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  1. 04 Feb, 2010 1 commit
    • cvs2git's avatar
      This commit was manufactured by cvs2svn to create tag 'mergepoint-vega-49 · b82571e8
      cvs2git authored
      -dev-head'.
      
      Sprout from master 2009-04-20 12:53:38 UTC Susan Fairley <sf7@sanger.ac.uk> 'Remaining part of db_display_name added for Tgut_symbol.'
      Cherrypick from master 2010-02-04 11:06:22 UTC Andreas Kusalananda Kähäri <ak4@sanger.ac.uk> 'Remove unimplemented methods from synopsis.':
          misc-scripts/add_species_aliases.pl
          misc-scripts/alternative_splicing/AltSplicingToolkit/AUTHORS
          misc-scripts/alternative_splicing/AltSplicingToolkit/BUGS
          misc-scripts/alternative_splicing/AltSplicingToolkit/COPYING
          misc-scripts/alternative_splicing/AltSplicingToolkit/ChangeLog
          misc-scripts/alternative_splicing/AltSplicingToolkit/INSTALL
          misc-scripts/alternative_splicing/AltSplicingToolkit/INSTALL.configure
          misc-scripts/alternative_splicing/AltSplicingToolkit/Makefile.am
          misc-scripts/alternative_splicing/AltSplicingToolkit/Makefile.in
          misc-scripts/alternative_splicing/AltSplicingToolkit/NEWS
          misc-scripts/alternative_splicing/AltSplicingToolkit/README
          misc-scripts/alternative_splicing/AltSplicingToolkit/THANKS
          misc-scripts/alternative_splicing/AltSplicingToolkit/aclocal.m4
          misc-scripts/alternative_splicing/AltSplicingToolkit/configure.ac
          misc-scripts/alternative_splicing/AltSplicingToolkit/depcomp
          misc-scripts/alternative_splicing/AltSplicingToolkit/release_notes.txt
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/Constants.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/Main.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/Makefile.am
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/Makefile.in
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Coordinates.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Coordinates.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/ExonChunk.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/ExonChunk.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Feature.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Feature.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Gene.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Gene.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/GeneFeature.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/GeneFeature.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/RegionChunk.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/RegionChunk.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEvent.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEvent.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEventContainer.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEventContainer.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEventMatrix.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingEventMatrix.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingGraph.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingGraph.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingVertex.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/SplicingVertex.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Transcript.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/Transcript.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/TranscriptFeature.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/as/TranscriptFeature.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/BioMartGffHandler.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/BioMartGffHandler.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffEventModel.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffEventModel.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffParser.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffParser.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffSimpleHandler.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/GffSimpleHandler.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/SplicingEventGffGenerator.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/gff/SplicingEventGffGenerator.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/util/Logger.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/util/Logger.h
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/util/StringUtil.cpp
          misc-scripts/alternative_splicing/AltSplicingToolkit/src/util/StringUtil.h
          misc-scripts/alternative_splicing/Fetch_gff.pl
          misc-scripts/alternative_splicing/README.txt
          misc-scripts/alternative_splicing/load_alt_slice_gff.pl
          misc-scripts/assembly/cleanup_tmp_tables.sql
          misc-scripts/constitutive_exon.pl
          misc-scripts/id_mapping/myRun.ksh
          misc-scripts/id_mapping/utils/myManager.ksh
          misc-scripts/ontology/README
          misc-scripts/ontology/scripts/add_subset_maps.pl
          misc-scripts/ontology/scripts/compute_closure.pl
          misc-scripts/ontology/scripts/demo1.pl
          misc-scripts/ontology/scripts/demo2.pl
          misc-scripts/ontology/scripts/load_OBO_file.pl
          misc-scripts/ontology/sql/table.sql
          misc-scripts/overlapping_regions.pl
          misc-scripts/xref_mapping/FAQ.txt
          misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateGappedBest1_culex.pm
          misc-scripts/xref_mapping/XrefMapper/culex_pipiens.pm
          misc-scripts/xref_mapping/XrefMapper/ixodes_scapularis.pm
          misc-scripts/xref_mapping/XrefParser/AedesCAPParser.pm
          misc-scripts/xref_mapping/XrefParser/FantomParser.pm
          misc-scripts/xref_mapping/XrefParser/GOSlimParser.pm
          misc-scripts/xref_mapping/XrefParser/IxodesCAPParser.pm
          misc-scripts/xref_mapping/XrefParser/Mim2GeneParser.pm
          misc-scripts/xref_mapping/XrefParser/UniProtDirectParser.pm
          misc-scripts/xref_mapping/XrefParser/VBCommunitySymbolParser.pm
          misc-scripts/xref_mapping/xrefs_detailed_docs.txt
          modules/Bio/EnsEMBL/DBSQL/SOTermAdaptor.pm
          modules/Bio/EnsEMBL/DBSQL/SplicingEventAdaptor.pm
          modules/Bio/EnsEMBL/DBSQL/SplicingEventFeatureAdaptor.pm
          modules/Bio/EnsEMBL/DBSQL/SplicingTranscriptPairAdaptor.pm
          modules/Bio/EnsEMBL/IdMapping/StableIdGenerator/AnophelesGambiae.pm
          modules/Bio/EnsEMBL/LRGSlice.pm
          modules/Bio/EnsEMBL/SplicingEvent.pm
          modules/Bio/EnsEMBL/SplicingEventFeature.pm
          modules/Bio/EnsEMBL/SplicingTranscriptPair.pm
          sql/patch_54_55_a.sql
          sql/patch_54_55_b.sql
          sql/patch_54_55_c.sql
          sql/patch_54_55_d.sql
          sql/patch_54_55_e.sql
          sql/patch_54_55_f.sql
          sql/patch_54_55_g.sql
          sql/patch_54_55_h.sql
          sql/patch_55_56_a.sql
          sql/patch_55_56_b.sql
          sql/patch_55_56_c.sql
          sql/patch_55_56_d.sql
          sql/patch_56_57_a.sql
          sql/patch_56_57_b.sql
          sql/patch_56_57_c.sql
          sql/patch_56_57_d.sql
          sql/patch_56_57_e.sql
          sql/patch_56_57_f.sql
      Delete:
          misc-scripts/protein_match/process_pmach.pl
      b82571e8
  2. 20 Apr, 2009 2 commits
  3. 15 Apr, 2009 1 commit
  4. 14 Apr, 2009 1 commit
  5. 09 Apr, 2009 1 commit
  6. 08 Apr, 2009 2 commits
  7. 07 Apr, 2009 1 commit
  8. 02 Apr, 2009 1 commit
  9. 01 Apr, 2009 3 commits
  10. 31 Mar, 2009 11 commits
  11. 26 Mar, 2009 2 commits
  12. 25 Mar, 2009 5 commits
  13. 24 Mar, 2009 7 commits
  14. 19 Mar, 2009 2 commits