From 5a1d31f876894676d62851545ebfab1ff88e3c45 Mon Sep 17 00:00:00 2001
From: Birm <birm@rbirm.us>
Date: Mon, 15 Jan 2024 20:39:32 -0500
Subject: [PATCH] precisionfda first new version

---
 .travis.yml                                   |   15 -
 {posrgres_data => backups}/.gitignore         |    1 +
 backups/README.md                             |    1 +
 caMicroscope-prebuild.yml                     |   75 -
 caMicroscope.yml                              |   65 -
 develop.yml => camic-precisionfda.yml         |    8 +-
 .../credentials/google-drive.json             |    2 -
 cloud-upload-apis/tokens/dummy.pickle         |    2 -
 config/login.html                             |  153 +-
 config/routes.json                            | 1298 +++++++----------
 dh_caMicroscope.yml                           |   48 -
 kc_caMicroscope.yml                           |  104 --
 migrate/README.md                             |   23 -
 migrate/convert_heatmaps.js                   |   87 --
 migrate/heatmap_prov_rename.js                |   15 -
 migrate/migration.js                          |   34 -
 simpleTestData.js                             |   19 +
 17 files changed, 602 insertions(+), 1348 deletions(-)
 delete mode 100644 .travis.yml
 rename {posrgres_data => backups}/.gitignore (58%)
 create mode 100644 backups/README.md
 delete mode 100644 caMicroscope-prebuild.yml
 delete mode 100644 caMicroscope.yml
 rename develop.yml => camic-precisionfda.yml (83%)
 delete mode 100644 cloud-upload-apis/credentials/google-drive.json
 delete mode 100644 cloud-upload-apis/tokens/dummy.pickle
 delete mode 100644 dh_caMicroscope.yml
 delete mode 100644 kc_caMicroscope.yml
 delete mode 100644 migrate/README.md
 delete mode 100644 migrate/convert_heatmaps.js
 delete mode 100644 migrate/heatmap_prov_rename.js
 delete mode 100644 migrate/migration.js
 create mode 100644 simpleTestData.js

diff --git a/.travis.yml b/.travis.yml
deleted file mode 100644
index b9a7d7a3..00000000
--- a/.travis.yml
+++ /dev/null
@@ -1,15 +0,0 @@
-sudo: required
-language: node_js
-node_js:
-  - "node"
-before_script:
-  - cd test
-  - npm install
-  - npm install -g mocha
-services:
-    - docker
-script:
- - docker-compose -f ../develop.yml build
- - docker-compose -f ../develop.yml up -d
- - sleep 120
- - mocha *.js --exit
diff --git a/posrgres_data/.gitignore b/backups/.gitignore
similarity index 58%
rename from posrgres_data/.gitignore
rename to backups/.gitignore
index d6b7ef32..e5af87e9 100644
--- a/posrgres_data/.gitignore
+++ b/backups/.gitignore
@@ -1,2 +1,3 @@
 *
 !.gitignore
+!README.md
\ No newline at end of file
diff --git a/backups/README.md b/backups/README.md
new file mode 100644
index 00000000..cfd9bafd
--- /dev/null
+++ b/backups/README.md
@@ -0,0 +1 @@
+User file backup data goes here after mount from caracal's /src/backups.
\ No newline at end of file
diff --git a/caMicroscope-prebuild.yml b/caMicroscope-prebuild.yml
deleted file mode 100644
index c90245c1..00000000
--- a/caMicroscope-prebuild.yml
+++ /dev/null
@@ -1,75 +0,0 @@
-version: '3'
-
-services:
-  mongo:
-    image: mongo:4.2-bionic
-    container_name: ca-mongo
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./db:/data/db
-  idxMongo:
-    image: mongo:4.2-bionic
-    container_name: ca-idx
-    links:
-      - mongo
-    volumes:
-      - ./config:/config
-    command: bash /config/run_idx.sh
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    depends_on:
-      - mongo
-  back:
-    image: ghcr.io/camicroscope/caracal:fda-htt
-    depends_on:
-      - "mongo"
-    ports:
-      - "4010:4010"
-    container_name: ca-back
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
-      - ./config/login.html:/src/static/login.html
-      - ./config/user.json:/src/static/user.json
-      - ./jwt_keys/:/src/keys/
-      - ./bkps/:/src/bkps/
-      - ./config/routes.json:/src/routes.json
-      - ./config/contentSecurityPolicy.json:/src/contentSecurityPolicy.json
-    environment:
-      CURRENT_USER_ID: ${userID}
-      JWK_URL: "https://www.googleapis.com/oauth2/v3/certs"
-      IIP_PATH: "http://ca-iip:8080/fcgi-bin/iipsrv.fcgi"
-      MONGO_URI: "mongodb://ca-mongo"
-      DISABLE_TF: "true"
-      ALLOW_PUBLIC: "true"
-      DISABLE_SEC: "true"
-  iip:
-    image: camicroscope/iipimage:version-3.8.4
-    container_name: ca-iip
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    restart: always
-    volumes:
-      - ./images/:/images/
-  loader:
-    image: ghcr.io/camicroscope/slideloader:master
-    container_name: ca-load
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
diff --git a/caMicroscope.yml b/caMicroscope.yml
deleted file mode 100644
index d977ebac..00000000
--- a/caMicroscope.yml
+++ /dev/null
@@ -1,65 +0,0 @@
-version: '3'
-
-services:
-  mongo:
-    image: mongo:4.2-bionic
-    container_name: ca-mongo
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./db:/data/db
-  back:
-    build:
-      context: "https://github.com/camicroscope/caracal.git#v3.10.0"
-      args:
-        viewer: "v3.10.1"
-    depends_on:
-      - "mongo"
-    ports:
-      - "4010:4010"
-      - "8080:4010"
-    container_name: ca-back
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
-      - ./config/login.html:/src/static/login.html
-      - ./config/user.json:/src/static/user.json
-      - ./jwt_keys/:/src/keys/
-      - ./bkps/:/src/bkps/
-      - ./config/routes.json:/src/routes.json
-      - ./config/contentSecurityPolicy.json:/src/contentSecurityPolicy.json
-    environment:
-      CURRENT_USER_ID: ${userID}
-      JWK_URL: "https://www.googleapis.com/oauth2/v3/certs"
-      IIP_PATH: "http://ca-iip:8080/fcgi-bin/iipsrv.fcgi"
-      MONGO_URI: "mongodb://ca-mongo"
-      DISABLE_TF: "true"
-      ALLOW_PUBLIC: "true"
-      DISABLE_SEC: "true"
-  iip:
-    image: camicroscope/iipimage:version-3.8.4
-    container_name: ca-iip
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    restart: always
-    volumes:
-      - ./images/:/images/
-  loader:
-    build: "https://github.com/camicroscope/SlideLoader.git#v3.10.0"
-    container_name: ca-load
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
diff --git a/develop.yml b/camic-precisionfda.yml
similarity index 83%
rename from develop.yml
rename to camic-precisionfda.yml
index 4e5fa63d..bcf11c60 100644
--- a/develop.yml
+++ b/camic-precisionfda.yml
@@ -8,9 +8,9 @@ services:
       - ./db:/data/db
   back:
     build:
-      context: "https://github.com/camicroscope/caracal.git#develop"
+      context: "https://github.com/camicroscope/caracal.git#fda/htt-precision"
       args:
-        viewer: "develop"
+        viewer: "fda/htt-precision"
         fork: "camicroscope"
     depends_on:
       - "mongo"
@@ -22,12 +22,15 @@ services:
       - ./jwt_keys/:/src/keys/
       - ./config/routes.json:/src/routes.json
       - ./config/contentSecurityPolicy.json:/src/contentSecurityPolicy.json
+      - ./backups/:/src/bkps
     environment:
       JWK_URL: "https://www.googleapis.com/oauth2/v3/certs"
       IIP_PATH: "http://ca-iip:8080/fcgi-bin/iipsrv.fcgi"
       MONGO_URI: "mongodb://ca-mongo"
       DISABLE_SEC: "true"
       ALLOW_PUBLIC: "true"
+      userType: "Expert"
+      user: "Testing as Birm"
   iip:
     build: "https://github.com/camicroscope/iipimage.git#develop"
     container_name: ca-iip
@@ -39,4 +42,3 @@ services:
     container_name: ca-load
     volumes:
       - ./images/:/images/
-      - ./cloud-upload-apis/:/cloud-upload-apis/
diff --git a/cloud-upload-apis/credentials/google-drive.json b/cloud-upload-apis/credentials/google-drive.json
deleted file mode 100644
index efd018a5..00000000
--- a/cloud-upload-apis/credentials/google-drive.json
+++ /dev/null
@@ -1,2 +0,0 @@
-This is a dummy file.
-Replace this file with your own credentials file from [console.developers.google.com] for Google Drive API V3
\ No newline at end of file
diff --git a/cloud-upload-apis/tokens/dummy.pickle b/cloud-upload-apis/tokens/dummy.pickle
deleted file mode 100644
index 5c6f7f0a..00000000
--- a/cloud-upload-apis/tokens/dummy.pickle
+++ /dev/null
@@ -1,2 +0,0 @@
-This is a dummy token file.
-All the token files for users will be stored in this directory in a pattern of "googleDrive<userID>.pickle"
\ No newline at end of file
diff --git a/config/login.html b/config/login.html
index 26006d1d..babdc14e 100644
--- a/config/login.html
+++ b/config/login.html
@@ -3,14 +3,10 @@
 <head>
   <title>FDA HTT - CaMicroscope</title>
   <meta charset="utf-8" />
-  <meta name="google-signin-client_id" content="539699277901-buh78f048405grejogqbrskj233rt0d0.apps.googleusercontent.com">
   <meta name="viewport" content="width=device-width, initial-scale=1" />
   <link rel="stylesheet" href="./apps/landing/main.css" />
   <script type="text/javascript" src="./common/util.js"></script>
   <style>
-    #google-signin2 span {
-      color:#fff;
-    }
     .content p {
       font-family:'Open Sans', Helvetica, sans-serif;
       font-weight: 300;
@@ -19,13 +15,6 @@
 </head>
 <body>
   <header id="header">
-    <label style="color:white;padding:0 15px;font-size:20px;position:relative;">CaMicroscope<a target="_blank" style="position:absolute;right:2vw;" href="https://docs.google.com/forms/d/e/1FAIpQLScL91LxrpAZjU88GBZP9gmcdgdf8__uNUwhws2lzU6Lr4qNwA/viewform">Sign Up</a><a target="_blank" style="position:absolute;right:2vw;" href="https://docs.google.com/forms/d/e/1FAIpQLScL91LxrpAZjU88GBZP9gmcdgdf8__uNUwhws2lzU6Lr4qNwA/viewform">Feedback</a></label>
-    <nav id="nav">
-        <ul>
-            <!-- <li><a target="_blank" href="https://docs.google.com/forms/d/e/1FAIpQLScL91LxrpAZjU88GBZP9gmcdgdf8__uNUwhws2lzU6Lr4qNwA/viewform">Feedback</a></li> -->
-            <!-- <li><a href="./login.html?logout=true">Sign Out</a></li> -->
-        </ul>
-    </nav>
   </header>
   <section id="main" class="wrapper" style="padding:3em;">
     <div class="inner">
@@ -45,145 +34,25 @@ <h2 style="margin:0;font-weight: 700;">HTT ROI Annotation</h2>
         <section class="post">
           <a href="#" class="image"><img src="./apps/landing/camic.jpg" alt=""/></a>
             <div class="content">
-                <h3 style="font-weight:700;font-size: 1rem; ">Please Sign In With Your Google Account</h3>
-                <div id="google-signin2" ></div>
+                <h3 style="font-weight:700;font-size: 1rem; ">Signing in should be automatic, please report this page if you see it.</h3>
+                
             </div>
         </section>
       </div>
   </section>
 
   <script>
-    function onSuccess(googleUser) {
-      // don't if we're logging out
-      if (getUrlParam("logout")) {
-        removeUserConsentAcceptance(getUserId());
-        signOut();
-        deleteCookies();
-        console.log("logging out");
-        window.location.href = "./login.html";
-      } else {
-        var id_token = googleUser.getAuthResponse().id_token;
-        // console.info(id_token);
-        // trade for camic token
-        var cookie_name = "token"; // "token" is the expected cookie name
-        var base_deployment_url = window.location
-          .toString()
-          .split("/")
-          .slice(0, -1)
-          .join("/");
-        var redirect_uri = base_deployment_url + "/login.html";
-        var default_redirect = base_deployment_url + "/apps/htt-table.html";
-        var state;
-        if (getUrlParam("state")) {
-          state = decodeURIComponent(getUrlParam("state"));
-        }
-        if (!state) {
-          state = default_redirect;
-        }
-        if (id_token) {
-          document.cookie = cookie_name + "=" + id_token;
-          fetch("./auth/Token/check", {
-            headers: {
-              Authorization: "Bearer " + id_token
-            }
-          })
-            .then(x => x.json())
-            .then(x => {
-              if (x.hasOwnProperty("token")) {
-                document.cookie = cookie_name + "=" + x.token;
-                let token_data = parseJwt(x.token);
-                if (token_data.userType && token_data.userType === 'Admin') {
-                  window.location = "./apps/landing/landing.html";
-                } else {
-                  window.location = "./apps/landing/crowd.html";
-                }
-              } else {
-                window.location = "./apps/registration/registration.html";
-              }
-            });
-        }
-      }
-    }
-
-    function onFailure(error) {
-      console.error(error);
-    }
-
-    function renderButton() {
-      gapi.signin2.render('google-signin2', {
-        'scope': 'profile email',
-        'width': 240,
-        'height': 50,
-        'longtitle': true,
-        'theme': 'dark',
