Changeset [87f71156384e1727d4445b99af50fd11d0b65925] by Robert Buels

August 7th, 2013 @ 08:22 AM

Merge branch 'master' into multiview

Conflicts:
css/base/browser.css src/JBrowse/Browser.js src/JBrowse/GenomeView.js src/JBrowse/Store/SeqFeature/NCList.js src/JBrowse/Store/SeqFeature/REST.js src/JBrowse/View/Dialog/SetHighlight.js src/JBrowse/View/Track/BlockBased/Block.js src/JBrowse/View/Track/ExportMixin.js src/JBrowse/View/Track/HTMLFeatures.js https://github.com/GMOD/jbrowse/commit/87f71156384e1727d4445b99af50...

Committed by Robert Buels

  • A bin/maker2jbrowse
  • A css/base/combination_tracks.css
  • A css/base/export_dialog.css
  • A css/base/maker.css
  • A docs/tutorial/data_files/volvox_fromconfig.conf
  • A src/FileSaver
  • A src/JBrowse/Model/BinaryTreeNode.js
  • A src/JBrowse/Store/SeqFeature/BAMCombination.js
  • A src/JBrowse/Store/SeqFeature/Combination.js
  • A src/JBrowse/Store/SeqFeature/CombinationBase.js
  • A src/JBrowse/Store/SeqFeature/FromConfig.js
  • A src/JBrowse/Store/SeqFeature/Mask.js
  • A src/JBrowse/Store/SeqFeature/QuantitativeCombination.js
  • A src/JBrowse/View/FeatureGlyph/Gene.js
  • A src/JBrowse/View/FeatureGlyph/ProcessedTranscript.js
  • A src/JBrowse/View/FeatureGlyph/Segments.js
  • A src/JBrowse/View/Track/Combination.js
  • A src/JBrowse/View/Track/Combination/CombinationDialog.js
  • A src/JBrowse/View/Track/_FeatureContextMenusMixin.js
  • A src/JBrowse/View/Track/_TrackDetailsStatsMixin.js
  • A src/JBrowse/View/_FeatureDescriptionMixin.js
  • A src/perl5/Bio/JBrowse/FeatureStream/Genbank.pm
  • A src/perl5/Bio/JBrowse/FeatureStream/Genbank/Parser.pm
  • A tests/data/NG_009246.1.fa
  • A tests/data/NT_077402.2.fa
  • A tests/data/NT_077402.2.gb
  • A tests/data/NT_077402.2.gene.gff3
  • A tests/data/gstmu_full_record.gb
  • A tests/data/gstmu_region_from_chromosome.gb
  • A tests/data/maker_dmel_example/dpp_contig.maker.output/dpp_contig_datastore/05/1F/contig-dpp-500-500/contig-dpp-500-500.gff
  • A tests/data/maker_dmel_example/dpp_contig.maker.output/dpp_contig_datastore/05/1F/contig-dpp-500-500/contig-dpp-500-500.maker.proteins.fasta
  • A tests/data/maker_dmel_example/dpp_contig.maker.output/dpp_contig_datastore/05/1F/contig-dpp-500-500/contig-dpp-500-500.maker.transcripts.fasta
  • A tests/data/maker_dmel_example/dpp_contig.maker.output/dpp_contig_datastore/05/1F/contig-dpp-500-500/run.log
  • A tests/data/maker_dmel_example/dpp_contig.maker.output/dpp_contig_master_datastore_index.log
  • A tests/data/volvox.sizes
  • A tests/perl_tests/maker2jbrowse.t
  • M .gitmodules
  • M Makefile.PL
  • M bin/flatfile-to-json.pl
  • M bin/prepare-refseqs.pl
  • M build/Makefile
  • M build/init.js
  • M compat_121.html
  • M css/base/browser.css
  • M css/base/faceted_track_selector.css
  • M css/base/icons.css
  • M css/base/main.css
  • M css/base/track_styles.css
  • M docs/featureglyphs.html
  • M docs/tutorial/conf_files/volvox.json
  • M docs/tutorial/data_files/volvox.gff3
  • M docs/tutorial/index.html
  • M img/commonIconsDisabled.png
  • M img/commonIconsEnabled.png
  • M index.html
  • M release-notes.txt
  • M sample_data/json/modencode/trackList.json
  • M setup.sh
  • M src/JBrowse/BehaviorManager.js
  • M src/JBrowse/Browser.js
  • M src/JBrowse/Component.js
  • M src/JBrowse/GenomeView.js
  • M src/JBrowse/JBrowse.profile.js
  • M src/JBrowse/Model/ArrayRepr.js
  • M src/JBrowse/Store/LRUCache.js
  • M src/JBrowse/Store/NCList.js
  • M src/JBrowse/Store/RemoteBinaryFile.js
  • M src/JBrowse/Store/SeqFeature.js
  • M src/JBrowse/Store/SeqFeature/BigWig/RequestWorker.js
  • M src/JBrowse/Store/SeqFeature/NCList.js
  • M src/JBrowse/Store/SeqFeature/REST.js
  • M src/JBrowse/Store/SeqFeature/SNPCoverage.js
  • M src/JBrowse/Store/TrackMetaData.js
  • M src/JBrowse/Util.js
  • M src/JBrowse/Util/GFF3.js
  • M src/JBrowse/View/DetailsMixin.js
  • M src/JBrowse/View/Dialog/SetHighlight.js
  • M src/JBrowse/View/Export/GFF3.js
  • M src/JBrowse/View/FeatureGlyph.js
  • M src/JBrowse/View/FeatureGlyph/Alignment.js
  • M src/JBrowse/View/FeatureGlyph/Box.js
  • M src/JBrowse/View/FeatureGlyph/_FeatureLabelMixin.js
  • M src/JBrowse/View/GranularRectLayout.js
  • M src/JBrowse/View/Ruler.js
  • M src/JBrowse/View/Track/BlockBased.js
  • M src/JBrowse/View/Track/BlockBased/Block.js
  • M src/JBrowse/View/Track/CanvasFeatures.js
  • M src/JBrowse/View/Track/ExportMixin.js
  • M src/JBrowse/View/Track/FeatureDetailMixin.js
  • M src/JBrowse/View/Track/HTMLFeatures.js
  • M src/JBrowse/View/Track/SNPCoverage.js
  • M src/JBrowse/View/Track/Sequence.js
  • M src/JBrowse/View/Track/Wiggle/Density.js
  • M src/JBrowse/View/Track/Wiggle/XYPlot.js
  • M src/JBrowse/View/Track/WiggleBase.js
  • M src/JBrowse/View/Track/YScaleMixin.js
  • M src/JBrowse/has.js
  • M src/JBrowse/main.js
  • M src/perl5/Bio/JBrowse/Cmd/FlatFileToJson.pm
  • M src/perl5/Bio/JBrowse/Cmd/FormatSequences.pm
  • M src/perl5/Bio/JBrowse/FeatureStream.pm
  • M src/perl5/FastaDatabase.pm
  • M src/perl5/FeatureTrack.pm
  • M src/perl5/GenomeDB.pm
  • M tests/data/hg19_formatted/trackList.json
  • M tests/data/volvox_formatted_1_2_1/trackInfo.js
  • M tests/data/volvox_formatted_refseqs/trackList.json
  • M tests/js_tests/index.html
  • M tests/js_tests/spec/GFF3.spec.js
  • M tests/js_tests/spec/RESTStore.spec.js
  • M tests/perl_tests/biodb-to-json.pl.t
  • M tests/perl_tests/flatfile-to-json.pl.t
  • M tests/perl_tests/prepare-refseqs.pl.t
  • M tests/perl_tests/wig-to-json.pl.t
  • M tests/selenium_tests/volvox_biodb_test.py
New-ticket Create new ticket

Create your profile

Help contribute to this project by taking a few moments to create your personal profile. Create your profile ยป

AJAX Genome Browser