Gh032 myriad config #41
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robertvi
reviewed
Feb 7, 2023
| source ~/.bashrc | ||
| module load python3 | ||
| module load java/openjdk-11/11.0.1 | ||
| pip install --upgrade pip wheel pytest nextflow |
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here the pip nextflow module installs a command "nextflow" into the venv which, when run, automatically installs nextflow for you and replaces itself with actual nextflow, and also ensures nextflow in the path, therefore if you install this pip module you shouldn't need to also curl install nextflow as well
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Yes thanks, my oversight, I'll remove the pip install.
robertvi
reviewed
Feb 7, 2023
| pytest | ||
| cath-af-cli | ||
| # RUN NEXTFLOW | ||
| curl -s https://get.nextflow.io | bash |
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see above comment: either use pip or curl install method for nextflow not both?
robertvi
reviewed
Feb 7, 2023
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closes #32