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Fix bugs in the GERP step of the pipeline #85

Fix bugs in the GERP step of the pipeline

Fix bugs in the GERP step of the pipeline #85

Triggered via pull request November 14, 2024 15:30
@verkuverku
synchronize #90
gerp
Status Success
Total duration 15m 40s
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snpeff.yaml

on: pull_request
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test
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v3, conda-incubator/setup-miniconda@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
test
/usr/share/miniconda3/lib/python3.12/site-packages/conda/base/context.py:198: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
test
Mamba support is still experimental and can result in differently solved environments!
test
/usr/share/miniconda3/lib/python3.12/argparse.py:2006: FutureWarning: `remote_definition` is deprecated and will be removed in 25.9. Use `conda env create --file=URL` instead. action(self, namespace, argument_values, option_string)