Commits on Jan 9, 2015
  1. @carandraug
  2. @carandraug
  3. @carandraug
  4. @carandraug

    Move programs from "scripts/" to "bin/" which is Dist::Zilla::Plugin:…

    …:ExecDir
    
    default and also a lot more common everywhere else. Also drop file extension.
    carandraug committed Jan 9, 2015
Commits on Sep 2, 2014
  1. @cjfields
  2. @cjfields
Commits on Sep 1, 2014
  1. @fjossandon
Commits on Aug 26, 2014
  1. @cjfields

    defunkify links

    cjfields committed Aug 26, 2014
  2. @cjfields

    Markdown-ize README

    cjfields committed Aug 26, 2014
Commits on Mar 29, 2014
  1. @cjfields
Commits on Jan 16, 2014
  1. @fjossandon

    gff.pm: Optimized the Windows ending bug fix by moving the code

    from "next_dataset" to "_initialize", so is only run once per
    file and then buffered on $self. The $self->{termination_length}
    stores the calculated length of the line ending characters.
    Since now the value is buffered, I removed the line endings just
    after _readline, so the multiple chomps are not needed.
    fjossandon committed Jan 16, 2014
Commits on Dec 19, 2013
  1. @fjossandon

    Moved "use" statements into BEGIN blocks in Feature.t,

    faldo.t, gff3.t and gtf.t tests files,
    and added number of expected tests where missing
    fjossandon committed Dec 19, 2013
  2. @fjossandon

    FeatureIO.t: Fixed several failing tests that were using

    wrong arguments on the methods (maybe attribute names that
    were changed in the past), or were expecting wrong returns.
    Now in linux all tests pass, but in windows Bio::GFF3::LowLevel
    fails to install, so can't test yet
    fjossandon committed Dec 19, 2013
Commits on Dec 6, 2013
  1. @fjossandon
  2. @fjossandon

    Bio::FeatureIO::gff.pm: Using bare equality without explicit variable

    in "directive" caused a bug where "$directive = '#'" matched
    "elsif ('genome-build') {", instead of the proper conditional.
    Adding explicit "$_ eq" in the conditionals fixed it.
    fjossandon committed Dec 6, 2013
  3. @fjossandon

    Bio::FeatureIO::gff.pm: Windows compatibility fix, added a correction

    to byte positions for ghost '\r'.
    fjossandon committed Dec 6, 2013
  4. @fjossandon
Commits on Nov 30, 2013
  1. @cmungall

    Merge pull request #3 from cmungall/master

    latest faldo changes & addition of scripts directory
    cmungall committed Nov 30, 2013
  2. @cmungall
  3. @cmungall
Commits on Nov 29, 2013
  1. @cmungall

    Removed cruft. Added docs

    cmungall committed Nov 29, 2013
Commits on Jul 16, 2013
  1. @cjfields

    Merge pull request #2 from cmungall/master

    Implementation of Bio::FeatureIO::faldo
    cjfields committed Jul 16, 2013
Commits on Jul 11, 2013
  1. @cmungall
  2. @cmungall

    fixed test

    cmungall committed Jul 11, 2013
  3. @cmungall
  4. @cmungall

    strands

    cmungall committed Jul 11, 2013
  5. @cmungall

    initial pass at faldo writer

    cmungall committed Jul 11, 2013
Commits on Jul 9, 2013
  1. simpify

    Chris Fields committed Jul 9, 2013
  2. fix stoopid thinko on attributes

    Chris Fields committed Jul 9, 2013
Commits on May 10, 2013
  1. no need to set these every time, make them state vars

    Chris Fields committed May 9, 2013
  2. clean up a major bottleneck with feature generation

    Chris Fields committed May 9, 2013
  3. move POD to end

    Chris Fields committed May 9, 2013
  4. fix topicalizer bug

    Chris Fields committed May 9, 2013
  5. TODO failing test; methinks a problem in core

    Chris Fields committed May 9, 2013