Add new types

biopragmatics · Dec 5, 2023 · c136842 · c136842
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diff --git a/docs/0000042/index.html b/docs/0000042/index.html
@@ -0,0 +1,74 @@
+
+
+<!DOCTYPE html>
+<html lang="en">
+<head>        <meta charset="utf-8">
+        <meta name="viewport" content="width=device-width, initial-scale=1.0">    <link
+        rel="stylesheet"
+        href="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/css/bootstrap.min.css"
+        integrity="sha384-Gn5384xqQ1aoWXA+058RXPxPg6fy4IWvTNh0E263XmFcJlSAwiGgFAW/dAiS6JXm"
+        crossorigin="anonymous"
+    />
+    <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/c3/0.6.12/c3.min.css"/>
+    <style>
+        h2 {
+            margin-top: 35px;
+        }
+
+        html, body {
+            height: 100%;
+        }
+
+        body {
+            display: flex;
+            flex-flow: column;
+        }
+
+        .footer {
+            margin-top: auto;
+            padding-top: 1em;
+            background-color: #f5f5f5;
+        }
+    </style>    <title>constant has value</title></head>
+
+<body>
+<nav class="navbar navbar-expand-lg navbar-light bg-light">
+    <span class="navbar-brand">
+        Decentralized Biomedical Ontology
+    </span>
+</nav>
+
+<div class="container" style="margin-top: 50px; margin-bottom: 50px">
+<div class="card">
+        <h5 class="card-header">
+                <span class="badge badge-info">Property</span>
+            constant has value
+        </h5>
+        <div class="card-body">
+                <p>Connects an individual representing a physical constant to its numeric value</p>
+            <dl>
+                <dt>Local Unique Identifier</dt>
+                <dd>
+                    <a href="https://bioregistry.io/debio:0000042">0000042</a>
+                </dd>
+
+
+
+
+            </dl>
+        </div>
+    </div></div>
+
+<footer class="footer">
+    <p class="small text-center text-muted">
+        Generated with PyOBO
+    </p>
+</footer>
+
+<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js"
+        integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN"
+        crossorigin="anonymous"></script>
+<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js"
+        integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl"
+        crossorigin="anonymous"></script></body>
+</html>
diff --git a/docs/0000043/index.html b/docs/0000043/index.html
@@ -0,0 +1,74 @@
+
+
+<!DOCTYPE html>
+<html lang="en">
+<head>        <meta charset="utf-8">
+        <meta name="viewport" content="width=device-width, initial-scale=1.0">    <link
+        rel="stylesheet"
+        href="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/css/bootstrap.min.css"
+        integrity="sha384-Gn5384xqQ1aoWXA+058RXPxPg6fy4IWvTNh0E263XmFcJlSAwiGgFAW/dAiS6JXm"
+        crossorigin="anonymous"
+    />
+    <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/c3/0.6.12/c3.min.css"/>
+    <style>
+        h2 {
+            margin-top: 35px;
+        }
+
+        html, body {
+            height: 100%;
+        }
+
+        body {
+            display: flex;
+            flex-flow: column;
+        }
+
+        .footer {
+            margin-top: auto;
+            padding-top: 1em;
+            background-color: #f5f5f5;
+        }
+    </style>    <title>constant has formula</title></head>
+
+<body>
+<nav class="navbar navbar-expand-lg navbar-light bg-light">
+    <span class="navbar-brand">
+        Decentralized Biomedical Ontology
+    </span>
+</nav>
+
+<div class="container" style="margin-top: 50px; margin-bottom: 50px">
+<div class="card">
+        <h5 class="card-header">
+                <span class="badge badge-info">Property</span>
+            constant has formula
+        </h5>
+        <div class="card-body">
+                <p>Connects an individual representing a physical constant to its formula</p>
+            <dl>
+                <dt>Local Unique Identifier</dt>
+                <dd>
+                    <a href="https://bioregistry.io/debio:0000043">0000043</a>
+                </dd>
+
+
+
+
+            </dl>
+        </div>
+    </div></div>
+
+<footer class="footer">
+    <p class="small text-center text-muted">
+        Generated with PyOBO
+    </p>
+</footer>
+
+<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js"
+        integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN"
+        crossorigin="anonymous"></script>
+<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js"
+        integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl"
+        crossorigin="anonymous"></script></body>
+</html>
