opencga-clinical-review-cases.js amd variant-interpreter-browser-rd.j…

…s external setting in progress opencb/jsorolla#152, #236
opencb · Jun 24, 2021 · 33293f8 · 33293f8
1 parent 733dedb
commit 33293f8
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Showing 5 changed files with 83 additions and 40 deletions.
diff --git a/src/conf/opencga-clinical-review-cases.config.js b/src/conf/opencga-clinical-review-cases.config.js
diff --git a/src/conf/opencga-clinical-review-cases.settings.js b/src/conf/opencga-clinical-review-cases.settings.js
@@ -25,35 +25,29 @@ const OpencgaClinicalReviewCasesSettings = {
             }
         ]
     },
-    filter: {
-        sections: [
-            {
-                id: "main",
-                title: "",
-                fields: [
-                    {
-                        id: "case"
-                    },
-                    {
-                        id: "sample"
-                    },
-                    {
-                        id: "proband"
-                    },
-                    {
-                        id: "family"
-                    },
-                    {
-                        id: "disorder"
-                    },
-                    {
-                        id: "type"
-                    },
-                    {
-                        id: "assignee"
-                    }
-                ]
-            }
-        ]
-    }
+    // NOTE cannot easily customise canned filters here
+    filters: [
+        {
+            id: "case"
+        },
+        {
+            id: "sample"
+        },
+        {
+            id: "proband"
+        },
+        {
+            id: "family"
+        },
+        {
+            id: "disorder"
+        },
+        {
+            id: "type"
+        },
+        {
+            id: "assignee"
+        }
+    ]
+
 };
diff --git a/src/conf/variant-interpreter-browser-rd.settings.js b/src/conf/variant-interpreter-browser-rd.settings.js
@@ -0,0 +1,56 @@
+const variantInterpreterBrowserRdSettings = {
+    filters: [
+        {
+            id: "sample-genotype"
+        },
+        {
+            id: "sample"
+        },
+        {
+            id: "file-quality",
+            showDepth: false
+        },
+        {
+            id: "cohort"
+        },
+        {
+            id: "region"
+        },
+        {
+            id: "feature"
+        },
+        {
+            id: "biotype"
+        },
+        {
+            id: "type"
+        },
+        {
+            id: "diseasePanels"
+        },
+        {
+            id: "clinvar"
+        },
+        {
+            id: "consequenceTypeSelect"
+        },
+        {
+            id: "populationFrequency"
+        },
+        {
+            id: "go"
+        },
+        {
+            id: "hpo"
+        },
+        {
+            id: "proteinSubstitutionScore"
+        },
+        {
+            id: "cadd"
+        },
+        {
+            id: "conservation"
+        }
+    ]
+};
diff --git a/src/index.html b/src/index.html
@@ -61,9 +61,9 @@
     <script defer src="conf/opencga-clinical-analysis-view.settings.js"></script>
     <script defer src="conf/opencga-sample-browser.config.js"></script>
     <script defer src="conf/opencga-variant-browser.config.js"></script>
-    <script defer src="conf/opencga-clinical-review-cases.config.js"></script>
     <script defer src="conf/variant-interpreter.config.js"></script>
     <script defer src="conf/opencga-clinical-review-cases.settings.js"></script>
+    <script defer src="conf/variant-interpreter-browser-rd.settings.js"></script>
     <!--    <script src="../lib/jsorolla/src/core/webcomponents/opencga/panels_example.js"></script>-->
     <script src="conf/tools.js"></script>
 

diff --git a/src/iva-app.js b/src/iva-app.js
@@ -1268,7 +1268,7 @@ class IvaApp extends LitElement {
                     <div class="content" id="clinicalAnalysisPortal">
                         <tool-header title="${"Case Portal"}" icon="${"fas fa-window-restore"}"></tool-header>
                         <opencga-clinical-review-cases  .opencgaSession="${this.opencgaSession}"
-                                                        .config="${OpencgaClinicalReviewCasesConfig}"></opencga-clinical-review-cases>
+                                                        .settings="${OpencgaClinicalReviewCasesSettings}"></opencga-clinical-review-cases>
                     </div>
                 ` : null}