams::Dict: The parameters dictionary.\n\nReturns\n\nnodeset::Vector: The node set.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_mesh_name","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_mesh_name","text":"get_mesh_name(params::Dict)\n\nReturns the name of the mesh file from the parameters\n\nArguments\n\nparams::Dict: The parameters\n\nReturns\n\nString: The name of the mesh file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_topology_name","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_topology_name","text":"get_topology_name(params::Dict)\n\nReturns the name of the topology file from the parameters\n\nArguments\n\nparams::Dict: The parameters\n\nReturns\n\ncheck::Bool: Whether the topology file is defined\ntopoFile::String: The name of the topology file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_bond_filters","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_bond_filters","text":"get_bond_filters(params::Dict)\n\nReturns the bond filters from the parameters\n\nArguments\n\nparams::Dict: The parameters\n\nReturns\n\ncheck::Bool: Whether the bond filters are defined\nbfList::Dict{String,Dict{String,Any}}: The bond filters\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_node_sets","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_node_sets","text":"get_node_sets(params::Dict, path::String)\n\nReturns the node sets from the parameters\n\nArguments\n\nparams::Dict: The parameters\npath::String: The path to the mesh file\n\nReturns\n\nnsets::Dict{String,Any}: The node sets\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.check_for_duplicates","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.check_for_duplicates","text":"check_for_duplicates(filenames)\n\nCheck for duplicate filenames.\n\nArguments\n\nfilenames::Vector{String}: The filenames\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_output_filenames","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_output_filenames","text":"get_output_filenames(params::Dict, output_dir::String)\n\nGets the output filenames.\n\nArguments\n\nparams::Dict: The parameters\noutput_dir::String: The file directory\n\nReturns\n\nfilenames::Vector{String}: The filenames\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_output_type","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_output_type","text":"get_output_type(outputs::Dict, output::String)\n\nGets the output type.\n\nArguments\n\noutputs::Dict: The outputs\noutput::String: The output\n\nReturns\n\noutput_type::String: The output type\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_flush_file","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_flush_file","text":"get_flush_file(outputs::Dict, output::String)\n\nGets the flush file.\n\nArguments\n\noutputs::Dict: The outputs\noutput::String: The output\n\nReturns\n\nflush_file::Bool: The flush file\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_write_after_damage","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_write_after_damage","text":"get_write_after_damage(outputs::Dict, output::String)\n\nGet the write after damage.\n\nArguments\n\noutputs::Dict: The outputs\noutput::String: The output\n\nReturns\n\nwrite_after_damage::Bool: The value\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_output_fieldnames","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_output_fieldnames","text":"get_output_fieldnames(outputs::Dict, variables::Vector{String}, computes::Vector{String}, output_type::String)\n\nGets the output fieldnames.\n\nArguments\n\noutputs::Dict: The outputs\nvariables::Vector{String}: The variables\ncomputes::Vector{String}: The computes\noutput_type::String: The output type\n\nReturns\n\noutput_fieldnames::Vector{String}: The output fieldnames\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_outputs","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_outputs","text":"get_outputs(params::Dict, variables::Vector{String}, compute_names::Vector{String})\n\nGets the outputs.\n\nArguments\n\nparams::Dict: The parameters\nvariables::Vector{String}: The variables\ncompute_names::Vector{String}: The compute names\n\nReturns\n\noutputs::Dict: The outputs\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_output_frequency","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_output_frequency","text":"get_output_frequency(params::Dict, nsteps::Int64)\n\nGets the output frequency.\n\nArguments\n\nparams::Dict: The parameters\nnsteps::Int64: The number of steps\n\nReturns\n\nfreq::Vector{Int64}: The output frequency\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_model_parameter","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_model_parameter","text":"get_model_parameter(params, model, id)\n\nRetrieve a model parameter from a dictionary of parameters.\n\nThis function retrieves a specific model parameter from a dictionary of parameters based on the provided model and identifier (id).\n\nArguments\n\nparams::Dict: A dictionary containing various parameters.\nmodel::String: The model type for which the parameter is sought.\nid::String: The identifier (name) of the specific model parameter.\n\nReturns\n\nparameter::Any: The retrieved model parameter, or nothing if the parameter is not found.\n\nErrors\n\nIf the specified model is defined in blocks but no model definition block exists, an error message is logged, and the function returns nothing.\nIf the model with the given identifier is defined in blocks but missing in the model's definition, an error message is logged, and the function returns nothing.\n\nExample\n\n```julia params = Dict(     \"Physics\" => Dict(         \"Models\" => Dict(             \"ModelA\" => 42,             \"ModelB\" => 24         )     ) )\n\nmodel = \"Models\" id = \"ModelA\"\n\nresult = getmodelparameter(params, model, id) if result !== nothing     println(\"Parameter id: result\") else     println(\"Parameter not found.\") end\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_physics_option","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_physics_option","text":"get_physics_option(params, options)\n\nProcess physics-related options based on the provided parameters.\n\nThis function processes physics-related options based on the parameters dictionary and updates the options dictionary accordingly.\n\nArguments\n\nparams::Dict: A dictionary containing various parameters, including physics-related information.\noptions::Dict: A dictionary containing options to be updated based on the physics parameters.\n\nReturns\n\nupdated_options::Dict: A dictionary containing updated options based on the physics parameters.\n\nErrors\n\nIf the 'Pre Calculation' section exists in the 'Physics' block but does not contain required options, an error message is logged.\nIf a material model is missing the 'Material Model' specification, an error message is logged.\n\nExample\n\n```julia params = Dict(     \"Physics\" => Dict(         \"Pre Calculation\" => Dict(             \"Option1\" => true,             \"Option2\" => false         ),         \"Material Models\" => Dict(             1 => Dict(                 \"Material Model\" => \"Correspondence\"             ),             2 => Dict(                 \"Material Model\" => \"Bond Associated\"             )         )     ) )\n\noptions = Dict(     \"Option1\" => false,     \"Option2\" => true )\n\nupdatedoptions = getphysicsoption(params, options) println(\"Updated Options: \", updatedoptions)\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_solver_name","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_solver_name","text":"get_solver_name(params::Dict)\n\nGet the name of the solver\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nsolver_name::String: The name of the solver\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_initial_time","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_initial_time","text":"get_initial_time(params::Dict)\n\nGet the initial time\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\ninitial_time::Float64: The initial time\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_final_time","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_final_time","text":"get_final_time(params::Dict)\n\nGet the final time\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nfinal_time::Float64: The final time\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_safety_factor","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_safety_factor","text":"get_safety_factor(params::Dict)\n\nGet the safety factor\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nsafety_factor::Float64: The safety factor\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_fixed_dt","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_fixed_dt","text":"get_fixed_dt(params::Dict)\n\nGet the fixed time step\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nfixed_dt::Float64: The fixed time step\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_numerical_damping","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_numerical_damping","text":"get_numerical_damping(params::Dict)\n\nGet the numerical damping\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nnumerical_damping::Float64: The numerical damping\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_max_damage","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_max_damage","text":"getmaxdamage(params::Dict)\n\nGet the maximum damage.\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nwrite_after_damage::Bool: The value\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_solver_options","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_solver_options","text":"get_solver_options(params::Dict)\n\nGet the solver options\n\nArguments\n\nparams::Dict: The parameters dictionary.\n\nReturns\n\nsolver_options::Dict: The solver options\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.IO.Parameter_Handling.get_header","page":"IO Functions","title":"PeriLab.IO.Parameter_Handling.get_header","text":"get_header(filename::Union{String,AbstractString})\n\nReturns the header line and the header.\n\nArguments\n\nfilename::Union{String,AbstractString}: The filename of the file.\n\nReturns\n\nheader_line::Int: The header line.\nheader::Vector{String}: The header.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.Solver.Physics.Material.Set_modules","category":"page"},{"location":"lib/io_functions/#Set_modules","page":"IO Functions","title":"Set_modules","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"find_jl_files\nfind_module_files\ninclude_files\ncreate_module_specifics","category":"page"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Material.Set_modules.find_jl_files","page":"IO Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.find_jl_files","text":"find_jl_files(directory::AbstractString)\n\nRecursively find Julia files (.jl) in a directory.\n\nThis function recursively searches for Julia source files with the \".jl\" extension in the specified directory and its subdirectories. It returns a vector of file paths for all the found .jl files.\n\nArguments\n\ndirectory::AbstractString: The directory in which to search for .jl files.\n\nReturns\n\nA vector of strings, where each string is a file path to a .jl file found in the specified directory and its subdirectories.\n\nExample\n\n```julia jlfiles = findjlfiles(\"/path/to/modules\") for jlfile in jlfiles     println(\"Found Julia file: \", jlfile) end\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Material.Set_modules.find_module_files","page":"IO Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.find_module_files","text":"find_module_files(directory::AbstractString, specific::String)\n\nSearch for Julia modules containing a specific function in a given directory.\n\nThis function searches for Julia modules (files with .jl extension) in the specified directory and checks if they contain a specific function. It returns a list of dictionaries where each dictionary contains the file path and the name of the module where the specific function is found.\n\nArguments\n\ndirectory::AbstractString: The directory to search for Julia modules.\nspecific::String: The name of the specific function to search for.\n\nReturns\n\nAn array of dictionaries, where each dictionary has the following keys:\n\n\"File\": The file path to the module where the specific function is found.\n\"Module Name\": The name of the module where the specific function is found.\n\nExample\n\n```julia result = findmodulefiles(\"/path/to/modules\", \"myfunction\") for moduleinfo in result     println(\"Function found in module: \", moduleinfo[\"Module Name\"])     println(\"Module file path: \", moduleinfo[\"File\"]) end\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Material.Set_modules.include_files","page":"IO Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.include_files","text":"include_files(module_list::Vector{Any})\n\nInclude files specified in a list of modules.\n\nThis function iterates over a list of modules and includes the files specified in each module's \"File\" key.\n\nArguments\n\nmodule_list::Vector{Any}: A list of modules where each module is expected to be a dictionary-like object with a \"File\" key specifying the file path.\n\nExamples\n\n```julia include_files([Dict(\"File\" => \"module1.jl\"), Dict(\"File\" => \"module2.jl\")])\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics","page":"IO Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.create_module_specifics","text":"create_module_specifics(name::String, module_list::Dict{String,AbstractString}(),specifics::Dict{String,String}(), values::Tuple)\n\nSearches for a specific function within a list of modules and calls that function if found.\n\nThis function iterates over a list of modules specified in module_list and looks for a module-specific function specified in the specifics dictionary. If the module and function are found, it calls that function with the provided values tuple.\n\nArguments\n\nname::String: The name to match against the module names.\nmodule_list::Dict{String, AbstractString}: A dictionary of module names mapped to abstract strings.\nspecifics::Dict{String, String}: A dictionary specifying the module-specific function to call for each module.\nvalues::Tuple: A tuple of values to be passed as arguments to the module-specific function.\n\nExample\n\n```julia modulelist = Dict(\"Module1\" => \"Module1Name\", \"Module2\" => \"Module2Name\") specifics = Dict(\"Module1Name\" => \"module1function\", \"Module2Name\" => \"module2function\") values = (arg1, arg2) createmodulespecifics(\"Module1Name\", modulelist, specifics, values)\n\n\n\n\n\ncreate_module_specifics(name::String, module_list::Dict{String,AbstractString}(),specifics::Dict{String,String}())\n# Returns: the function itself\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"CurrentModule = PeriLab.Logging_module","category":"page"},{"location":"lib/io_functions/#Logging_module","page":"IO Functions","title":"Logging_module","text":"","category":"section"},{"location":"lib/io_functions/","page":"IO Functions","title":"IO Functions","text":"set_result_files\nprint_table\nprogress_filter\ninit_logging","category":"page"},{"location":"lib/io_functions/#PeriLab.Logging_module.set_result_files","page":"IO Functions","title":"PeriLab.Logging_module.set_result_files","text":"set_result_files(result_files_temp::Vector{Dict})\n\nSet the result files.\n\nArguments\n\nresult_files_temp::Vector{Dict}: The result files.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Logging_module.print_table","page":"IO Functions","title":"PeriLab.Logging_module.print_table","text":"print_table(data::Matrix, datamanager::Module)\n\nPrint the table.\n\nArguments\n\ndata::Matrix: The data.\ndatamanager::Module: The data manager.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Logging_module.progress_filter","page":"IO Functions","title":"PeriLab.Logging_module.progress_filter","text":"progress_filter(log_args)\n\nFilter progress messages.\n\nArguments\n\nlog_args: The log arguments.\n\nReturns\n\ntrue: If the message is not a progress message.\nfalse: If the message is a progress message.\n\n\n\n\n\n","category":"function"},{"location":"lib/io_functions/#PeriLab.Logging_module.init_logging","page":"IO Functions","title":"PeriLab.Logging_module.init_logging","text":"init_logging(filename::String, debug::Bool, silent::Bool, rank::Int64, size::Int64)\n\nInitialize the logging.\n\nArguments\n\nfilename::String: The filename.\ndebug::Bool: If debug is true.\nsilent::Bool: If silent is true.\nrank::Int64: The rank.\nsize::Int64: The size.