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Published 20 hours ago • verified publisher icon Oshlack

Refer to mosdepth correctly like other tools

Open hdashnow opened this issue 6 years ago • 2 comments

Set mosdepth in pipeline_config (via install script) rather than referring to it in pipeline_stages as $STRETCH/tools/bin/mosdepth

hdashnow avatar Jan 08 '19 22:01 hdashnow

I guess there is a bug in ./STRetch_exome_bam_pipeline.groovy with $STRETCH/tools/bin/mosdepth but not $mosdepth, making it crash when dealing with cram inputs.

wykswr avatar Mar 15 '21 13:03 wykswr

You're seeing a specific version of mosdepth crash on crams? Which version?

hdashnow avatar Mar 23 '21 19:03 hdashnow