[med-svn] [jbrowse] 07/09: Update upstream source from tag 'upstream/1.12.3'
Andreas Tille
tille at debian.org
Fri Dec 8 21:45:36 UTC 2017
This is an automated email from the git hooks/post-receive script.
tille pushed a commit to branch master
in repository jbrowse.
commit 1e99e9d8a56278af3dd087d1798d928eff243fff
Merge: 2d877c2 cf05f37
Author: Andreas Tille <tille at debian.org>
Date: Fri Dec 8 22:38:07 2017 +0100
Update upstream source from tag 'upstream/1.12.3'
Update to upstream version '1.12.3'
with Debian dir f9df76758e42baf4085b9b7f303b682f64e07fd7
.bowerrc | 3 +
.gitignore | 47 +
.htaccess | 10 +
.jshintrc | 27 +
.travis.yml | 29 +
INSTALL | 2 +
LICENSE | 667 +
Makefile.PL | 131 +
README.md | 94 +
bin/add-bam-track.pl | 196 +
bin/add-bw-track.pl | 284 +
bin/add-json.pl | 45 +
bin/add-track-json.pl | 94 +
bin/bam-to-json.pl | 214 +
bin/biodb-to-json.pl | 68 +
bin/cpanm | 1051 +
bin/draw-basepair-track.pl | 201 +
bin/flatfile-to-json.pl | 211 +
bin/generate-names.pl | 90 +
bin/jbdoc | 21 +
bin/json2conf.pl | 134 +
bin/maker2jbrowse | 281 +
bin/new-plugin.pl | 143 +
bin/prepare-refseqs.pl | 132 +
bin/remove-track.pl | 59 +
bin/ucsc-to-json.pl | 628 +
bin/wig-to-json.pl | 195 +
bower.json | 19 +
browser/main.js | 44 +
browser/menu.js | 83 +
build/Makefile | 177 +
build/format_release_notes.pl | 10 +
compat_121.html | 50 +
css/combination_tracks.css | 38 +
css/export_dialog.css | 10 +
css/faceted_track_selector.css | 271 +
css/file_dialog.css | 154 +
css/genome.css | 24 +
css/hierarchical_track_selector.css | 57 +
css/icons.css | 42 +
css/main.css | 1093 +
css/maker.css | 197 +
css/menubar.css | 160 +
css/protein.css | 299 +
css/sequence.css | 128 +
css/toolbar.css | 42 +
css/track_styles.css | 516 +
css/tristate.css | 130 +
docs/config-desc.html | 62 +
docs/config.html | 11 +
docs/docs.css | 106 +
docs/events.md | 34 +
docs/examples/config/Dmel.json | 250 +
docs/examples/config/yeast_genbank.json | 74 +
docs/examples/embedded_mode.html | 12 +
docs/examples/format_tomato.sh | 111 +
docs/featureglyphs.html | 166 +
docs/index.html | 18 +
docs/screencasts/demo_script.txt | 162 +
docs/tutorial/conf_files/volvox.json | 229 +
docs/tutorial/data_files/bookmarks.conf | 2 +
docs/tutorial/data_files/functions.conf | 21 +
docs/tutorial/data_files/volvox-paired.bam | Bin 0 -> 844 bytes
docs/tutorial/data_files/volvox-paired.bam.bai | Bin 0 -> 96 bytes
docs/tutorial/data_files/volvox-paired.bam.conf | 9 +
docs/tutorial/data_files/volvox-remark.bed | 16 +
docs/tutorial/data_files/volvox-sorted.bam | Bin 0 -> 395273 bytes
docs/tutorial/data_files/volvox-sorted.bam.bai | Bin 0 -> 248 bytes
docs/tutorial/data_files/volvox-sorted.bam.conf | 12 +
.../data_files/volvox-sorted.bam.coverage.bw | Bin 0 -> 213750 bytes
.../data_files/volvox-sorted.bam.coverage.conf | 7 +
docs/tutorial/data_files/volvox.2bit | Bin 0 -> 14103 bytes
docs/tutorial/data_files/volvox.fa | 897 +
docs/tutorial/data_files/volvox.fa.fai | 2 +
docs/tutorial/data_files/volvox.filtered.vcf.gz | Bin 0 -> 2409 bytes
.../tutorial/data_files/volvox.filtered.vcf.gz.tbi | Bin 0 -> 126 bytes
docs/tutorial/data_files/volvox.gff3 | 268 +
docs/tutorial/data_files/volvox.gff3.conf | 7 +
docs/tutorial/data_files/volvox.gtf | 40 +
docs/tutorial/data_files/volvox.gtf.conf | 8 +
docs/tutorial/data_files/volvox.raw.bcf | Bin 0 -> 2518 bytes
docs/tutorial/data_files/volvox.sort.bed.gz.1 | Bin 0 -> 642 bytes
docs/tutorial/data_files/volvox.sort.bed.gz.conf | 8 +
docs/tutorial/data_files/volvox.sort.bed.gz.tbi | Bin 0 -> 112 bytes
docs/tutorial/data_files/volvox.sort.gff3.gz.1 | Bin 0 -> 3114 bytes
docs/tutorial/data_files/volvox.sort.gff3.gz.conf | 8 +
docs/tutorial/data_files/volvox.sort.gff3.gz.tbi | Bin 0 -> 135 bytes
docs/tutorial/data_files/volvox.test.vcf.gz | Bin 0 -> 45591 bytes
docs/tutorial/data_files/volvox.test.vcf.gz.tbi | Bin 0 -> 99 bytes
docs/tutorial/data_files/volvox.vcf.conf | 29 +
docs/tutorial/data_files/volvox_chrom.sizes | 3 +
docs/tutorial/data_files/volvox_fromconfig.conf | 7 +
docs/tutorial/data_files/volvox_microarray.bw | Bin 0 -> 100245 bytes
docs/tutorial/data_files/volvox_microarray.bw.conf | 18 +
docs/tutorial/data_files/volvox_microarray.wig | 502 +
docs/tutorial/data_files/volvox_sine.bw | Bin 0 -> 27463 bytes
docs/tutorial/data_files/volvox_sine.bw.conf | 16 +
docs/tutorial/data_files/volvox_sine.wig | 503 +
docs/tutorial/index.html | 335 +
img/Empty.png | Bin 0 -> 142 bytes
img/JBrowseLogo.png | Bin 0 -> 91479 bytes
img/JBrowseLogo_small.png | Bin 0 -> 11977 bytes
img/cds.png | Bin 0 -> 251 bytes
img/cds.svg | 155 +
img/chevron.png | Bin 0 -> 316 bytes
img/chevron.svg | 113 +
img/chevron2.png | Bin 0 -> 322 bytes
img/chevron2.svg | 195 +
img/chevron3.png | Bin 0 -> 593 bytes
img/chevron3.svg | 442 +
img/commonIconsDisabled.png | Bin 0 -> 2799 bytes
img/commonIconsEnabled.png | Bin 0 -> 4344 bytes
img/dark_20x2.png | Bin 0 -> 183 bytes
img/dark_20x3.png | Bin 0 -> 168 bytes
img/dblhelix-red.png | Bin 0 -> 744 bytes
img/dblhelix-red.svg | 262 +
img/glyph-diamond.png | Bin 0 -> 366 bytes
img/glyphs_black.png | Bin 0 -> 4464 bytes
img/glyphs_white.png | Bin 0 -> 9990 bytes
img/helix-green.png | Bin 0 -> 643 bytes
img/helix-green.svg | 268 +
img/helix2-green.png | Bin 0 -> 844 bytes
img/helix2-green.svg | 356 +
img/helix3-green.png | Bin 0 -> 655 bytes
img/helix3-green.svg | 137 +
img/herringbone-blue.png | Bin 0 -> 623 bytes
img/herringbone-pal.png | Bin 0 -> 220 bytes
img/herringbone.png | Bin 0 -> 410 bytes
img/herringbone.svg | 320 +
