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hgvs requires pysam via seqrepo; dependency should be optional #522
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Thanks, Kevin. There are two things going on here. pysam is getting pulled in by seqrepo, which really should be optional (#523). The second is issue you've identified regarding pysam on windows. Given that the challenge is really with seqrepo, would you please create a new issue in that repo, reference it in this hgvs issue, and then close it here? Thanks! |
Issue moved to biocommons/biocommons.seqrepo#32. |
Status: hgvs currently requires seqrepo, which in turn requires pysam. That means that it's impossible to install hgvs without installing pysam. Plan: make seqrepo optional in hgvs (with |
If it works within the confines of a setup program, Python has the ability to check which OS it's running in. Maybe the setup could consider seqrepo required or optional depending on whether it's on Windows? |
This issue is stale because it has been open 90 days with no activity. Remove stale label or comment or this will be closed in 7 days. |
This issue was closed because it has been stalled for 7 days with no activity. |
In my brief research, I came across a pysam fork designed to run on Windows: https://pypi.org/project/pysam-win/ (in reference to #470 )
I have not had the opportunity to test it yet, and likely will not have the ability to compare the two libraries myself, but I believe this may be worth investigating in the interest of expanding OS compatibility.
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