-        'onsuccess': onSuccess,
-        'onfailure': onFailure
-      });
-    }
-
-    function signOut() {
-      var auth2 = gapi.auth2.getAuthInstance();
-      auth2.signOut().then(function() {
-        console.log("User signed out.");
-      });
-    }
-
-    function deleteCookies() {
-      var allcookies = document.cookie.split(";");
-      for (var i = 0; i < allcookies.length; i++) {
-        var cookie = allcookies[i];
-        var eqPos = cookie.indexOf("=");
-        var name = eqPos > -1 ? cookie.substr(0, eqPos) : cookie;
-        document.cookie = name + "=;expires=Thu, 01 Jan 1970 00:00:00 GMT;";
-      }
-    }
-
-    // google's jwk is here: https://www.googleapis.com/oauth2/v3/certs
-    function randomString(length) {
-      var bytes = new Uint8Array(length);
-      var random = window.crypto.getRandomValues(bytes);
-      var result = [];
-      var charset =
-        "0123456789ABCDEFGHIJKLMNOPQRSTUVXYZabcdefghijklmnopqrstuvwxyz-._~";
-      random.forEach(function(c) {
-        result.push(charset[c % charset.length]);
-      });
-      return result.join("");
-    }
-
-    function getUrlParam(name, url) {
-      if (!url) url = window.location.href;
-      name = name.replace(/[\[\]]/g, "\\$&");
-      var regex = new RegExp("[?&#]" + name + "(=([^&#]*)|&|#|$)"),
-        results = regex.exec(url);
-      if (!results) return null;
-      if (!results[2]) return "";
-      return decodeURIComponent(results[2].replace(/\+/g, " "));
-    }
-  if (getUrlParam("token")){
-      var cookie_name = "token"; // "token" is the expected cookie name
-      var base_deployment_url = window.location
-        .toString()
-        .split("/")
-        .slice(0, -1)
-        .join("/");
-      var redirect_uri = base_deployment_url + "/login.html";
-      var default_redirect = base_deployment_url + "/apps/htt-table.html";
-      var state;
-      if (getUrlParam("state")) {
-        state = decodeURIComponent(getUrlParam("state"));
-      }
-      if (!state) {
-        state = default_redirect;
-      }
-      console.info("logging in with a url param");
-      document.cookie = cookie_name + "=" + getUrlParam("token");
-      window.location = state;
-  }
+    async function login(){
+      // get token
+      let token = await fetch("./auth/customLogin/").then(x=>x.json())
+      console.error(token)
+      document.cookie = "token=" + token['token']
+      // go to page
+      window.location = "./apps/landing/landing.html";
+    }
+    login()
   </script>
 
-  <script src="https://apis.google.com/js/platform.js?onload=renderButton" async defer></script>
-
   <script>
 
   </script>
diff --git a/config/routes.json b/config/routes.json
index 932bec4a..86a83015 100644
--- a/config/routes.json
+++ b/config/routes.json
@@ -1,733 +1,565 @@
-[{
-		"method": "static",
-		"use": "static"
-	},
-	{
-		"method": "static",
-		"use": "camicroscope"
-	},
-	{
-		"method": "use",
-		"route": "/loader/slide/delete",
-		"handlers": [{
-			"function": "permissionHandler",
-			"args": [
-				["Admin"]
-			]
-		}]
-	},
-	{
-		"method": "use",
-		"route": "/loader/",
-		"handlers": [{
-			"function": "proxyHandler",
-			"args": ["http://ca-load:4000/"]
-		}]
-	},
-	{
-		"method": "post",
-		"route": "/kcAddUser",
-		"handlers": [{
-			"function": "userRegistrationFlow",
-			"args": []
-		}]
-	},
-	{
-		"method": "post",
-		"route": "/addPublicUser",
-		"handlers": [{
-				"function": "dataEnforce",
-				"args": ["{\"userType\": \"Public\", \"userFilter\": []}"]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "user"]
-			},
-			{
-				"function": "sendData",
-				"args": []
-			}
-		]
-	},
-	{
-		"method": "post",
-		"route": "/requestResetPassword",
-		"handlers": [{
-			"function": "requestResetPassword",
-			"args": []
-		}]
-	},
-	{
-		"method": "post",
-		"route": "/resetPassword",
-		"handlers": [{
-				"function": "loginHandler",
-				"args": []
-			},
-			{
-				"function": "resetPassword",
-				"args": []
-			}
-		]
-	},
-	{
-		"method": "use",
-		"route": "/keycloak/",
-		"handlers": [{
-			"function": "proxyHandler",
-			"args": ["http://ca-key:8080/"]
-		}]
-	},
-	{
-		"route": "/data/Mark/segmentationCount",
-		"method": "get",
-		"handlers": [
-			{
-					"function": "permissionHandler",
-					"args": [
-						["Admin", "Expert", "Participant"]
-					]
-		  },{
-			"function": "markSegmentationCount",
-			"args": []
-		}]
-	},
-	{
-		"method": "get",
-		"route": "/data/env/",
-		"handlers": [{
-			"function": "envEcho",
-			"args": []
-		}]
-	},
-	{
-		"method": "use",
-		"route": "/img/IIP/raw/",
-		"handlers": [{
-			"function": "iipHandler",
-			"args": []
-		}]
-	},
-
-	{
-		"route": "/data",
-		"method": "use",
-		"handlers": [{
-				"function": "loginHandler",
-				"args": []
-			},
-			{
-				"function": "sanitizeBody",
-				"args": []
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/download",
-		"method": "get",
-		"handlers": [{
-			"function": "downloadSlide",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Slide/find",
-		"method": "get",
-		"handlers": [{
-				"function": "mongoFind",
-				"args": ["camic", "slide"]
-			},
-			{
-				"function": "filterHandler",
-				"args": ["data", "userFilter", "filter"]
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "slide"]
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "slide"]
-			},
-			{
-				"function": "editHandler",
-				"args": ["data", "userFilter", "filter"]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "slide"]
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "slide"]
-			},
-			{
-				"function": "editHandler",
-				"args": ["data", "userFilter", "filter"]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "slide"]
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/findLabelingStat",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert", "Participant"]
-				]
-			},{
-			"function": "findLabelingStat",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Presetlabels/add",
-		"method": "post",
-		"handlers": [{
-			"function": "addPresetlabels",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Presetlabels/update",
-		"method": "post",
-		"handlers": [{
-			"function": "updatePresetlabels",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Presetlabels/remove",
-		"method": "post",
-		"handlers": [{