img/herringbone10.png | Bin 0 -> 491 bytes
img/herringbone10.svg | 167 +
img/herringbone11.png | Bin 0 -> 453 bytes
img/herringbone11.svg | 202 +
img/herringbone12.png | Bin 0 -> 417 bytes
img/herringbone12.svg | 206 +
img/herringbone13.svg | 205 +
img/herringbone14.svg | 197 +
img/herringbone15.png | Bin 0 -> 618 bytes
img/herringbone15.svg | 527 +
img/herringbone16.png | Bin 0 -> 6087 bytes
img/herringbone16.svg | 545 +
img/herringbone16m.svg | 545 +
img/herringbone2.svg | 319 +
img/herringbone3.png | Bin 0 -> 488 bytes
img/herringbone3.svg | 330 +
img/herringbone4.png | Bin 0 -> 461 bytes
img/herringbone4.svg | 282 +
img/herringbone5.png | Bin 0 -> 564 bytes
img/herringbone5.svg | 282 +
img/herringbone6.png | Bin 0 -> 420 bytes
img/herringbone6.svg | 282 +
img/herringbone7.png | Bin 0 -> 708 bytes
img/herringbone7.svg | 281 +
img/herringbone8.png | Bin 0 -> 584 bytes
img/herringbone8.svg | 315 +
img/herringbone9.png | Bin 0 -> 415 bytes
img/herringbone9.svg | 316 +
img/left_arrow.png | Bin 0 -> 361 bytes
img/loops.png | Bin 0 -> 786 bytes
img/loops.svg | 347 +
img/minus-arrowhead.png | Bin 0 -> 228 bytes
img/minus-cds0.png | Bin 0 -> 408 bytes
img/minus-cds0.svg | 173 +
img/minus-cds1.png | Bin 0 -> 394 bytes
img/minus-cds1.svg | 173 +
img/minus-cds2.png | Bin 0 -> 406 bytes
img/minus-cds2.svg | 178 +
img/minus-chevron.png | Bin 0 -> 307 bytes
img/minus-chevron2.png | Bin 0 -> 419 bytes
img/minus-chevron3.png | Bin 0 -> 867 bytes
img/minus-herringbone10.png | Bin 0 -> 460 bytes
img/minus-herringbone11.png | Bin 0 -> 452 bytes
img/minus-herringbone12.png | Bin 0 -> 420 bytes
img/minus-herringbone13.png | Bin 0 -> 578 bytes
img/minus-herringbone14.png | Bin 0 -> 776 bytes
img/minus-herringbone16.png | Bin 0 -> 2289 bytes
img/minus-pacman.png | Bin 0 -> 500 bytes
img/path11828.png | Bin 0 -> 480 bytes
img/path2160.png | Bin 0 -> 166 bytes
img/path3415.png | Bin 0 -> 445 bytes
img/plus-arrowhead.png | Bin 0 -> 212 bytes
img/plus-cds0.png | Bin 0 -> 375 bytes
img/plus-cds0.svg | 208 +
img/plus-cds1.png | Bin 0 -> 353 bytes
img/plus-cds1.svg | 208 +
img/plus-cds2.png | Bin 0 -> 349 bytes
img/plus-cds2.svg | 208 +
img/plus-chevron.png | Bin 0 -> 316 bytes
img/plus-chevron2.png | Bin 0 -> 322 bytes
img/plus-chevron3.png | Bin 0 -> 593 bytes
img/plus-herringbone10.png | Bin 0 -> 491 bytes
img/plus-herringbone11.png | Bin 0 -> 453 bytes
img/plus-herringbone12.png | Bin 0 -> 417 bytes
img/plus-herringbone13.png | Bin 0 -> 417 bytes
img/plus-herringbone14.png | Bin 0 -> 544 bytes
img/plus-herringbone16.png | Bin 0 -> 2253 bytes
img/plus-pacman.png | Bin 0 -> 520 bytes
img/plus-pacman.svg | 540 +
img/pluswalk-green.svg | 355 +
img/pluswalk-orange.svg | 355 +
img/red_crosshatch_bg.png | Bin 0 -> 225 bytes
img/red_x.png | Bin 0 -> 3302 bytes
img/right_arrow.png | Bin 0 -> 490 bytes
img/right_arrow.svg | 115 +
img/scroll_zoom_sprites.png | Bin 0 -> 6945 bytes
img/spinner.gif | Bin 0 -> 1542 bytes
img/spriteArrows.png | Bin 0 -> 295 bytes
img/tracklist_bg.png | Bin 0 -> 150 bytes
img/transcript.png | Bin 0 -> 210 bytes
img/transcript.svg | 75 +
img/tristate.png | Bin 0 -> 2707 bytes
img/utr.png | Bin 0 -> 224 bytes
img/utr.svg | 107 +
index.html | 116 +
jbrowse.conf | 93 +
jbrowse_conf.json | 9 +
package.json | 14 +
plugins/CategoryUrl/README.md | 29 +
plugins/CategoryUrl/css/main.css | 0
plugins/CategoryUrl/js/CategoryUrl.profile.js | 62 +
plugins/CategoryUrl/js/main.js | 117 +
plugins/DebugEvents/css/main.css | 7 +
plugins/DebugEvents/js/DebugEvents.profile.js | 62 +
plugins/DebugEvents/js/main.js | 139 +
plugins/HideTrackLabels/css/main.css | 23 +
plugins/HideTrackLabels/img/eye_bl.png | Bin 0 -> 1253 bytes
plugins/HideTrackLabels/img/eye_open.png | Bin 0 -> 1289 bytes
.../HideTrackLabels/js/HideTrackLabels.profile.js | 62 +
plugins/HideTrackLabels/js/main.js | 140 +
plugins/NeatCanvasFeatures/README.md | 56 +
plugins/NeatCanvasFeatures/css/main.css | 0
.../js/NeatCanvasFeatures.profile.js | 62 +
plugins/NeatCanvasFeatures/js/main.js | 352 +
plugins/NeatHTMLFeatures/README.md | 66 +
plugins/NeatHTMLFeatures/css/main.css | 45 +
.../js/NeatHTMLFeatures.profile.js | 62 +
plugins/NeatHTMLFeatures/js/main.js | 314 +
plugins/RegexSequenceSearch/css/main.css | 31 +
.../js/RegexSequenceSearch.profile.js | 64 +
.../js/Store/SeqFeature/RegexSearch.js | 151 +
.../RegexSequenceSearch/js/View/SearchSeqDialog.js | 172 +
plugins/RegexSequenceSearch/js/main.js | 71 +
plugins/SVGLollipopTrack/js/SVGFeatures.js | 1309 +
.../js/SVGLollipopTrack.profile.js | 62 +
release-notes.txt | 2722 ++
sample_data/json/.exists | 0
sample_data/json/modencode/.htaccess | 10 +
sample_data/json/modencode/modencode2csv.pl | 22 +
sample_data/json/modencode/modencodeMetaData.csv | 1868 ++
sample_data/json/modencode/modencodeMetaData.json | 30027 +++++++++++++++++++
sample_data/json/modencode/names/root.json | 1 +
sample_data/json/modencode/seq/ctgA/0.txt | 1 +
sample_data/json/modencode/seq/ctgA/1.txt | 1 +
sample_data/json/modencode/seq/ctgA/2.txt | 1 +
sample_data/json/modencode/seq/ctgB/0.txt | 1 +
sample_data/json/modencode/seq/refSeqs.json | 18 +
sample_data/json/modencode/trackList.json | 18752 ++++++++++++
sample_data/json/modencode/trackMeta.csv | 3 +
sample_data/json/modencode/tracks.conf | 2 +
sample_data/raw/Dmel.json | 1 +
sample_data/raw/ideograms/human_cytobands.gff | 863 +
sample_data/raw/ideograms/mouse_cytobands.gff | 438 +
sample_data/raw/ideograms/rat_cytobands.gff | 267 +
sample_data/raw/pop_demo/pop_demo.gff3 | 8 +
sample_data/raw/tomato.json | 27 +
sample_data/raw/volvox | 1 +
