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pepkit / looper

A job submitter for Portable Encapsulated Projects
http://looper.databio.org
BSD 2-Clause "Simplified" License
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relative pipeline interface paths should be relative to the PEP #268

Closed nsheff closed 4 years ago

nsheff commented 4 years ago

Right now, if you use a relative pipeline interface path, such as is used in the hello_looper repository, looper is assuming the piface will be relative to the current working directory, which is wrong. it should be considered relative to the PEP that specifies the piface.

nsheff commented 4 years ago

This is not solved in my hands with the current release of looper -- at least for project pipelines. is it possible you solved it for sample pipelines but not project pipeline interfaces?

stolarczyk commented 4 years ago

I think it was fixed for both because they were one file at the time, but then we split sample and project pipeline interfaces..

nsheff commented 4 years ago

makes sense. thanks.