-			"function": "removePresetlabels",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Template/find",
-		"method": "get",
-		"handlers": [{
-			"function": "mongoFind",
-			"args": ["camic", "template"]
-		}]
-	},
-	{
-		"route": "/data/Template/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "template"]
-			}
-		]
-	},
-	{
-		"route": "/data/Template/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "template"]
-			}
-		]
-	},
-	{
-		"route": "/data/Template/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "template"]
-			}
-		]
-	},
-	{
-		"route": "/data/Labeling/find",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert", "Participant"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "labeling"]
-			}
-		]
-	},
-	{
-		"route": "/data/Labeling/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "labeling"]
-			}
-		]
-	},
-	{
-		"route": "/data/Slide/countLabeling",
-		"method": "get",
-		"handlers": [{
-			"function": "countLabelingBySlide",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/Labeling/pushAnnotation",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert", "Participant"]
-				]
-			},
-			{
-				"function": "labelingPushAnnotation",
-				"args": []
-			}
-		]
-	},
-	{
-		"route": "/data/Labeling/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "labeling"]
-			}
-		]
-	},
-	{
-		"route": "/data/Labeling/pullAnnotation",
-		"method": "get",
-		"handlers": [{
-			"function": "labelingPullAnnotation",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/LabelingAnnotation/advancedFind",
-		"method": "get",
-		"handlers": [{
-			"function": "advancedFindLabelingAnnotation",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/LabelingAnnotation/find",
-		"method": "get",
-		"handlers": [{
-			"function": "mongoFind",
-			"args": ["camic", "labelingAnnotation"]
-		}]
-	},
-	{
-		"route": "/data/LabelingAnnotation/findByTypeOrCreator",
-		"method": "get",
-		"handlers": [{
-			"function": "findByTypeOrCreator",
-			"args": []
-		}]
-	},
-	{
-		"route": "/data/LabelingAnnotation/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert", "Participant"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "labelingAnnotation"]
-			}
-		]
-	},
-	{
-		"route": "/data/LabelingAnnotation/update",
-		"method": "post",
-		"handlers": [{
-				"function": "mongoFind",
-				"args": ["camic", "labelingAnnotation"]
-			},
-			{
-				"function": "editHandler",
-				"args": ["data"]
-			},
-			{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "labelingAnnotation"]
-			}
-		]
-	},
-	{
-		"route": "/data/Log/find",
-		"method": "get",
-		"handlers": [{
-			"function": "permissionHandler",
-			"args": [
-				["Admin"]
-			]
-		},{
-			"function": "mongoFind",
-			"args": ["camic", "log"]
-		}]
-	},
-	{
-		"route": "/data/Log/post",
-		"method": "post",
-		"handlers": [{
-			"function": "mongoAdd",
-			"args": ["camic", "log"]
-		}]
-	},
-	{
-		"route": "/data/Log/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "log"]
-			}
-		]
-	},
-	{
-		"route": "/data/Log/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "log"]
-			}
-		]
-	},
-	{
-		"route": "/data/Evaluation/find",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin", "Expert", "Participant"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "evaluation"]
-			}
-		]
-	},
-	{
-		"route": "/data/Evaluation/post",
-		"method": "post",
-		"handlers": [{
-			"function": "permissionHandler",
-			"args": [
-				["Admin"]
-			]
-		}, {
-			"function": "mongoAdd",
-			"args": ["camic", "evaluation"]
-		}]
-	},
-	{
-		"route": "/data/Evaluation/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			}, {
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "evaluation"]
-			}
-		]
-	},
-	{
-		"route": "/data/Evaluation/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			}, {
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "evaluation"]
-			}
-		]
-	},
-
-	{
-		"route": "/data/Configuration/find",
-		"method": "get",
-		"handlers": [{
-			"function": "mongoFind",
-			"args": ["camic", "configuration"]
-		}]
-	},
-	{
-		"route": "/data/Configuration/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "configuration"]
-			}
-		]
-	},
-	{
-		"route": "/data/Configuration/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "configuration"]
-			}
-		]
-	},
-	{
-		"route": "/data/Configuration/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "configuration"]
-			}
-		]
-	},
-	{
-		"route": "/data/Collection/find",
-		"method": "get",
-		"handlers": [{
-			"function": "mongoFind",
-			"args": ["camic", "collection"]
-		}]
-	},
-	{
-		"route": "/data/Collection/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "collection"]
-			}
-		]
-	},
-	{
-		"route": "/data/Collection/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "collection"]
-			}
-		]
-	},
-	{
-		"route": "/data/Collection/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "collection"]
-			}
-		]
-	},
-	{
-		"route": "/data/User/find",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "user"]
-			}
-		]
-	}, {
-		"route": "/data/User/post",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoAdd",
-				"args": ["camic", "user"]
-			}
-		]
-	}, {
-		"route": "/data/User/delete",
-		"method": "delete",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoDelete",
-				"args": ["camic", "user"]
-			}
-		]
-	}, {
-		"route": "/data/User/update",
-		"method": "post",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Admin"]
-				]
-			},
-			{
-				"function": "mongoUpdate",
-				"args": ["camic", "user"]
-			}
-		]
-	},
-	{
-		"route": "/data/ExpertsFeedback/find",
-		"method": "get",
-		"handlers": [{
-				"function": "permissionHandler",
-				"args": [
-					["Participant", "Expert", "Admin"]
-				]
-			},
-			{
-				"function": "mongoFind",
-				"args": ["camic", "expertsFeedback"]
-			}
-		]
-	}
-]
+[
+    {
+      "method": "static",
+      "use": "static"
+    },
+    {
+      "method": "static",
+      "use": "camicroscope"
+    },
+    {
+      "method": "use",
+      "route": "/loader/",
+      "handlers": [
+        { "function": "loginHandler", "args": [] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] }
+      ]
+    },
+    {
+      "method": "use",
+      "route": "/loader/slide/delete",
+      "handlers": [{ "function": "permissionHandler", "args": [["Admin"]] }]
+    },
+    {
+      "method": "use",
