Add option(s) to delete intermediate files during processing

biomedicalinformaticsgroup / Sargasso

Sargasso disambiguates mixed-species high-throughput sequencing data.

http://biomedicalinformaticsgroup.github.io/Sargasso/

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Add option(s) to delete intermediate files during processing #21

Closed lweasel closed 6 years ago

lweasel commented 9 years ago

e.g. delete mapped BAM files, once sorted; delete sorted BAM files once filtered.

s-heron commented 8 years ago

Is this not the case presently?

lweasel commented 8 years ago

I don't think so. It will be pretty easy to do, just another "partial clean" target in the Makefile that deletes the raw mapped BAMs and the sorted BAMs, which can then be called from the "all" target after the filtered reads have been created.

Although this will be nice to have, I'm not overly concerned about needing it in place for the initial release.

lweasel commented 6 years ago

Fixed by #52.