Changeset [056fe9c827cdbf2d4b776c3c1d4396bc6d3ae403] by Robert Buels

April 17th, 2018 @ 11:40 AM

Committed by Robert Buels

  • A ".eslintrc"
  • A browserconfig.xml
  • A css/combination_tracks.scss
  • A css/dialog.scss
  • A css/dojobase.scss
  • A css/export_dialog.scss
  • A css/faceted_track_selector.scss
  • A css/file_dialog.scss
  • A css/genome.scss
  • A css/hierarchical_track_selector.scss
  • A css/icons.scss
  • A css/main.scss
  • A css/maker.scss
  • A css/menubar.scss
  • A css/protein.scss
  • A css/sequence.scss
  • A css/toolbar.scss
  • A css/track_styles.scss
  • A css/tristate.scss
  • A docs/_config.yml
  • A docs/tutorial/data_files/gvcf.vcf.gz
  • A docs/tutorial/data_files/gvcf.vcf.gz.conf
  • A docs/tutorial/data_files/gvcf.vcf.gz.tbi
  • A docs/tutorial/data_files/volvox-long-reads.fastq.sorted.bam
  • A docs/tutorial/data_files/volvox-long-reads.fastq.sorted.bam.bai
  • A docs/tutorial/data_files/volvox-long-reads.fastq.sorted.bam.conf
  • A docs/tutorial/data_files/volvox.bb
  • A docs/tutorial/data_files/volvox.bb.conf
  • A docs/tutorial/data_files/volvox.sort.gff3.gz.htmlfeatures.conf
  • A docs/tutorial/data_files/volvox.subsubparts.gff3
  • A docs/tutorial/data_files/volvox.subsubparts.gff3.conf
  • A img/favicons/android-chrome-192x192.png
  • A img/favicons/android-chrome-512x512.png
  • A img/favicons/apple-touch-icon.png
  • A img/favicons/favicon-16x16.png
  • A img/favicons/favicon-32x32.png
  • A img/favicons/favicon.ico
  • A img/favicons/mstile-150x150.png
  • A img/favicons/safari-pinned-tab.svg
  • A plugins/NeatCanvasFeatures/img/example.png
  • A plugins/NeatHTMLFeatures/img/example.png
  • A site.webmanifest
  • A src/JBrowse/.eslintrc
  • A src/JBrowse/Store/SeqFeature/BigBed.js
  • A src/JBrowse/View/FeatureGlyph/UCSC/BED.js
  • A src/JBrowse/View/FileDialog/TrackList/BigBedDriver.js
  • A tests/data/hg18_bigbed.bb
  • A tests/data/hg19_bigbed.bb
  • A tests/data/human_bigbed/ENST00000610940.4.json
  • A tests/data/human_bigbed/bigBedExample.bb
  • A tests/data/human_bigbed/gencode.as
  • A tests/data/human_bigbed/gencode.bb
  • A tests/data/human_bigbed/genes.as
  • A tests/data/human_bigbed/genes.bb
  • A tests/data/human_bigbed/peaks.as
  • A tests/data/human_bigbed/peaks.bb
  • A tests/data/human_bigbed/seq/refSeqs.json
  • A tests/data/human_bigbed/tracks.conf
  • A tests/data/malformed.bb
  • A tests/data/raw.g.vcf.gz
  • A tests/data/raw.g.vcf.gz.tbi
  • A tests/data/raw.g.vcf.idx
  • A tests/data/tomato_sequence_regions.gff3
  • A tests/data/volvox.bb.expected.json
  • A tests/drupal.htm
  • A tests/drupal/TripalLogo.png
  • A tests/drupal/contextual.js
  • A tests/drupal/drupal.js
  • A tests/drupal/jquery.js
  • A tests/drupal/jquery.once.js
  • A tests/drupal/tripal.js
  • A tests/drupal/tripal_feature.js
  • A tests/js_tests/.eslintrc
  • A tests/js_tests/spec/BigBed.spec.js
  • A yarn.lock
  • R ".jshintrc"
  • R css/combination_tracks.css
  • R css/export_dialog.css
  • R css/faceted_track_selector.css
  • R css/file_dialog.css
  • R css/genome.css
  • R css/hierarchical_track_selector.css
  • R css/icons.css
  • R css/main.css
  • R css/maker.css
  • R css/menubar.css
  • R css/protein.css
  • R css/sequence.css
  • R css/toolbar.css
  • R css/track_styles.css
  • R css/tristate.css
  • R package-lock.json
  • R src/JBrowse/Store/SeqFeature/GFF3/Parser.js
  • R src/JBrowse/Util/GFF3.js
  • R tests/data/volvox-long-reads.fastq.sorted.bam
  • R tests/data/volvox-long-reads.fastq.sorted.bam.bai
  • M ".editorconfig"
  • M ".gitattributes"
  • M ".gitignore"
  • M ".travis.yml"
  • M Makefile.PL
  • M README.md
  • M bin/prepare-refseqs.pl
  • M build/Makefile
  • M build/dojo-loader-config.js
  • M build/glob-loader.js
  • M build/plugin-util.js
  • M build/release.sh
  • M docs/tutorial/conf_files/volvox.json
  • M docs/tutorial/data_files/volvox.bw.gff3.gz.conf
  • M index.html
  • M package.json
