Modularize and conquer (#131)

* Clean and modularize Remove duplicate ChIPSeq from AMP-AD Remove invalid polygonal cellType (not used) Fix typo in Schwann cell Organize terms into modules * Add Makefile * Update "build" workflow * Add changes * Update README regarding new workflow * Update biosample dependencies and closes #124 #125 #6 * Add changes * Update assay + platform, closes #123 #132 #134 * Update def to close #126 * Close #115 * Add convenient default in Makefile * Refactor and add new templates * Add changes * Resolve #136 * Minor fixes in IDs, update docs * Add changes Co-authored-by: nf-osi[bot] <[email protected]>
nf-osi · Apr 12, 2022 · d48a4ce · d48a4ce
1 parent e5aea9c
commit d48a4ce
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diff --git a/.github/workflows/schematic-schema-convert.yml b/.github/workflows/schematic-schema-convert.yml
@@ -6,7 +6,7 @@ on:
       - '**'      # matches every branch
       - '!main'   # excludes main
     paths:
-      - 'NF.csv'
+      - 'modules/**'
 
   workflow_dispatch:
 
@@ -35,7 +35,7 @@ jobs:
           chmod 755 .venv/bin/activate
           source .venv/bin/activate
           pip3 install schematicpy
-          schematic schema convert $schema_filename
+          make CSV=$schema_filename
     
       - name: Commit files
         run: |

diff --git a/Makefile b/Makefile
@@ -0,0 +1,12 @@
+CSV := NF.csv
+
+all: collate convert
+
+collate:
+	@echo "Collating module components..."
+	head -1 modules/Assay/Assay.csv > ${CSV}
+	tail -n +2 -q modules/*/*.csv >> ${CSV}
+
+convert:
+	schematic schema convert ${CSV}
+
diff --git a/NF.csv b/NF.csv