\n\n\n\n\n\n","category":"function"},{"location":"man/basics/#First-Steps-with-PeriLab","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"","category":"section"},{"location":"man/basics/#Setting-up-the-Environment","page":"First Steps with PeriLab","title":"Setting up the Environment","text":"","category":"section"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"If want to use the PeriLab package you need to install it first. You can do it using the following commands:","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"using Pkg\n\nPkg.add(\"PeriLab\")","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"or","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"julia> ] # ']' should be pressed\n\n(@v1.9) pkg> add PeriLab","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"Additionally, it is recommended to check the version of PeriLab that you have installed with the status command.","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"julia> ]\n\n(@v1.9) pkg> status PeriLab\n      Status `~\\v1.6\\Project.toml`\n  [a93c6f00] PeriLab v1.0.0","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"Throughout the rest of the tutorial we will assume that you have installed the PeriLab package and have already typed using PeriLab which loads the package:","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"using PeriLab","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"If you want to make sure everything works as expected you can run the tests bundled with PeriLab, but be warned that it will take more than 30 minutes:","category":"page"},{"location":"man/basics/","page":"First Steps with PeriLab","title":"First Steps with PeriLab","text":"using Pkg\n\nPkg.test(\"PeriLab\") # Warning! This will take more than 30 minutes.","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"Peridynamics is an integral continuum mechanics formulation. For a pure mechanical description it can be formulated as:","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"$","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"\\int_{\\mathcal{H}}\\underline{\\mathbf{T}}\\langle\\mathbf{x},t\\rangle-\\underline{\\mathbf{T}}\\langle\\mathbf{x}',t\\rangle dV- \\mathbf{b}=\\rho\\ddot{\\mathbf{u}} $","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"The parameters are:","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"Parameter Name\nmathcalH Neighborhood [-]\nV Volume [m^3]\nmathbfx Position of point [m]\nmathbfx Position of neighbor [m]\nt Time [s]\nmathbfb External force densities [Nm^3]\nmathbfu Displacements [m]\nddotmathbfu Accelerations [ms]\nunderlinemathbfT Force density state [Nm^6]\nrho Mass density [kgm^3]","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"To solve this three main types of formulations are usable; bond-based, ordinary state-based and non-ordinary state-based.","category":"page"},{"location":"theory/basics/","page":"-","title":"-","text":"Method Related Model in PeriLab\nBond-based Bond-based Elastic\nOrdinary state-based PD Solid Elastic PD Solid Plastic\nNon-ordinary state-based Correspondence Elastic Correspondence Plastic","category":"page"},{"location":"man/bond_filter/#Bond-Filters","page":"Bond-Filter","title":"Bond-Filters","text":"","category":"section"},{"location":"man/bond_filter/#Rectangular-Plane","page":"Bond-Filter","title":"Rectangular Plane","text":"","category":"section"},{"location":"man/bond_filter/","page":"Bond-Filter","title":"Bond-Filter","text":"For a recangular plane following parameters needs to be defined:","category":"page"},{"location":"man/bond_filter/","page":"Bond-Filter","title":"Bond-Filter","text":"Normal X/Y/Z: Numeric values representing normal components. (Float64 or Int64)\nLower Left Corner X/Y/Z: Numeric values representing lower left corner components. (Float64 or Int64)\nBottom Unit Vector X/Y/Z: Numeric values representing bottom unit vector components. (Float64 or Int64)\nBottom Length: Numeric value representing the bottom length. (Float64 or Int64)\nSide Length: Numeric value representing the side length. (Float64 or Int64)","category":"page"},{"location":"man/bond_filter/","page":"Bond-Filter","title":"Bond-Filter","text":"(Image: Discretization_BondFilters_RectangularPlane)","category":"page"},{"location":"man/bond_filter/#Disk","page":"Bond-Filter","title":"Disk","text":"","category":"section"},{"location":"man/bond_filter/","page":"Bond-Filter","title":"Bond-Filter","text":"For a disk following parameters needs to be defined:","category":"page"},{"location":"man/bond_filter/","page":"Bond-Filter","title":"Bond-Filter","text":"Normal X/Y/Z: Numeric values representing normal components. (Float64 or Int64)\nCenter X/Y/Z: Numeric values representing center components. (Float64 or Int64)\nRadius: Numeric value representing the radius. (Float64 or Int64)","category":"page"},{"location":"lib/faq/#PeriLab-Frequently-Asked-Questions-(FAQ)","page":"FAQ","title":"PeriLab - Frequently Asked Questions (FAQ)","text":"","category":"section"},{"location":"lib/faq/#General-Questions","page":"FAQ","title":"General Questions","text":"","category":"section"},{"location":"lib/faq/#What-is-PeriLab?","page":"FAQ","title":"What is PeriLab?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"PeriLab is a peridynamic simulation software designed for different kind of mechanical problems.","category":"page"},{"location":"lib/faq/#Installation-and-Setup","page":"FAQ","title":"Installation and Setup","text":"","category":"section"},{"location":"lib/faq/#What-are-the-system-requirements-for-installing-PeriLab?","page":"FAQ","title":"What are the system requirements for installing PeriLab?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"In order to install PeriLab, you will need to have a recent version of Julia or Docker installed on your system.","category":"page"},{"location":"lib/faq/#How-do-I-update-my-PeriLab-software?","page":"FAQ","title":"How do I update my PeriLab software?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"To update PeriLab you just need to run julia -e \"using Pkg; Pkg.update()\" or pull the latest version of the PeriLab Docker image.","category":"page"},{"location":"lib/faq/#Simulation-and-Analysis","page":"FAQ","title":"Simulation and Analysis","text":"","category":"section"},{"location":"lib/faq/#How-can-I-generate-my-own-input-mesh?","page":"FAQ","title":"How can I generate my own input mesh?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"There are multiple options to generate your own input mesh:","category":"page"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"Use the Perihub framework to generate your own input mesh.\nGenerate your own input mesh with julia, here is an example.\nUse an existing Abaqus Inputfile (.inp).\nTransfer your mesh using meshio\nCreate a feature issue and let us know what you need.","category":"page"},{"location":"lib/faq/#What-to-do-with-my-results?","page":"FAQ","title":"What to do with my results?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"First of all congratulations 🎉 on the success of your simulation. Now, you can take a look at your results. To do that, you can use ParaView it's free and very powerful.","category":"page"},{"location":"lib/faq/#Can-I-customize-parameters-for-my-simulations-in-PeriLab?","page":"FAQ","title":"Can I customize parameters for my simulations in PeriLab?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"Yes, PeriLab allows users to customize various parameters to tailor simulations based on their specific requirements.","category":"page"},{"location":"lib/faq/#Troubleshooting","page":"FAQ","title":"Troubleshooting","text":"","category":"section"},{"location":"lib/faq/#I'm-experiencing-technical-issues-with-PeriLab.-What-should-I-do?","page":"FAQ","title":"I'm experiencing technical issues with PeriLab. What should I do?","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"If you encounter technical issues, please create an issue and describe it in detail.","category":"page"},{"location":"lib/faq/#Additional-Assistance","page":"FAQ","title":"Additional Assistance","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"If your question is not addressed here, please feel free to contact us or create an issue for further assistance.","category":"page"},{"location":"lib/faq/#Contributions","page":"FAQ","title":"Contributions","text":"","category":"section"},{"location":"lib/faq/","page":"FAQ","title":"FAQ","text":"Contributions are always welcomed, take a look at the Contributing Guidelines","category":"page"},{"location":"lib/physics_functions/#Physics-Functions","page":"Physics Functions","title":"Physics - Functions","text":"","category":"section"},{"location":"lib/physics_functions/#Index","page":"Physics Functions","title":"Index","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"Pages = [\"physics_functions.md\"]","category":"page"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"CurrentModule = PeriLab.Solver.Physics","category":"page"},{"location":"lib/physics_functions/#Physics","page":"Physics Functions","title":"Physics","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"compute_models\ncompute_damage_pre_calculation\nget_block_model_definition\ninit_material_model_fields\ninit_damage_model_fields\ninit_models\ninit_thermal_model_fields\ninit_additive_model_fields\ninit_pre_calculation\nread_properties\nset_heat_capacity","category":"page"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.compute_models","page":"Physics Functions","title":"PeriLab.Solver.Physics.compute_models","text":"compute_models(datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, dt::Float64, time::Float64, options::Dict, synchronise_field, to::TimerOutput)\n\nComputes the physics models\n\nArguments\n\ndatamanager::Module: The datamanager\nblock_nodes::Dict{Int64,Vector{Int64}}: The block nodes\ndt::Float64: The time step\ntime::Float64: The current time\noptions::Dict: The options\nsynchronise_field: The synchronise field\nto::TimerOutput: The timer output\n\nReturns\n\ndatamanager: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.compute_damage_pre_calculation","page":"Physics Functions","title":"PeriLab.Solver.Physics.compute_damage_pre_calculation","text":"compute_damage_pre_calculation(datamanager::Module, options::Dict, nodes::Union{SubArray,Vector{Int64}}, block::Int64, synchronise_field, time::Float64, dt::Float64)\n\nCompute the damage pre calculation\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nblock::Int64: Block number\nsynchronise_field: Synchronise function to distribute parameter through cores.\ntime::Float64: The current time.\ndt::Float64: The current time step.\nto::TimerOutput: The timer output.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.get_block_model_definition","page":"Physics Functions","title":"PeriLab.Solver.Physics.get_block_model_definition","text":"get_block_model_definition(params::Dict, block_id::Int64, prop_keys::Vector{String}, properties)\n\nGet block model definition\n\nArguments\n\nparams::Dict: Parameters.\nblock_id::Int64: Block id.\nprop_keys::Vector{String}: Property keys.\nproperties: Properties function.\n\nReturns\n\nproperties: Properties function.    \n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.init_material_model_fields","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.init_material_model_fields","text":"init_material_model_fields(datamanager::Module)\n\nInitialize material model fields\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Damage.init_damage_model_fields","page":"Physics Functions","title":"PeriLab.Solver.Physics.Damage.init_damage_model_fields","text":"init_damage_model_fields(datamanager::Module)\n\nInitialize damage model fields\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nparams::Dict: Parameters.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.init_models","page":"Physics Functions","title":"PeriLab.Solver.Physics.init_models","text":"init_models(params::Dict, datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, solver_options::Dict)\n\nInitialize models\n\nArguments\n\nparams::Dict: Parameters.\ndatamanager::Module: Datamanager.\nblock_nodes::Dict{Int64,Vector{Int64}}: block nodes.\nsolver_options::Dict: Solver options.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.init_thermal_model_fields","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.init_thermal_model_fields","text":"init_thermal_model_fields(datamanager::Module)\n\nInitialize thermal model fields\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Additive.init_additive_model_fields","page":"Physics Functions","title":"PeriLab.Solver.Physics.Additive.init_additive_model_fields","text":"init_additive_model_fields(datamanager::Module)\n\nInitialize additive model fields\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.init_pre_calculation","page":"Physics Functions","title":"PeriLab.Solver.Physics.init_pre_calculation","text":"init_pre_calculation(datamanager::Module, options)\n\nInitialize pre-calculation\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\noptions: Options.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.read_properties","page":"Physics Functions","title":"PeriLab.Solver.Physics.read_properties","text":"read_properties(params::Dict, datamanager::Module, material_model::Bool)\n\nRead properties\n\nArguments\n\nparams::Dict: Parameters.\ndatamanager::Data_manager: Datamanager.\nmaterial_model::Bool: Material model.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.set_heat_capacity","page":"Physics Functions","title":"PeriLab.Solver.Physics.set_heat_capacity","text":"set_heat_capacity(params::Dict, block_nodes::Dict, heat_capacity::SubArray)\n\nSets the heat capacity of the nodes in the dictionary.\n\nArguments\n\nparams::Dict: The parameters\nblock_nodes::Dict: The block nodes\nheat_capacity::SubArray: The heat capacity array\n\nReturns\n\nheat_capacity::SubArray: The heat capacity array\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"CurrentModule = PeriLab.Solver.Physics.Additive","category":"page"},{"location":"lib/physics_functions/#Additive","page":"Physics Functions","title":"Additive","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"Set_modules.Additive_template.additive_name\nSet_modules.Additive_template.compute_additive_model","category":"page"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name","page":"Physics Functions","title":"PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.additive_name","text":"additive_name()\n\nGives the additive name. It is needed for comparison with the yaml input deck.\n\nArguments\n\nReturns\n\nname::String: The name of the additive model.\n\nExample:\n\nprintln(additive_name())\n\"additive Template\"\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model","page":"Physics Functions","title":"PeriLab.Solver.Physics.Additive.Set_modules.Additive_template.compute_additive_model","text":"compute_additive_model(datamanager, nodes, additive_parameter, time, dt)\n\nCalculates the additive model. This template has to be copied, the file renamed and edited by the user to create a new additive. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nadditive parameter::Dict(String, Any): Dictionary with additive parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\nExample: julia\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"CurrentModule = PeriLab.Solver.Damage","category":"page"},{"location":"lib/physics_functions/#Damage","page":"Physics Functions","title":"Damage","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"Set_modules.Damage_template.damage_name\nSet_modules.Damage_template.compute_damage\nSet_modules.Damage_template.compute_damage_pre_calculation\ndamage_index\nset_bond_damage\ninit_interface_crit_values\ninit_aniso_crit_values\nSet_modules.Critical_Energy_Model.get_quad_horizon","category":"page"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name","page":"Physics Functions","title":"PeriLab.Solver.Damage.Set_modules.Damage_template.damage_name","text":"damage_name()\n\nGives the damage name. It is needed for comparison with the yaml input deck.\n\nArguments\n\nReturns\n\nname::String: The name of the damage.\n\nExample:\n\nprintln(damage_name())\n\"Damage Template\"\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage","page":"Physics Functions","title":"PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage","text":"c omputedamage(datamanager, nodes, damageparameter, block, time, dt)\n\nCalculates the damage criterion of each bond. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\ndamage_parameter::Dict(String, Any): Dictionary with material parameter.\nblock::Int64: Block number\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\nExample:\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation","page":"Physics Functions","title":"PeriLab.Solver.Damage.Set_modules.Damage_template.compute_damage_pre_calculation","text":"compute_damage_pre_calculation(datamanager, nodes, synchronise_field, time, dt)\n\nPre computes values needed for the damage calculation.Calculates the damage criterion of each bond. This template has to be copied, the file renamed and edited by the user to create a new damages. