ci: test add separate validate cmd for windows

phac-nml · Dec 1, 2023 · bd6f0bc · bd6f0bc
1 parent 212f2ed
commit bd6f0bc
Showing 1 changed file with 13 additions and 2 deletions.
diff --git a/.github/workflows/test.yaml b/.github/workflows/test.yaml
@@ -116,22 +116,33 @@ jobs:
         run: |
           ${{ env.RUN_CMD }} run  --dataset-dir dataset/sars-cov-2/${{ env.DATASET_TAG }} --output-dir output/example1 --populations "AY.4.2*,BA.5.2,XBC.1.6*,XBB.1.5.1,XBL"
           ${{ env.RUN_CMD }} plot --dataset-dir dataset/sars-cov-2/${{ env.DATASET_TAG }} --run-dir output/example1
-          if [[ $(grep "fail" output/example1/linelist.tsv) ]]; then exit 1; fi
 
       - name: example 2
         run: |
           wget https://raw.githubusercontent.com/phac-nml/rebar/${{ github.sha }}/data/example2.fasta
           ${{ env.RUN_CMD }} run  --dataset-dir dataset/sars-cov-2/${{ env.DATASET_TAG }} --output-dir output/example2 --alignment example2.fasta
           ${{ env.RUN_CMD }} plot --dataset-dir dataset/sars-cov-2/${{ env.DATASET_TAG }} --run-dir output/example2
-          if [[ $(grep "fail" output/validate/example2.tsv) ]]; then exit 1; fi
 
       - name: toy1
         run: |
           ${{ env.RUN_CMD }} dataset download --output-dir dataset/toy1 --name toy1 --tag custom
           ${{ env.RUN_CMD }} run  --dataset-dir dataset/toy1 --output-dir output/toy1 --populations "*" --mask 0,0 --min-length 1
           ${{ env.RUN_CMD }} plot --dataset-dir dataset/toy1 --run-dir output/toy1
+
+      - name: validate (non-windows)
+        if: ${{ matrix.os != 'windows-latest' }}
+        run: |
+          if [[ $(grep "fail" output/example1/linelist.tsv) ]]; then exit 1; fi
+          if [[ $(grep "fail" output/validate/example2.tsv) ]]; then exit 1; fi
           if [[ $(grep "fail" output/toy1/linelist.tsv) ]]; then exit 1; fi
 
+      - name: validate (windows)
+        if: ${{ matrix.os == 'windows-latest' }}
+        run: |
+          if(findstr fail output\example1\linelist.tsv){ exit 1}
+          if(findstr fail output\example2\linelist.tsv){ exit 1}
+          if(findstr fail output\toy1\linelist.tsv){ exit 1}
+
       - name: upload output
         uses: actions/upload-artifact@v3
         with: