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alimanfoo / pysamstats

A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.
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pysamstats/opt.pyx #89

Open worker000000 opened 6 years ago

worker000000 commented 6 years ago

ValueError: 'pysamstats/opt.pyx' doesn't match any files

alimanfoo commented 6 years ago

Yes apologies, the cython source file is missing from the current distribution of pysamsats on PyPI. Workaround is to uninstall cython, install pysamstats (which will then compile from the generated C which is included in the distribution), then reinstall cython.

This problem is fixed in master (so you can alternatively install from github) and so should be fixed in the next release.

cc @hardingnj

On Tuesday, 26 June 2018, 2236529177 notifications@github.com wrote:

ValueError: 'pysamstats/opt.pyx' doesn't match any files

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Alistair Miles Head of Epidemiological Informatics Centre for Genomics and Global Health Big Data Institute Li Ka Shing Centre for Health Information and Discovery Old Road Campus Headington Oxford OX3 7LF United Kingdom Phone: +44 (0)1865 743596 or +44 (0)7866 541624 Email: alimanfoo@googlemail.com Web: http://a http://purl.org/net/alimanlimanfoo.github.io/ Twitter: @alimanfoo https://twitter.com/alimanfoo