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Commits on Jan 29, 2017

• added psyco_full, trax

  uhjish

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Commits on Aug 19, 2015

• merged upstream changes from jtaylor

  uhjish

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Commits on Jun 23, 2015

• Merged in ghuls/bx-python/allow_dot_as_strand (pull request #6)

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  James Taylor

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  a14b3d8

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• Merged in brentp/bx-python (pull request #7)

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  James Taylor

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Commits on Jun 12, 2015

• Fix typo in classifiers list name in setup.py pointed out by Bob Harris.

  natefoo

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Commits on Apr 10, 2015

• The bigwig/bigbed stuff is slow. This commit improves the speed by about 2-fold.

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  brentp

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Commits on Jan 27, 2015

• Add LICENSE to MANIFEST.in so it's included in the source distribution.

  natefoo

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• Add license (MIT) and classifiers for PyPI.

  natefoo

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Commits on Jan 7, 2015

• Allow '.' as valid value for strand in GenomicInterval.

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  ghuls

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Commits on Apr 15, 2014

• Bump version to 0.7.2

  natefoo

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Commits on Oct 20, 2013

• Change raised exceptions from strings to ValueErrors

  sontek

  committed
  021bdc3

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Commits on Jul 27, 2013

• tagget final bnmapper version

  odenas

  committed
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• Added tag bnMapper freeze for changeset 83b6d153f889

  odenas

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Commits on May 18, 2013

• bnMapper documentation

  

  gertidenas

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Commits on May 17, 2013

• bnMapper was ignoring peaks it should have not

  odenas

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Commits on Mar 26, 2013

• maf_tile_2bit.py: fix chromosome name for 2bit access

  jxtx

  committed
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Commits on Mar 25, 2013

• maf_tile_2bit.py: Variant of maf_tile_2.py that fetches reference sequence data from twoBit format files

  jxtx

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• bpt_file: fix a bug recursing into the BPT, only encountered for files with large numbers of keys (e.g. scaffolds)

  jxtx

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Commits on Mar 7, 2013

• Moving maf_covered_ranges.py util from ESPERR

  jxtx

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• Don't fail on missing lzo unless actually used

  jxtx

  committed
  1e1b88d

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• Run everything through Cython 0.18. Fixed a bug in BinnedBitset when the size is larger than the max size, all tests passing

  jxtx

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• Updating to latest distribute_setup.py

  jxtx

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• Merged in eivindgl/bx-python (pull request #2)

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  James Taylor

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Commits on Dec 27, 2012

• lrucache.py: remove functools.total_ordering call

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  mruffalo

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• lrucache.py: remove __future__.generators import

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  mruffalo

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Commits on Sep 8, 2012

• BED4 output (bnMapper) had a problem

  odenas

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Commits on Aug 24, 2012

• progress message / chromosome

  odenas

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Commits on Jul 28, 2012

• check cached chains are up to date and int chain score

  odenas

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Commits on Jul 25, 2012

• fixed small bugs and added options

  odenas

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Commits on Jul 18, 2012

• fixed issue with peaks spanning multiple chains

  odenas

  committed
  e0d4037

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• scripts for chain to EPO (.out) conversion and feature mapping

  odenas

  committed
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Commits on Apr 7, 2012

• Alter bbi_file.pyx ZoomLevel._summary_blocks_in_region to be slightly more efficient. Should skip reading data when chrom_id doesn't match equery

  jsilter

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Commits on Feb 20, 2012

• fixed BinnedBitSet memory leak

  

  eivindgl

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Commits on Feb 13, 2012

• If Python 3, use 2to3 distutils builder instead

  mruffalo

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Commits on Jan 25, 2012

• pstat.py: fix one cmp call, add TODO to another

  mruffalo

  committed
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