  • M plugins/CategoryUrl/README.md
  • M plugins/HideTrackLabels/js/main.js
  • M plugins/NeatCanvasFeatures/README.md
  • M plugins/NeatCanvasFeatures/js/main.js
  • M plugins/NeatHTMLFeatures/README.md
  • M plugins/NeatHTMLFeatures/js/main.js
  • M release-notes.txt
  • M setup.sh
  • M src/JBrowse/Browser.js
  • M src/JBrowse/ConfigManager.js
  • M src/JBrowse/GenomeView.js
  • M src/JBrowse/Model/Range.js
  • M src/JBrowse/Model/SimpleFeature.js
  • M src/JBrowse/Store/LRUCache.js
  • M src/JBrowse/Store/LazyTrie.js
  • M src/JBrowse/Store/SeqFeature.js
  • M src/JBrowse/Store/SeqFeature/BED.js
  • M src/JBrowse/Store/SeqFeature/BED/Parser.js
  • M src/JBrowse/Store/SeqFeature/BEDTabix.js
  • M src/JBrowse/Store/SeqFeature/BigWig.js
  • M src/JBrowse/Store/SeqFeature/BigWig/RequestWorker.js
  • M src/JBrowse/Store/SeqFeature/BigWig/Window.js
  • M src/JBrowse/Store/SeqFeature/GFF3.js
  • M src/JBrowse/Store/SeqFeature/GFF3Tabix.js
  • M src/JBrowse/Store/SeqFeature/GTF.js
  • M src/JBrowse/Store/SeqFeature/REST.js
  • M src/JBrowse/Store/SeqFeature/VCFTabix/Parser.js
  • M src/JBrowse/Store/TabixIndexedFile.js
  • M src/JBrowse/Util.js
  • M src/JBrowse/View/DetailsMixin.js
  • M src/JBrowse/View/Dialog/OpenDirectory.js
  • M src/JBrowse/View/Dialog/Preferences.js
  • M src/JBrowse/View/Dialog/QuickHelp.js
  • M src/JBrowse/View/Export/GFF3.js
  • M src/JBrowse/View/FeatureGlyph/Box.js
  • M src/JBrowse/View/FeatureGlyph/ProcessedTranscript.js
  • M src/JBrowse/View/FeatureGlyph/Segments.js
  • M src/JBrowse/View/FileDialog.js
  • M src/JBrowse/View/FileDialog/ResourceList.js
  • M src/JBrowse/View/Track/BlockBased.js
  • M src/JBrowse/View/Track/CanvasFeatures.js
  • M src/JBrowse/View/Track/HTMLFeatures.js
  • M src/JBrowse/View/Track/WiggleBase.js
  • M src/JBrowse/View/Track/_AlignmentsMixin.js
  • M src/JBrowse/View/Track/_ExportMixin.js
  • M src/JBrowse/View/Track/_FeatureDetailMixin.js
  • M src/JBrowse/View/Track/_VariantDetailMixin.js
  • M src/JBrowse/View/TrackList/Faceted.js
  • M src/JBrowse/View/TrackList/Hierarchical.js
  • M src/JBrowse/main.js
  • M src/JBrowse/package.json
  • M src/jdataview-1.1-patch.X.js
  • M src/lazyload.js
  • M src/perl5/Bio/JBrowse/Cmd/FlatFileToJson.pm
  • M src/perl5/Bio/JBrowse/Cmd/FormatSequences.pm
  • M src/perl5/Bio/JBrowse/Cmd/IndexNames.pm
  • M tests/data/volvox_formatted_names/names/01f/3.json
  • M tests/data/volvox_formatted_names/names/02e/9.json
  • M tests/data/volvox_formatted_names/names/03c/5.json
  • M tests/data/volvox_formatted_names/names/06c/a.json
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  • M tests/data/volvox_formatted_names/names/096/d.json
  • M tests/data/volvox_formatted_names/names/09f/3.json
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  • M tests/data/volvox_formatted_names/names/0e5/d.json
  • M tests/data/volvox_formatted_names/names/0f0/c.json
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  • M tests/data/volvox_formatted_names/names/129/d.json
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  • M tests/data/volvox_formatted_names/names/ffc/2.json
  • M tests/data/volvox_formatted_names/names/meta.json
  • M tests/data/volvox_formatted_names/trackList.json
  • M tests/js_tests/index.html
  • M tests/js_tests/main.js
  • M tests/js_tests/run-jasmine.js
  • M tests/js_tests/spec/ExportGFF3.spec.js
  • M tests/js_tests/spec/GFF3.spec.js
  • M tests/js_tests/spec/GFF3Tabix.spec.js
  • M tests/js_tests/spec/LazyArray.spec.js
  • M tests/js_tests/spec/QueryParamConfigMapper.spec.js
  • M tests/js_tests/spec/VCF.spec.js
  • M tests/perl_tests/generate-names-incremental.pl.t
  • M tests/perl_tests/generate-names.pl.t
  • M tests/perl_tests/prepare-refseqs.pl.t
  • M tests/selenium_tests/jbrowse_selenium/JBrowseTest.py
  • M tests/selenium_tests/volvox_biodb_test.py
  • M webpack.config.js
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