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nblock::Int64: Block number\nsynchronise_field: Synchronise function to distribute parameter through cores.\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\nExample:\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.damage_index","page":"Physics Functions","title":"PeriLab.Solver.Damage.damage_index","text":"damage_index(datamanager,::Union{SubArray, Vector{Int64})\n\nFunction calculates the damage index related to the neighborhood volume for a set of corresponding nodes.  The damage index is defined as damaged volume in relation the neighborhood volume. damageIndex = sumi (brokenBondsi * volume_i) / volumeNeighborhood\n\nArguments\n\ndatamanager::Data_manager: all model data\nnodes::Union{SubArray, Vector{Int64}}: corresponding nodes to this model\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.set_bond_damage","page":"Physics Functions","title":"PeriLab.Solver.Damage.set_bond_damage","text":"set_bond_damage(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nSet the bond damage field to the bond damage field\n\nArguments\n\ndatamanager::Module: The datamanager\nnodes::Union{SubArray,Vector{Int64}}: The nodes\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.init_interface_crit_values","page":"Physics Functions","title":"PeriLab.Solver.Damage.init_interface_crit_values","text":"init_interface_crit_values(datamanager::Module, params::Dict, block_id::Int64)\n\nInitialize the critical values\n\nArguments\n\ndatamanager::Module: The datamanager\nparams::Dict: The parameters\nblock_id::Int64: current block\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.init_aniso_crit_values","page":"Physics Functions","title":"PeriLab.Solver.Damage.init_aniso_crit_values","text":"init_aniso_crit_values(datamanager::Module, params::Dict, block_id::Int64)\n\nInitialize the anisotropic critical values\n\nArguments\n\ndatamanager::Module: The datamanager\nparams::Dict: The parameters\nblock_id::Int64: current block\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon","page":"Physics Functions","title":"PeriLab.Solver.Damage.Set_modules.Critical_Energy_Model.get_quad_horizon","text":"get_quad_horizon(horizon::Float64, dof::Int64)\n\nGet the quadric of the horizon.\n\nArguments\n\nhorizon::Float64: The horizon of the block.\ndof::Int64: The degree of freedom.\n\nReturns\n\nquad_horizon::Float64: The quadric of the horizon.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"CurrentModule = PeriLab.Solver.Physics.Material","category":"page"},{"location":"lib/physics_functions/#Material","page":"Physics Functions","title":"Material","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"Set_modules.Material_template.init_material_model\nSet_modules.Material_template.material_name\nSet_modules.Material_template.compute_forces\ndetermine_isotropic_parameter\ncheck_material_symmetry\ndistribute_force_densities\ncalculate_von_mises_stress\nget_all_elastic_moduli\nget_Hooke_matrix\ndistribute_forces\nmatrix_to_voigt\nvoigt_to_matrix\ncheck_symmetry\nget_symmetry\nget_von_mises_stress\nSet_modules.PD_Solid_Elastic.elastic\nSet_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params\nSet_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume\nSet_modules.PD_Solid_Elastic.Ordinary.compute_dilatation\nSet_modules.Correspondence.zero_energy_mode_compensation\nSet_modules.Correspondence.calculate_bond_force\nSet_modules.Correspondence.rotate\nSet_modules.Correspondence.rotate_second_order_tensor\nSet_modules.Correspondence.Correspondence_Elastic.compute_stresses\nSet_modules.Correspondence.Correspondence_Elastic.correspondence_name\nSet_modules.Correspondence.global_zero_energy_control.control_name\nSet_modules.Correspondence.global_zero_energy_control.compute_control\nSet_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force\nSet_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness\nSet_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor","category":"page"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Material_template.init_material_model","text":"initmaterialmodel(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict)\n\nInitializes the material model.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nmaterial_parameter::Dict(String, Any): Dictionary with material parameter.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Material_template.material_name","text":"material_name()\n\nGives the material name. It is needed for comparison with the yaml input deck.\n\nArguments\n\nReturns\n\nname::String: The name of the material.\n\nExample:\n\nprintln(material_name())\n\"Material Template\"\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Material_template.compute_forces","text":"compute_forces(datamanager, nodes, material_parameter, time, dt, to::TimerOutput)\n\nCalculates the force densities of the material. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nmaterial_parameter::Dict(String, Any): Dictionary with material parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\nExample:\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.determine_isotropic_parameter","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.determine_isotropic_parameter","text":"determine_isotropic_parameter(prop::Dict)\n\nDetermine the isotropic parameter.\n\nArguments\n\nprop::Dict: The material property.\n\nReturns\n\nprop::Dict: The material property.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.check_material_symmetry","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.check_material_symmetry","text":"check_material_symmetry(dof::Int64, prop::Dict)\n\nCheck the symmetry of the material.\n\nArguments\n\ndof::Int64: The degree of freedom.\nprop::Dict: The material property.\n\nReturns\n\nprop::Dict: The material property.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.distribute_force_densities","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.distribute_force_densities","text":"distribute_force_densities(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nDistribute the force densities.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: The nodes.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.calculate_von_mises_stress","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.calculate_von_mises_stress","text":"calculate_von_mises_stress(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nCalculate the von Mises stress.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: The nodes.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.get_all_elastic_moduli","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.get_all_elastic_moduli","text":"get_all_elastic_moduli(parameter::Union{Dict{Any,Any},Dict{String,Any}})\n\nReturns the elastic moduli of the material.\n\nArguments\n\nparameter::Union{Dict{Any,Any},Dict{String,Any}}: The material parameter.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.get_Hooke_matrix","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.get_Hooke_matrix","text":"get_Hooke_matrix(parameter, symmetry, dof)\n\nReturns the Hooke matrix of the material.\n\nArguments\n\nparameter::Union{Dict{Any,Any},Dict{String,Any}}: The material parameter.\nsymmetry::String: The symmetry of the material.\ndof::Int64: The degree of freedom.\n\nReturns\n\nmatrix::Matrix{Float64}: The Hooke matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.distribute_forces","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.distribute_forces","text":"distribute_forces(nodes::Union{SubArray,Vector{Int64}}, nlist::SubArray, nlist_filtered_ids::SubArray, bond_force::SubArray, volume::SubArray, bond_damage::SubArray, displacements::SubArray, bond_norm::SubArray, force_densities::SubArray)\n\nDistribute the forces on the nodes\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes.\nnlist::SubArray: The neighbor list.\nnlist_filtered_ids::SubArray:  The filtered neighbor list.\nbond_force::SubArray: The bond forces.\nvolume::SubArray: The volumes.\nbond_damage::SubArray: The bond damage.\ndisplacements::SubArray: The displacements.\nbond_norm::SubArray: The pre defined bond normal.\nforce_densities::SubArray: The force densities.\n\nReturns\n\nforce_densities::SubArray: The force densities.\n\n\n\n\n\ndistribute_forces(nodes::Union{SubArray,Vector{Int64}}, nlist::SubArray, bond_force::SubArray, volume::SubArray, bond_damage::SubArray, force_densities::SubArray)\n\nDistribute the forces on the nodes\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes.\nnlist::SubArray: The neighbor list.\nbond_force::SubArray: The bond forces.\nvolume::SubArray: The volumes.\nbond_damage::SubArray: The bond damage.\nforce_densities::SubArray: The force densities.\n\nReturns\n\nforce_densities::SubArray: The force densities.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.matrix_to_voigt","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.matrix_to_voigt","text":"matrix_to_voigt(matrix)\n\nConvert a 2x2 or 3x3 matrix to Voigt notation (6x1 vector)\n\nArguments\n\nmatrix::Matrix{Float64}: The matrix.\n\nReturns\n\nvoigt::Vector{Float64}: The Voigt notation.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.voigt_to_matrix","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.voigt_to_matrix","text":"voigt_to_matrix(voigt::Union{Vector{Float64},Vector{Int64}})\n\nConvert a Voigt notation (6x1 or 3x1 vector) to a 2x2 or 3x3 matrix\n\nArguments\n\nvoigt::Vector{Float64}: The Voigt notation.\n\nReturns\n\nmatrix::Matrix{Float64}: The matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.check_symmetry","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.check_symmetry","text":"check_symmetry(prop::Dict, dof::Int64)\n\nCheck if the symmetry information is present in the material dictionary.\n\nArguments\n\nprop::Dict: A dictionary containing material information.\ndof::Int64: The number of degrees of freedom.\n\nReturns\n\ntrue: If the symmetry information is present.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.get_symmetry","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.get_symmetry","text":"get_symmetry(material::Dict)\n\nReturn the symmetry information from the given material dictionary.\n\nArguments\n\nmaterial::Dict: A dictionary containing material information.\n\nReturns\n\nIf the key \"Symmetry\" is present in the dictionary, the corresponding value is returned.\nIf the key is not present, the default value \"3D\" is returned.\n\nExample\n\n```julia materialdict = Dict(\"Symmetry\" => \"Cubic\", \"Color\" => \"Red\") symmetry = getsym(material_dict)\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.get_von_mises_stress","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.get_von_mises_stress","text":"get_von_mises_stress(von_Mises_stress::Float64, dof::Int64, stress_NP1::Matrix{Float64})\n\nArguments\n\nvon_Mises_stress::Float64: Von Mises stress\ndof::Int64: Degree of freedom.\nstress_NP1::Matrix{Float64}: Stress.\n\nreturns\n\nspherical_stress_NP1::Float64: Spherical stress\ndeviatoric_stress_NP1::Matrix{Float64}: Deviatoric stress\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.elastic","text":"elastic(nodes, dof, undeformed_bond, deformed_bond, bond_damage, theta, weighted_volume, omega, material, bond_force)\n\nCalculate the elastic bond force for each node.\n\nF = omega cdot theta cdot (frac3KV - fracfrac15BV3 cdot zeta + alpha cdot stretch) [4] for 3D, plane stress and plane strain it is refered to [1] page 152; Eq. (6.12); after (6.21) and after (6.23)\n\nArguments\n\nnodes: array of node IDs\ndof: number of degrees of freedom\nundeformed_bond: dictionary of bond geometries for each node\ndeformed_bond: dictionary of deformed bond geometries for each node\nbond_damage: dictionary of bond damages for each node\ntheta: dictionary of theta values for each node\nweighted_volume: dictionary of weighted volumes for each node\nomega: dictionary of omega values for each node\nmaterial: dictionary of material properties\nbond_force: dictionary to store the calculated bond forces for each node\n\nReturns\n\nbond_force: dictionary of calculated bond forces for each node\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.calculate_symmetry_params","text":"calculate_symmetry_params(symmetry::String, shear_modulus::Float64, bulk_modulus::Float64)\n\nCalculate the symmetry parameters based on the given material symmetry. These parameters are defined in [1] Section 6.3, 6.3.1.1 and 6.3.1.2.\n\nArguments\n\nsymmetry::String: Symmetry of the material.\nshear_modulus::Float64: Shear modulus.\nbulk_modulus::Float64: Bulk modulus.\n\nReturns\n\nalpha::Float64: Alpha parameter.\ngamma::Float64: Gamma parameter.\nkappa::Float64: Kappa parameter.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_weighted_volume","text":"compute_weighted_volume(nodes::Union{SubArray,Vector{Int64}}, \n                        nlist::SubArray, \n                        undeformed_bond::SubArray, \n                        bond_damage::SubArray, \n                        omega::SubArray, \n                        volume::SubArray)\n\nCompute the weighted volume for each node, [9]. Taken from Peridigm -> but adding the bond_damage; this is missing in Peridigm, but should be there.\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: Vector of node indices or a subarray representing the indices of the nodes.\nnlist::SubArray: Subarray representing the neighbor list for each node.\nundeformed_bond::SubArray: Subarray representing the undeformed bonds.\nbond_damage::SubArray: Subarray representing the bond damage.\nomega::SubArray: Subarray representing the weights for each bond.\nvolume::SubArray: Subarray representing the volume for each node.\n\nReturns\n\nweighted_volume::Vector{Float64}: Vector containing the computed weighted volume for each node.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.PD_Solid_Elastic.Ordinary.compute_dilatation","text":"compute_dilatation(nodes::Union{SubArray,Vector{Int64}}, nneighbors::SubArray, nlist::SubArray, undeformed_bond::SubArray, deformed_bond::SubArray, bond_damage::SubArray, volume::SubArray, weighted_volume::Vector{Float64}, omega::SubArray, theta::SubArray)\n\nCalculate the dilatation for each node, [9].\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: Nodes.\nnneighbors::SubArray: Number of neighbors.\nnlist::SubArray: Neighbor list.\nundeformed_bond::SubArray: Bond geometry.\ndeformed_bond::SubArray: Deformed bond geometry.\nbond_damage::SubArray: Bond damage.\nvolume::SubArray: Volume.\nweighted_volume::SubArray: Weighted volume.\nomega::SubArray: Influence function.\ntheta::SubArray: Dilatation.\n\nReturns\n\ntheta::Vector{Float64}: Dilatation.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.zero_energy_mode_compensation","text":"zero_energy_mode_compensation(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict, time::Float64, dt::Float64)\n\nGlobal - J. Wan et al., \"Improved method for zero-energy mode suppression in peridynamic correspondence model in Acta Mechanica Sinica https://doi.org/10.1007/s10409-019-00873-y\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nmaterial_parameter::Dict(String, Any): Dictionary with material parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.calculate_bond_force","text":"calculate_bond_force(nodes::Union{SubArray,Vector{Int64}}, deformation_gradient::SubArray, undeformed_bond::SubArray, bond_damage::SubArray, inverse_shape_tensor::SubArray, stress_NP1::SubArray, bond_force::SubArray)\n\nCalculate bond forces for specified nodes based on deformation gradients.\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\ndeformation_gradient::SubArray: Deformation gradient.\nundeformed_bond::SubArray: Undeformed bond geometry.\nbond_damage::SubArray: Bond damage.\ninverse_shape_tensor::SubArray: Inverse shape tensor.\nstress_NP1::SubArray: Stress at time step n+1.\nbond_force::SubArray: Bond force.\n\nReturns\n\nbond_force::SubArray: Bond force.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate","text":"rotate(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, matrix::Union{SubArray,Array{Float64,3}}, angles::SubArray, back::Bool)\n\nRotates the matrix.\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\ndof::Int64: Degree of freedom.\nmatrix::Union{SubArray,Array{Float64,3}}: Matrix.\nangles::SubArray: Angles.\nback::Bool: Back.\n\nReturns\n\nmatrix::SubArray: Matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.rotate_second_order_tensor","text":"rotate_second_order_tensor(angles::Union{Vector{Float64},Vector{Int64}}, tensor::Matrix{Float64}, dof::Int64, back::Bool)\n\nRotates the second order tensor.\n\nArguments\n\nangles::Union{Vector{Float64},Vector{Int64}}: Angles.\ntensor::Matrix{Float64}: Second order tensor.\ndof::Int64: Degree of freedom.\nback::Bool: Back.\n\nReturns\n\ntensor::Matrix{Float64}: Second order tensor.