sample_data/raw/volvox.json | 1 +
sample_data/raw/yeast.json | 40 +
sample_data/raw/yeast_chr1+2/yeast_chr1+2.gff3 | 1363 +
sample_data/raw/yeast_gbk/NC_001133.gbk | 6254 ++++
sample_data/raw/yeast_gbk/NC_001133.gbk.gff | 4282 +++
sample_data/raw/yeast_genbank.json | 74 +
sample_data/raw/yeast_scaffolds/chr1.fa.gz | Bin 0 -> 71467 bytes
sample_data/raw/yeast_scaffolds/chr2.fa.gzip | Bin 0 -> 254005 bytes
sample_data/raw/yeast_scaffolds/chromosomes.gff3 | 5 +
sample_data/test_snippet.html | 1 +
setup.sh | 215 +
src/JBrowse/BehaviorManager.js | 118 +
src/JBrowse/Browser.js | 3331 ++
src/JBrowse/CodonTable.js | 118 +
src/JBrowse/Component.js | 138 +
src/JBrowse/ConfigAdaptor/AdaptorUtil.js | 37 +
src/JBrowse/ConfigAdaptor/JB_json_v0.js | 59 +
src/JBrowse/ConfigAdaptor/JB_json_v1.js | 259 +
src/JBrowse/ConfigAdaptor/conf.js | 115 +
src/JBrowse/ConfigManager.js | 320 +
src/JBrowse/Digest/Crc32.js | 65 +
src/JBrowse/Errors.js | 53 +
src/JBrowse/FeatureFiltererMixin.js | 95 +
src/JBrowse/Finisher.js | 22 +
src/JBrowse/GenomeView.js | 2498 ++
src/JBrowse/JBrowse.profile.js | 155 +
src/JBrowse/Model/ArrayRepr.js | 316 +
src/JBrowse/Model/BGZip/BGZBlob.js | 138 +
src/JBrowse/Model/BGZip/VirtualOffset.js | 52 +
src/JBrowse/Model/BinaryTreeNode.js | 153 +
src/JBrowse/Model/CoverageFeature.js | 19 +
src/JBrowse/Model/DataView.js | 47 +
src/JBrowse/Model/FileBlob.js | 102 +
src/JBrowse/Model/Location.js | 63 +
src/JBrowse/Model/NestedFrequencyTable.js | 120 +
src/JBrowse/Model/Range.js | 148 +
src/JBrowse/Model/SimpleFeature.js | 97 +
src/JBrowse/Model/TabixIndex.js | 287 +
src/JBrowse/Model/XHRBlob.js | 82 +
src/JBrowse/Model/modEncodeTrackMetadata.js | 115 +
src/JBrowse/Plugin.js | 20 +
src/JBrowse/Store.js | 50 +
src/JBrowse/Store/BigWig.js | 3 +
src/JBrowse/Store/DeferredFeaturesMixin.js | 42 +
src/JBrowse/Store/DeferredStatsMixin.js | 57 +
src/JBrowse/Store/Hash.js | 99 +
src/JBrowse/Store/LRUCache.js | 302 +
src/JBrowse/Store/LazyArray.js | 130 +
src/JBrowse/Store/LazyTrie.js | 273 +
src/JBrowse/Store/NCList.js | 262 +
src/JBrowse/Store/NCList_v0.js | 225 +
src/JBrowse/Store/Names/Hash.js | 176 +
src/JBrowse/Store/Names/LazyTrieDojoData.js | 208 +
src/JBrowse/Store/Names/REST.js | 68 +
src/JBrowse/Store/RemoteBinaryFile.js | 438 +
src/JBrowse/Store/SeqFeature.js | 191 +
src/JBrowse/Store/SeqFeature/BAM.js | 123 +
src/JBrowse/Store/SeqFeature/BAM/File.js | 503 +
src/JBrowse/Store/SeqFeature/BAM/LazyFeature.js | 478 +
src/JBrowse/Store/SeqFeature/BAM/Util.js | 133 +
src/JBrowse/Store/SeqFeature/BAMCombination.js | 60 +
src/JBrowse/Store/SeqFeature/BED.js | 191 +
src/JBrowse/Store/SeqFeature/BED/Parser.js | 137 +
src/JBrowse/Store/SeqFeature/BEDTabix.js | 191 +
src/JBrowse/Store/SeqFeature/BigWig.js | 352 +
.../Store/SeqFeature/BigWig/RequestWorker.js | 410 +
src/JBrowse/Store/SeqFeature/BigWig/Window.js | 79 +
src/JBrowse/Store/SeqFeature/Combination.js | 240 +
src/JBrowse/Store/SeqFeature/CombinationBase.js | 207 +
src/JBrowse/Store/SeqFeature/Coverage.js | 82 +
src/JBrowse/Store/SeqFeature/FromConfig.js | 77 +
src/JBrowse/Store/SeqFeature/GFF3.js | 223 +
src/JBrowse/Store/SeqFeature/GFF3/Parser.js | 216 +
src/JBrowse/Store/SeqFeature/GFF3Tabix.js | 223 +
src/JBrowse/Store/SeqFeature/GTF.js | 223 +
src/JBrowse/Store/SeqFeature/GTF/Parser.js | 244 +
.../Store/SeqFeature/GlobalStatsEstimationMixin.js | 80 +
src/JBrowse/Store/SeqFeature/IndexedFasta.js | 87 +
src/JBrowse/Store/SeqFeature/IndexedFasta/File.js | 119 +
src/JBrowse/Store/SeqFeature/Mask.js | 226 +
src/JBrowse/Store/SeqFeature/NCList.js | 282 +
src/JBrowse/Store/SeqFeature/NCList_v0.js | 167 +
.../Store/SeqFeature/QuantitativeCombination.js | 189 +
src/JBrowse/Store/SeqFeature/REST.js | 339 +
src/JBrowse/Store/SeqFeature/SNPCoverage.js | 199 +
src/JBrowse/Store/SeqFeature/SPARQL.js | 167 +
src/JBrowse/Store/SeqFeature/SequenceChunks.js | 129 +
src/JBrowse/Store/SeqFeature/TwoBit.js | 151 +
src/JBrowse/Store/SeqFeature/TwoBit/File.js | 502 +
src/JBrowse/Store/SeqFeature/UnindexedFasta.js | 81 +
.../Store/SeqFeature/UnindexedFasta/File.js | 128 +
src/JBrowse/Store/SeqFeature/VCFTabix.js | 155 +
.../Store/SeqFeature/VCFTabix/LazyFeature.js | 117 +
src/JBrowse/Store/SeqFeature/VCFTabix/Parser.js | 440 +
src/JBrowse/Store/SeqFeature/_MismatchesMixin.js | 205 +
src/JBrowse/Store/Sequence/IndexedFasta.js | 2 +
src/JBrowse/Store/Sequence/StaticChunked.js | 2 +
src/JBrowse/Store/Sequence/TwoBit.js | 2 +
src/JBrowse/Store/TabixIndexedFile.js | 224 +
src/JBrowse/Store/TiledImage/Fixed.js | 135 +
src/JBrowse/Store/TiledImage/Fixed_v0.js | 20 +
src/JBrowse/Store/TrackMetaData.js | 792 +
src/JBrowse/TouchScreenSupport.js | 271 +
src/JBrowse/Track.js | 31 +
src/JBrowse/Util.js | 607 +
src/JBrowse/Util/FastPromise.js | 32 +
src/JBrowse/Util/FeatureFilters.js | 27 +
src/JBrowse/Util/GFF3.js | 158 +
src/JBrowse/Util/GTF.js | 162 +
src/JBrowse/Util/RejectableFastPromise.js | 47 +
src/JBrowse/Util/TextIterator.js | 59 +
src/JBrowse/View/Animation.js | 65 +
src/JBrowse/View/Animation/Slider.js | 27 +
src/JBrowse/View/Animation/Zoomer.js | 47 +
src/JBrowse/View/ConfirmDialog.js | 57 +
src/JBrowse/View/DetailsMixin.js | 253 +
src/JBrowse/View/Dialog/OpenDirectory.js | 174 +
src/JBrowse/View/Dialog/Preferences.js | 125 +
src/JBrowse/View/Dialog/QuickHelp.js | 78 +
src/JBrowse/View/Dialog/SetHighlight.js | 83 +
src/JBrowse/View/Dialog/SetTrackHeight.js | 74 +
src/JBrowse/View/Dialog/WithActionBar.js | 38 +
src/JBrowse/View/Export.js | 51 +
src/JBrowse/View/Export/BED.js | 83 +
