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Commits on May 26, 2003
  1. Write the files properly

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13451
  2. Add Vista

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13450
  3. More docs

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13449
  4. Add Vista

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13448
  5. Use seq_id

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13447
Commits on May 25, 2003
  1. *** empty log message ***

    senger authored
    svn path=/bioperl-run/trunk/; revision=13446
  2. bug, don't reverse seq

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13445
Commits on May 23, 2003
  1. Really should include the program name

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13444
  2. Support more options

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13443
Commits on May 22, 2003
  1. Vista wrapper taking in SimpleAlign object and generate pdfs

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13442
Commits on May 21, 2003
  1. @hyphaltip

    some code cleanup to avoid warnings and insure filehandles are proper…

    hyphaltip authored
    …ly closed, etc
    
    svn path=/bioperl-run/trunk/; revision=13441
  2. @hyphaltip

    more modern use of hit/query instead of feature1/feature2. Support ne…

    hyphaltip authored
    …w quiet parameter to BLAT
    
    svn path=/bioperl-run/trunk/; revision=13440
  3. - Piseapplication.pm, AnalysisFactory/Pise.pm and PiseJob.pm:

    letondal authored
      -remote parameter to -location to conform to
      Bio::Tools::Run::AnalysisFactory interface
    
    - PiseApplication/genscan.pm:
    The documentation of all PiseApplication/*.pm files is going to change:
    in addition to COPYRIGHT, FEEDBACK SEE ALSO section, the DESCRIPTION
    section now contains *only* the parameters that can be set by the client.
    "Fake" parameters such as "Results" or "Paragraph" are no longer displayed
    here.
    => I commit only genscan.pm to let bioperl core see if it's ok :-)
    
    svn path=/bioperl-run/trunk/; revision=13439
Commits on May 20, 2003
  1. Added code in the SYNOPSIS, as well as the FEEDBACK, COPYRIGHT and SE…

    letondal authored
    …E ALSO parts.
    
    svn path=/bioperl-run/trunk/; revision=13438
Commits on May 16, 2003
  1. Added env var

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13437
  2. Reflect list of changes

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13436
  3. To Quieten declaration warnings

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13435
  4. Moving to Bio::Tools::Run::Alignment Namespace

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13434
Commits on May 15, 2003
  1. Set the db properly

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13433
  2. @heikkil

    cleaned lines around pod command paragraphs

    heikkil authored
    svn path=/bioperl-run/trunk/; revision=13432
Commits on May 13, 2003
  1. Update author list

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13431
  2. Added Algorithm::Diff dependency for TribeMCL

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13430
  3. doc fix

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13429
  4. More standardized way of running Eponine

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13428
  5. Added more programs

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13427
Commits on May 12, 2003
  1. @heikkil

    POD fixes

    heikkil authored
    svn path=/bioperl-run/trunk/; revision=13426
Commits on May 6, 2003
  1. Added more options

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13425
Commits on May 5, 2003
  1. small fixes and addition of options

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13424
  2. test for lagan

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13423
Commits on May 2, 2003
  1. Typo fix

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13422
  2. swapping order so that it won't fail on an isa of an array

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13421
Commits on Apr 23, 2003
  1. changes in Soaplab API

    senger authored
    svn path=/bioperl-run/trunk/; revision=13420
  2. changes in Soaplab API

    senger authored
    svn path=/bioperl-run/trunk/; revision=13419
  3. small syntax error

    baaron authored
    svn path=/bioperl-run/trunk/; revision=13418
Commits on Apr 10, 2003
  1. Allow more than one alignment

    shawnh authored
    svn path=/bioperl-run/trunk/; revision=13417
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