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.compute_stresses","text":"compute_stresses(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, dof::Int64, material_parameter::Dict, time::Float64, dt::Float64, strain_increment::SubArray, stress_N::SubArray, stress_NP1::SubArray)\n\nCalculates the stresses of the material. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\ndof::Int64: Degrees of freedom\nmaterial_parameter::Dict(String, Any): Dictionary with material parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\nstrainInc::Union{Array{Float64,3},Array{Float64,6}}: Strain increment.\nstress_N::SubArray: Stress of step N.\nstress_NP1::SubArray: Stress of step N+1.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\nstress_NP1::SubArray: updated stresses\n\nExample:\n\n\n\n\n\n\n\ncompute_stresses(datamanager::Module, dof::Int64, material_parameter::Dict, time::Float64, dt::Float64, strain_increment::SubArray, stress_N::SubArray, stress_NP1::SubArray)\n\nCalculates the stresses of a single node. Needed for FEM. This template has to be copied, the file renamed and edited by the user to create a new material. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\ndof::Int64: Degrees of freedom\nmaterial_parameter::Dict(String, Any): Dictionary with material parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\nstrainInc::Union{Array{Float64,3},Array{Float64,6}}: Strain increment.\nstress_N::SubArray: Stress of step N.\nstress_NP1::SubArray: Stress of step N+1.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\nstress_NP1::SubArray: updated stresses\n\nExample:\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.Correspondence_Elastic.correspondence_name","text":"correspondence_name()\n\nGives the material name. It is needed for comparison with the yaml input deck.\n\nArguments\n\nReturns\n\nname::String: The name of the material.\n\nExample:\n\nprintln(material_name())\n\"Material Template\"\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.control_name","text":"control_name()\n\nReturns the name of the zero energy control\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.compute_control","text":"compute_control(datamanager::Module, nodes::Union{SubArray,Vector{Int64}}, material_parameter::Dict, time::Float64, dt::Float64)\n\nComputes the zero energy control\n\nArguments\n\ndatamanager::Module: The datamanager\nnodes::Union{SubArray,Vector{Int64}}: The nodes\nmaterial_parameter::Dict: The material parameter\ntime::Float64: The current time\ndt::Float64: The current time step\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.get_zero_energy_mode_force","text":"get_zero_energy_mode_force(nodes::Union{SubArray,Vector{Int64}}, zStiff::SubArray, deformation_gradient::SubArray, undeformed_bond::SubArray, deformed_bond::SubArray, bond_force::SubArray)\n\nComputes the zero energy mode force\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes\nzStiff::SubArray: The zero energy stiffness\ndeformation_gradient::SubArray: The deformation gradient\nundeformed_bond::SubArray: The bond geometry\ndeformed_bond::SubArray: The bond geometry at the next time step\nbond_force::SubArray: The bond force\n\nReturns\n\nbond_force::SubArray: The bond force\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.create_zero_energy_mode_stiffness","text":"create_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt::Union{StaticArraysCore.MMatrix,Matrix{Float64}}, angles::Vector{Float64}, Kinv::SubArray, zStiff::SubArray, rotation::Bool)\n\nCreates the zero energy mode stiffness\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes\ndof::Int64: The degree of freedom\nCVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}: The Voigt matrix\nangles::Vector{Float64}: The angles\nKinv::SubArray: The inverse shape tensor\nzStiff::SubArray: The zero energy stiffness\nrotation::Bool: The rotation\n\nReturns\n\nzStiff::SubArray: The zero energy stiffness\n\n\n\n\n\ncreate_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt, Kinv, zStiff)\n\nCreates the zero energy mode stiffness\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes\ndof::Int64: The degree of freedom\nCVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}: The Voigt matrix\nKinv::SubArray: The inverse shape tensor\nzStiff::SubArray: The zero energy stiffness\n\nReturns\n\nzStiff::SubArray: The zero energy stiffness\n\n\n\n\n\ncreate_zero_energy_mode_stiffness(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, CVoigt::Union{StaticArraysCore.MMatrix,Matrix{Float64}}, angles::SubArray, Kinv::SubArray, zStiff::SubArray)\n\nCreates the zero energy mode stiffness\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: The nodes\ndof::Int64: The degree of freedom\nCVoigt::Union{StaticArraysCore.MMatrix, Matrix{Float64}}: The Voigt matrix\nangles::SubArray: The angles\nKinv::SubArray: The inverse shape tensor\nzStiff::SubArray: The zero energy stiffness\n\nReturns\n\nzStiff::SubArray: The zero energy stiffness\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor","page":"Physics Functions","title":"PeriLab.Solver.Physics.Material.Set_modules.Correspondence.global_zero_energy_control.rotate_fourth_order_tensor","text":"rotate_fourth_order_tensor(angles::Union{Vector{Float64},Vector{Int64}}, C::Array{Float64,4}, dof::Int64, back::Bool)\n\nRotates the fourth order tensor\n\nArguments\n\nangles::Union{Vector{Float64},Vector{Int64}}: The angles\nC::Array{Float64,4}: The fourth order tensor\ndof::Int64: The degree of freedom\nback::Bool: The back\n\nReturns\n\nC::Array{Float64,4}: The fourth order tensor\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"CurrentModule = PeriLab.Solver.Physics.Thermal","category":"page"},{"location":"lib/physics_functions/#Thermal","page":"Physics Functions","title":"Thermal","text":"","category":"section"},{"location":"lib/physics_functions/","page":"Physics Functions","title":"Physics Functions","text":"Set_modules.Thermal_template.thermal_model_name\nSet_modules.Thermal_template.compute_thermal_model\ndistribute_heat_flows\nThermal.Set_modules.Heat_transfer.calculate_specific_volume\nThermal.Set_modules.Thermal_expansion.thermal_deformation\nThermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence\nThermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based","category":"page"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.thermal_model_name","text":"thermal_model_name()\n\nGives the thermal model name. It is needed for comparison with the yaml input deck.\n\nArguments\n\nReturns\n\nname::String: The name of the thermal flow model.\n\nExample:\n\nprintln(flow_name())\n\"Thermal Template\"\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_template.compute_thermal_model","text":"compute_thermal_model(datamanager, nodes, thermal_parameter, time, dt)\n\nCalculates the thermal behavior of the material. This template has to be copied, the file renamed and edited by the user to create a new flow. Additional files can be called from here using include and import .any_module or using .any_module. Make sure that you return the datamanager.\n\nArguments\n\ndatamanager::Data_manager: Datamanager.\nnodes::Union{SubArray,Vector{Int64}}: List of block nodes.\nflow parameter::Dict(String, Any): Dictionary with flow parameter.\ntime::Float64: The current time.\ndt::Float64: The current time step.\n\nReturns\n\ndatamanager::Data_manager: Datamanager.\n\nExample:\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.distribute_heat_flows","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.distribute_heat_flows","text":"distribute_heat_flows(datamanager::Module, nodes::Union{SubArray,Vector{Int64}})\n\nDistribute the heat flow Note: is included, because also additional heat flow influences can be included as well here and it might be important for bond-associated formulations.\n\nArguments\n\ndatamanager::Module: The datamanager\nnodes::Union{SubArray,Vector{Int64}}: The nodes\n\nReturns\n\ndatamanager::Module: The datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Heat_transfer.calculate_specific_volume","text":"calculatespecificvolume(iID::Int64, nlist::SubArray, coordinates::Union{SubArray,Vector{Float64}}, volume::SubArray, surface_nodes::Union{SubArray,Vector{Bool}})\n\nCalculates the specific volume.\n\nArguments\n\niID::Int64: The index of the node.\nnlist::SubArray: The neighbor list.\ncoordinates::Union{SubArray,Vector{Float64}}: The coordinates of the nodes.\nvolume::SubArray: The volume of the nodes.\nsurface_nodes::Union{SubArray,Vector{Bool}}: The surface nodes.\n\nReturns\n\nspecific_volume::Union{SubArray,Vector{Bool}}: The surface nodes.\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_expansion.thermal_deformation","text":"thermal_deformation(nodes, alpha, temperature, undeformed_bond, thermal_deformation)\n\nCalculate thermal deformation for a set of nodes.\n\nThis function calculates thermal deformation for a specified set of nodes based on the given inputs, including the nodes, thermal expansion coefficient (alpha), nodal temperatures, undeformed bond information, and the resulting thermal deformation.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: A collection of node indices where thermal deformation is to be calculated.\nalpha::Union{Matrix{Float64},Matrix{Int64}}: The thermal expansion matrix, representing the material's response to temperature changes.\ntemperature::SubArray: A SubArray containing nodal temperatures for the specified nodes.\nundeformed_bond::SubArray: A SubArray containing information about the undeformed bond geometry.\nthermal_deformation::SubArray: A SubArray to store the calculated thermal deformation for each node.\n\nReturns\n\nthermal_deformation::SubArray: A SubArray containing the calculated thermal deformation for the specified nodes.\n\nNotes\n\nThe thermal deformation is calculated based on the formula: thermal_deformation[iID] = alpha * temperature[iID] * undeformed_bond[iID].\n\nExample\n\n```julia nodes = [1, 2, 3] alpha = [1.3 0.0; 0.0 1.3] # Example thermal expansion coefficient temperature = SubArray(...) # Provide temperature data undeformedbond = SubArray(...) # Provide undeformed bond geometry data thermaldeformation = SubArray(zeros(3, 3)) # Initialize thermal_deformation with zeros\n\nresult = thermaldeformation(nodes, alpha, temperature, undeformedbond, thermal_deformation)\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_correspondence","text":"[10] is a prototype with some errors\n\n\n\n\n\n","category":"function"},{"location":"lib/physics_functions/#PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based","page":"Physics Functions","title":"PeriLab.Solver.Physics.Thermal.Set_modules.Thermal_Flow.compute_heat_flow_state_bond_based","text":"compute_heat_flow_state_bond_based(nodes::Union{SubArray,Vector{Int64}}, dof::Int64, nlist::SubArray,\n  lambda::Union{Float64, Int64}, bond_damage::SubArray, undeformed_bond::SubArray, horizon::SubArray,\n  temperature::SubArray, heat_flow::SubArray)\n\nCalculate heat flow based on a bond-based model for thermal analysis.\n\nArguments\n\nnodes::Union{SubArray,Vector{Int64}}: An array of node indices for which heat flow should be computed.\ndof::Int64: The degree of freedom, either 2 or 3, indicating whether the analysis is 2D or 3D.\nnlist::SubArray: A SubArray representing the neighbor list for each node.\nlambda::Union{Float64, Int64}: The thermal conductivity.\napply_print_bed::Bool: A boolean indicating whether the print bed should be applied to the thermal conductivity.\nt_bed::Float64: The thickness of the print bed.\nlambda_bed::Float64: The thermal conductivity of the print bed.\nbond_damage::SubArray: A SubArray representing the damage state of bonds between nodes.\nundeformed_bond::SubArray: A SubArray representing the geometry of the bonds.\nhorizon::SubArray: A SubArray representing the horizon for each node.\ntemperature::SubArray: A SubArray representing the temperature at each node.\nheat_flow::SubArray: A SubArray where the computed heat flow values will be stored.\n\nReturns\n\nheat_flow: updated bond heat flow values will be stored.\n\nDescription\n\nThis function calculates the heat flow between neighboring nodes based on a bond-based model for thermal analysis [11]. It considers various parameters, including thermal conductivity, damage state of bonds, geometry of bonds, horizons, temperature, and volume. The calculated bond heat flow values are stored in the heat_flow array.\n\n\n\n\n\n","category":"function"},{"location":"man/input_yaml/#PeriLab-Configuration-File","page":"Input File","title":"PeriLab Configuration File","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"The PeriLab configuration file is a YAML file used to specify the parameters for running simulations in the PeriLab software. This structure represents the global configuration for PeriLab.","category":"page"},{"location":"man/input_yaml/#PeriLab","page":"Input File","title":"PeriLab","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"Blocks: List of block configurations.\nblockid_: Block-specific parameters.\nDensity: Numeric value representing density. (Float64 or Int64)\nHorizon: Numeric value representing horizon. (Float64 or Int64)\nSpecific Heat Capacity: Numeric value representing specific heat capacity. (Float64 or Int64, optional)\nMaterial Model: String representing the material model. (optional)\nDamage Model: String representing the damage model. (optional)\nThermal Model: String representing the thermal model. (optional)\nAdditive Model: String representing the additive model. (optional)","category":"page"},{"location":"man/input_yaml/#FEM-(optional)","page":"Input File","title":"FEM (optional)","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"Element Type: String representing the type of finite element.\nDegree: Numeric value representing the degree. (String or Int64)\nMaterial Model: String representing the material model.","category":"page"},{"location":"man/input_yaml/#Boundary-Conditions-(optional)","page":"Input File","title":"Boundary Conditions (optional)","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"OwnName_: List of boundary condition configurations.\nCoordinate: String representing the coordinate.\nNode Set: String representing the node set.\nType: String representing the type of boundary condition.\nValue: Numeric value, string, or a combination representing the boundary condition value. (Float64, Int64, String)","category":"page"},{"location":"man/input_yaml/#Compute-Class-Parameters-(optional)","page":"Input File","title":"Compute Class Parameters (optional)","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"OwnName_: List of compute class parameters.\nBlock: String representing the block.\nNode Set: String representing the node set.\nCalculation Type: String representing the calculation type.\nCompute Class: String representing the compute class.\nVariable: String representing the variable.","category":"page"},{"location":"man/input_yaml/#Discretization","page":"Input File","title":"Discretization","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"Input Mesh File: String representing the input mesh file.\nInput External Topology: External topology parameters. (optional)\nFile: String representing the external topology file.\nAdd Neighbor Search: Boolean indicating whether to add neighbor search. (optional)\nNode Sets: Dictionary of node sets. (optional)\nOwnName_: Numeric value or string representing the node set. (Int64 or String)\nType: String representing the type of discretization.\nDistribution Type: String representing the distribution type. (optional)\nSurface Extrusion: Extrusion parameters. (optional)\nDirection: String representing the extrusion direction.\nStep: Numeric value representing the extrusion step. (Float64 or Int64)\nNumber: Numeric value representing the extrusion number. (Float64 or Int64)\nBond Filters: List of bond filter configurations. (optional)\nOwnName_: Bond filter parameters.\nType: String representing the bond filter type.\nNormal X/Y/Z: Numeric values representing normal components. (Float64 or Int64)\nLower Left Corner X/Y/Z: Numeric values representing lower-left corner components. (Float64 or Int64)\nBottom Unit Vector X/Y/Z: Numeric values representing bottom unit vector components. (Float64 or Int64)\nCenter X/Y/Z: Numeric values representing center components. (Float64 or Int64)\nRadius: Numeric value representing the radius. (Float64 or Int64)\nBottom Length: Numeric value representing the bottom length. (Float64 or Int64)\nSide Length: Numeric value representing the side length. (Float64 or Int64)\nAllow Contact: Boolean indicating whether to allow contact. (optional)","category":"page"},{"location":"man/input_yaml/#Outputs-(optional)","page":"Input File","title":"Outputs (optional)","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"OwnName_: List of output configurations.