src/JBrowse/View/Export/FASTA.js | 42 +
src/JBrowse/View/Export/GFF3.js | 224 +
src/JBrowse/View/Export/SequinTable.js | 78 +
src/JBrowse/View/Export/Wiggle.js | 59 +
src/JBrowse/View/Export/bedGraph.js | 40 +
src/JBrowse/View/FASTA.js | 89 +
src/JBrowse/View/FastaFileDialog.js | 92 +
src/JBrowse/View/FeatureGlyph.js | 189 +
src/JBrowse/View/FeatureGlyph/Alignment.js | 197 +
src/JBrowse/View/FeatureGlyph/Box.js | 334 +
src/JBrowse/View/FeatureGlyph/Diamond.js | 79 +
src/JBrowse/View/FeatureGlyph/Gene.js | 152 +
.../View/FeatureGlyph/ProcessedTranscript.js | 252 +
src/JBrowse/View/FeatureGlyph/Segments.js | 124 +
.../View/FeatureGlyph/_FeatureLabelMixin.js | 122 +
src/JBrowse/View/FileDialog.js | 283 +
src/JBrowse/View/FileDialog/ResourceList.js | 174 +
src/JBrowse/View/FileDialog/TrackList.js | 201 +
src/JBrowse/View/FileDialog/TrackList/BAMDriver.js | 19 +
src/JBrowse/View/FileDialog/TrackList/BEDDriver.js | 54 +
.../View/FileDialog/TrackList/BEDTabixDriver.js | 21 +
.../View/FileDialog/TrackList/BigWigDriver.js | 55 +
.../View/FileDialog/TrackList/GFF3Driver.js | 54 +
.../View/FileDialog/TrackList/GFF3TabixDriver.js | 21 +
src/JBrowse/View/FileDialog/TrackList/GTFDriver.js | 53 +
.../FileDialog/TrackList/IndexedFASTADriver.js | 34 +
.../View/FileDialog/TrackList/TwoBitDriver.js | 55 +
.../View/FileDialog/TrackList/VCFTabixDriver.js | 19 +
.../FileDialog/TrackList/_IndexedFileDriver.js | 156 +
src/JBrowse/View/GranularRectLayout.js | 199 +
src/JBrowse/View/InfoDialog.js | 74 +
src/JBrowse/View/LocationChoiceDialog.js | 108 +
src/JBrowse/View/LocationList.js | 84 +
src/JBrowse/View/Resource/Welcome.html | 17 +
src/JBrowse/View/Resource/Welcome_old.html | 16 +
src/JBrowse/View/Ruler.js | 84 +
src/JBrowse/View/StandaloneDatasetList.js | 38 +
src/JBrowse/View/Track/Alignments.js | 181 +
src/JBrowse/View/Track/Alignments2.js | 144 +
src/JBrowse/View/Track/BlockBased.js | 1240 +
src/JBrowse/View/Track/BlockBased/Block.js | 40 +
src/JBrowse/View/Track/CanvasFeatures.js | 1046 +
src/JBrowse/View/Track/CanvasVariants.js | 40 +
src/JBrowse/View/Track/Combination.js | 1034 +
.../View/Track/Combination/CombinationDialog.js | 466 +
src/JBrowse/View/Track/FeatureCoverage.js | 26 +
src/JBrowse/View/Track/FixedImage.js | 147 +
src/JBrowse/View/Track/FixedImage/Wiggle.js | 52 +
src/JBrowse/View/Track/GridLines.js | 74 +
src/JBrowse/View/Track/HTMLFeatures.js | 1424 +
src/JBrowse/View/Track/HTMLVariants.js | 29 +
src/JBrowse/View/Track/LocationScale.js | 87 +
src/JBrowse/View/Track/SNPCoverage.js | 286 +
src/JBrowse/View/Track/Sequence.js | 364 +
src/JBrowse/View/Track/Wiggle.js | 6 +
src/JBrowse/View/Track/Wiggle/Density.js | 111 +
src/JBrowse/View/Track/Wiggle/XYPlot.js | 249 +
src/JBrowse/View/Track/Wiggle/_Scale.js | 182 +
src/JBrowse/View/Track/WiggleBase.js | 634 +
src/JBrowse/View/Track/_AlignmentsMixin.js | 370 +
src/JBrowse/View/Track/_ExportMixin.js | 332 +
.../View/Track/_FeatureContextMenusMixin.js | 51 +
src/JBrowse/View/Track/_FeatureDetailMixin.js | 236 +
.../View/Track/_NamedFeatureFiltersMixin.js | 91 +
src/JBrowse/View/Track/_TrackDetailsStatsMixin.js | 29 +
src/JBrowse/View/Track/_VariantDetailMixin.js | 325 +
src/JBrowse/View/Track/_YScaleMixin.js | 121 +
src/JBrowse/View/TrackConfigEditor.js | 163 +
src/JBrowse/View/TrackList/Faceted.js | 876 +
src/JBrowse/View/TrackList/Hierarchical.js | 328 +
src/JBrowse/View/TrackList/Null.js | 16 +
src/JBrowse/View/TrackList/Simple.js | 369 +
src/JBrowse/View/TrackList/_TextFilterMixin.js | 110 +
src/JBrowse/View/_FeatureDescriptionMixin.js | 70 +
src/JBrowse/has.js | 50 +
src/JBrowse/init.js | 18 +
src/JBrowse/main.js | 33 +
src/JBrowse/package.json | 23 +
src/perl5/ArrayRepr.pm | 223 +
src/perl5/Bio/FeatureIO/bed.pm | 373 +
src/perl5/Bio/JBrowse/Cmd.pm | 71 +
src/perl5/Bio/JBrowse/Cmd/BioDBToJson.pm | 164 +
src/perl5/Bio/JBrowse/Cmd/FlatFileToJson.pm | 251 +
src/perl5/Bio/JBrowse/Cmd/FormatSequences.pm | 605 +
src/perl5/Bio/JBrowse/Cmd/IndexNames.pm | 598 +
src/perl5/Bio/JBrowse/Cmd/NCFormatter.pm | 113 +
src/perl5/Bio/JBrowse/Cmd/RemoveTrack.pm | 96 +
src/perl5/Bio/JBrowse/ConfigurationFile.pm | 165 +
src/perl5/Bio/JBrowse/ExternalSorter.pm | 195 +
src/perl5/Bio/JBrowse/FeatureStream.pm | 167 +
src/perl5/Bio/JBrowse/FeatureStream/BioPerl.pm | 95 +
.../Bio/JBrowse/FeatureStream/GFF3_LowLevel.pm | 74 +
src/perl5/Bio/JBrowse/FeatureStream/Genbank.pm | 140 +
.../FeatureStream/Genbank/LocationParser.pm | 53 +
.../Bio/JBrowse/FeatureStream/Genbank/Parser.pm | 625 +
src/perl5/Bio/JBrowse/HashStore.pm | 474 +
src/perl5/Bio/JBrowse/JSON.pm | 47 +
src/perl5/FeatureTrack.pm | 277 +
src/perl5/GenomeDB.pm | 376 +
src/perl5/ImageTrack.pm | 94 +
src/perl5/ImageTrackRenderer.pm | 371 +
src/perl5/IntervalStore.pm | 228 +
src/perl5/JBlibs.pm | 34 +
src/perl5/JsonFileStorage.pm | 212 +
src/perl5/LazyNCList.pm | 314 +
src/perl5/LazyPatricia.pm | 207 +
src/perl5/NCLSorter.pm | 100 +
src/perl5/NCList.pm | 129 +
src/perl5/NameHandler.pm | 113 +
src/perl5/TiledImage.pm | 698 +
src/perl5/TiledImage/DBPrimStorage.pm | 298 +
src/perl5/TiledImage/MemoryPrimStorage.pm | 129 +
src/perl5/TiledImage/demo-tiledimage.pl | 74 +
src/perl5/TiledImage/gdtile.sql | 43 +
src/perl5/TrackImage.pm | 101 +
src/wig2png/Makefile.in | 20 +
src/wig2png/configure | 5887 ++++
src/wig2png/configure.in | 48 +
src/wig2png/src/MeanRenderer.cc | 119 +
src/wig2png/src/WiggleParser.cc | 218 +
src/wig2png/src/WiggleRangeParser.cc | 19 +
src/wig2png/src/WiggleTileRenderer.cc | 111 +
src/wig2png/src/config.h.in | 168 +
src/wig2png/src/functions.c | 100 +
