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Commits on Dec 12, 2017
Commits on Mar 13, 2017
Commits on Feb 20, 2017
Commits on Feb 19, 2017
  1. doc: fix examples section of bp_genbank_ref_extractor to use verbatim…

    carandraug committed Feb 19, 2017
    … blocks.
    
    Verbatim blocks with line continuation are better than single and very
    long lines as header of itemize lists.
Commits on Feb 9, 2017
Commits on Sep 26, 2016
  1. v1.75

    cjfields committed Sep 26, 2016
  2. v1.74

    cjfields committed Sep 26, 2016
      * NCBI related change from HTTP to HTTPS
      * Add preliminary 'idtype' attribute for some eutils, which will be
        needed for upcoming NCBI changes with migration of GI to Accession.Version
      * Remove usage of 'given' and 'when' which have been downgraded to
        experimental on perl 5.18.
      * Fixed released tarball so it installs its programs `bp_einfo` and
        `bp_genbank_ref_extractor`
  3. update changes, and modify dist.ini to skip some tests that are parsi…

    cjfields committed Sep 26, 2016
    …ng non-perl files and giving errors
Commits on Sep 25, 2016
  1. add idtype

    cjfields committed Sep 25, 2016
Commits on Sep 13, 2016
  1. bump version

    cjfields committed Sep 13, 2016
  2. fix for https URL changes

    cjfields committed Sep 13, 2016
Commits on Sep 12, 2016
  1. fix HTTP->HTTPS

    cjfields committed Sep 12, 2016
Commits on Jan 9, 2015
  1. Blank line after each package statement to avoid warning from Dist::Z…

    carandraug committed Jan 9, 2015
    …illa::Plugin::PkgVersion.
  2. Move programs from "scripts/" to "bin/" which is Dist::Zilla::Plugin:…

    carandraug committed Jan 9, 2015
    …:ExecDir
    
    default and also a lot more common everywhere else. Previously, no executables
    were being installed. Also drop file extension.
  3. Add Pod::Weaver comments to scripts so they can be released with dist…

    carandraug committed Jan 9, 2015
    …::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. Remove usage of 'given' and 'when' which have been downgraded

    carandraug committed Jan 8, 2015
    to experimental on perl 5.18.
Commits on Nov 13, 2014
  1. Confirmed, 'subroutine' alone cause an error, so testing

    fjossandon committed Nov 13, 2014
    in combination with other option
Commits on Nov 12, 2014
  1. Trying to find the correct use of -subs_only from Devel::Cover

    fjossandon committed Nov 12, 2014
    before applying it again on bioperl
  2. Fixed command typo

    fjossandon committed Nov 12, 2014
  3. Try test coverage with Coveralls performace, since this

    fjossandon committed Nov 12, 2014
    repo is small and have only a few test files.
Commits on Mar 14, 2014
Commits on Feb 17, 2014
  1. bp_genbank_ref_extractor: skip genes of any type other than 'pseudo' …

    carandraug committed Feb 17, 2014
    …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
Commits on Sep 9, 2013
  1. v1.73

    Chris Fields
    Chris Fields committed Sep 9, 2013
      * 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
    Chris Fields committed Sep 9, 2013
  3. add DB_File dependency

    Chris Fields
    Chris Fields committed Sep 9, 2013
  4. try to get around dzil

    Chris Fields
    Chris Fields committed Sep 9, 2013