test(htsinfer): check md5sums of table, add to ci

zavolanlab · Sep 6, 2023 · ce0aa52 · ce0aa52
1 parent ead4db9
commit ce0aa52
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Showing 3 changed files with 11 additions and 0 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -94,6 +94,10 @@ jobs:
       - name: Run test script
         run: bash tests/test_integration_workflow/test.local.sh
 
+      - name: Run htsinfer test script
+        run: bash tests/test_htsinfer_workflow/test.local.sh
+
+
   integration-singularity-tempflag:
     needs:
       - snakemake-graphs-format

diff --git a/tests/test_htsinfer_workflow/expected_output.md5 b/tests/test_htsinfer_workflow/expected_output.md5
@@ -0,0 +1,3 @@
+1dc3f566f896b72f8f0ab8b3d60da364  results/samples_htsinfer.tsv
+642935539533503952f755dbe280fcbd  results/htsinfer_SRR1.json
+1632c04cd856a1af0abc964304d8e218  results/htsinfer_SRR2.json
diff --git a/tests/test_htsinfer_workflow/test.local.sh b/tests/test_htsinfer_workflow/test.local.sh
@@ -41,3 +41,7 @@ snakemake \
     --notemp \
     --keep-incomplete
 
+# Check md5 sum of some output files
+#find results/ -type f -name \*\.gz -exec gunzip '{}' \;
+#find results/ -type f -name \*\.zip -exec sh -c 'unzip -o {} -d $(dirname {})' \;
+md5sum --check "expected_output.md5"