specify PyVCF as required dependency #158
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Thanks |
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However, PyVCF only supports Python2 as per this PR easybuilders/easybuild-easyconfigs#11437. So adding it as a dependency will limit BAMsurgeon to be Python2 only, which interferes with #150 . |
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PyVCF has supported Python 3 as of version 0.4.4, however the project may be a bit stale jamescasbon/PyVCF#314 (as is bamsurgeon, frankly). As mentioned in that thread, cyvcf is probably the way to go these days: https://github.com/brentp/cyvcf2, but that would require some rewriting. |
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PyVCF was not specified as a dependency in
setup.py, even though some scripts (likeevaluator.py) have an unguardedimport vcf.