Changeset [9d587d4900a31af13410204169d97930f18d7c83] by Robert Buels
October 9th, 2013 @ 12:28 PM
Merge branch '2.x' into auth
Conflicts:
index.html src/JBrowse/Browser.js src/JBrowse/Model/FileBlob.js
src/JBrowse/View/Track/Alignments.js
src/JBrowse/View/Track/Sequence.js
https://github.com/GMOD/jbrowse/commit/9d587d4900a31af13410204169d9...
Committed by Robert Buels
- A build/format_release_notes.pl
- A plugins/RegexSequenceSearch/js/RegexSequenceSearch.profile.js
- A src/JBrowse/Util/TextIterator.js
- A src/JBrowse/View/Track/CanvasVariants.js
- A src/JBrowse/View/Track/_ExportMixin.js
- A src/JBrowse/View/Track/_FeatureDetailMixin.js
- A src/JBrowse/View/Track/_NamedFeatureFiltersMixin.js
- A src/JBrowse/View/Track/_VariantDetailMixin.js
- A src/JBrowse/View/Track/_YScaleMixin.js
- A src/JBrowse/init.js
- R build/init.js
- R src/JBrowse/View/Track/Alignments.js
- R src/JBrowse/View/Track/ExportMixin.js
- R src/JBrowse/View/Track/FeatureDetailMixin.js
- R src/JBrowse/View/Track/VariantDetailMixin.js
- R src/JBrowse/View/Track/YScaleMixin.js
- R src/perl5/Bio/JBrowse/PartialSorter.pm
- R src/perl5/FastaDatabase.pm
- R tests/perl_tests/FastaDatabase.t
- R tests/perl_tests/partialsorter.t
- M Makefile.PL
- M README.md
- M bin/flatfile-to-json.pl
- M bin/generate-names.pl
- M bin/prepare-refseqs.pl
- M build/Makefile
- M docs/tutorial/data_files/volvox.test.vcf.gz
- M docs/tutorial/data_files/volvox.test.vcf.gz.tbi
- M docs/tutorial/data_files/volvox.vcf.conf
- M index.html
- M release-notes.txt
- M src/JBrowse/Browser.js
- M src/JBrowse/FeatureFiltererMixin.js
- M src/JBrowse/Model/FileBlob.js
- M src/JBrowse/Store/SeqFeature/NCList.js
- M src/JBrowse/Store/SeqFeature/REST.js
- M src/JBrowse/Store/SeqFeature/VCFTabix.js
- M src/JBrowse/Store/SeqFeature/VCFTabix/LazyFeature.js
- M src/JBrowse/Store/SeqFeature/VCFTabix/Parser.js
- M src/JBrowse/Store/SeqFeature/_MismatchesMixin.js
- M src/JBrowse/Store/TabixIndexedFile.js
- M src/JBrowse/View/FeatureGlyph/Alignment.js
- M src/JBrowse/View/FeatureGlyph/ProcessedTranscript.js
- M src/JBrowse/View/FeatureGlyph/Segments.js
- M src/JBrowse/View/RegionBrowser.js
- M src/JBrowse/View/Track/Alignments2.js
- M src/JBrowse/View/Track/BlockBased.js
- M src/JBrowse/View/Track/CanvasFeatures.js
- M src/JBrowse/View/Track/Combination.js
- M src/JBrowse/View/Track/FixedImage/Wiggle.js
- M src/JBrowse/View/Track/HTMLFeatures.js
- M src/JBrowse/View/Track/HTMLVariants.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/Wiggle/_Scale.js
- M src/JBrowse/View/Track/WiggleBase.js
- M src/JBrowse/View/Track/_AlignmentsMixin.js
- M src/perl5/Bio/JBrowse/Cmd/FlatFileToJson.pm
- M src/perl5/Bio/JBrowse/Cmd/FormatSequences.pm
- M src/perl5/Bio/JBrowse/FeatureStream/GFF3_LowLevel.pm
- M src/perl5/Bio/JBrowse/HashStore.pm
- M tests/perl_tests/add-json.pl.t
- M tests/perl_tests/featurestream.t
- M tests/perl_tests/maker2jbrowse.t
- M themes/base/browser.css
- M themes/base/regionbrowser.css
- M themes/base/sequence.css
- M themes/base/track_styles.css
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