+      "route": "/loader/",
+      "handlers": [
+        { "function": "proxyHandler", "args": ["http://ca-load:4000/"] }
+      ]
+    },
+    {
+      "method": "use",
+      "route": "/keycloak/",
+      "handlers": [
+        {"function":"proxyHandler", "args": ["http://ca-key:8080/"]}
+      ]
+    },
+    {
+      "method": "get",
+      "route": "/data/env/",
+      "handlers": [
+        { "function": "envEcho", "args": [] }
+      ]
+    },
+    {
+      "method": "use",
+      "route": "/img/IIP/raw/",
+      "handlers": [{ "function": "iipHandler", "args": [] }]
+    },
+  
+    {
+      "route": "/data",
+      "method": "use",
+      "handlers": [
+        { "function": "loginHandler", "args": [] },
+        { "function": "sanitizeBody", "args": [] }
+      ]
+    },
+    {
+      "route": "/data/Slide/download",
+      "method": "get",
+      "handlers": [{ "function": "downloadSlide", "args": [] }]
+    },
+    {
+      "route": "/data/Slide/find",
+      "method": "get",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "slide"] },
+        { "function": "filterHandler", "args": ["data", "userFilter", "filter"] }
+      ]
+    },
+    {
+      "route": "/data/Slide/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "slide"] }
+      ]
+    },
+    {
+      "route": "/data/Slide/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoFind", "args": ["camic", "slide"] },
+        { "function": "editHandler", "args": ["data", "userFilter", "filter"] },
+        { "function": "mongoDelete", "args": ["camic", "slide"] }
+      ]
+    },
+    {
+      "route": "/data/Slide/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoFind", "args": ["camic", "slide"] },
+        { "function": "editHandler", "args": ["data", "userFilter", "filter"] },
+        { "function": "mongoUpdate", "args": ["camic", "slide"] }
+      ]
+    },
+    {
+      "route": "/data/Slide/findLabelingStat",
+      "method": "get",
+      "handlers": [{ "function": "findLabelingStat", "args": [] }]
+    },
+    {
+      "route": "/data/Request/find",
+      "method": "get",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Editor", "Admin"]] },
+        { "function": "mongoFind", "args": ["camic", "request"] }
+      ]
+    },
+    {
+      "route": "/data/Request/post",
+      "method": "post",
+      "handlers": [{ "function": "mongoAdd", "args": ["camic", "request"] }]
+    },
+    {
+      "route": "/data/Request/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Editor", "Admin"]] },
+        { "function": "mongoFind", "args": ["camic", "request"] },
+        { "function": "editHandler", "args": ["data", "userFilter", "filter"] },
+        { "function": "mongoDelete", "args": ["camic", "request"] }
+      ]
+    },
+  
+    {
+      "route": "/data/Mark/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "mark"] }]
+    },
+    {
+      "route": "/data/Mark/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        {"function":"writeFile", "args": ["/src/bkps/", "mark"]},
+        { "function": "mongoAdd", "args": ["camic", "mark"] }
+      ]
+    },
+    {
+      "route": "/data/Mark/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "mark"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "mark"] }
+      ]
+    },
+    {
+      "route": "/data/Mark/update",
+      "method": "post",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "mark"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "mark"] }
+      ]
+    },
+    {
+      "route": "/data/Mark/types",
+      "method": "get",
+      "handlers": [
+        {
+          "function": "mongoDistinct",
+          "args": ["camic", "mark", "provenance.analysis"]
+        }
+      ]
+    },
+    {
+      "route": "/data/Mark/multi",
+      "method": "post",
+      "handlers": [{ "function": "markMulti", "args": [] }]
+    },
+    {
+      "route": "/data/Mark/spatial",
+      "method": "get",
+      "handlers": [{ "function": "markSpatial", "args": [] }]
+    },
+    {
+      "route": "/data/Mark/findMarkTypes",
+      "method": "get",
+      "handlers": [{ "function": "findMarkTypes", "args": [] }]
+    },
+    {
+      "route": "/data/Mark/updateMarksLabel",
+      "method": "post",
+      "handlers": [{ "function": "updateMarksLabel", "args": [] }]
+    },
+    {
+      "route": "/data/Presetlabels/add",
+      "method": "post",
+      "handlers": [{ "function": "addPresetlabels", "args": [] }]
+    },
+    {
+      "route": "/data/Presetlabels/update",
+      "method": "post",
+      "handlers": [{ "function": "updatePresetlabels", "args": [] }]
+    },
+    {
+      "route": "/data/Presetlabels/remove",
+      "method": "post",
+      "handlers": [{ "function": "removePresetlabels", "args": [] }]
+    },
+    {
+      "route": "/data/Template/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "template"] }]
+    },
+    {
+      "route": "/data/Template/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "template"] }
+      ]
+    },
+    {
+      "route": "/data/Template/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "template"] }
+      ]
+    },
+    {
+      "route": "/data/Template/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin"]] },
+        { "function": "mongoUpdate", "args": ["camic", "template"] }
+      ]
+    },
+    {
+      "route": "/data/Labeling/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "labeling"] }]
+    },
+    {
+      "route": "/data/Labeling/delete",
+      "method": "delete",
+      "handlers": [{ "function": "mongoDelete", "args": ["camic", "labeling"] }]
+    },
+    {
+      "route": "/data/Slide/countLabeling",
+      "method": "get",
+      "handlers": [{ "function": "countLabelingBySlide", "args": [] }]
+    },
+    {
+      "route": "/data/Labeling/pushAnnotation",
+      "method": "get",
+      "handlers": [{ "function": "labelingPushAnnotation", "args": [] }]
+    },
+    {
+      "route": "/data/Labeling/post",
+      "method": "post",
+      "handlers": [
+        {"function":"writeFile", "args": ["/src/bkps/", "labeling"]},
+        { "function": "mongoAdd", "args": ["camic", "labeling"] }
+      ]
+    },
+    {
+      "route": "/data/Labeling/pullAnnotation",
+      "method": "get",
+      "handlers": [{ "function": "labelingPullAnnotation", "args": [] }]
+    },
+    {
+      "route": "/data/LabelingAnnotation/advancedFind",