diff --git a/docs/0000044/index.html b/docs/0000044/index.html
@@ -0,0 +1,74 @@
+
+
+<!DOCTYPE html>
+<html lang="en">
+<head>        <meta charset="utf-8">
+        <meta name="viewport" content="width=device-width, initial-scale=1.0">    <link
+        rel="stylesheet"
+        href="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/css/bootstrap.min.css"
+        integrity="sha384-Gn5384xqQ1aoWXA+058RXPxPg6fy4IWvTNh0E263XmFcJlSAwiGgFAW/dAiS6JXm"
+        crossorigin="anonymous"
+    />
+    <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/c3/0.6.12/c3.min.css"/>
+    <style>
+        h2 {
+            margin-top: 35px;
+        }
+
+        html, body {
+            height: 100%;
+        }
+
+        body {
+            display: flex;
+            flex-flow: column;
+        }
+
+        .footer {
+            margin-top: auto;
+            padding-top: 1em;
+            background-color: #f5f5f5;
+        }
+    </style>    <title>pathogen defines vaccine class</title></head>
+
+<body>
+<nav class="navbar navbar-expand-lg navbar-light bg-light">
+    <span class="navbar-brand">
+        Decentralized Biomedical Ontology
+    </span>
+</nav>
+
+<div class="container" style="margin-top: 50px; margin-bottom: 50px">
+<div class="card">
+        <h5 class="card-header">
+                <span class="badge badge-info">Relation</span>
+            pathogen defines vaccine class
+        </h5>
+        <div class="card-body">
+                <p>A relationship where the domain is a taxon and the range is a vaccine family. E.g., Severe acute respiratory syndrome coronavirus 2 (ncbitaxon:2697049) is the pathogen that defines vaccine class COVID-19 vaccine (VO:0004908). Sort of an inverse of VO:0003355, but more specific</p>
+            <dl>
+                <dt>Local Unique Identifier</dt>
+                <dd>
+                    <a href="https://bioregistry.io/debio:0000044">0000044</a>
+                </dd>
+
+
+
+
+            </dl>
+        </div>
+    </div></div>
+
+<footer class="footer">
+    <p class="small text-center text-muted">
+        Generated with PyOBO
+    </p>
+</footer>
+
+<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js"
+        integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN"
+        crossorigin="anonymous"></script>
+<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js"
+        integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl"
+        crossorigin="anonymous"></script></body>
+</html>
diff --git a/docs/index.html b/docs/index.html
@@ -411,6 +411,30 @@ <h5 class="card-header">
                         <td>prevents infection</td>
                         <td>Sibling relationship to vo:0001011 (immunizes against disease)</td>
                     </tr>
+                    <tr>
+                        <td>
+                                Property
+                        </td>
+                        <td align="right"><a href="0000042">0000042</a></td>
+                        <td>constant has value</td>
+                        <td>Connects an individual representing a physical constant to its numeric value</td>
+                    </tr>
+                    <tr>
+                        <td>
+                                Property
+                        </td>
+                        <td align="right"><a href="0000043">0000043</a></td>
+                        <td>constant has formula</td>
+                        <td>Connects an individual representing a physical constant to its formula</td>
+                    </tr>
+                    <tr>
+                        <td>
+                                TypeDef
+                        </td>
+                        <td align="right"><a href="0000044">0000044</a></td>
+                        <td>pathogen defines vaccine class</td>
+                        <td>A relationship where the domain is a taxon and the range is a vaccine family. E.g., Severe acute respiratory syndrome coronavirus 2 (ncbitaxon:2697049) is the pathogen that defines vaccine class COVID-19 vaccine (VO:0004908). Sort of an inverse of VO:0003355, but more specific</td>
+                    </tr>
                 </tbody>
             </table>
         </div>

diff --git a/releases/current/debio.json b/releases/current/debio.json
@@ -3,14 +3,17 @@
     "id" : "http://purl.obolibrary.org/obo/debio.owl",
     "meta" : {
       "basicPropertyValues" : [ {
+        "pred" : "http://purl.org/dc/elements/1.1/description",
+        "val" : "A repository for the TSV-based, decentralized, community-curated curation of terms, properties, and relations that get turned into OBO, OWL, and OBO Graph JSON."
