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Detect binaries automatically if they are in the PATH

Open guma44 opened this issue 4 years ago • 1 comments

Path to Salmon binary is now hardcoded. It would be better when PISCES would check if salmon is in the PATH eg. like here https://stackoverflow.com/questions/377017/test-if-executable-exists-in-python.

guma44 avatar Dec 10 '20 09:12 guma44

I think this is a great idea, but would also like to fall back on bundling a version of salmon that works with PISCES. Some of the older versions (< 1.0) are incompatible with genome-centric transcriptome indexing. I'll consider how this might be implemented.

mdshw5 avatar Dec 14 '20 17:12 mdshw5