NAL-i5K / Organism_Onboarding

A workflow to make organism onboarding pipeline easy to handle as an I/O pipeline
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Add symlink to analyses directory in jbrowse directory #121

Closed mpoelchau closed 2 years ago

mpoelchau commented 2 years ago

This is a modification to flow_dispatch. We need to add a symlink to the analyses directory from the jbrowse directory. The command would look something like this:

ln -si ../../scaffold/analyses -t $(inputs.PATH[0])/$(inputs.tree[0])/$(inputs.tree[1])/jbrowse/data

This is very similar to flow_dispatch/link_bigwig.cwl - it could be copied and modified to use analyses instead of bigwig. The new cwl file would need to be added to flow_dispatch/workflow.cwl.

mpoelchau commented 2 years ago

To test this:

mpoelchau commented 2 years ago

Added via https://github.com/NAL-i5K/Organism_Onboarding/commit/a5a50431ff05c6e8188df3166cb7159a147afd53.