src/wig2png/src/macros.h | 42 +
src/wig2png/src/opts_list.cc | 444 +
src/wig2png/src/opts_list.h | 174 +
src/wig2png/src/wig2png.cc | 162 +
tests/data/AU9/seq/refSeqs.json | 10 +
tests/data/AU9/single_au9_gene.gff3 | 10 +
tests/data/Btag.bam | Bin 0 -> 800 bytes
tests/data/Btag.bam.bai | Bin 0 -> 568 bytes
tests/data/NG_009246.1.fa | 186 +
tests/data/NT_077402.2.fa | 3684 +++
tests/data/NT_077402.2.gb | 360 +
tests/data/NT_077402.2.gene.gff3 | 5 +
tests/data/SL2.40ch10_sample.gff3 | 2198 ++
tests/data/T_ko.2bit | Bin 0 -> 522226 bytes
tests/data/au9_scaffold_subset.gff3 | 10000 ++++++
tests/data/au9_scaffold_subset_sync.gff3 | 10591 +++++++
tests/data/base_pairing/XdecoderStructure.gff | 432 +
tests/data/base_pairing/mahoney.fa | 109 +
.../mahoney_formatted/seq/mahoney/0.txt | 1 +
.../mahoney_formatted/seq/refSeqs.json | 10 +
.../base_pairing/mahoney_formatted/trackList.json | 12 +
tests/data/conf/includes.json | 10 +
tests/data/conf/no_includes.json | 9 +
tests/data/embedded_sequence.gff3 | 122 +
tests/data/empty.2bit | Bin 0 -> 16 bytes
tests/data/empty.bam | Bin 0 -> 589 bytes
tests/data/empty.bam.bai | Bin 0 -> 40 bytes
tests/data/empty.bigWig | Bin 0 -> 410693 bytes
...inal.merged.sorted.rgid.mkdup.realign.recal.bam | Bin 0 -> 308097 bytes
....merged.sorted.rgid.mkdup.realign.recal.bam.bai | Bin 0 -> 344 bytes
tests/data/foo.2bit | Bin 0 -> 209 bytes
tests/data/foo.bed | 20 +
tests/data/gff3_with_syncs.gff3 | 22 +
tests/data/gff3_with_syncs.result.json | 1 +
tests/data/gstmu_full_record.gb | 390 +
tests/data/gstmu_region_from_chromosome.gb | 274 +
tests/data/hash_store/test1_sums.json | 1 +
tests/data/hg19/database/knownGene.sql | 52 +
tests/data/hg19/database/knownGene.txt.gz | Bin 0 -> 255872 bytes
tests/data/hg19/database/trackDb.sql | 57 +
tests/data/hg19/database/trackDb.txt.gz | Bin 0 -> 589288 bytes
tests/data/hg19_chromosomes.fkfa | 1 +
tests/data/hg19_formatted/trackList.json | 26 +
tests/data/hg19_formatted/tracks.conf | 0
.../tracks/knownGene/chr1/hist-100000-0.jsonz | Bin 0 -> 977 bytes
.../tracks/knownGene/chr1/hist-1000000-0.jsonz | Bin 0 -> 213 bytes
.../tracks/knownGene/chr1/hist-200000-0.jsonz | Bin 0 -> 613 bytes
.../tracks/knownGene/chr1/hist-2000000-0.jsonz | Bin 0 -> 139 bytes
.../tracks/knownGene/chr1/hist-500000-0.jsonz | Bin 0 -> 333 bytes
.../tracks/knownGene/chr1/lf-1.jsonz | Bin 0 -> 28439 bytes
.../tracks/knownGene/chr1/lf-10.jsonz | Bin 0 -> 27081 bytes
.../tracks/knownGene/chr1/lf-11.jsonz | Bin 0 -> 8738 bytes
.../tracks/knownGene/chr1/lf-2.jsonz | Bin 0 -> 29561 bytes
.../tracks/knownGene/chr1/lf-3.jsonz | Bin 0 -> 26090 bytes
.../tracks/knownGene/chr1/lf-4.jsonz | Bin 0 -> 27495 bytes
.../tracks/knownGene/chr1/lf-5.jsonz | Bin 0 -> 26372 bytes
.../tracks/knownGene/chr1/lf-6.jsonz | Bin 0 -> 25335 bytes
.../tracks/knownGene/chr1/lf-7.jsonz | Bin 0 -> 28221 bytes
.../tracks/knownGene/chr1/lf-8.jsonz | Bin 0 -> 25769 bytes
.../tracks/knownGene/chr1/lf-9.jsonz | Bin 0 -> 28009 bytes
.../hg19_formatted/tracks/knownGene/chr1/names.txt | 5000 +++
.../tracks/knownGene/chr1/trackData.jsonz | Bin 0 -> 610 bytes
tests/data/lazyarray-0.json | 1 +
tests/data/lazyarray-1.json | 1 +
tests/data/lazyarray-2.json | 1 +
.../1F/contig-dpp-500-500/contig-dpp-500-500.gff | 668 +
.../contig-dpp-500-500.maker.proteins.fasta | 33 +
.../contig-dpp-500-500.maker.transcripts.fasta | 193 +
.../05/1F/contig-dpp-500-500/run.log | 83 +
.../dpp_contig_master_datastore_index.log | 2 +
tests/data/names_REST/trackList.json | 49 +
tests/data/quantitative.gff3 | 8 +
tests/data/redundant.gff3 | 2 +
tests/data/rest_store_test/features/ctgA | 17 +
tests/data/rest_store_test/stats/global | 3 +
tests/data/rest_store_test/stats/region/ctgC | 8 +
.../stats/regionFeatureDensities/ctgA | 7 +
..._deletion_2_0.snps.bwa_align.sorted.grouped.bam | Bin 0 -> 188125 bytes
...etion_2_0.snps.bwa_align.sorted.grouped.bam.bai | Bin 0 -> 152 bytes
tests/data/tomato_features.json | 1 +
...omato_features_nclist_with_chunksize_10000.json | 1 +
tests/data/volvox-largedel.bam | Bin 0 -> 729 bytes
tests/data/volvox-largedel.bam.bai | Bin 0 -> 112 bytes
tests/data/volvox-long-reads.fastq.sorted.bam | Bin 0 -> 36616 bytes
tests/data/volvox-long-reads.fastq.sorted.bam.bai | Bin 0 -> 128 bytes
tests/data/volvox-remark.bed.gz | Bin 0 -> 234 bytes
tests/data/volvox-remark.bed.gz.tbi | Bin 0 -> 115 bytes
tests/data/volvox-rnasim.bam | Bin 0 -> 141299 bytes
tests/data/volvox-rnasim.bam.bai | Bin 0 -> 152 bytes
tests/data/volvox.2bit | Bin 0 -> 14103 bytes
tests/data/volvox.sizes | 3 +
tests/data/volvox.sort.bed | 109 +
tests/data/volvox_formatted_1_2_1/names/root.json | 1 +
tests/data/volvox_formatted_1_2_1/refSeqs.js | 11 +
tests/data/volvox_formatted_1_2_1/seq/ctgA/0.txt | 1 +
tests/data/volvox_formatted_1_2_1/seq/ctgA/1.txt | 1 +
tests/data/volvox_formatted_1_2_1/seq/ctgA/2.txt | 1 +
.../tiles/volvox_microarray.wig/ctgA/1/0.png | Bin 0 -> 323 bytes
.../tiles/volvox_microarray.wig/ctgA/1/1.png | Bin 0 -> 331 bytes
.../tiles/volvox_microarray.wig/ctgA/1/10.png | Bin 0 -> 332 bytes
.../tiles/volvox_microarray.wig/ctgA/1/11.png | Bin 0 -> 355 bytes
.../tiles/volvox_microarray.wig/ctgA/1/12.png | Bin 0 -> 348 bytes
.../tiles/volvox_microarray.wig/ctgA/1/13.png | Bin 0 -> 334 bytes
.../tiles/volvox_microarray.wig/ctgA/1/14.png | Bin 0 -> 346 bytes
.../tiles/volvox_microarray.wig/ctgA/1/15.png | Bin 0 -> 330 bytes
.../tiles/volvox_microarray.wig/ctgA/1/16.png | Bin 0 -> 328 bytes
.../tiles/volvox_microarray.wig/ctgA/1/17.png | Bin 0 -> 338 bytes
