env fixes

Deep-MI · Sep 9, 2024 · 2d0df4b · 2d0df4b
1 parent 36b7221
commit 2d0df4b
Showing 1 changed file with 11 additions and 11 deletions.
diff --git a/.github/workflows/quicktest_runner.yaml b/.github/workflows/quicktest_runner.yaml
@@ -62,12 +62,12 @@ jobs:
           echo "Error: FreeSurfer installation directory does not exist at $FREESURFER_HOME"
           exit 1
         fi
-    - name: create env
-      run: |
-        if [[ "$(md5sum /fastsurfer/fastsurfer-pytest.yml)" != "$(md5sum env/fastsurfer.yml)" ]] ; then
-        mamba env create -n "fastsurfer_$GITHUB_SHA" -f env/fastsurfer.yml
-        mamba activate "fastsurfer_$GITHUB_SHA"
-        fi
+#    - name: create env
+#      run: |
+#        if [[ "$(md5sum /fastsurfer/fastsurfer-pytest.yml)" != "$(md5sum env/fastsurfer.yml)" ]] ; then
+#        mamba env create -n "fastsurfer_$GITHUB_SHA" -f env/fastsurfer.yml
+#        mamba activate "fastsurfer_$GITHUB_SHA"
+#        fi
     - name: Run FastSurfer
       run: |
         echo "Running FastSurfer..."
@@ -78,11 +78,11 @@ jobs:
                              --sd $SUBJECTS_DIR/$THIS_RUN_OUTDIR \
                              --parallel --threads 4 --3T --parallel_subjects surf
         export TEST_DIR=$THIS_RUN_OUTDIR
-    - name: cleanup
-      run: |
-        if [[ "$(md5sum /fastsurfer/fastsurfer.yml)" != "$(md5sum env/fastsurfer.yml)" ]] ; then
-        mamba env remove -n "fastsurfer_$GITHUB_SHA"
-        fi
+#    - name: cleanup
+#      run: |
+#        if [[ "$(md5sum /fastsurfer/fastsurfer.yml)" != "$(md5sum env/fastsurfer.yml)" ]] ; then
+#        mamba env remove -n "fastsurfer_$GITHUB_SHA"
+#        fi
 
   # Test fastsurfer output
   run-pytest: