Merge pull request #372 from pyiron/timeout

Add timeout for build process

.github/workflows/push.yml

@@ -21,34 +21,41 @@ jobs:
       - name: Login to DockerHub Registry
         run: echo ${{ secrets.DOCKERHUB_PASSWORD }} | docker login -u ${{ secrets.DOCKERHUB_USERNAME }} --password-stdin
       - name: Build pyiron/base
+        timeout-minutes: 5
         run: |
           docker build -t pyiron/base:latest base/
           docker tag pyiron/base:latest pyiron/base:"$(date +%F)"
       - name: Build pyiron/md
+        timeout-minutes: 5
         run: |
           tail --lines=+5 base/environment.yml >> md/environment.yml
           docker build -t pyiron/md:latest md/
           docker tag pyiron/md:latest pyiron/md:"$(date +%F)"
       - name: Build pyiron/continuum
+        timeout-minutes: 5
         run: |
           docker build -t pyiron/continuum:latest continuum/
           docker tag pyiron/continuum:latest pyiron/continuum:"$(date +%F)"
       - name: Build pyiron/pyiron
+        timeout-minutes: 5
         run: |
           tail --lines=+5 md/environment.yml >> pyiron/environment.yml
           docker build -t pyiron/pyiron:latest pyiron/
           docker tag pyiron/pyiron:latest pyiron/pyiron:"$(date +%F)"
       - name: Build pyiron/potentialworkshop
+        timeout-minutes: 5
         run: | 
           tail --lines=+5 pyiron/environment.yml >> potentialworkshop/environment.yml
           docker build -t pyiron/potentialworkshop:latest potentialworkshop/
           docker tag pyiron/potentialworkshop:latest pyiron/potentialworkshop:"$(date +%F)"
       - name: Build pyiron/experimental
+        timeout-minutes: 5
         run: |
           tail --lines=+5 base/environment.yml >> experimental/environment.yml
           docker build -t pyiron/experimental:latest experimental/
           docker tag pyiron/experimental:latest pyiron/experimental:"$(date +%F)"
       - name: Build pyiron/mpie_cmti
+        timeout-minutes: 5
         run: |
           tail --lines=+5 pyiron/environment.yml >> mpie_cmti/environment.yml
           docker build -t pyiron/mpie_cmti:latest mpie_cmti/

.github/workflows/testing.yml

@@ -10,44 +10,59 @@ jobs:
     steps:
       - uses: actions/checkout@v4
       - name: Build pyiron/base
+        timeout-minutes: 5
         run: |
           docker build -t pyiron/base:latest base/
           docker tag pyiron/base:latest pyiron/base:"$(date +%F)"
       - name: Build pyiron/md
+        timeout-minutes: 5
         run: |
           tail --lines=+5 base/environment.yml >> md/environment.yml
           docker build -t pyiron/md:latest md/
           docker tag pyiron/md:latest pyiron/md:"$(date +%F)"
       - name: Build pyiron/continuum
+        timeout-minutes: 5
         run: |
           docker build -t pyiron/continuum:latest continuum/
           docker tag pyiron/continuum:latest pyiron/continuum:"$(date +%F)"
       - name: Build pyiron/pyiron
+        timeout-minutes: 5
         run: |
           tail --lines=+5 md/environment.yml >> pyiron/environment.yml
           docker build -t pyiron/pyiron:latest pyiron/
           docker tag pyiron/pyiron:latest pyiron/pyiron:"$(date +%F)"
       - name: Build pyiron/potentialworkshop
+        timeout-minutes: 5
         run: | 
           tail --lines=+5 pyiron/environment.yml >> potentialworkshop/environment.yml
           docker build -t pyiron/potentialworkshop:latest potentialworkshop/
           docker tag pyiron/potentialworkshop:latest pyiron/potentialworkshop:"$(date +%F)"
       - name: Build pyiron/experimental
+        timeout-minutes: 5
         run: |
           tail --lines=+5 base/environment.yml >> experimental/environment.yml
           docker build -t pyiron/experimental:latest experimental/
           docker tag pyiron/experimental:latest pyiron/experimental:"$(date +%F)"
       - name: Build pyiron/mpie_cmti
+        timeout-minutes: 5
         run: |
           tail --lines=+5 pyiron/environment.yml >> mpie_cmti/environment.yml
           docker build -t pyiron/mpie_cmti:latest mpie_cmti/
           docker tag pyiron/mpie_cmti:latest pyiron/mpie_cmti:"$(date +%F)"
       # Testing
       - run: docker images
-      - run: docker run --rm pyiron/continuum /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
-      - run: docker run --rm pyiron/base /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'  
-      - run: docker run --rm pyiron/pyiron /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
-      - run: docker run --rm pyiron/experimental /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
+      - name: Test pyiron/continuum
+        timeout-minutes: 5
+        run: docker run --rm pyiron/continuum /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
+      - name: Test pyiron/base
+        timeout-minutes: 5
+        run: docker run --rm pyiron/base /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'  
+      - name: Test pyiron/pyiron
+        timeout-minutes: 20
+        run: docker run --rm pyiron/pyiron /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
+      - name: Test pyiron/experimental
+        timeout-minutes: 5
+        run: docker run --rm pyiron/experimental /bin/bash -c 'source /opt/conda/bin/activate; i=0; for f in $(ls "${HOME}"/notebooks_*/*.ipynb); do jupyter nbconvert --ExecutePreprocessor.timeout=9999999 --ExecutePreprocessor.kernel_name=python3 --to notebook --execute $f || i=$((i+1)); done; if [ $i -gt 0 ]; then exit 1; fi;'
       # Export Environments
       - run: mkdir -p environment; chmod 777 environment
       - run: docker run -v $(pwd)/environment:/home/jovyan/ --rm pyiron/base /bin/bash -c 'source /opt/conda/bin/activate; conda env export > /home/jovyan/pyiron_base_$(date +%F).yml;'