parameters & clean-up

progenetix · Feb 16, 2024 · 63c100a · 63c100a
1 parent 82a3131
commit 63c100a
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Showing 9 changed files with 7 additions and 588 deletions.
diff --git a/src/components/Layout.js b/src/components/Layout.js
@@ -125,13 +125,16 @@ function Side({ onClick }) {
           isSub="isSub"
         />
 */}        
+        <MenuInternalLinkItem href={SITE_DEFAULTS.MASTERROOTLINK} label="External ..." />
         <MenuInternalLinkItem
           href={SITE_DEFAULTS.MASTERROOTLINK}
           label="Progenetix Data"
+          isSub="isSub"
         />
         <MenuInternalLinkItem
           href={`${SITE_DEFAULTS.MASTERDOCLINK}`}
           label="Progenetix Docs"
+          isSub="isSub"
         />
 {/*
         <MenuInternalLinkItem
@@ -143,6 +146,7 @@ function Side({ onClick }) {
         <MenuInternalLinkItem
           href="https://info.baudisgroup.org/"
           label="Baudisgroup @ UZH"
+          isSub="isSub"
         />
       </ul>
     </div>

diff --git a/src/config/beaconSearchParameters.yaml b/src/config/beaconSearchParameters.yaml
@@ -40,76 +40,52 @@ parameters:
         value: ""
       - label: "1 (NC_000001.11)"
         value: "refseq:NC_0000001.11"
-        # value: "1"
       - label: "2 (NC_000002.12)"
         value: "refseq:NC_000002.12"
-        # value: "2"
       - label: "3 (NC_000003.12)"
         value: "refseq:NC_000003.12"
-        # value: "3"
       - label: "4 (NC_000004.12)"
         value: "refseq:NC_000004.12"
-        # value: "4"
       - label: "5 (NC_000005.10)"
         value: "refseq:NC_000005.10"
-        # value: "5"
       - label: "6 (NC_000006.12)"
         value: "refseq:NC_000006.12"
-        # value: "6"
       - label: "7 (NC_000007.14)"
         value: "refseq:NC_000007.14"
-        # value: "7"
       - label: "8 (NC_000008.11)"
         value: "refseq:NC_000008.11"
-        # value: "8"
       - label: "9 (NC_000009.12)"
         value: "refseq:NC_000009.12"
-        # value: "9"
       - label: "10 (NC_000010.11)"
         value: "refseq:NC_000010.11"
-        # value: "10"
       - label: "11 (NC_000011.10)"
         value: "refseq:NC_000011.10"
-        # value: "11"
       - label: "12 (NC_000012.12)"
         value: "refseq:NC_000012.12"
-        # value: "12"
       - label: "13 (NC_000013.11)"
         value: "refseq:NC_000013.11"
-        # value: "13"
       - label: "14 (NC_000014.9)"
         value: "refseq:NC_000014.9"
-        # value: "14"
       - label: "15 (NC_000015.10)"
         value: "refseq:NC_000015.10"
-        # value: "15"
       - label: "16 (NC_000016.10)"
         value: "refseq:NC_000016.10"
-        # value: "16"
       - label: "17 (NC_000017.11)"
         value: "refseq:NC_000017.11"
-        # value: "17"
       - label: "18 (NC_000018.10)"
         value: "refseq:NC_000018.10"
-        # value: "18"
       - label: "19 (NC_000019.10)"
         value: "refseq:NC_000019.10"
-        # value: "19"
       - label: "20 (NC_000020.11)"
         value: "refseq:NC_000020.11"
-        # value: "20"
       - label: "21 (NC_000021.9)"
         value: "refseq:NC_000021.9"
-        # value: "21"
       - label: "22 (NC_000022.11)"
         value: "refseq:NC_000022.11"
-        # value: "22"
       - label: "X (NC_000023.11)"
         value: "refseq:NC_000023.11"
-        # value: "23"
       - label: "Y (NC_000024.10)"
         value: "refseq:NC_000024.10"
-        # value: "24"
   variantType:
     label: "Variant Type"
     infoText: >-

diff --git a/src/config/celllines_searchExamples.yaml b/src/config/celllines_searchExamples.yaml
@@ -35,8 +35,6 @@
       isHidden: true
     materialtype:
       isHidden: true
-    freeFilters:
-      isHidden: true
     filterLogic:
       isHidden: true
     accessid:
@@ -81,15 +79,9 @@
       isHidden: true
     materialtype:
       isHidden: true
-    freeFilters:
-      isHidden: true
     filterLogic:
       isHidden: true
-    accessid:
-      isHidden: true
-    geoCity:
-      isHidden: true
-    referenceid:
+    allTermsFilters:
       defaultValue: ["cellosaurus:CVCL_0004"]
 - label: "CDKN2A Deletion Example in CL"
   note: "Example for focal CDKN2A deletion matches."
@@ -108,12 +100,8 @@
       isHidden: true
     variantMaxLength:
       isHidden: true
-    bioontology:
+    allTermsFilters:
       defaultValue: ["NCIT:C3058"]
-    accessid:
-      isHidden: true
-    geoCity:
-      isHidden: true
 - label: "MYC Duplication in CL"
   note: "Example for focal MYC Duplications."
   description: |
@@ -132,10 +120,6 @@
       isHidden: true
     variantMaxLength:
       isHidden: true
-    accessid:
-      isHidden: true
-    geoCity:
-      isHidden: true
 - label: "TP53 Del. in Cell Lines"
   note: "Example for TP53 deletion"
   description: >-
@@ -149,8 +133,4 @@
       defaultValue: "7669608-10000000"
     variantType:
       defaultValue: "EFO:0030067"
-    accessid:
-      isHidden: true
-    geoCity:
-      isHidden: true
 
diff --git a/src/config/celllines_searchParameters.yaml b/src/config/celllines_searchParameters.yaml