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pysam-0.8.4

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@AndreasHeger AndreasHeger released this 09 Nov 22:46
· 1503 commits to master since this release

This release contains numerous bugfixes and a first implementation of
a pythonic interface to VCF/BCF files thanks to Kevin Jacobs.

Potential isses when upgrading from v0.8.3:

  • binary tags are now returned as python arrays
  • renamed several methods for pep8 compatibility, old names still retained for
    backwards compatibility, but should be considered deprecated.
    • gettid() is now get_tid()
    • getrname() is now get_reference_name()
    • parseRegion() is now parse_region()
  • faidx now returns strings and not binary strings in py3.
  • The cython components have been broken up into smaller files with
    more specific content. This will affect users using the cython
    interfaces.

A full list of changes is at http://pysam.readthedocs.org/en/stable/release.html