.../tiles/volvox_microarray.wig/ctgA/1/18.png | Bin 0 -> 350 bytes
.../tiles/volvox_microarray.wig/ctgA/1/19.png | Bin 0 -> 349 bytes
.../tiles/volvox_microarray.wig/ctgA/1/2.png | Bin 0 -> 335 bytes
.../tiles/volvox_microarray.wig/ctgA/1/20.png | Bin 0 -> 336 bytes
.../tiles/volvox_microarray.wig/ctgA/1/21.png | Bin 0 -> 329 bytes
.../tiles/volvox_microarray.wig/ctgA/1/22.png | Bin 0 -> 327 bytes
.../tiles/volvox_microarray.wig/ctgA/1/23.png | Bin 0 -> 321 bytes
.../tiles/volvox_microarray.wig/ctgA/1/24.png | Bin 0 -> 333 bytes
.../tiles/volvox_microarray.wig/ctgA/1/3.png | Bin 0 -> 329 bytes
.../tiles/volvox_microarray.wig/ctgA/1/4.png | Bin 0 -> 335 bytes
.../tiles/volvox_microarray.wig/ctgA/1/5.png | Bin 0 -> 337 bytes
.../tiles/volvox_microarray.wig/ctgA/1/6.png | Bin 0 -> 332 bytes
.../tiles/volvox_microarray.wig/ctgA/1/7.png | Bin 0 -> 335 bytes
.../tiles/volvox_microarray.wig/ctgA/1/8.png | Bin 0 -> 344 bytes
.../tiles/volvox_microarray.wig/ctgA/1/9.png | Bin 0 -> 331 bytes
.../tiles/volvox_microarray.wig/ctgA/10/0.png | Bin 0 -> 742 bytes
.../tiles/volvox_microarray.wig/ctgA/10/1.png | Bin 0 -> 806 bytes
.../tiles/volvox_microarray.wig/ctgA/10/2.png | Bin 0 -> 555 bytes
.../tiles/volvox_microarray.wig/ctgA/100/0.png | Bin 0 -> 1022 bytes
.../tiles/volvox_microarray.wig/ctgA/1000/0.png | Bin 0 -> 343 bytes
.../tiles/volvox_microarray.wig/ctgA/10000/0.png | Bin 0 -> 251 bytes
.../tiles/volvox_microarray.wig/ctgA/100000/0.png | Bin 0 -> 221 bytes
.../tiles/volvox_microarray.wig/ctgA/2/0.png | Bin 0 -> 410 bytes
.../tiles/volvox_microarray.wig/ctgA/2/1.png | Bin 0 -> 434 bytes
.../tiles/volvox_microarray.wig/ctgA/2/10.png | Bin 0 -> 448 bytes
.../tiles/volvox_microarray.wig/ctgA/2/11.png | Bin 0 -> 409 bytes
.../tiles/volvox_microarray.wig/ctgA/2/12.png | Bin 0 -> 361 bytes
.../tiles/volvox_microarray.wig/ctgA/2/2.png | Bin 0 -> 422 bytes
.../tiles/volvox_microarray.wig/ctgA/2/3.png | Bin 0 -> 459 bytes
.../tiles/volvox_microarray.wig/ctgA/2/4.png | Bin 0 -> 444 bytes
.../tiles/volvox_microarray.wig/ctgA/2/5.png | Bin 0 -> 444 bytes
.../tiles/volvox_microarray.wig/ctgA/2/6.png | Bin 0 -> 461 bytes
.../tiles/volvox_microarray.wig/ctgA/2/7.png | Bin 0 -> 446 bytes
.../tiles/volvox_microarray.wig/ctgA/2/8.png | Bin 0 -> 447 bytes
.../tiles/volvox_microarray.wig/ctgA/2/9.png | Bin 0 -> 457 bytes
.../tiles/volvox_microarray.wig/ctgA/20/0.png | Bin 0 -> 1165 bytes
.../tiles/volvox_microarray.wig/ctgA/20/1.png | Bin 0 -> 539 bytes
.../tiles/volvox_microarray.wig/ctgA/200/0.png | Bin 0 -> 682 bytes
.../tiles/volvox_microarray.wig/ctgA/2000/0.png | Bin 0 -> 290 bytes
.../tiles/volvox_microarray.wig/ctgA/20000/0.png | Bin 0 -> 237 bytes
.../tiles/volvox_microarray.wig/ctgA/5/0.png | Bin 0 -> 501 bytes
.../tiles/volvox_microarray.wig/ctgA/5/1.png | Bin 0 -> 543 bytes
.../tiles/volvox_microarray.wig/ctgA/5/2.png | Bin 0 -> 567 bytes
.../tiles/volvox_microarray.wig/ctgA/5/3.png | Bin 0 -> 574 bytes
.../tiles/volvox_microarray.wig/ctgA/5/4.png | Bin 0 -> 538 bytes
.../tiles/volvox_microarray.wig/ctgA/50/0.png | Bin 0 -> 1115 bytes
.../tiles/volvox_microarray.wig/ctgA/500/0.png | Bin 0 -> 433 bytes
.../tiles/volvox_microarray.wig/ctgA/5000/0.png | Bin 0 -> 266 bytes
.../tiles/volvox_microarray.wig/ctgA/50000/0.png | Bin 0 -> 221 bytes
tests/data/volvox_formatted_1_2_1/trackInfo.js | 84 +
.../tracks/ctgA/Alignments/hist-10000-0.json | 1 +
.../tracks/ctgA/Alignments/names.json | 1 +
.../tracks/ctgA/Alignments/trackData.json | 1 +
.../tracks/ctgA/CDS/hist-50000-0.json | 1 +
.../tracks/ctgA/CDS/names.json | 1 +
.../tracks/ctgA/CDS/trackData.json | 1 +
.../tracks/ctgA/Clones/hist-200000-0.json | 1 +
.../tracks/ctgA/Clones/names.json | 1 +
.../tracks/ctgA/Clones/trackData.json | 1 +
.../tracks/ctgA/EST/hist-50000-0.json | 1 +
.../tracks/ctgA/EST/names.json | 1 +
.../tracks/ctgA/EST/trackData.json | 1 +
.../tracks/ctgA/ExampleFeatures/hist-10000-0.json | 1 +
.../tracks/ctgA/ExampleFeatures/names.json | 1 +
.../tracks/ctgA/ExampleFeatures/trackData.json | 1 +
.../tracks/ctgA/Genes/hist-200000-0.json | 1 +
.../tracks/ctgA/Genes/names.json | 1 +
.../tracks/ctgA/Genes/trackData.json | 1 +
.../tracks/ctgA/Motifs/hist-10000-0.json | 1 +
.../tracks/ctgA/Motifs/names.json | 1 +
.../tracks/ctgA/Motifs/trackData.json | 1 +
.../tracks/ctgA/NameTest/hist-50000-0.json | 1 +
.../tracks/ctgA/NameTest/names.json | 1 +
.../tracks/ctgA/NameTest/trackData.json | 1 +
.../tracks/ctgA/ReadingFrame/hist-50000-0.json | 1 +
.../tracks/ctgA/ReadingFrame/names.json | 1 +
.../tracks/ctgA/ReadingFrame/trackData.json | 1 +
.../tracks/ctgA/Transcript/hist-200000-0.json | 1 +
.../tracks/ctgA/Transcript/names.json | 1 +
.../tracks/ctgA/Transcript/trackData.json | 1 +
.../tracks/ctgA/bam_simulated/hist-100-0.json | 1 +
.../tracks/ctgA/bam_simulated/hist-1000-0.json | 1 +
.../tracks/ctgA/bam_simulated/hist-20-0.json | 1 +
.../tracks/ctgA/bam_simulated/hist-200-0.json | 1 +
.../tracks/ctgA/bam_simulated/hist-40-0.json | 1 +
.../tracks/ctgA/bam_simulated/hist-400-0.json | 1 +
.../tracks/ctgA/bam_simulated/lazyfeatures-0.json | 1 +
.../tracks/ctgA/bam_simulated/lazyfeatures-1.json | 1 +
.../tracks/ctgA/bam_simulated/lazyfeatures-2.json | 1 +
.../tracks/ctgA/bam_simulated/lazyfeatures-3.json | 1 +
.../tracks/ctgA/bam_simulated/trackData.json | 1 +
.../tracks/ctgA/volvox_microarray.wig.json | 85 +
tests/data/volvox_formatted_names/.htaccess | 10 +
tests/data/volvox_formatted_names/names/007/e.json | 1 +
tests/data/volvox_formatted_names/names/00e/5.json | 1 +