\nFlush File: Boolean indicating whether to flush the output file. (optional)\nOutput Frequency: Integer representing the output frequency.\nNumber of Output Steps: Integer representing the number of output steps.\nOutput File Type: String representing the output file type. (optional)\nOutput Filename: String representing the output filename.\nWrite After Damage: Boolean indicating whether to write after damage. (optional)\nOutput Variables: Dictionary of output variables.\nOwnName_: Boolean indicating whether to output the variable.","category":"page"},{"location":"man/input_yaml/#Physics-(optional)","page":"Input File","title":"Physics (optional)","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"Damage Models: Dictionary of damage models. (optional)\nOwnName_: List of damage model configurations.\nCritical Value: Numeric value representing the critical value. (Float64 or Int64)\nDamage Model: String representing the damage model.\nInterblock Damage: Dictionary of interblock damage parameters.\nOwnName_: Numeric value representing interblock damage. (Float64 or Int64, required)\nAnisotropic Damage: Dictionary of anisotropic damage parameters.\nCritical Value X/Y: Numeric values representing critical values in X and Y directions. (Float64 or Int64, required)\nMaterial Models: Dictionary of material models. (optional)\nOwnName_: List of material model configurations.\nMaterial Model: String representing the material model.\nSymmetry: String representing the symmetry. (optional)\nPoisson's Ratio/Young's Modulus/Bulk Modulus/Shear Modulus: Numeric values representing material properties. (Float64 or Int64, optional)\nYield Stress: Numeric value representing the yield stress. (Float64 or Int64, optional)\nZero Energy Control: String representing zero energy control. (optional)\nC11/C12/.../C66: Numeric values representing material constants. (Float64 or Int64, optional)\nThermal Models: Dictionary of thermal models. (optional)\nOwnName_: List of thermal model configurations.\nThermal Model: String representing the thermal model.\nType: String representing the type of thermal model. (optional)\nHeat Transfer Coefficient/Environmental Temperature/Thermal Conductivity/Thermal Expansion Coefficient/Thermal Conductivity Print Bed/Print Bed Temperature: Numeric values representing thermal parameters. (Float64 or Int64, optional)\nAdditive Models: Dictionary of additive models. (optional)\nOwnName_: List of additive model configurations.\nAdditive Model: String representing the additive model.\nPrint Temperature: Numeric value representing the print temperature. (Float64 or Int64, optional)\nPre Calculation: Dictionary of pre-calculation parameters.\nBond Associated Deformation Gradient/Bond Associated Shape Tensor/Deformation Gradient/Deformed Bond Geometry/Shape Tensor: Boolean values indicating whether to calculate the respective parameter. (optional)","category":"page"},{"location":"man/input_yaml/#Solver","page":"Input File","title":"Solver","text":"","category":"section"},{"location":"man/input_yaml/","page":"Input File","title":"Input File","text":"Solve For Displacement/Material Models/Damage Models/Thermal Models/Additive Models: Boolean values indicating whether to solve for the respective components. (optional)\nMaximum Damage: Numeric value representing the maximum damage. (Float64, optional)\nFinal Time/Initial Time: Numeric values representing the final and initial time. (Float64 or Int64, required)\nNumerical Damping: Numeric value representing numerical damping. (Float64 or Int64, optional)\nVerlet: Dictionary of Verlet solver parameters.\nSafety Factor/Fixed dt/Number of Steps: Numeric values representing Verlet solver parameters. (Float64 or Int64, optional)\nExternal: Dictionary of external solver parameters.\nNumber of Steps: Numeric value representing the number of steps. (Int64, optional)","category":"page"},{"location":"theory/#Theory-manual","page":"-","title":"Theory manual","text":"","category":"section"},{"location":"theory/","page":"-","title":"-","text":"The theory manual condenses the implemented features. ","category":"page"},{"location":"theory/","page":"-","title":"-","text":"Basics","category":"page"},{"location":"lib/references/","page":"References","title":"References","text":"F. Bobaru, J. T. Foster, P. H. Geubelle and S. A. Silling. Handbook of Peridynamic Modeling. Advances in Applied Mathematics (CRC Press, 2016).\n\n\n\nD. J. Littlewood, M. L. Parks, J. T. Foster, J. A. Mitchell and P. Diehl. The Peridigm Meshfree Peridynamics Code. Journal of Peridynamics and Nonlocal Modeling (2023).\n\n\n\nC. Willberg, L. Wiedemann and M. Rädel. A mode-dependent energy-based damage model for peridynamics and its implementation. Journal of Mechanics of Materials and Structures 14, 193–217 (2019).\n\n\n\nC. Willberg, J.-T. Hesse, M. Garbade, M. Rädel, F. Heinecke, A. Schuster and A. Pernatii. A user material interface for the Peridynamic Peridigm framework. SoftwareX 21, 101322 (2023).\n\n\n\nJ.-T. Hesse, C. Willberg, R. Hein and F. Winkelmann. Peridynamic framework to model additive manufacturing processes. PAMM n/a, e202300033 (2023), arXiv:https://onlinelibrary.wiley.com/doi/pdf/10.1002/pamm.202300033.\n\n\n\nC. Willberg, J.-T. Hesse and A. Pernatii. PeriLab. SoftwareX (2024).\n\n\n\nS. Oterkus, E. Madenci and A. Agwai. Fully coupled peridynamic thermomechanics. Journal of the Mechanics and Physics of Solids 64, 1–23 (2014).\n\n\n\nD. J. Littlewood, T. Shelton and J. D. Thomas. Estimation of the Critical Time Step for Peridynamic Models. (2013).\n\n\n\nS. A. Silling, M. Epton, O. Weckner, J. Xu and E. Askari. Peridynamic States and Constitutive Modeling. Journal of Elasticity 88, 151–184 (2007).\n\n\n\nR. Brighenti, M. A. Zeleke and M. B. Ageze. A Review of Peridynamics (PD) Theory of Diffusion Based Problems. Journal of Engineering, 20 (2021).\n\n\n\nS. Oterkus, E. Madenci and A. Agwai. Peridynamic thermal diffusion. Journal of Computational Physics 265, 71–96 (2014).\n\n\n\n","category":"page"},{"location":"man/mesh_input/#Mesh-Input-File-Structure","page":"Mesh and Nodesets","title":"Mesh Input File Structure","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The mesh input file is a text file used to define the geometry of the simulation domain. The file has a header and subsequent lines representing individual nodes with their corresponding coordinates, block IDs, volumes, and optional user-defined values. Below is an example of the structure:","category":"page"},{"location":"man/mesh_input/#Header","page":"Mesh and Nodesets","title":"Header","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The header of the mesh input file specifies the format of the subsequent data columns. In this example, the header consists of the following columns:","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"x: X-coordinate of the node.\ny: Y-coordinate of the node.\nz (Optional): Z-coordinate of the node (if applicable).\nblock_id: Block ID to which the node belongs.\nvolume: Volume associated with the node.\nuser_defined_1, user_defined_2, ... (Optional): User-defined values associated with the node.","category":"page"},{"location":"man/mesh_input/#Data-Lines","page":"Mesh and Nodesets","title":"Data Lines","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The data lines represent individual nodes in the mesh, with values corresponding to the columns specified in the header.","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"Example Data Lines:","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"header: x y block_id volume\n0.0 0.0 1 1.0E-02\n0.1 0.0 1 1.0E-02\n0.1 0.1 1 1.0E-02\n...","category":"page"},{"location":"man/mesh_input/#Nodeset-Input-File-Structure","page":"Mesh and Nodesets","title":"Nodeset Input File Structure","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The nodeset input file is a text file used to define sets of nodes in the simulation domain. The file has a header and subsequent lines representing individual node global IDs that belong to the nodeset. Below is an example of the structure:","category":"page"},{"location":"man/mesh_input/#Header-2","page":"Mesh and Nodesets","title":"Header","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The header of the nodeset input file specifies the format of the subsequent data columns. In this example, the header consists of the following column:","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"global_id: Global ID of the node.","category":"page"},{"location":"man/mesh_input/#Data-Lines-2","page":"Mesh and Nodesets","title":"Data Lines","text":"","category":"section"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"The data lines represent individual nodes in the nodeset, with values corresponding to the columns specified in the header.","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"Example Data Lines:","category":"page"},{"location":"man/mesh_input/","page":"Mesh and Nodesets","title":"Mesh and Nodesets","text":"header: global_id\n1\n2\n11\n12","category":"page"},{"location":"lib/functions/#Functions","page":"Functions","title":"Functions","text":"","category":"section"},{"location":"lib/functions/#Index","page":"Functions","title":"Index","text":"","category":"section"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"Pages = [\"functions.md\"]","category":"page"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"CurrentModule = PeriLab.Data_manager","category":"page"},{"location":"lib/functions/#Data_manager","page":"Functions","title":"Data_manager","text":"","category":"section"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"get_comm\nset_comm\ncheck_property\ncreate_bond_field\ncreate_constant_bond_field\ncreate_constant_node_field\ncreate_field\ncreate_node_field\nget_all_field_keys\nget_block_list\nget_crit_values_matrix\nget_aniso_crit_values\nget_dof\nget_field\nget_field_type\nget_inverse_nlist\nget_local_nodes\nget_nlist\nget_nnodes\nget_NP1_to_N_Dict\nget_nnsets\nget_nsets\nget_num_responder\nget_overlap_map\nget_synch_fields\nget_physics_options\nget_properties\nget_property\nget_rank\nget_max_rank\nloc_to_glob\ninit_property\nrotation_data\nset_block_list\nset_crit_values_matrix\nset_aniso_crit_values\nset_distribution\nset_dof\nset_glob_to_loc\nset_inverse_nlist\nset_nnodes\nset_num_controller\nset_nnsets\nset_nset\nset_num_responder\nset_overlap_map\nset_physics_options\nset_property\nset_properties\nset_rank\nset_max_rank\nset_synch\nswitch_NP1_to_N\nsynch_manager","category":"page"},{"location":"lib/functions/#PeriLab.Data_manager.get_comm","page":"Functions","title":"PeriLab.Data_manager.get_comm","text":"get_comm()\n\nGet the MPI communicator\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_comm","page":"Functions","title":"PeriLab.Data_manager.set_comm","text":"set_comm(comm::MPI.Comm)\n\nSet the MPI communicator\n\nArguments\n\ncomm::MPI.Comm: MPI communicator\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.check_property","page":"Functions","title":"PeriLab.Data_manager.check_property","text":"check_property(block_id::Int64, property::String)\n\nChecks if the specified property exists for the given block_id.\n\nArguments\n\nblock_id::Int64: The ID of the block.\nproperty::String: The name of the property to check.\n\nReturns\n\nBool: true if the property exists, false otherwise.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.create_bond_field","page":"Functions","title":"PeriLab.Data_manager.create_bond_field","text":"create_bond_field(name::String, type::Type, dof::Int64)\n\nCreates a bond field with the given name, data type, and degree of freedom.\n\nArguments\n\nname::String: The name of the bond field.\nvartype::Type: The data type of the bond field.\ndof::Int64: The degrees of freedom per bond.\nVectorOrArray::String (optional) - Vector or Materix; Default is vector\n\nReturns\n\nbond_field::Field: The created bond field for the current time step.\nbond_field_np1::Field: The created bond field for the next time step.\n\nExample:\n\ncreate_bond_field(\"stress\", Float64, 6)  # creates a stress bond field with 6 degrees of freedom\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.create_constant_bond_field","page":"Functions","title":"PeriLab.Data_manager.create_constant_bond_field","text":"create_constant_bond_field(name::String, type::Type, dof::Int64, default_value::Union{Int64,Float64,Bool}=0))\n\nCreates a constant bond field with the given name, data type, and degree of freedom.\n\nArguments\n\nname::String: The name of the bond field.\nvartype::Type: The data type of the bond field.\ndof::Int64: The degrees of freedom per bond.\ndefault_value::Union{Int64,Float64,Bool}=0) (optional) - filled with zero or false\n\nReturns\n\nconstant_bond_field::Field: The created constant bond field.\n\nExample:\n\ncreate_constant_bond_field(\"density\", Float64, 1)  # creates a density constant bond field\n\n\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.create_constant_node_field","page":"Functions","title":"PeriLab.Data_manager.create_constant_node_field","text":"create_constant_node_field(name::String, type::Type, dof::Int64)\n\nCreates a constant node field with the given name, data type, and degree of freedom.\n\nArguments\n\nname::String: The name of the node field.\nvartype::Type: The data type of the node field.\ndof::Int64: The degrees of freedom per node.\nVectorOrArray::String (optional) - Vector or Materix; Default is vector\n\nReturns\n\nconstant_node_field::Field: The created constant node field.\n\nExample:\n\ncreate_constant_node_field(\"temperature\", Float64, 1)  # creates a temperature constant node field\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.create_field","page":"Functions","title":"PeriLab.Data_manager.create_field","text":"create_field(name::String, vartype::Type, bondNode::String, dof::Int64, default_value::Any=0)\n\nCreate a field with the given name for the specified vartype. If the field already exists, return the existing field. If the field does not exist, create a new field with the specified characteristics.\n\nArguments\n\nname::String: The name of the field.\nvartype::Type: The data type of the field.\ndof::Int64: The degrees of freedom per node.\ndefault_value::Any: The default value of the field.\n\nReturns\n\nThe field with the given name and specified characteristics.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.create_node_field","page":"Functions","title":"PeriLab.Data_manager.create_node_field","text":"create_node_field(name::String, type::Type, dof::Int64)\n\nCreates a node field with the given name, data type, and degree of freedom.\n\nArguments\n\nname::String: The name of the node field.\ntype::Type: The data type of the node field.\ndof::Int64: The degree of freedom of each node.\nVectorOrArray::String (optional) - Vector or Materix; Default is vector\n\nReturns\n\nnode_field::Field: The created node field for the current time step.\nnode_field_np1::Field: The created node field for the next time step.\n\nExample:\n\ncreate_node_field(\"displacement\", Float64, 3)  # creates a displacement node field with 3 degrees of freedom\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_all_field_keys","page":"Functions","title":"PeriLab.Data_manager.get_all_field_keys","text":"get_all_field_keys()\n\nReturns a list of all field keys.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_block_list","page":"Functions","title":"PeriLab.Data_manager.get_block_list","text":"get_block_list()\n\nReturns a list of all block IDs.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_crit_values_matrix","page":"Functions","title":"PeriLab.Data_manager.get_crit_values_matrix","text":"get_crit_values_matrix()\n\nRetrieves the critical values matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_aniso_crit_values","page":"Functions","title":"PeriLab.Data_manager.get_aniso_crit_values","text":"get_aniso_crit_values()\n\nRetrieves the critical values matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_dof","page":"Functions","title":"PeriLab.Data_manager.get_dof","text":"get_dof()\n\nRetrieves the degree of freedom (dof) value.\n\nReturns\n\ndof (integer): The current degree of freedom value.\n\nExample:\n\nget_dof()  # returns the current degree of freedom\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_field","page":"Functions","title":"PeriLab.Data_manager.get_field","text":"get_field(name::String, time::String)\n\nReturns the field with the given name and time.\n\nArguments\n\nname::String: The name of the field.\ntime::String: The time of the field.\n\nReturns\n\nfield::Field: The field with the given name and time.\n\n\n\n\n\nget_field(name::String, throw_error::Bool=true)\n\nReturns the field with the given name.\n\nArguments\n\nname::String: The name of the field.\nthrow_error::Bool=true: Whether to throw an error if the field does not exist.\n\nReturns\n\nfield::Field: The field with the given name.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_field_type","page":"Functions","title":"PeriLab.Data_manager.get_field_type","text":"get_field_type()\n\nGet the type of a field\n\nReturns\n\nget_field_type (string): returns the type of a field\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_inverse_nlist","page":"Functions","title":"PeriLab.Data_manager.get_inverse_nlist","text":"get_inverse_nlist()\n\nGet the inverse of the neighborhood list.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_local_nodes","page":"Functions","title":"PeriLab.Data_manager.get_local_nodes","text":"get_local_nodes()\n\nDetermines the local node numbering.\n\nReturns\n\nget_local_nodes (array): returns local nodes.\n\nExample:\n\nget_local_nodes()  # returns local nodes or if they do not exist at the core an empty array\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_nlist","page":"Functions","title":"PeriLab.Data_manager.get_nlist","text":"get_nlist()\n\nGet the neighborhood list.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_nnodes","page":"Functions","title":"PeriLab.Data_manager.get_nnodes","text":"get_nnodes()\n\nRetrieves the number of nodes.\n\nReturns\n\nnum_controller::Int64 : The current number of nodes.\n\nExample:\n\nget_nnodes()  # returns the current number of nodes \n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_NP1_to_N_Dict","page":"Functions","title":"PeriLab.Data_manager.get_NP1_to_N_Dict","text":"get_NP1_to_N_Dict()\n\nGet the NP1 to N dictionary\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_nnsets","page":"Functions","title":"PeriLab.Data_manager.get_nnsets","text":"get_nnsets()\n\nGet the number of node sets.\n\nReturns\n\nnnsets::Int: The number of node sets.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_nsets","page":"Functions","title":"PeriLab.Data_manager.get_nsets","text":"get_nsets()\n\nGet the node sets\n\nReturns\n\nnsets::Dict{String,Vector{Int64}}: The node sets dictionary.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_num_responder","page":"Functions","title":"PeriLab.Data_manager.get_num_responder","text":"get_num_responder()\n\nGet the the number of responder nodes\n\nReturns\n\nnum_responder::Int64: The number of responder nodes\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_overlap_map","page":"Functions","title":"PeriLab.Data_manager.get_overlap_map","text":"get_overlap_map()\n\nGet the overlap map\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_synch_fields","page":"Functions","title":"PeriLab.Data_manager.get_synch_fields","text":"get_synch_fields()\n\nGet the fields to synchronize\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_physics_options","page":"Functions","title":"PeriLab.Data_manager.get_physics_options","text":"get_physics_options()\n\nGet the physics options\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_properties","page":"Functions","title":"PeriLab.Data_manager.get_properties","text":"get_properties(block_id::Int64, property::String)\n\nThis function retrieves the value of a specified property for a given block_id if it exists in the properties dictionary.\n\nArguments\n\nblock_id::Int64: The identifier of the block for which to retrieve the property.\nproperty::String: The dictionary entrycontaining the properties for the blocks.\n\nReturns\n\nproperty_value::Any: The value associated with the specified property for the given block_id.\nDict(): An empty dictionary if the specified property does not exist for the given block_id.\n\nExample\n\n```julia block_properties = Dict(     1 => Dict(\"color\" => \"red\", \"size\" => 10),     2 => Dict(\"color\" => \"blue\", \"height\" => 20) )\n\nRetrieve the 'color' property for block 1\n\ncolorvalue = getproperties(1, \"color\")  # Returns \"red\"\n\nTry to retrieve a non-existent property for block 2\n\nnonexistentvalue = get_properties(2, \"width\")  # Returns an empty dictionary\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_property","page":"Functions","title":"PeriLab.Data_manager.get_property","text":"get_property(block_id::Int64, property::String, value_name::String)\n\nThis function retrieves a specific value_name associated with a specified property for a given block_id if it exists in the properties dictionary.\n\nArguments\n\nblock_id::Int64: The identifier of the block for which to retrieve the property.\nproperty::String: The String property type (e.g. Material model) for the blocks.\nvalue_name::String: The name of the value within the specified property.\n\nReturns\n\nvalue::Any: The value associated with the specified value_name within the property for the given block_id.\nnothing: If the specified block_id, property, or value_name does not exist in the dictionary.\n\nExample\n\n```julia\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_rank","page":"Functions","title":"PeriLab.Data_manager.get_rank","text":"get_rank()\n\nThis function returns the rank of the core.\n\nReturns\n\nrank::Any: The value of the rank variable.\n\nExample\n\n```julia currentrank = getrank()\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.get_max_rank","page":"Functions","title":"PeriLab.Data_manager.get_max_rank","text":"get_max_rank()\n\nThis function returns the maximal rank of MPI the max_rank.\n\nReturns\n\nmax_rank::Number: The value of the max_rank variable.\n\nExample\n\n```julia rank = getmaxrank()\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.loc_to_glob","page":"Functions","title":"PeriLab.Data_manager.loc_to_glob","text":"loc_to_glob(range::UnitRange{Int64})\n\nConverts the local index to the global index.\n\nArguments\n\nrange::UnitRange{Int64}: The range of the local index.\n\nExample:\n\nloc_to_glob(1:10)  # converts the local index to the global index\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.init_property","page":"Functions","title":"PeriLab.Data_manager.init_property","text":"init_property()\n\nThis function initializes the properties dictionary.\n\nReturns\n\nkeys(properties[1]): The keys of the properties dictionary.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.rotation_data","page":"Functions","title":"PeriLab.Data_manager.rotation_data","text":"rotation_data()\n\nCheck if the \"Angles\" field is present in the datamanager's field keys. If present, return true and retrieve the value of the \"Angles\" field. If not present, return false and nothing.\n\nInput\n\nelementornode::String=\"Node\" :  \"Node\" or \"Element\" angles; Node is default\n\nReturns\n\nTuple{Bool, Union{Nothing, Any}}: A tuple containing a Boolean value indicating whether the \"Angles\" field is present (true or false), and the value of the \"Angles\" field if present; otherwise, nothing.\n\nExample\n\n```julia result, angles = rotation_data() if result     println(\"Angles field is present. Value: \", angles) else     println(\"Angles field is not present.\") end\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_block_list","page":"Functions","title":"PeriLab.Data_manager.set_block_list","text":"set_block_list(blocks::Union{SubArray,Vector{Int64}})\n\nSets the block list globally.\n\nArguments\n\nblocks::Union{SubArray,Vector{Int64}}: The block list.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_crit_values_matrix","page":"Functions","title":"PeriLab.Data_manager.set_crit_values_matrix","text":"set_crit_values_matrix(crit_values::Array{Float64,3})\n\nSets the critical values matrix globally.\n\nArguments\n\ncrit_values::Array{Float64,3}: The critical values matrix.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_aniso_crit_values","page":"Functions","title":"PeriLab.Data_manager.set_aniso_crit_values","text":"setanisocritvalues(critvalues::Dict{Int64,Any})\n\nSets the anisotropic critical values globally.\n\nArguments\n\ncrit_values::Dict{Int64,Any}: The critical values.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_distribution","page":"Functions","title":"PeriLab.Data_manager.set_distribution","text":"set_distribution(values::Vector{Int64})\n\nSets the distribution globally.\n\nArguments\n\nvalues::Vector{Int64}: The distribution.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_dof","page":"Functions","title":"PeriLab.Data_manager.set_dof","text":"set_dof(n::Int64)\n\nSets the degree of freedom (dof) value globally.\n\nArguments\n\nn::Int64: The value to set as the degree of freedom.\n\nExample:\n\nset_dof(3)  # sets the degree of freedom to 3\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_glob_to_loc","page":"Functions","title":"PeriLab.Data_manager.set_glob_to_loc","text":"set_glob_to_loc(dict)\n\nSets the global-to-local mapping dict globally.\n\nArguments\n\ndict (array): The dict representing the global-to-local mapping.\n\nExample:\n\nset_glob_to_loc([1, 3, 5])  # sets the global-to-local mapping dict\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_inverse_nlist","page":"Functions","title":"PeriLab.Data_manager.set_inverse_nlist","text":"set_inverse_nlist(inv_nlist::Vector{Dict{Int64,Int64}})\n\nSets the inverse nlist globally.\n\nArguments\n\ninv_nlist::Vector{Dict{Int64,Int64}}: The inverse nlist.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_nnodes","page":"Functions","title":"PeriLab.Data_manager.set_nnodes","text":"set_nnodes()\n\nSets the number all nodes of one core globally.\n\nArguments\n\nExample: ```\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_num_controller","page":"Functions","title":"PeriLab.Data_manager.set_num_controller","text":"set_num_controller(n::Int64)\n\nSets the number of controller nodes globally. For one core the number of nodes is equal to the number of controller nodes.\n\nArguments\n\nn::Int64: The value to set as the number of nodes.\n\nExample:\n\nset_num_controller(10)  # sets the number of nodes to 10\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_nnsets","page":"Functions","title":"PeriLab.Data_manager.set_nnsets","text":"set_nnsets(n::Int64)\n\nSet the number of node sets.\n\nArguments\n\nn::Int64: The number of node sets to be set.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_nset","page":"Functions","title":"PeriLab.Data_manager.set_nset","text":"set_nset(name, nodes)\n\nSet the nodes associated with a named node set.\n\nArguments\n\nname::String: The name of the node set.\nnodes::Vector{Int}: The node indices associated with the node set.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_num_responder","page":"Functions","title":"PeriLab.Data_manager.set_num_responder","text":"set_num_responder(n::Int64)\n\nSets the number of responder nodes globally. For one core the number of responder is zero. responder hold the information of the neighbors, of one node, but are not evaluated.\n\nArguments\n\nn::Int64: The value to set as the number of nodes.\n\nExample:\n\nset_num_responder(10)  # sets the number of responder nodes to 10\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_overlap_map","page":"Functions","title":"PeriLab.Data_manager.set_overlap_map","text":"set_overlap_map(topo)\n\nSets the overlap map globally.\n\nArguments\n\ntopo: The overlap map.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_physics_options","page":"Functions","title":"PeriLab.Data_manager.set_physics_options","text":"set_physics_options(values::Dict{String,Bool})\n\nSets the physics options globally.\n\nArguments\n\nvalues::Dict{String,Bool}: The physics options.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_property","page":"Functions","title":"PeriLab.Data_manager.set_property","text":"set_property(block_id, property, value_name, value)\n\nSets the value of a specified property for a given block_id.\n\nArguments\n\nblock_id::Int64: The identifier of the block for which to set the property.\nproperty::String: The name of the property.\nvalue_name::String: The name of the value within the specified property.\nvalue::Any: The value to set for the specified value_name.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_properties","page":"Functions","title":"PeriLab.Data_manager.set_properties","text":"set_properties(block_id, property, values)\n\nSets the values of a specified property for a given block_id.\n\nArguments\n\nblock_id::Int64: The identifier of the block for which to set the property.\nproperty::String: The name of the property.\nvalues::Any: The values to set for the specified property.\n\n\n\n\n\nset_properties(property, values)\n\nSets the values of a specified property for a all blocks. E.g. for FEM, because it corresponds not to a block yet,\n\nArguments\n\nproperty::String: The name of the property.\nvalues::Any: The values to set for the specified property.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_rank","page":"Functions","title":"PeriLab.Data_manager.set_rank","text":"set_rank(value::Int64)\n\nSets the rank globally.\n\nArguments\n\nvalue::Int64: The value to set as the rank.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_max_rank","page":"Functions","title":"PeriLab.Data_manager.set_max_rank","text":"set_max_rank(value::Int64)\n\nSets the maximum rank globally.\n\nArguments\n\nvalue::Int64: The value to set as the maximum rank.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.set_synch","page":"Functions","title":"PeriLab.Data_manager.set_synch","text":"set_synch(name, download_from_cores, upload_to_cores)\n\nSets the synchronization dictionary globally.\n\nArguments\n\nname::String: The name of the field.\ndownload_from_cores::Bool: Whether to download the field from the cores.\nupload_to_cores::Bool: Whether to upload the field to the cores.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.switch_NP1_to_N","page":"Functions","title":"PeriLab.Data_manager.switch_NP1_to_N","text":"switch_NP1_to_N()\n\nSwitches the fields from NP1 to N.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Data_manager.synch_manager","page":"Functions","title":"PeriLab.Data_manager.synch_manager","text":"synch_manager(synchronise_field, direction::String)\n\nSynchronises the fields.\n\nArguments\n\nsynchronise_field: The function to synchronise the field.\ndirection::String: The direction of the synchronisation.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"CurrentModule = PeriLab.Solver","category":"page"},{"location":"lib/functions/#Solver","page":"Functions","title":"Solver","text":"","category":"section"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"init\nget_block_nodes\nset_density\nset_horizon\nsolver\nsynchronise_field","category":"page"},{"location":"lib/functions/#PeriLab.Solver.init","page":"Functions","title":"PeriLab.Solver.init","text":"init(params::Dict, datamanager::Module)\n\nInitialize the solver\n\nArguments\n\nparams::Dict: The parameters\ndatamanager::Module: Datamanager\nto::TimerOutputs.TimerOutput: A timer output\n\nReturns\n\nblock_nodes::Dict{Int64,Vector{Int64}}: A dictionary mapping block IDs to collections of nodes.\nbcs::Dict{Any,Any}: A dictionary containing boundary conditions.\ndatamanager::Module: The data manager module that provides access to data fields and properties.\nsolver_options::Dict{String,Any}: A dictionary containing solver options.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.get_block_nodes","page":"Functions","title":"PeriLab.Solver.get_block_nodes","text":"get_block_nodes(block_ids, nnodes)\n\nReturns a dictionary mapping block IDs to collections of nodes.\n\nArguments\n\nblock_ids::Vector{Int64}: A vector of block IDs\nnnodes::Int64: The number of nodes\n\nReturns\n\nblock_nodes::Dict{Int64,Vector{Int64}}: A dictionary mapping block IDs to collections of nodes\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.set_density","page":"Functions","title":"PeriLab.Solver.set_density","text":"set_density(params::Dict, block_nodes::Dict, density::SubArray)\n\nSets the density of the nodes in the dictionary.\n\nArguments\n\nparams::Dict: The parameters\nblock_nodes::Dict: A dictionary mapping block IDs to collections of nodes\ndensity::SubArray: The density\n\nReturns\n\ndensity::SubArray: The density\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.set_horizon","page":"Functions","title":"PeriLab.Solver.set_horizon","text":"set_horizon(params::Dict, block_nodes::Dict, horizon::SubArray)\n\nSets the horizon of the nodes in the dictionary.\n\nArguments\n\nparams::Dict: The parameters\nblock_nodes::Dict: A dictionary mapping block IDs to collections of nodes\nhorizon::SubArray: The horizon\n\nReturns\n\nhorizon::SubArray: The horizon\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.solver","page":"Functions","title":"PeriLab.Solver.solver","text":"solver(solver_options::Dict{String,Any}, block_nodes::Dict{Int64,Vector{Int64}}, bcs::Dict{Any,Any}, datamanager::Module, outputs::Dict{Int64,Dict{}}, result_files::Vector{Any}, write_results, to, silent::Bool)\n\nRuns the solver.\n\nArguments\n\nsolver_options::Dict{String,Any}: The solver options\nblock_nodes::Dict{Int64,Vector{Int64}}: A dictionary mapping block IDs to collections of nodes\nbcs::Dict{Any,Any}: The boundary conditions\ndatamanager::Module: The data manager module\noutputs::Dict{Int64,Dict{}}: A dictionary for output settings\nresult_files::Vector{Any}: A vector of result files\nwrite_results: A function to write simulation results\nto::TimerOutputs.TimerOutput: A timer output\nsilent::Bool: A boolean flag to suppress progress bars\n\nReturns\n\nresult_files: A vector of updated result files\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.synchronise_field","page":"Functions","title":"PeriLab.Solver.synchronise_field","text":"synchronise_field(comm, synch_fields::Dict, overlap_map, get_field, synch_field::String, direction::String)\n\nSynchronises field.\n\nArguments\n\ncomm: The MPI communicator\nsynch_fields::Dict: A dictionary of fields\noverlap_map: The overlap map\nget_field: The function to get the field\nsynch_field::String: The field\ndirection::String: The direction\n\nReturns\n\nnothing\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"CurrentModule = PeriLab.Solver.Verlet","category":"page"},{"location":"lib/functions/#Verlet","page":"Functions","title":"Verlet","text":"","category":"section"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"compute_thermodynamic_critical_time_step\nget_cs_denominator\ncompute_mechanical_critical_time_step\ntest_timestep\ncompute_crititical_time_step\ninit_solver\nget_integration_steps\nrun_solver","category":"page"},{"location":"lib/functions/#PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step","page":"Functions","title":"PeriLab.Solver.Verlet.compute_thermodynamic_critical_time_step","text":"compute_thermodynamic_critical_time_step(nodes::Union{SubArray,Vector{Int64}}, datamanager::Module, lambda::Float64, Cv::Float64)\n\nCalculate the critical time step for a thermodynamic simulation based on  [7].\n\nThis function iterates over a collection of nodes and computes the critical time step for each node using provided input data and parameters.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: The collection of nodes to calculate the critical time step for.\ndatamanager::Module: The data manager module that provides access to required data fields.\nlambda::Float64: The material parameter used in the calculations.\nCv::Float64: The heat capacity at constant volume used in the calculations.\n\nReturns\n\nFloat64: The calculated critical time step for the thermodynamic simulation.\n\nDependencies\n\nThis function depends on the following data fields from the datamanager module:\n\nget_dof(): Returns the degree of freedom.\nget_nlist(): Returns the neighbor list.\nget_field(\"Density\"): Returns the density field.\nget_field(\"Bond Geometry\"): Returns the bond geometry field.\nget_field(\"Volume\"): Returns the volume field.\nget_field(\"Number of Neighbors\"): Returns the number of neighbors field.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.get_cs_denominator","page":"Functions","title":"PeriLab.Solver.Verlet.get_cs_denominator","text":"get_cs_denominator(volume::Union{SubArray,Vector{Float64},Vector{Int64}}, undeformed_bond::Union{SubArray,Vector{Float64},Vector{Int64}})\n\nCalculate the denominator for the critical time step calculation.\n\nArguments\n\nvolume::Union{SubArray,Vector{Float64},Vector{Int64}}: The volume field.\nundeformed_bond::Union{SubArray,Vector{Float64},Vector{Int64}}: The undeformed bond field.\n\nReturns\n\nFloat64: The denominator for the critical time step calculation.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.compute_mechanical_critical_time_step","page":"Functions","title":"PeriLab.Solver.Verlet.compute_mechanical_critical_time_step","text":"compute_mechanical_critical_time_step(nodes::Union{SubArray,Vector{Int64}}, datamanager::Module, bulkModulus::Float64)\n\nCalculate the critical time step for a mechanical simulation using a bond-based approximation [8].\n\nThis function iterates over a collection of nodes and computes the critical time step for each node based on the given input data and parameters.\n\nArguments\n\nnodes::Union{SubArray, Vector{Int64}}: The collection of nodes to calculate the critical time step for.\ndatamanager::Module: The data manager module that provides access to required data fields.\nbulkModulus::Float64: The bulk modulus used in the calculations.\n\nReturns\n\nFloat64: The calculated critical time step for the mechanical simulation.\n\nDependencies\n\nThis function depends on the following data fields from the datamanager module:\n\nget_nlist(): Returns the neighbor list.\nget_field(\"Density\"): Returns the density field.\nget_field(\"Bond Geometry\"): Returns the bond geometry field.\nget_field(\"Volume\"): Returns the volume field.\nget_field(\"Horizon\"): Returns the horizon field.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.test_timestep","page":"Functions","title":"PeriLab.Solver.Verlet.test_timestep","text":"test_timestep(t::Float64, critical_time_step::Float64)\n\nCompare a time step t with a critical time step critical_time_step and update critical_time_step if t is smaller.\n\nArguments\n\nt::Float64: The time step to compare with critical_time_step.\ncritical_time_step::Float64: The current critical time step.\n\nReturns\n\ncritical_time_step::Float64: The updated critical time step, which is either the original critical_time_step or t, whichever is smaller.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.compute_crititical_time_step","page":"Functions","title":"PeriLab.Solver.Verlet.compute_crititical_time_step","text":"compute_crititical_time_step(datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, mechanical::Bool, thermo::Bool)\n\nCalculate the critical time step for a simulation considering both mechanical and thermodynamic aspects.\n\nThis function computes the critical time step by considering mechanical and thermodynamic properties of different blocks. The resulting critical time step is based on the smallest critical time step found among the blocks.\n\nArguments\n\ndatamanager::Module: The data manager module that provides access to required data fields and properties.\nblock_nodes::Dict{Int64, Vector{Int64}}: A dictionary mapping block IDs to collections of nodes.\nmechanical::Bool: If true, mechanical properties are considered in the calculation.\nthermo::Bool: If true, thermodynamic properties are considered in the calculation.\n\nReturns\n\nFloat64: The calculated critical time step based on the smallest critical time step found among the blocks.\n\nDependencies\n\nThis function may depend on the following functions:\n\ncompute_thermodynamic_critical_time_step: Used if thermo is true to calculate thermodynamic critical time steps.\ncompute_mechanical_critical_time_step: Used if mechanical is true to calculate mechanical critical time steps.\nThe availability of specific properties from the data manager module.\n\nErrors\n\nIf required properties are not available in the data manager, it may raise an error message.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.init_solver","page":"Functions","title":"PeriLab.Solver.Verlet.init_solver","text":"init_solver(params::Dict, datamanager::Module, block_nodes::Dict{Int64,Vector{Int64}}, mechanical::Bool, thermo::Bool)\n\nInitialize the Verlet solver for a simulation.\n\nThis function sets up the Verlet solver for a simulation by initializing various parameters and calculating the time step based on provided parameters or critical time step calculations.\n\nArguments\n\nparams::Dict: A dictionary containing simulation parameters.\ndatamanager::Module: The data manager module that provides access to required data fields and properties.\nblock_nodes::Dict{Int64,Vector{Int64}}: A dictionary mapping block IDs to collections of nodes.\nmechanical::Bool: If true, mechanical properties are considered in the calculation.\nthermo::Bool: If true, thermodynamic properties are considered in the calculation.\n\nReturns\n\nA tuple (initial_time, dt, nsteps, numerical_damping) where:\n\ninitial_time::Float64: The initial time for the simulation.\ndt::Float64: The time step for the simulation.\nnsteps::Int64: The number of time integration steps.\nnumerical_damping::Float64: The numerical damping factor.\nmax_damage::Float64: The maximum damage in the simulation.\n\nDependencies\n\nThis function may depend on the following functions:\n\nget_initial_time, get_final_time, get_safety_factor, get_fixed_dt: Used to retrieve simulation parameters.\ncompute_crititical_time_step: Used to calculate the critical time step if dt is not fixed.\nget_integration_steps: Used to determine the number of integration steps and adjust the time step.\nfind_and_set_core_value_min and find_and_set_core_value_max: Used to set core values in a distributed computing environment.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.get_integration_steps","page":"Functions","title":"PeriLab.Solver.Verlet.get_integration_steps","text":"get_integration_steps(initial_time::Float64, end_time::Float64, dt::Float64)\n\nCalculate the number of integration steps and the adjusted time step for a numerical integration process.\n\nArguments\n\ninitial_time::Float64: The initial time for the integration.\nend_time::Float64: The final time for the integration.\ndt::Float64: The time step size.\n\nReturns\n\nA tuple (nsteps, dt) where:\n\nnsteps::Int64: The number of integration steps required to cover the specified time range.\ndt::Float64: The adjusted time step size to evenly divide the time range.\n\nErrors\n\nThrows an error if the dt is less than or equal to zero.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Verlet.run_solver","page":"Functions","title":"PeriLab.Solver.Verlet.run_solver","text":"run_solver(\n    solver_options::Dict{String,Any},\n    block_nodes::Dict{Int64,Vector{Int64}},\n    bcs::Dict{Any,Any},\n    datamanager::Module,\n    outputs::Dict{Int64,Dict{}},\n    result_files::Vector{Any},\n    synchronise_field,\n    write_results,\n    to::TimerOutputs.TimerOutput,\n    silent::Bool\n)\n\nRun the Verlet solver for a simulation based on the strategy provided in [1] and  [2].\n\nThis function performs the Verlet solver simulation, updating various data fields and properties over a specified number of time steps.\n\nArguments\n\nsolver_options::Dict{String,Any}: A dictionary containing solver options and parameters.\nblock_nodes::Dict{Int64,Vector{Int64}}: A dictionary mapping block IDs to collections of nodes.\nbcs::Dict{Any,Any}: A dictionary containing boundary conditions.\ndatamanager::Module: The data manager module that provides access to data fields and properties.\noutputs::Dict{Int64,Dict{}}: A dictionary for output settings.\nresult_files::Vector{Any}: A vector of result files.\nsynchronise_field: A function for synchronization.\nwrite_results: A function to write simulation results.\nto::TimerOutputs.TimerOutput: A timer output.\nsilent::Bool: A boolean flag to suppress progress bars.\n\nReturns\n\nresult_files: A vector of updated result files.\n\nDependencies\n\nThis function depends on various data fields and properties from the datamanager module, as well as several helper functions. It also relies on solver options and boundary conditions provided in the input parameters.\n\nFunction Workflow\n\nInitialize simulation parameters and data fields.\nPerform Verlet integration over a specified number of time steps.\nUpdate data fields and properties based on the solver options.\nWrite simulation results using the write_results function.\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"CurrentModule = PeriLab.Solver.Boundary_conditions","category":"page"},{"location":"lib/functions/#Boundary_conditions","page":"Functions","title":"Boundary_conditions","text":"","category":"section"},{"location":"lib/functions/","page":"Functions","title":"Functions","text":"check_valid_bcs\ninit_BCs\nboundary_condition\napply_bc\nclean_up\neval_bc","category":"page"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.check_valid_bcs","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.check_valid_bcs","text":"check_valid_bcs(bcs::Dict{String,Any}, datamanager::Module\n\nCheck if the boundary conditions are valid\n\nArguments\n\nbcs::Dict{String,Any}: The boundary conditions\ndatamanager::Module: The data manager module\n\nReturns\n\nworking_bcs::Dict{String,Any}: The valid boundary conditions\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.init_BCs","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.init_BCs","text":"init_BCs(params::Dict, datamanager)\n\nInitialize the boundary conditions\n\nArguments\n\nparams::Dict: The parameters\ndatamanager::Module: Datamanager\n\nReturns\n\nbcs::Dict{Any,Any}: The boundary conditions\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.boundary_condition","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.boundary_condition","text":"boundary_condition(params::Dict, datamanager)\n\nInitialize the boundary condition\n\nArguments\n\nparams::Dict: The parameters\ndatamanager::Module: Datamanager\n\nReturns\n\nbcs_out::Dict{Any,Any}: The boundary conditions\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.apply_bc","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.apply_bc","text":"apply_bc(bcs::Dict, datamanager::Module, time::Float64)\n\nApply the boundary conditions\n\nArguments\n\nbcs::Dict{Any,Any}: The boundary conditions\ndatamanager::Module: Datamanager\ntime::Float64: The current time\n\nReturns\n\ndatamanager::Module: Datamanager\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.clean_up","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.clean_up","text":"clean_up(bc::String)\n\nClean up the boundary condition\n\nArguments\n\nbc::String: The boundary condition\n\nReturns\n\nbc::String: The cleaned up boundary condition\n\n\n\n\n\n","category":"function"},{"location":"lib/functions/#PeriLab.Solver.Boundary_conditions.eval_bc","page":"Functions","title":"PeriLab.Solver.Boundary_conditions.eval_bc","text":"eval_bc(field_values::Union{SubArray,Vector{Float64},Vector{Int64}}, bc::Union{Float64,Float64,Int64,String}, coordinates::Matrix{Float64}, time::Float64, dof::Int64)\n\nWorking with if-statements \"if t>2 0 else 20 end\" works for scalars. If you want to evaluate a vector, please use the Julia notation as input \"ifelse.(x .> y, 10, 20)\"\n\n\n\n\n\n","category":"function"},{"location":"man/getting_started/#Getting-Started","page":"Getting Started","title":"Getting Started","text":"","category":"section"},{"location":"man/getting_started/#Installation","page":"Getting Started","title":"Installation","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"The PeriLab package is available through the Julia package system and can be installed using the following commands:","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"using Pkg\nPkg.add(\"PeriLab\")","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"Throughout the rest of this tutorial, we will assume that you have installed the PeriLab package and have already typed using PeriLab to bring all of the relevant variables into your current namespace.","category":"page"},{"location":"man/getting_started/#Using-PeriLab","page":"Getting Started","title":"Using PeriLab","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"The simplest way to run the PeriLab simulation core is to use a provided example import the module and go. ","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"using PeriLab\n\nPeriLab.get_examples()\nPeriLab.main(\"examples/DCB/DCBmodel.yaml\")","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"The main functionalities for the yaml input deck is given in","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"\"examples/functionalities.yaml\"","category":"page"},{"location":"man/getting_started/#Using-PeriLab-with-multiple-processors-(MPI)","page":"Getting Started","title":"Using PeriLab with multiple processors (MPI)","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"In order to run PeriLab for large scale problems MPI needs to be installed:","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"$ julia\njulia> using MPI\njulia> MPI.install_mpiexecjl()","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"Run PeriLab with two processors:","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"$ mpiexecjl -n 2 julia -e \"using PeriLab; PeriLab.main()\" Dogbone.yaml -v","category":"page"},{"location":"man/getting_started/#Training","page":"Getting Started","title":"Training","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"The training input is given under the examples folder. The documentation and a video will follow.","category":"page"},{"location":"man/getting_started/#Index","page":"Getting Started","title":"Index","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"Pages = [\"gettin_started.md\"]","category":"page"},{"location":"man/getting_started/#Functions","page":"Getting Started","title":"Functions","text":"","category":"section"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"CurrentModule = PeriLab","category":"page"},{"location":"man/getting_started/","page":"Getting Started","title":"Getting Started","text":"main\nget_examples","category":"page"},{"location":"man/getting_started/#PeriLab.main","page":"Getting Started","title":"PeriLab.main","text":"main()\n\nEntry point for the PeriLab application.