.gitlab-ci.yml

@@ -47,7 +47,7 @@ update_datasets:
     refs:
       - schedules
   script:
-    - source docker/datasets_utils.sh
+    - source src/utils/datasets_utils.sh
     - import_datasets_by_keyword iseedata || true
     - renku dataset ls --format tabular > release/datasets.tab
     - renku dataset ls-files --format tabular > release/files.tab

Dockerfile

 # see https://github.com/SwissDataScienceCenter/renkulab-docker
 # to swap this image for the latest version available
-FROM renku/renkulab-bioc:RELEASE_3_12-bfe0ae2
+FROM renku/renkulab-bioc:RELEASE_3_12-e802918
 
 # Uncomment and adapt if code is to be included in the image
 # COPY src /code/src
@@ -29,7 +29,7 @@ COPY requirements.txt /tmp/
 RUN pip3 install -r /tmp/requirements.txt
 
 # source dataset utility functions
-RUN echo "source /work/\${CI_PROJECT}/docker/datasets_utils.sh" >> $HOME/.bashrc
+RUN echo "source /work/\${CI_PROJECT}/src/utils/dataset_utils.sh" >> $HOME/.bashrc
 
 # RENKU_VERSION determines the version of the renku CLI
 # that will be used in this image. To find the latest version,