tests/data/volvox_formatted_names/names/01f/3.json | 1 +
tests/data/volvox_formatted_names/names/02e/9.json | 1 +
tests/data/volvox_formatted_names/names/033/e.json | 1 +
tests/data/volvox_formatted_names/names/03c/5.json | 1 +
tests/data/volvox_formatted_names/names/046/c.json | 1 +
tests/data/volvox_formatted_names/names/05d/f.json | 1 +
tests/data/volvox_formatted_names/names/062/1.json | 1 +
tests/data/volvox_formatted_names/names/06c/a.json | 1 +
tests/data/volvox_formatted_names/names/06e/7.json | 1 +
tests/data/volvox_formatted_names/names/072/7.json | 1 +
tests/data/volvox_formatted_names/names/072/f.json | 1 +
tests/data/volvox_formatted_names/names/07a/b.json | 1 +
tests/data/volvox_formatted_names/names/07f/6.json | 1 +
tests/data/volvox_formatted_names/names/082/4.json | 1 +
tests/data/volvox_formatted_names/names/084/2.json | 1 +
tests/data/volvox_formatted_names/names/096/d.json | 1 +
tests/data/volvox_formatted_names/names/09f/3.json | 1 +
tests/data/volvox_formatted_names/names/0cb/a.json | 1 +
tests/data/volvox_formatted_names/names/0e5/d.json | 1 +
tests/data/volvox_formatted_names/names/0f0/c.json | 1 +
tests/data/volvox_formatted_names/names/0f6/e.json | 1 +
tests/data/volvox_formatted_names/names/0fd/2.json | 1 +
tests/data/volvox_formatted_names/names/103/2.json | 1 +
tests/data/volvox_formatted_names/names/106/d.json | 1 +
tests/data/volvox_formatted_names/names/11e/e.json | 1 +
tests/data/volvox_formatted_names/names/128/a.json | 1 +
tests/data/volvox_formatted_names/names/129/d.json | 1 +
tests/data/volvox_formatted_names/names/137/a.json | 1 +
tests/data/volvox_formatted_names/names/13b/b.json | 1 +
tests/data/volvox_formatted_names/names/146/9.json | 1 +
tests/data/volvox_formatted_names/names/149/2.json | 1 +
tests/data/volvox_formatted_names/names/14f/c.json | 1 +
tests/data/volvox_formatted_names/names/150/3.json | 1 +
tests/data/volvox_formatted_names/names/15b/0.json | 1 +
tests/data/volvox_formatted_names/names/164/7.json | 1 +
tests/data/volvox_formatted_names/names/18d/b.json | 1 +
tests/data/volvox_formatted_names/names/190/c.json | 1 +
tests/data/volvox_formatted_names/names/192/f.json | 1 +
tests/data/volvox_formatted_names/names/19e/8.json | 1 +
tests/data/volvox_formatted_names/names/1a3/4.json | 1 +
tests/data/volvox_formatted_names/names/1ae/d.json | 1 +
tests/data/volvox_formatted_names/names/1af/d.json | 1 +
tests/data/volvox_formatted_names/names/1b7/6.json | 1 +
tests/data/volvox_formatted_names/names/1be/0.json | 1 +
tests/data/volvox_formatted_names/names/1c0/8.json | 1 +
tests/data/volvox_formatted_names/names/1c7/e.json | 1 +
tests/data/volvox_formatted_names/names/1cc/a.json | 1 +
tests/data/volvox_formatted_names/names/1e9/9.json | 1 +
tests/data/volvox_formatted_names/names/1ed/8.json | 1 +
tests/data/volvox_formatted_names/names/1ee/f.json | 1 +
tests/data/volvox_formatted_names/names/220/b.json | 1 +
tests/data/volvox_formatted_names/names/225/e.json | 1 +
tests/data/volvox_formatted_names/names/241/a.json | 1 +
tests/data/volvox_formatted_names/names/246/a.json | 1 +
tests/data/volvox_formatted_names/names/24f/f.json | 1 +
tests/data/volvox_formatted_names/names/25b/5.json | 1 +
tests/data/volvox_formatted_names/names/262/f.json | 1 +
tests/data/volvox_formatted_names/names/265/5.json | 1 +
tests/data/volvox_formatted_names/names/26a/5.json | 1 +
tests/data/volvox_formatted_names/names/26f/b.json | 1 +
tests/data/volvox_formatted_names/names/285/c.json | 1 +
tests/data/volvox_formatted_names/names/290/d.json | 1 +
tests/data/volvox_formatted_names/names/29e/2.json | 1 +
tests/data/volvox_formatted_names/names/2a6/b.json | 1 +
tests/data/volvox_formatted_names/names/2af/d.json | 1 +
tests/data/volvox_formatted_names/names/2be/0.json | 1 +
tests/data/volvox_formatted_names/names/2d2/5.json | 1 +
tests/data/volvox_formatted_names/names/2d5/9.json | 1 +
tests/data/volvox_formatted_names/names/2de/2.json | 1 +
tests/data/volvox_formatted_names/names/304/0.json | 1 +
tests/data/volvox_formatted_names/names/305/6.json | 1 +
tests/data/volvox_formatted_names/names/354/6.json | 1 +
tests/data/volvox_formatted_names/names/35e/6.json | 1 +
tests/data/volvox_formatted_names/names/36d/e.json | 1 +
tests/data/volvox_formatted_names/names/372/b.json | 1 +
tests/data/volvox_formatted_names/names/376/0.json | 1 +
tests/data/volvox_formatted_names/names/37b/9.json | 1 +
tests/data/volvox_formatted_names/names/384/d.json | 1 +
tests/data/volvox_formatted_names/names/38b/0.json | 1 +
tests/data/volvox_formatted_names/names/38b/2.json | 1 +
tests/data/volvox_formatted_names/names/38d/4.json | 1 +
tests/data/volvox_formatted_names/names/392/5.json | 1 +
tests/data/volvox_formatted_names/names/396/5.json | 1 +
tests/data/volvox_formatted_names/names/39f/b.json | 1 +
tests/data/volvox_formatted_names/names/3bd/4.json | 1 +
tests/data/volvox_formatted_names/names/3e5/6.json | 1 +
tests/data/volvox_formatted_names/names/3e6/5.json | 1 +
tests/data/volvox_formatted_names/names/3f4/6.json | 1 +
tests/data/volvox_formatted_names/names/3f9/a.json | 1 +
tests/data/volvox_formatted_names/names/42f/0.json | 1 +
tests/data/volvox_formatted_names/names/430/7.json | 1 +
tests/data/volvox_formatted_names/names/432/7.json | 1 +
tests/data/volvox_formatted_names/names/449/1.json | 1 +
tests/data/volvox_formatted_names/names/454/6.json | 1 +
tests/data/volvox_formatted_names/names/457/c.json | 1 +
tests/data/volvox_formatted_names/names/463/7.json | 1 +
tests/data/volvox_formatted_names/names/47e/0.json | 1 +
