Patch/new terms with linter (#292)

* changes to metadata * deleted assays added previously * Update annotationProperty.csv * Update annotationProperty.csv * Update File_Format.csv * Update annotationProperty.csv * Update annotationProperty.csv * Update annotationProperty.csv * Update Assay.csv * Update Assay.csv * Update annotationProperty.csv * Update File_Format.csv * Reorganize utils and add linter * Update ci workflow * Challenge linter with incorrect update * Fix, resolve #209 * Build jsonld --------- Co-authored-by: cconrad8 <[email protected]> Co-authored-by: Christina Conrad <[email protected]> Co-authored-by: nf-osi[bot] <[email protected]>
nf-osi · May 19, 2023 · 182c37c · 182c37c
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diff --git a/.github/workflows/schematic-ci.yml b/.github/workflows/schematic-ci.yml
@@ -17,17 +17,24 @@ jobs:
     runs-on: ubuntu-20.04
 
     steps:
-      - name: Install System Dependencies
-        run: |
-          sudo apt-get update
-          sudo apt-get install -y pip python3.8-venv libcurl4-openssl-dev
-      
       - uses: actions/checkout@v3
         with:
           ref: ${{ github.event.pull_request.head.ref }}
           persist-credentials: false # otherwise, the token used is the GITHUB_TOKEN, instead of your personal access token.
           fetch-depth: 0 # otherwise, there would be errors pushing refs to the destination repository
-
+
+      - name: Lint source in modules 
+        shell: bash
+        run: |
+          bash < <(curl -s https://raw.githubusercontent.com/babashka/babashka/master/install)
+          FILES=$(git diff --name-only ${{ github.event.pull_request.head.ref }} origin/main -- modules/)
+          bb utils/lint.clj --files ${FILES}
+      
+      - name: Install other deps for schematic
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y pip python3.8-venv libcurl4-openssl-dev
+      
       - name: Install schematic and convert schema
         shell: bash
         run: |

diff --git a/NF.csv b/NF.csv