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Commits on Oct 13, 2005
  1. @hyphaltip

    merge HEAD changes to put EMBOSS require in BEGIN

    svn path=/bioperl-run/branches/bioperl-run-branch-1-5-1/; revision=13670
    hyphaltip committed Oct 13, 2005
Commits on Oct 9, 2005
  1. @hyphaltip

    Merged from HEAD to 1.5.1 branch, changes which remove old bug email …

    …address and point to bugzilla.bioperl.org website for bug submission
    
    svn path=/bioperl-run/branches/bioperl-run-branch-1-5-1/; revision=13668
    hyphaltip committed Oct 9, 2005
Commits on Oct 8, 2005
  1. @hyphaltip

    Changes updated for the release

    svn path=/bioperl-run/trunk/; revision=13663
    hyphaltip committed Oct 8, 2005
  2. @hyphaltip

    teeny code cleanup

    svn path=/bioperl-run/trunk/; revision=13662
    hyphaltip committed Oct 8, 2005
  3. @hyphaltip

    Phrap tests pass

    svn path=/bioperl-run/trunk/; revision=13661
    hyphaltip committed Oct 8, 2005
  4. @hyphaltip

    tests pass, find the right nodes more explicitly

    svn path=/bioperl-run/trunk/; revision=13660
    hyphaltip committed Oct 8, 2005
  5. @hyphaltip

    support new exported Menu variable

    svn path=/bioperl-run/trunk/; revision=13659
    hyphaltip committed Oct 8, 2005
  6. @hyphaltip

    DrawTree Basically works

    svn path=/bioperl-run/trunk/; revision=13658
    hyphaltip committed Oct 8, 2005
Commits on Oct 4, 2005
  1. @hyphaltip

    drawgram works

    svn path=/bioperl-run/trunk/; revision=13657
    hyphaltip committed Oct 4, 2005
Commits on Sep 30, 2005
  1. @hyphaltip

    do the right thing that I wanted you to do (you know that thing)

    svn path=/bioperl-run/trunk/; revision=13656
    hyphaltip committed Sep 30, 2005
  2. @hyphaltip

    indent some code

    svn path=/bioperl-run/trunk/; revision=13655
    hyphaltip committed Sep 30, 2005
  3. @hyphaltip

    test, really what we wanted

    svn path=/bioperl-run/trunk/; revision=13654
    hyphaltip committed Sep 30, 2005
  4. @hyphaltip

    protdist works for me on phylip 3.61

    svn path=/bioperl-run/trunk/; revision=13653
    hyphaltip committed Sep 30, 2005
  5. @hyphaltip

    POD typo

    svn path=/bioperl-run/trunk/; revision=13652
    hyphaltip committed Sep 30, 2005
  6. @hyphaltip

    2.2.0 testing

    svn path=/bioperl-run/trunk/; revision=13651
    hyphaltip committed Sep 30, 2005
  7. @hyphaltip

    debugging info

    svn path=/bioperl-run/trunk/; revision=13650
    hyphaltip committed Sep 30, 2005
  8. @hyphaltip

    2.2.3-rc7 values

    svn path=/bioperl-run/trunk/; revision=13649
    hyphaltip committed Sep 30, 2005
Commits on Sep 29, 2005
  1. * generalize the ProtDist test so that it only compares 3 significant

      digits worth of the score.  This allows the test to pass with perl
      5.8.7 on FreeBSD 5.4-STABLE i386.
    
      Reviewed by Jason.
    
    	t/ProtDist.t (modified)
    
    svn path=/bioperl-run/trunk/; revision=13648
    hartzell committed Sep 29, 2005
Commits on Sep 27, 2005
  1. @hyphaltip

    jump out of parser loop when we hit the stats at the bottom of the re…

    …port (I think this did not used to be there)
    
    svn path=/bioperl-run/trunk/; revision=13647
    hyphaltip committed Sep 27, 2005
  2. @hyphaltip

    remove debugging crap

    svn path=/bioperl-run/trunk/; revision=13646
    hyphaltip committed Sep 27, 2005
  3. @hyphaltip

    whoops, inc test count too

    svn path=/bioperl-run/trunk/; revision=13645
    hyphaltip committed Sep 27, 2005
  4. @hyphaltip

    test repeat masker on different versions, this probably also depends …

    …on your version of the RM libraries, I wonder how to standardize this...
    
    svn path=/bioperl-run/trunk/; revision=13644
    hyphaltip committed Sep 27, 2005
  5. @hyphaltip

    cleanup after oneself

    svn path=/bioperl-run/trunk/; revision=13643
    hyphaltip committed Sep 27, 2005
  6. @hyphaltip

    skip where appropriate

    svn path=/bioperl-run/trunk/; revision=13642
    hyphaltip committed Sep 27, 2005
  7. @hyphaltip

    work on diff versions of MUSCLE

    svn path=/bioperl-run/trunk/; revision=13641
    hyphaltip committed Sep 27, 2005
  8. @hyphaltip

    more flexible version matching for percid

    svn path=/bioperl-run/trunk/; revision=13640
    hyphaltip committed Sep 27, 2005
  9. @hyphaltip

    test for wise 2.2.0 and 2.2.3

    svn path=/bioperl-run/trunk/; revision=13639
    hyphaltip committed Sep 27, 2005
  10. @hyphaltip

    simplify java version lookup

    svn path=/bioperl-run/trunk/; revision=13638
    hyphaltip committed Sep 27, 2005
  11. @hyphaltip

    George Hartzell's excellent code fixes

    svn path=/bioperl-run/trunk/; revision=13637
    hyphaltip committed Sep 27, 2005
  12. @hyphaltip

    update test nums and added a test; per George Hartzell

    svn path=/bioperl-run/trunk/; revision=13636
    hyphaltip committed Sep 27, 2005
  13. @hyphaltip

    add some POD, note that this module is probably incomplete

    svn path=/bioperl-run/trunk/; revision=13635
    hyphaltip committed Sep 27, 2005
Commits on Sep 26, 2005
  1. @hyphaltip

    strike that, emboss 2.8.0 is where the cutoff in argument changes mus…

    …t have happened
    
    svn path=/bioperl-run/trunk/; revision=13634
    hyphaltip committed Sep 26, 2005
  2. @hyphaltip

    EMBOSS 3.0.0 testing passes

    svn path=/bioperl-run/trunk/; revision=13633
    hyphaltip committed Sep 26, 2005
Commits on Sep 25, 2005
  1. @hyphaltip

    adhere to the style that makes sense to me

    svn path=/bioperl-run/trunk/; revision=13632
    hyphaltip committed Sep 25, 2005
  2. @hyphaltip

    genewise test files

    svn path=/bioperl-run/trunk/; revision=13631
    hyphaltip committed Sep 25, 2005
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