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We need to be able to do 'module load' and 'conda activate' before running a CommandLineTool, so that the necessary software is available.
Study CWL SoftwareRequirements
Make a sub-syntax for module and Conda, or see what's there already esp. for the latter
Implement parsing the SoftwareRequirements
Extend cwltiny to load the software
Since both conda activate and module load modify the environment, probably the best (and certainly the easiest) way to implement this is to generate a shell script and execute that.
The text was updated successfully, but these errors were encountered:
We need to be able to do 'module load' and 'conda activate' before running a CommandLineTool, so that the necessary software is available.
Since both conda activate and module load modify the environment, probably the best (and certainly the easiest) way to implement this is to generate a shell script and execute that.
The text was updated successfully, but these errors were encountered: