Skip to content
This repository
tag: release-1_65rc1

Jul 10, 2006

  1. This commit was manufactured by cvs2svn to create tag

    'release-1_65rc1'.
    Nobody authored
  2. fixing manifest

    Scott Cain authored
  3. updating manifest

    Scott Cain authored
  4. making fref and gname searching case insensitive in pg adaptor

    Scott Cain authored
  5. syncing to bioperl

    Scott Cain authored
  6. minor puncuation fix

    Scott Cain authored

Jul 06, 2006

  1. Lincoln Stein

    removed lots of debug warnings

    lstein authored
  2. Lincoln Stein

    fixed error that was causing gbrowse to hang when building citations …

    …help page
    lstein authored
  3. Lincoln Stein

    the group_on and group directives were not obeying semantic zooming r…

    …ules
    lstein authored

Jun 29, 2006

  1. Lincoln Stein

    error message if CGI::Session can't write its state out

    lstein authored

Jun 28, 2006

  1. syncing to bioperl live

    Scott Cain authored
  2. fixing chado adapter so that it will work 'seemlessly' with the new g…

    …ene glyph
    Scott Cain authored

Jun 26, 2006

  1. Lincoln Stein

    insignificant formatting tweak

    lstein authored

Jun 21, 2006

  1. removing really old cruft that was causing buggy behavior

    Scott Cain authored
  2. Added trace.pm info into the package docs.

    Ben Faga authored
  3. Fixed a couple lines of the documentaion.

    Ben Faga authored
  4. Lincoln Stein

    removed redundant line

    lstein authored

Jun 19, 2006

  1. Lincoln Stein

    fixed gbrowse_details so that it doesn't make call to deprecated dna(…

    …) method
    lstein authored
  2. Lincoln Stein

    updated details and plugins to work better with gff3 database

    lstein authored

Jun 17, 2006

  1. Lincoln Stein

    added the GFF3 readme

    lstein authored

Jun 16, 2006

  1. make the seq and dna methods work in a more sensible way

    Scott Cain authored

Jun 15, 2006

  1. Lincoln Stein

    added Fly config file for GFF3 compatibility

    lstein authored
  2. Argh! Changing interfaces: seq used to be the same as dna and protein…

    …. Now
    
    seq returns a Bio::Seq object, but dna and protein still return a string.
    
    note that the version that I am committing works but is backwards from the way
    it should work: the dna method calls the seq method and gets a Bio::Seq, from
    which it returns a dna string.  What should really happen is move the code
    to get the dna string to the dna method and have the seq method call it
    to get the dna string to include in the Bio::Seq object.  I'll do that soon,
    but I wanted to get the working code committed.
    Scott Cain authored
  3. making sure there is a display id for the Bio::Seq object that gets c…

    …reated
    Scott Cain authored
  4. Lincoln Stein

    track category sections so that cells that do not contain checheckbox…

    …es have correct background color
    lstein authored
  5. fixing uninterpolated path in conf file

    Scott Cain authored
  6. Lincoln Stein

    fixed phase in volvox tutorial examples -- they weren't correct

    lstein authored

Jun 14, 2006

  1. Lincoln Stein

    added new option to CDS glyph to allow undef phase features to be dra…

    …wn; fixed translation glyph in bioperl
    lstein authored
  2. fixing (I hope) phase calculations

    Scott Cain authored

Jun 13, 2006

  1. Lincoln Stein

    added examples of gff3 data and conf files

    lstein authored
  2. Made some changes to trace.pm to remove the generic glyph when zoomed…

    … in and give the option to remove the border.
    Ben Faga authored
  3. syncing extras directory to bioperl live

    Scott Cain authored
  4. adding code to calculate phases on the fly if needed--this needs to b…

    …e tested
    
    more thoroughly thought, just to be sure.
    Scott Cain authored

Jun 08, 2006

  1. Lincoln Stein

    documented that you can't use '-' in track names

    lstein authored

Jun 07, 2006

  1. syncing INSTALL and INSTALL.pod

    Scott Cain authored
Something went wrong with that request. Please try again.