Permalink
Commits on Dec 17, 2016
  1. SOAP eutils API not supported since 2015, modules are deprecated and …

    cjfields committed Dec 17, 2016
    …will be removed in next release
  2. Clean up a bit

    cjfields committed Dec 17, 2016
  3. remove generated index

    cjfields committed Dec 17, 2016
  4. bump versions

    cjfields committed Dec 17, 2016
Commits on Nov 25, 2016
  1. Fixes from 'qifei9'

    bosborne committed Nov 25, 2016
Commits on Sep 13, 2016
Commits on Jul 17, 2016
  1. add a few more vetted dists

    cjfields committed Jul 17, 2016
  2. remove bad character

    cjfields committed Jul 17, 2016
  3. try triggering travis

    cjfields committed Jul 17, 2016
  4. gotta install bioperl first!

    cjfields committed Jul 17, 2016
  5. add travis-ci file

    cjfields committed Jul 17, 2016
Commits on Jul 7, 2016
  1. Merge pull request #40 from hettling/fast-bootstrap

    cjfields committed Jul 7, 2016
    adding support for RAxML's rapid bootstrap
  2. Merge pull request #39 from hettling/master

    cjfields committed Jul 7, 2016
    Making Raxml test run
Commits on May 28, 2015
  1. Merge pull request #15 from adsj/master

    cjfields committed May 28, 2015
    Supply TEMPLATE and SUFFIX for temporary query sequence files.
Commits on May 26, 2015
  1. Supply TEMPLATE and SUFFIX for temporary query sequence files.

    adsj committed May 26, 2015
    This avoid the problem of query sequence file names randomly ending
    in _Z, which makes (at least) wublastp (3.0SE-AB) try to unzgip the
    non-gzipped temporary file, resulting in an error.
Commits on Feb 20, 2015
  1. Raxml: use File::Spec->devnull() instead of our own code and do not i…

    carandraug committed Feb 20, 2015
    …mport extra stuff into namespace
  2. Merge pull request #13 from hettling/master

    carandraug committed Feb 20, 2015
    yes, seems good.
Commits on Jan 31, 2015
Commits on Jan 28, 2015
  1. removed obsolete whitespace

    hettling committed Jan 28, 2015
Commits on Dec 18, 2014
  1. StandAloneBlastPlus: Improved 'db_info' Algorithm ID regex,

    fjossandon committed Dec 18, 2014
    which was failing in a test, and adjusted the mask maker programs
    (windowmasker, segmasker and dustmasker) to use 'maskinfo_asn1_text'
    output format, so it can be used with makeblastdb (all other formats
    fails). Removed the TODOs from the test file now that masking works.
Commits on Oct 29, 2014
  1. Added -d option (random starting tree) to raxml run, because raxml

    hettling committed Oct 29, 2014
    complained about starting tree. Added test for -w option with tempdir().
    Test runs now.
  2. (1) when -w option was provided with a custom directory, 'run' always

    hettling committed Oct 29, 2014
    returned undef. This is now fixed. (2) When -quiet was set, redirection
    to /dev/null messed up the outfile name. This is also fixed.