Merge pull request #2748 from ReactionMechanismGenerator/update_artif…

…acts_to_v4

Update CI artifact actions to v4 and fix runner glitch

.github/workflows/CI.yml

@@ -357,14 +357,14 @@ jobs:
 
       - name: Upload regression summary artifact
        # the annotate workflow uses this artifact to add a comment to the PR
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         if : ${{ github.event_name == 'pull_request' }}
         with:
           name: regression_summary
           path: summary.txt
 
       - name: Upload Comparison Results
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
           name: regression_test_comparison_results
           path: |

.github/workflows/docs.yml

@@ -36,6 +36,11 @@ jobs:
           activate-environment: rmg_env
           use-mamba: true
 
+      - name: Make libtiff Symlink to Avoid Runner Bug
+        run: | # This action may need to be removed/adjusted in future runs.
+          if [ ! -f /usr/lib/x86_64-linux-gnu/libtiff.so.5 ] && [ -f /usr/lib/x86_64-linux-gnu/libtiff.so.6 ]; then sudo ln -s /usr/lib/x86_64-linux-gnu/libtiff.so.6 /usr/lib/x86_64-linux-gnu/libtiff.so.5; fi
+          find /usr/lib -name libtiff*
+
       - name: Install sphinx
         run: mamba install -y sphinx
 

environment.yml

@@ -32,13 +32,14 @@ dependencies:
   - xlrd
   - xlwt
   - h5py
-  - graphviz
   - markupsafe
   - psutil
   # conda-forge not default, since default has a version information bug
   # (see https://github.com/ReactionMechanismGenerator/RMG-Py/pull/2421)
   - conda-forge::ncurses
   - conda-forge::suitesparse
+  # see https://github.com/ReactionMechanismGenerator/RMG-Py/issues/2750
+  - conda-forge::graphviz 
 
 # external software tools for chemistry
   - coolprop