\n\nThis function serves as the entry point for the PeriLab application. It calls the core main function with the provided arguments.\n\n\n\n\n\nmain(filename::String, output_dir::String=\"\", dry_run::Bool=false, verbose::Bool=false, debug::Bool=false, silent::Bool=false)\n\nEntry point for the PeriLab application.\n\nThis function serves as the entry point for the PeriLab application. It calls the core main function with the provided arguments.\n\nArguments\n\nfilename::String: The filename of the input file.\noutput_dir::String: The output directory.\ndry_run::Bool=false: Whether to run in dry-run mode.\nverbose::Bool=false: Whether to run in verbose mode.\ndebug::Bool=false: Whether to run in debug mode.\nsilent::Bool=false: Whether to run in silent mode.\n\n\n\n\n\n","category":"function"},{"location":"man/getting_started/#PeriLab.get_examples","page":"Getting Started","title":"PeriLab.get_examples","text":"get_examples()\n\nCopy the examples folder to the current directory.\n\n\n\n\n\n","category":"function"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"<!– SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>","category":"page"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"SPDX-License-Identifier: BSD-3-Clause –>","category":"page"},{"location":"devLog/#Dev-Steps","page":"Dev Log","title":"Dev Steps","text":"","category":"section"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"1. dof für koordinaten an alle cores verteilen verteilen -> done\n2. num_responder num_controller verteilen -> done\n3. coordinatenfelder initialisieren auf allen Knoten -> done\n4. versenden von Koordinaten -> done\n5. versenden der Block_Id der Knoten -> done\n5.a neighborhoodlist -> num neighbor für jeden knoten -> done\n                     -> feld init an jedem knoten -> das vielleicht skalierbare referenz? -> done\n5.b neighboorhoodlist verteilen -> done\n5.c bond init lists -> done\n!-----------\n6. loc to glob -> distributionsfeld an die Knoten -> done \n7. glob to loc ableiten für RB Knoten -> done\n8. overlapmap verteilen an Knoten -> send to all! -> done\n! ---------\n9. block filter -> auf den Kernen block_id -> alle Knoten -> done\n10. BC Filter -> an alle -> done\n! -------------\n11. Nachbarschaftslisten versenden ! wie in sinnvoller Weise?\n12. bondvectors set to zero -> done\n13. bc interpreter -> done\n13.a nodesets in mesh -> done\n14. overlap synchronisation\n15. bc in solver -> done\n16. verlet solver -> pacackage?\n17. write output -> done\n18. integrate first model\n18.a step width determination -> done\n19. first test\n20. 2D arrays in fields\n21. params reader for material + physics -> done\n22. compute class","category":"page"},{"location":"devLog/#Design-decisions","page":"Dev Log","title":"Design decisions","text":"","category":"section"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"Each vector entry for a value exists for all nodes, also if the node does not have this property in a block. However, the synchronisation is very ugly, because all responder nodes of block with value I need the entry at the other core to. If not it will lead nowhere if MPI communication occurs","category":"page"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"IO\nnodesets are not defined yet in Exodus.jl\n\nsnake_case for variables and functions\nPascalCase for modules and type names\nFULL_UPPERCASE for constants","category":"page"},{"location":"devLog/#Issues","page":"Dev Log","title":"Issues","text":"","category":"section"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"for n=4 -> errors    \nMPI_Neighbor_alltoall -> might be easier","category":"page"},{"location":"devLog/#planned-feature","page":"Dev Log","title":"planned feature","text":"","category":"section"},{"location":"devLog/","page":"Dev Log","title":"Dev Log","text":"test if blocks are defined in yaml, but missing in mesh\nhttps://github.com/StephenVavasis/Unroll.jl\nstatic arrays package -> speed up -> only for arrays smaller 100; inverte of Jacobian, etc.\nintegration of FEM Julia package -> coupling might be better, becaus of more functionality\ntime step minimum for all cores -> parallel computing! -> done\nmatrix -> reshape from vector for better use\nsearch for jl files in material\ncheck the header for the material name\ninclude the file in the code via a makro\nmaterial inclusion is very simple\nbonds as elements in exodus -> filter small to large writing ?! -> elements can be x,y to be represented both\nmultiple materials in one block -> evaluation order","category":"page"},{"location":"#PeriLab","page":"Introduction","title":"PeriLab","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"Welcome to the PeriLab documentation!","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"This resource aims to teach you everything you need to know to get up and running with tabular data manipulation using the PeriLab.jl package.","category":"page"},{"location":"#What-is-PeriLab.jl?","page":"Introduction","title":"What is PeriLab.jl?","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"PeriLab.jl provides a Peridynamics [1] simulation core","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Its design and functionality are similar to those of Peridigm  [2] and several extenions [3], [4], [5]. ","category":"page"},{"location":"#PeriLab.jl-and-the-Peridynamics-Ecosystem","page":"Introduction","title":"PeriLab.jl and the Peridynamics Ecosystem","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"Mesh-free particle-based methods are mostly used for the numerical approximation of peridynamics equations. [6] provides an overview of current Peridynamics software developments. In addition to this, many local research groups are also developing their software. Most of the listed tools are problem-specific or developed by a single person. The most sophisticated software tools are EMU and Peridigm. EMU is not open source, but researchers can request the code. However, due to the code developments at the Sandia National labs and the rules of development, the code is officially not usable because the rules violate the \"Treaty on the Non-Proliferation of Nuclear Weapons\".","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Peridigm is an open-source tool that can be used for large-scale problems. It includes multiple material laws, simple damage models. Peridigm is usable under a BSD license. Currently, there is some irregular development ongoing. It provides multiple ways of model input and provides Paraview readable output. The whole code allows the analysis of large-scale problems. A lot of research has been performed utilizing the software.","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"One challenge, however, remains. How can Peridynamics be widely adopted? Classical continuum mechanics is extensively utilized in the engineering field through the finite element method. There is a multitude of commercial and non-commercial software tools available for this purpose. In the case of Peridynamics, this is not the case. Peridigm as the most advanced one provides an open-source code with many functionalities. However, the implementation effort is substantial, and the installation process is difficult and time-consuming. To implement the simplest material law you have to edit at least five files. If you add new files and folders in the project you have to deal with cmake scripts and all challenges related to it.","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Moreover, the program is only partially maintained. This results in valuable research findings being underutilized, and Peridynamics, as a result, finds limited application outside of specific niche problems. There is a significant need for software that combines functionality, easy installation, and seamless integration. ","category":"page"},{"location":"#Questions?","page":"Introduction","title":"Questions?","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"If there is something you expect PeriLab to be capable of, but cannot figure out how to do, please reach out with questions in Domains/Data on Discourse.","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Please report bugs by opening an issue.","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"You can follow the source links throughout the documentation to jump right to the source files on GitHub to make pull requests for improving the documentation and function capabilities.","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Please review PeriLab contributing guidelines before submitting your first PR!","category":"page"},{"location":"","page":"Introduction","title":"Introduction","text":"Information on specific versions can be found on the Release page.","category":"page"},{"location":"#Package-Manual","page":"Introduction","title":"Package Manual","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"Pages = [\"man/basics.md\",\n         \"man/getting_started.md\"]\nDepth = 2","category":"page"},{"location":"#API","page":"Introduction","title":"API","text":"","category":"section"},{"location":"","page":"Introduction","title":"Introduction","text":"Only exported (i.e. available for use without PeriLab. qualifier after loading the PeriLab.jl package with using PeriLab) types and functions are considered a part of the public API of the PeriLab.jl package. In general all such objects are documented in this manual (in case some documentation is missing please kindly report an issue here).","category":"page"}]
+}
diff --git a/dev/siteinfo.js b/dev/siteinfo.js
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--- /dev/null
+++ b/dev/siteinfo.js
@@ -0,0 +1 @@
+var DOCUMENTER_CURRENT_VERSION = "dev";
diff --git a/dev/theory.md.license b/dev/theory.md.license
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--- /dev/null
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@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/theory/basics.md.license b/dev/theory/basics.md.license
new file mode 100644
index 000000000..e2c8c6448
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@@ -0,0 +1,3 @@
+SPDX-FileCopyrightText: 2023 Christian Willberg <christian.willberg@dlr.de>, Jan-Timo Hesse <jan-timo.hesse@dlr.de>
+
+SPDX-License-Identifier: BSD-3-Clause
\ No newline at end of file
diff --git a/dev/theory/basics/index.html b/dev/theory/basics/index.html
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+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>- · PeriLab</title><meta name="title" content="- · PeriLab"/><meta property="og:title" content="- · PeriLab"/><meta property="twitter:title" content="- · PeriLab"/><meta name="description" content="Documentation for PeriLab."/><meta property="og:description" content="Documentation for PeriLab."/><meta property="twitter:description" content="Documentation for PeriLab."/><meta property="og:url" content="https://gitlab.com/dlr-perihub/perilab/theory/basics/"/><meta property="twitter:url" content="https://gitlab.com/dlr-perihub/perilab/theory/basics/"/><link rel="canonical" href="https://gitlab.com/dlr-perihub/perilab/theory/basics/"/><script data-outdated-warner src="../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link 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href="../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../assets/themeswap.js"></script><link href="../../assets/favicon.ico" rel="icon" type="image/x-icon"/></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../"><img class="docs-light-only" src="../../assets/logo.png" alt="PeriLab logo"/><img class="docs-dark-only" src="../../assets/logo-dark.png" alt="PeriLab logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../">PeriLab</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../">Introduction</a></li><li><a class="tocitem" href="../../man/basics/">First Steps with PeriLab</a></li><li><span class="tocitem">User Guide</span><ul><li><a class="tocitem" href="../../man/getting_started/">Getting Started</a></li><li><a class="tocitem" href="../../man/input_yaml/">Input File</a></li><li><a class="tocitem" href="../../man/mesh_input/">Mesh and Nodesets</a></li><li><a class="tocitem" href="../../man/bond_filter/">Bond-Filter</a></li></ul></li><li><span class="tocitem">API</span><ul><li><a class="tocitem" href="../../lib/functions/">Functions</a></li><li><a class="tocitem" href="../../lib/io_functions/">IO Functions</a></li><li><a class="tocitem" href="../../lib/physics_functions/">Physics Functions</a></li></ul></li><li><a class="tocitem" href="../../lib/references/">References</a></li><li><a class="tocitem" href="../../devLog/">Dev Log</a></li><li><a class="tocitem" href="../../lib/faq/">FAQ</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li class="is-active"><a href>-</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>-</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab" title="View the repository"><span class="docs-icon fa-brands"></span><span class="docs-label is-hidden-touch">Repository</span></a><a class="docs-navbar-link" href="https://gitlab.com/dlr-PeriHub/PeriLab/-/tree/main/docs/src/theory/basics.md" title="Edit source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><p>Peridynamics is an integral continuum mechanics formulation. For a pure mechanical description it can be formulated as:</p><p>$</p><p>\int_{\mathcal{H}}\underline{\mathbf{T}}\langle\mathbf{x},t\rangle-\underline{\mathbf{T}}\langle\mathbf{x}&#39;,t\rangle dV- \mathbf{b}=\rho\ddot{\mathbf{u}} $</p><p>The parameters are:</p><table><tr><th style="text-align: right">Parameter</th><th style="text-align: right">Name</th></tr><tr><td style="text-align: right"><span>$\mathcal{H}$</span></td><td style="text-align: right">Neighborhood [-]</td></tr><tr><td style="text-align: right"><span>$V$</span></td><td style="text-align: right">Volume [<span>$m^3$</span>]</td></tr><tr><td style="text-align: right"><span>$\mathbf{x}$</span></td><td style="text-align: right">Position of point [<span>$m$</span>]</td></tr><tr><td style="text-align: right"><span>$\mathbf{x}&#39;$</span></td><td style="text-align: right">Position of neighbor [<span>$m$</span>]</td></tr><tr><td style="text-align: right"><span>$t$</span></td><td style="text-align: right">Time [<span>$s$</span>]</td></tr><tr><td style="text-align: right"><span>$\mathbf{b}$</span></td><td style="text-align: right">External force densities [<span>$N/m^3$</span>]</td></tr><tr><td style="text-align: right"><span>$\mathbf{u}$</span></td><td style="text-align: right">Displacements [<span>$m$</span>]</td></tr><tr><td style="text-align: right"><span>$\ddot{\mathbf{u}}$</span></td><td style="text-align: right">Accelerations [<span>$m/s$</span>]</td></tr><tr><td style="text-align: right"><span>$\underline{\mathbf{T}}$</span></td><td style="text-align: right">Force density state [<span>$N/m^6$</span>]</td></tr><tr><td style="text-align: right"><span>$\rho$</span></td><td style="text-align: right">Mass density [<span>$kg/m^3$</span>]</td></tr></table><p>To solve this three main types of formulations are usable; bond-based, ordinary state-based and non-ordinary state-based.</p><table><tr><th style="text-align: right">Method</th><th style="text-align: right">Related Model in PeriLab</th></tr><tr><td style="text-align: right">Bond-based</td><td style="text-align: right"><a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/src/Physics/Material/BondBased/Bondbased_Elastic.jl">Bond-based Elastic</a></td></tr><tr><td style="text-align: right">Ordinary state-based</td><td style="text-align: right"><a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/src/Physics/Material/Material_Models/PD_Solid_Elastic.jl">PD Solid Elastic</a> <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/src/Physics/Material/Material_Models/PD_Solid_Plastic.jl">PD Solid Plastic</a></td></tr><tr><td style="text-align: right">Non-ordinary state-based</td><td style="text-align: right"><a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/src/Physics/Material/Material_Models/Correspondence_Elastic.jl">Correspondence Elastic</a> <a href="https://gitlab.com/dlr-perihub/PeriLab.jl/-/blob/main/src/Physics/Material/Material_Models/Correspondence_Plastic.jl">Correspondence Plastic</a></td></tr></table></article><nav class="docs-footer"><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.3.0 on <span class="colophon-date" title="Wednesday 20 March 2024 09:58">Wednesday 20 March 2024</span>. 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