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Branch: master
Commits on Jun 14, 2019
Commits on Jun 13, 2019
  1. import files for gem

    ngoto committed Jun 13, 2019
Commits on Sep 15, 2017
  1. xml_set_parameter() is moved to lib/bio/appl/blast/report.rb in bioru…

    ngoto committed Sep 15, 2017
    …by core
    
    Because the method xml_set_parameter is also used from the REXML parser.
  2. Support for BLAST XML format with multiple queries after blastall 2.2.14

    ngoto committed Aug 28, 2008
     * BLAST XML format with multiple query sequences generated by
       blastall 2.2.14 or later is now supported.
     * New methods Bio::Blast::Report#reports, stores Bio::Blast::Report
       objects corresponding to the multiple query sequences.
     * New methods Bio::Blast::Report::Iteration#query_id, query_def,
       and query_len, which are available only for the new format.
     * New class Bio::Blast::Report::BlastXmlSplitter, flatfile splitter
       for Bio::FlatFile system.
     * Bug fix: Bio::Blast::Report#expect returned incorrect value.
     * Fixed typo and added tests in test/unit/bio/appl/blast/test_report.rb.
     * Some RDoc documents added/modified.
  3. Merging differences between 1.17 and 1.18 into xmplarser.rb and between

    ngoto committed May 12, 2008
    1.12 and 1.13 into rexml.rb.
  4. Standardize on The Ruby License

    trevor authored and ngoto committed Apr 5, 2007
  5. s/Lisence/License

    trevor authored and ngoto committed Dec 31, 2006
  6. * minor doc fix

    ktym authored and ngoto committed Sep 19, 2006
  7. * changed license to Ruby's

    nakao authored and ngoto committed Apr 30, 2006
  8. * expanded tab at the line head

    ktym authored and ngoto committed Sep 8, 2005
  9. * s/S/C/ for n

    ktym authored and ngoto committed Jun 16, 2003
  10. * changed to use common Bio::Blast::Report class (bio/appl/blast/repo…

    ktym authored and ngoto committed Feb 5, 2003
    …rt.rb)
    
    * format (-m 7 or -m 8) are automatically determined/detected
    * all the parsers can be loaded at the same time
    * added Bio::Blast::Report.{xmlparser,rexml,tab} class methods
    * fixed some typo in xmlparser.rb methods
  11. * doc added

    ktym authored and ngoto committed Jul 2, 2002
  12. * Report#hits corrected (not iterator!)

    ktym authored and ngoto committed Jun 25, 2002
    * Report#statistics actually not removed and will not. :)
    * test code updated
    * doc fix.
  13. * Add methods

    Mitsuteru Nakao authored and ngoto committed Jun 25, 2002
      * Bio::Blast::Report
        * #hits, #message
      * Bio::Blast::Report::Iteration
        * #statistics, #message
    * remove methods
      * Bio::Blast::Report
        * statistics
  14. * Report#each is changed to iterate on the hits of the last iteration's.

    ktym authored and ngoto committed Jun 25, 2002
      * behavior will not change for blastall (iterates once), just useful
        for the blastpgp users.
  15. * each_iteration, each_hit, each methods are added in Report class.

    ktym authored and ngoto committed Jun 24, 2002
    * compatible methods for Fasta::Report::Hit are added in Hit class.
    * test code rewrited - common with rexml.rb :)
  16. * test code fix

    ktym authored and ngoto committed Jun 22, 2002
  17. * parser separated, API renewal

    ktym authored and ngoto committed May 28, 2002
    * supports new genomenet outputs (seems not working though - fixme)
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