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

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

    carandraug authored
    …:ExecDir
    
    default and also a lot more common everywhere else. Previously, no executables
    were being installed. Also drop file extension.
  3. @carandraug

    Add Pod::Weaver comments to scripts so they can be released with dist…

    carandraug authored
    …::zilla.
    
    * bp_genbank_ref_extractor.pl: use utf8 because of "Carnë", remove link for
    bug tracker and mailing since these are now added automatically on the
    FEEDBACK section
Commits on Jan 8, 2015
  1. @carandraug

    Remove usage of 'given' and 'when' which have been downgraded

    carandraug authored
    to experimental on perl 5.18.
Commits on Nov 13, 2014
  1. @fjossandon
  2. @fjossandon
  3. @fjossandon

    Confirmed, 'subroutine' alone cause an error, so testing

    fjossandon authored
    in combination with other option
  4. @fjossandon
Commits on Nov 12, 2014
  1. @fjossandon

    Trying to find the correct use of -subs_only from Devel::Cover

    fjossandon authored
    before applying it again on bioperl
  2. @fjossandon
  3. @fjossandon
  4. @fjossandon

    Fixed command typo

    fjossandon authored
  5. @fjossandon

    Try test coverage with Coveralls performace, since this

    fjossandon authored
    repo is small and have only a few test files.
Commits on Mar 14, 2014
Commits on Feb 17, 2014
  1. @carandraug

    bp_genbank_ref_extractor: skip genes of any type other than 'pseudo' …

    carandraug authored
    …or 'protein-coding'.
    
    * the current code was checking the gene type, and treat it as pseudo gene if type was
    'pseudo', and as protein coding otherwise. However, this approach ignores some less
    common cases such as long non-coding RNA (e.g., H19 with UID 14955), and even regions
    of the genome (with type of 'other') which sometimes appear annotated as genes (e.g.,
    Hist3 with UID 15268). There may be other gene types that which we are not aware of,
    so we limit ourselves to coding and pseudo genes.
Commits on Nov 14, 2013
  1. @carandraug
Commits on Sep 9, 2013
  1. v1.73

    Chris Fields authored
      * LWP::UserAgent is required for Bio::DB::EUtilities, now added
      * New script for download of all sequences from Entrez Gene queries
  2. [skip ci] add prereqs

    Chris Fields authored
  3. add DB_File dependency

    Chris Fields authored
  4. try to get around dzil

    Chris Fields authored
  5. test Dist::Zilla plugin

    Chris Fields authored
Commits on Sep 8, 2013
  1. tweak travis

    Chris Fields authored
  2. add .travis.yml

    Chris Fields authored
  3. a few changes

    Chris Fields authored
Commits on May 17, 2013
  1. @carandraug
  2. @carandraug
Commits on Mar 25, 2013
  1. @carandraug
Commits on Mar 24, 2013
  1. @carandraug
Commits on Mar 22, 2013
  1. @carandraug
  2. @carandraug
  3. @carandraug
  4. @carandraug
  5. @carandraug
Commits on Mar 21, 2013
  1. @carandraug
Commits on Mar 7, 2013
  1. @carandraug
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