+      "method": "get",
+      "handlers": [{ "function": "advancedFindLabelingAnnotation", "args": [] }]
+    },
+    {
+      "route": "/data/LabelingAnnotation/find",
+      "method": "get",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "labelingAnnotation"] }
+      ]
+    },
+    {
+      "route": "/data/LabelingAnnotation/findByTypeOrCreator",
+      "method": "get",
+      "handlers": [{ "function": "findByTypeOrCreator", "args": [] }]
+    },
+    {
+      "route": "/data/LabelingAnnotation/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        {"function":"writeFile", "args": ["/src/bkps/", "labelingAnnotation"]},
+        { "function": "mongoAdd", "args": ["camic", "labelingAnnotation"] }
+      ]
+    },
+    {
+      "route": "/data/LabelingAnnotation/update",
+      "method": "post",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "labelingAnnotation"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "labelingAnnotation"] }
+      ]
+    },
+    {
+      "route": "/data/Heatmap/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "heatmap"] }]
+    },
+    {
+      "route": "/data/Heatmap/types",
+      "method": "get",
+      "handlers": [{ "function": "heatmapTypes", "args": [] }]
+    },
+    {
+      "route": "/data/Heatmap/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "heatmap"] }
+      ]
+    },
+    {
+      "route": "/data/Heatmap/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "heatmap"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "heatmap"] }
+      ]
+    },
+    {
+      "route": "/data/Heatmap/update",
+      "method": "post",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "heatmap"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "heatmap"] }
+      ]
+    },
+  
+    {
+      "route": "/data/HeatmapEdit/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "heatmapEdit"] }]
+    },
+    {
+      "route": "/data/HeatmapEdit/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "heatmapEdit"] }
+      ]
+    },
+    {
+      "route": "/data/HeatmapEdit/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "heatmapEdit"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "heatmapEdit"] }
+      ]
+    },
+    {
+      "route": "/data/HeatmapEdit/update",
+      "method": "post",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "heatmapEdit"] },
+        { "function": "editHandler", "args": ["data"] },
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "heatmapEdit"] }
+      ]
+    },
+  
+    {
+      "route": "/data/Log/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "log"] }]
+    },
+    {
+      "route": "/data/Log/post",
+      "method": "post",
+      "handlers": [{ "function": "mongoAdd", "args": ["camic", "log"] }]
+    },
+    {
+      "route": "/data/Log/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "log"] }
+      ]
+    },
+    {
+      "route": "/data/Log/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "log"] }
+      ]
+    },
+  
+    {
+      "route": "/data/Evaluation/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "evaluation"] }]
+    },
+    {
+      "route": "/data/Evaluation/post",
+      "method": "post",
+      "handlers": [{ "function": "mongoAdd", "args": ["camic", "evaluation"] }]
+    },
+    {
+      "route": "/data/Evaluation/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "evaluation"] }
+      ]
+    },
+    {
+      "route": "/data/Evaluation/update",
+      "method": "post",
+      "handlers": [{ "function": "mongoUpdate", "args": ["camic", "evaluation"] }]
+    },
+  
+    {
+      "route": "/data/Freeform/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "freeform"] }]
+    },
+    {
+      "route": "/data/Freeform/post",
+      "method": "post",
+      "handlers": [{ "function": "mongoAdd", "args": ["camic", "freeform"] }]
+    },
+    {
+      "route": "/data/Freeform/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "freeform"] }
+      ]
+    },
+    {
+      "route": "/data/Freeform/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "freeform"] }
+      ]
+    },
+  
+    {
+      "route": "/data/Configuration/find",
+      "method": "get",
+      "handlers": [
+        { "function": "mongoFind", "args": ["camic", "configuration"] }
+      ]
+    },
+    {
+      "route": "/data/Configuration/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "configuration"] }
+      ]
+    },
+    {
+      "route": "/data/Configuration/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "configuration"] }
+      ]
+    },
+    {
+      "route": "/data/Configuration/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "configuration"] }
+      ]
+    },
+    {
+      "route": "/data/Collection/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "collection"] }]
+    },
+    {
+      "route": "/data/Collection/post",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoAdd", "args": ["camic", "collection"] }
+      ]
+    },
+    {
+      "route": "/data/Collection/update",
+      "method": "post",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoUpdate", "args": ["camic", "collection"] }
+      ]
+    },
+    {
+      "route": "/data/Collection/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin", "Editor"]] },
+        { "function": "mongoDelete", "args": ["camic", "collection"] }
+      ]
+    },
+    {
+      "route": "/data/ExpertsFeedback/find",
+      "method": "get",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Editor", "Admin"]] },
+        { "function": "mongoFind", "args": ["camic", "expertsFeedback"] }
+      ]
+    },
+    {
+      "route": "/data/User/getCurrentUserId",
+      "method": "get",
+      "handlers": [{ "function": "getCurrentUserId", "args": [] }]
+    },
+    {
+      "route": "/data/User/find",
+      "method": "get",
+      "handlers": [{ "function": "mongoFind", "args": ["camic", "user"] }]
+    },
+    {
+      "route": "/data/User/post",
+      "method": "post",
+      "handlers": [
+        {"function":"writeFile", "args": ["/src/bkps/", "user"]},
+        { "function": "mongoAdd", "args": ["camic", "user"] }]
+    },
+    {
+      "route": "/data/User/delete",
+      "method": "delete",
+      "handlers": [
+        { "function": "permissionHandler", "args": [["Admin"]] },
+        { "function": "mongoDelete", "args": ["camic", "user"] }
+      ]
+    },
+    {
+      "route": "/data/User/update",
+      "method": "post",
+      "handlers": [{ "function": "mongoUpdate", "args": ["camic", "user"] }]
+    },
+    {
+      "route": "/data/User/wcido",
+      "method": "get",
+      "handlers": [{ "function": "wcido", "args": [] }]
+    },
+    {
+      "route": "/auth/customLogin",
+      "method": "get",
+      "handlers": [{ "function": "customLogin", "args": ["user", "userType"] }]
+    }
+  ]
+  
\ No newline at end of file
diff --git a/dh_caMicroscope.yml b/dh_caMicroscope.yml
deleted file mode 100644
index bb7aada4..00000000
--- a/dh_caMicroscope.yml
+++ /dev/null
@@ -1,48 +0,0 @@
-version: '3'
-
-services:
-  mongo:
-    image: mongo:4.2-bionic
-    container_name: ca-mongo
-    restart: unless-stopped
-    volumes:
-      - ./db:/data/db
-  idxMongo:
-    image: mongo:4.2-bionic
-    container_name: ca-idx
-    links:
-      - mongo
-    volumes:
-      - ./config:/config
-    command:
-      - /config/run_idx.sh
-    depends_on:
-      - mongo
-  back:
-    image: camicroscope/caracal:latest
-    depends_on:
-      - "mongo"
-    ports:
-      - "4010:4010"
-    environment:
-      JWK_URL: "https://www.googleapis.com/oauth2/v3/certs"
-      IIP_PATH: "http://ca-iip:8080/fcgi-bin/iipsrv.fcgi"
-      MONGO_URI: "mongodb://ca-mongo"
-    container_name: ca-back
-    volumes:
-      - ./config/login.html:/src/static/login.html
-      - ./jwt_keys/:/src/keys/
-      - ./config/routes.json:/src/routes.json
-      - ./config/contentSecurityPolicy.json:/src/contentSecurityPolicy.json
-  iip:
-    image: camicroscope/iipimage:latest
-    container_name: ca-iip
-    restart: unless-stopped
-    volumes:
-      - ./images/:/images/
-  loader:
-    image: camicroscope/slideloader:latest
-    container_name: ca-load
-    restart: unless-stopped
-    volumes:
-      - ./images/:/images/
diff --git a/kc_caMicroscope.yml b/kc_caMicroscope.yml
deleted file mode 100644
index f3ecd48a..00000000
--- a/kc_caMicroscope.yml
+++ /dev/null
@@ -1,104 +0,0 @@
-version: '3'
-
-volumes:
-  postgres_data:
-    name: postgres_data
-
-services:
-  postgres:
-    image: postgres:15
-    container_name: ca-key-db
-    volumes:
-      - postgres_data:/var/lib/postgresql/data
-    environment:
-      POSTGRES_DB: keycloak
-      POSTGRES_USER: keycloak
-      POSTGRES_PASSWORD: password
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-  keycloak:
-      container_name: ca-key
-      image: quay.io/keycloak/keycloak:latest
-      command: start-dev
-      environment:
-        KC_DB: postgres
-        KC_DB_URL: jdbc:postgresql://ca-key-db:5432/keycloak
-        KC_DB_USERNAME: keycloak
-        KC_DB_PASSWORD: password
-        KEYCLOAK_ADMIN: admin
-        KEYCLOAK_ADMIN_PASSWORD: password
-      ports:
-        - 8080:8080
-      restart: always
-      logging:
-        options:
-            max-file: "5"
-            max-size: "10m"
-      depends_on:
-        - postgres
-  mongo:
-    image: mongo:4.2-bionic
-    container_name: ca-mongo
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./db:/data/db
-  back:
-    build:
-      context: "https://github.com/camicroscope/caracal.git#htt-keycloak"
-      args:
-        viewer: "fda/htt-keycloak"
-    depends_on:
-      - "mongo"
-    ports:
-      - "4010:4010"
-    container_name: ca-back
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
-      - ./config/keycloak_login.html:/src/static/login.html
-      - ./jwt_keys/:/src/keys/
-      - ./config/routes.json:/src/routes.json
-      - ./config/contentSecurityPolicy.json:/src/contentSecurityPolicy.json
-    environment:
-      JWK_URL: "http://ca-back:4010/keycloak/realms/camic/protocol/openid-connect/certs"
-      IIP_PATH: "http://ca-iip:8080/fcgi-bin/iipsrv.fcgi"
-      MONGO_URI: "mongodb://ca-mongo"
-      GENERATE_KEY_IF_MISSING: "true"
-      KEYCLOAK_ADMIN: admin
-      KEYCLOAK_ADMIN_PASSWORD: password
-      KEYCLOAK_APP_REALM: camic
-      RESET_URL: https://wolf.cci.emory.edu/camic_htt/apps/registration/resetPassword.html
-      SENDGRID_API_KEY: REPLACE
-    extra_hosts:
-      - "localhost.localdomain:127.0.0.1"
-  iip:
-    image: camicroscope/iipimage:version-3.8.4
-    container_name: ca-iip
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    restart: always
-    volumes:
-      - ./images/:/images/
-  loader:
-    build: "https://github.com/camicroscope/SlideLoader.git#v3.10.0"
-    container_name: ca-load
-    restart: always
-    logging:
-      options:
-          max-file: "5"
-          max-size: "10m"
-    volumes:
-      - ./images/:/images/
diff --git a/migrate/README.md b/migrate/README.md
deleted file mode 100644
index f562346d..00000000
--- a/migrate/README.md
+++ /dev/null
@@ -1,23 +0,0 @@
-# 2.X -> 3.X Migration
-
-## Summary
-* The mongo database is camic instead of quip
-* The heatmap format is vastly different
-* Some slide fields have simpler names (e.g. study_id -> study)
-* Templates use a different format entirely
-* We do not have a separate collection for annotation metadata
-* Authorization is handled differently
-
-It's highly recommended to leave the original source documents alone until you've confirmed everything looks okay. Issues with these tools or conversions should be reported as github issues on the distribution repository.
-
-## Templates
-Since the new template method has different functionality, it's highly recommended that templates are re-made using (json-schema)[https://json-schema.org/]
-
-## Heatmaps
-Before migration, move heatmaps to a different collection, as to not confuse the object->mark conversion. Run the script with the input and output folders as arguments in node. Then, you should be able to import these converted documents to the camic database under the heatmap collection.
-
-## Other Collections
-The other collections use a single script which should run in mongo. This makes needed changes to the collections, and puts the results in the camic database. These utilities may behave strangely with non-standard or older form data.
-
-## Authorization
-Authorization is handled differently in the 3.0 version. See config/add_mongo_users.js for an example. Edit that file to add your original users. Name should match the subject of the jwt. This is not needed for deployments which rely on pathdb, or use another custom authorization service.
diff --git a/migrate/convert_heatmaps.js b/migrate/convert_heatmaps.js
deleted file mode 100644
index e0078b12..00000000
--- a/migrate/convert_heatmaps.js
+++ /dev/null
@@ -1,87 +0,0 @@
-//convert.js
-//
-const readline = require('readline');
-const path = require('path')
-const fs = require('fs');
-const inputFolder = process.argv[2] || './input';
-const outputFolder = process.argv[3] || './output';
-
-const fileTemps = {};
-
-let remainder = 0;
-fs.readdirSync(inputFolder).forEach(fileName => {
-  const ext = path.extname(`${inputFolder}/${fileName}`);
-  if(ext!=='.json') return;
-  fileTemps[fileName] = null;
-  convert(fileName)
-});
-
-function convert(filename){
-
-  let lineno = 0;
-  let data = [];
-  let size = {};
-
-  let fields = [];
-  let ranges = [0,1];
-  // read file
-  const myInterface = readline.createInterface({
-    input: fs.createReadStream(`${inputFolder}/${filename}`)
-  });
-
-  remainder++;
-  myInterface.on('line', function (line) {
-    const record = JSON.parse(line);
-    if(record.properties.metric_value == 0)return;
-    ++lineno;
-    if(lineno==1) {
-    	fileTemps[filename] = record;
-    };
-
-    data.push([
-    	record.bbox[0],
-    	record.bbox[1],
-    	...record.properties.multiheat_param.metric_array]);
-  }).on('close',()=>{
-  	const content = generateDoc(data,filename);
-    if(!fs.existsSync(outputFolder)) fs.mkdirSync(outputFolder);
-  	fs.writeFile(`${outputFolder}/NEW_${filename}`, content, function(err) {
-      	console.log('close');
-        if (err) throw err;
-        remainder--;
-        console.log(`${filename} completed`);
-        if(remainder == 0) console.log('finished');
-        else console.log(`${remainder} Files remaining`);
-      });
-  });
-}
-
-function generateDoc(data,filename){
-  	const [x,y,x1,y1] = fileTemps[filename].bbox;
-  	const width = x1 - x;
-  	const height = y1 - y;
-  	const fields = fileTemps[filename].properties.multiheat_param.heatname_array.map(d =>{
-      return{
-        name:d,
-        range:[0,1],
-        value:[0.1,1]
-      }});
-return `{
-"provenance":{
-  "image":{
-     "slide": "${fileTemps[filename].provenance.image.case_id}",
-     "specimen": "",
-     "study": "${fileTemps[filename].provenance.analysis.study_id}"
-
-  },
-  "analysis":{
-     "computation":"heatmap",
-     "size": [${width},${height}],
-     "fields":${JSON.stringify(fields)},
-     "execution_id":"${fileTemps[filename].provenance.analysis.execution_id}",
-     "source":"computer"
-  }
-},
-"data":${JSON.stringify(data)}
-}`;
-}
diff --git a/migrate/heatmap_prov_rename.js b/migrate/heatmap_prov_rename.js
deleted file mode 100644
index aa263bb3..00000000
--- a/migrate/heatmap_prov_rename.js
+++ /dev/null
@@ -1,15 +0,0 @@
-db.heatmap.find({"provenance.image.case_id":{ $exists: true}}).forEach(function(x){
-  x.provenance.image.slide = x.provenance.image.case_id
-  delete x.provenance.image.case_id
-  x.provenance.image.study = x.provenance.image.study || ""
-  delete x.provenance.image.subject_id
-  db.heatmap.save(x)
-})
-
-db.heatmapEdit.find({"provenance.image.case_id":{ $exists: true}}).forEach(function(x){
-  x.provenance.image.slide = x.provenance.image.case_id
-  delete x.provenance.image.case_id
-  x.provenance.image.study = x.provenance.image.study || ""
-  delete x.provenance.image.subject_id
-  db.heatmapEdit.save(x)
-})
diff --git a/migrate/migration.js b/migrate/migration.js
deleted file mode 100644
index 69c32731..00000000
--- a/migrate/migration.js
+++ /dev/null
@@ -1,34 +0,0 @@
-// run this against the quip (or otherwise source) database.
-var dest_db = "camic"
-
-// slide update metadata structure and copy over
-db.images.find().forEach(function(x){
-  //MOVE case_id to name
-  x['name'] = x['case_id']
-  delete (x['case_id'])
-  //COPY mpp-x and -y to _x _y
-  x['mpp_x'] = x['mpp-x']
-  x['mpp_y'] = x['mpp-y']
-  x['location'] = x['file-location']
-  //MOVE study_id to study, else study as empty string
-  x['study'] = x['study'] || x['study_id'] || ""
-  delete (x['study_id'])
-  //move specimen_id to specimen, else specimen as empty string
-  x['specimen'] = x['specimen'] || x['specimen_id'] || ""
-  delete (x['specimen_id'])
-  db.getSiblingDB(dest_db)['slide'].insert(x);
-});
-
-// mark, update metadata structure and copy over
-db.objects.find().forEach(function(x){
-  // slidename and slide are old case_id
-  x['provenance']['image']['slide'] = x['provenance']['image']['case_id']
-  x['provenance']['image']['slidename'] = x['provenance']['image']['case_id']
-  delete (x['provenance']['image']['case_id'])
-  // specimen and study same conversion as in slide
-  x['provenance']['image']['study'] = x['provenance']['image']['study'] || x['provenance']['analysis']['study_id'] || ""
-  x['provenance']['image']['specimen'] = x['provenance']['image']['specimen'] || x['provenance']['analysis']['specimen_id'] || ""
-  delete (x['provenance']['analysis']['specimen_id']);
-  delete (x['provenance']['analysis']['study_id']);
-  db.getSiblingDB(dest_db)['mark'].insert(x);
-});
diff --git a/simpleTestData.js b/simpleTestData.js
new file mode 100644
index 00000000..3eaaa4f2
--- /dev/null
+++ b/simpleTestData.js
@@ -0,0 +1,19 @@
+// furst run mongo (probably `docker exec-it ca-mongo mongo`)
+// then run `use camic`
+// then you can use these to add two collections and one slide each
+let testCollections = [
+    {"name":"HTT-001","description":"This Is The Batch 001 of HTT-TILS-001"},
+    {"name":"HTT-002","description":"This Is The Batch 002 of HTT-TILS-001, with roi create", "task":"roiSelection"}
+]
+
+db.collection.insertMany(testCollections)
+
+let col1Id = db.collection.findOne({"name":"HTT-001"})['_id'].valueOf()
+let col2Id = db.collection.findOne({"name":"HTT-002"})['_id'].valueOf()
+
+let testSlides = [
+    {"filename":"/images/sample.svs","mpp-x":"0.2505","mpp-y":"0.2505","height":80453,"width":131536,"vendor":"aperio","level_count":1,"objective":40,"md5sum":"bde726696806f0d1e030237458dca3ee","study":"","specimen":"","upload_date":"7/11/2019, 10:27:46 AM","name":"sample1","location":"/images/sample.svs","mpp":0.2505,"mpp_x":0.2505,"mpp_y":0.2505,"allow_download":"false", collections:[col1Id]},
+    {"filename":"/images/sample.svs","mpp-x":"0.2505","mpp-y":"0.2505","height":80453,"width":131536,"vendor":"aperio","level_count":1,"objective":40,"md5sum":"bde726696806f0d1e030237458dca3ee","study":"","specimen":"","upload_date":"7/11/2019, 10:27:46 AM","name":"sample2","location":"/images/sample.svs","mpp":0.2505,"mpp_x":0.2505,"mpp_y":0.2505,"allow_download":"false", collections:[col2Id]}
+]
+
+db.slide.insertMany(testSlides)
\ No newline at end of file