+      }, {
         "pred" : "http://purl.org/dc/elements/1.1/title",
         "val" : "Decentralized Biomedical Ontology"
       }, {
         "pred" : "http://www.geneontology.org/formats/oboInOwl#auto-generated-by",
         "val" : "bio2obo:debio"
       }, {
         "pred" : "http://www.geneontology.org/formats/oboInOwl#date",
-        "val" : "14:11:2023 17:31"
+        "val" : "05:12:2023 19:15"
       }, {
         "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion",
         "val" : "1.2"
@@ -621,6 +624,51 @@
           "val" : "orcid:0000-0003-4423-4370"
         } ]
       }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/debio_0000042",
+      "lbl" : "constant has value",
+      "type" : "PROPERTY",
+      "meta" : {
+        "definition" : {
+          "val" : "Connects an individual representing a physical constant to its numeric value"
+        },
+        "basicPropertyValues" : [ {
+          "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by",
+          "val" : "orcid:0000-0003-4423-4370"
+        }, {
+          "pred" : "http://www.geneontology.org/formats/oboInOwl#is_metadata_tag",
+          "val" : "true"
+        } ]
+      }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/debio_0000043",
+      "lbl" : "constant has formula",
+      "type" : "PROPERTY",
+      "meta" : {
+        "definition" : {
+          "val" : "Connects an individual representing a physical constant to its formula"
+        },
+        "basicPropertyValues" : [ {
+          "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by",
+          "val" : "orcid:0000-0003-4423-4370"
+        }, {
+          "pred" : "http://www.geneontology.org/formats/oboInOwl#is_metadata_tag",
+          "val" : "true"
+        } ]
+      }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/debio_0000044",
+      "lbl" : "pathogen defines vaccine class",
+      "type" : "PROPERTY",
+      "meta" : {
+        "definition" : {
+          "val" : "A relationship where the domain is a taxon and the range is a vaccine family. E.g., Severe acute respiratory syndrome coronavirus 2 (ncbitaxon:2697049) is the pathogen that defines vaccine class COVID-19 vaccine (VO:0004908). Sort of an inverse of VO:0003355, but more specific"
+        },
+        "basicPropertyValues" : [ {
+          "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by",
+          "val" : "orcid:0000-0003-4423-4370"
+        } ]
+      }
     }, {
       "id" : "http://www.geneontology.org/formats/oboInOwl#hasDbXref",
       "lbl" : "database_cross_reference",
@@ -632,7 +680,7 @@
     } ],
     "propertyChainAxioms" : [ {
       "predicateId" : "http://purl.obolibrary.org/obo/debio_0000001",
-      "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/ro_0002205", "http://purl.obolibrary.org/obo/ro_0002350" ]
+      "chainPredicateIds" : [ "http://purl.obolibrary.org/obo/RO_0002205", "http://purl.obolibrary.org/obo/RO_0002350" ]
     } ]
   } ]
 }
diff --git a/releases/current/debio.obo b/releases/current/debio.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-date: 14:11:2023 17:31
+date: 05:12:2023 19:15
 auto-generated-by: bio2obo:debio
 data-version: 0.1.2-dev
 idspace: RO http://purl.obolibrary.org/obo/RO_
@@ -8,12 +8,13 @@ idspace: obo http://purl.obolibrary.org/obo/
 idspace: orcid https://orcid.org/
 ontology: debio
 property_value: http://purl.org/dc/elements/1.1/title "Decentralized Biomedical Ontology" xsd:string
+property_value: http://purl.org/dc/elements/1.1/description "A repository for the TSV-based\, decentralized\, community-curated curation of terms\, properties\, and relations that get turned into OBO\, OWL\, and OBO Graph JSON." xsd:string
 
 [Typedef]
 id: debio:0000001
 name: gene product is a member of
 created_by: orcid:0000-0003-4423-4370
-holds_over_chain: ro:0002205 ro:0002350 ! has gene product / member of
+holds_over_chain: RO:0002205 RO:0002350 ! has gene product / member of
 
 [Typedef]
 id: debio:0000002
@@ -280,3 +281,23 @@ id: debio:0000041
 name: prevents infection
 def: "Sibling relationship to vo:0001011 (immunizes against disease)"
 created_by: orcid:0000-0003-4423-4370
+
+[Typedef]
+id: debio:0000042
+name: constant has value
+def: "Connects an individual representing a physical constant to its numeric value"
+is_metadata_tag: true
+created_by: orcid:0000-0003-4423-4370
+
+[Typedef]
+id: debio:0000043
+name: constant has formula
+def: "Connects an individual representing a physical constant to its formula"
+is_metadata_tag: true
+created_by: orcid:0000-0003-4423-4370
+
+[Typedef]
+id: debio:0000044
+name: pathogen defines vaccine class
+def: "A relationship where the domain is a taxon and the range is a vaccine family. E.g., Severe acute respiratory syndrome coronavirus 2 (ncbitaxon:2697049) is the pathogen that defines vaccine class COVID-19 vaccine (VO:0004908). Sort of an inverse of VO:0003355, but more specific"
+created_by: orcid:0000-0003-4423-4370