tests/data/volvox_formatted_names/names/480/6.json | 1 +
tests/data/volvox_formatted_names/names/49a/8.json | 1 +
tests/data/volvox_formatted_names/names/49a/b.json | 1 +
tests/data/volvox_formatted_names/names/4d1/b.json | 1 +
tests/data/volvox_formatted_names/names/4f1/7.json | 1 +
tests/data/volvox_formatted_names/names/4f2/3.json | 1 +
tests/data/volvox_formatted_names/names/4f5/9.json | 1 +
tests/data/volvox_formatted_names/names/4fb/4.json | 1 +
tests/data/volvox_formatted_names/names/504/2.json | 1 +
tests/data/volvox_formatted_names/names/508/8.json | 1 +
tests/data/volvox_formatted_names/names/510/6.json | 1 +
tests/data/volvox_formatted_names/names/515/1.json | 1 +
tests/data/volvox_formatted_names/names/517/9.json | 1 +
tests/data/volvox_formatted_names/names/519/5.json | 1 +
tests/data/volvox_formatted_names/names/51a/6.json | 1 +
tests/data/volvox_formatted_names/names/52f/8.json | 1 +
tests/data/volvox_formatted_names/names/532/6.json | 1 +
tests/data/volvox_formatted_names/names/532/b.json | 1 +
tests/data/volvox_formatted_names/names/54a/f.json | 1 +
tests/data/volvox_formatted_names/names/54c/4.json | 1 +
tests/data/volvox_formatted_names/names/561/c.json | 1 +
tests/data/volvox_formatted_names/names/564/c.json | 1 +
tests/data/volvox_formatted_names/names/575/d.json | 1 +
tests/data/volvox_formatted_names/names/577/0.json | 1 +
tests/data/volvox_formatted_names/names/584/9.json | 1 +
tests/data/volvox_formatted_names/names/599/e.json | 1 +
tests/data/volvox_formatted_names/names/59f/8.json | 1 +
tests/data/volvox_formatted_names/names/59f/a.json | 1 +
tests/data/volvox_formatted_names/names/5b3/3.json | 1 +
tests/data/volvox_formatted_names/names/5b6/c.json | 1 +
tests/data/volvox_formatted_names/names/5c7/e.json | 1 +
tests/data/volvox_formatted_names/names/5dc/2.json | 1 +
tests/data/volvox_formatted_names/names/5de/7.json | 1 +
tests/data/volvox_formatted_names/names/5e1/2.json | 1 +
tests/data/volvox_formatted_names/names/5fd/0.json | 1 +
tests/data/volvox_formatted_names/names/5fe/e.json | 1 +
tests/data/volvox_formatted_names/names/601/6.json | 1 +
tests/data/volvox_formatted_names/names/634/0.json | 1 +
tests/data/volvox_formatted_names/names/637/a.json | 1 +
tests/data/volvox_formatted_names/names/63a/b.json | 1 +
tests/data/volvox_formatted_names/names/640/2.json | 1 +
tests/data/volvox_formatted_names/names/643/9.json | 1 +
tests/data/volvox_formatted_names/names/64b/0.json | 1 +
tests/data/volvox_formatted_names/names/64f/3.json | 1 +
tests/data/volvox_formatted_names/names/65e/e.json | 1 +
tests/data/volvox_formatted_names/names/660/8.json | 1 +
tests/data/volvox_formatted_names/names/668/a.json | 1 +
tests/data/volvox_formatted_names/names/66d/a.json | 1 +
tests/data/volvox_formatted_names/names/675/e.json | 1 +
tests/data/volvox_formatted_names/names/67e/6.json | 1 +
tests/data/volvox_formatted_names/names/686/c.json | 1 +
tests/data/volvox_formatted_names/names/690/8.json | 1 +
tests/data/volvox_formatted_names/names/696/e.json | 1 +
tests/data/volvox_formatted_names/names/6b3/b.json | 1 +
tests/data/volvox_formatted_names/names/6b5/2.json | 1 +
tests/data/volvox_formatted_names/names/6bf/3.json | 1 +
tests/data/volvox_formatted_names/names/6d2/6.json | 1 +
tests/data/volvox_formatted_names/names/6dc/5.json | 1 +
tests/data/volvox_formatted_names/names/6eb/9.json | 1 +
tests/data/volvox_formatted_names/names/6ee/c.json | 1 +
tests/data/volvox_formatted_names/names/70c/f.json | 1 +
tests/data/volvox_formatted_names/names/710/9.json | 1 +
tests/data/volvox_formatted_names/names/715/6.json | 1 +
tests/data/volvox_formatted_names/names/717/8.json | 1 +
tests/data/volvox_formatted_names/names/726/6.json | 1 +
tests/data/volvox_formatted_names/names/731/2.json | 1 +
tests/data/volvox_formatted_names/names/73a/f.json | 1 +
tests/data/volvox_formatted_names/names/73b/1.json | 1 +
tests/data/volvox_formatted_names/names/740/7.json | 1 +
tests/data/volvox_formatted_names/names/743/d.json | 1 +
tests/data/volvox_formatted_names/names/748/0.json | 1 +
tests/data/volvox_formatted_names/names/74e/f.json | 1 +
tests/data/volvox_formatted_names/names/75d/0.json | 1 +
tests/data/volvox_formatted_names/names/780/5.json | 1 +
tests/data/volvox_formatted_names/names/78c/4.json | 1 +
tests/data/volvox_formatted_names/names/79a/8.json | 1 +
tests/data/volvox_formatted_names/names/79c/3.json | 1 +
tests/data/volvox_formatted_names/names/79f/7.json | 1 +
tests/data/volvox_formatted_names/names/7a4/8.json | 1 +
tests/data/volvox_formatted_names/names/7a5/a.json | 1 +
tests/data/volvox_formatted_names/names/7b1/9.json | 1 +
tests/data/volvox_formatted_names/names/7b3/b.json | 1 +
tests/data/volvox_formatted_names/names/7b4/b.json | 1 +
tests/data/volvox_formatted_names/names/7b6/6.json | 1 +
tests/data/volvox_formatted_names/names/7bf/e.json | 1 +
tests/data/volvox_formatted_names/names/7c4/f.json | 1 +
tests/data/volvox_formatted_names/names/7ce/0.json | 1 +
tests/data/volvox_formatted_names/names/7d8/d.json | 1 +
tests/data/volvox_formatted_names/names/7e0/a.json | 1 +
tests/data/volvox_formatted_names/names/7e3/3.json | 1 +
tests/data/volvox_formatted_names/names/7ea/1.json | 1 +
tests/data/volvox_formatted_names/names/7fa/d.json | 1 +
tests/data/volvox_formatted_names/names/7fc/3.json | 1 +
tests/data/volvox_formatted_names/names/808/8.json | 1 +
tests/data/volvox_formatted_names/names/815/f.json | 1 +
tests/data/volvox_formatted_names/names/83a/a.json | 1 +
tests/data/volvox_formatted_names/names/847/f.json | 1 +
tests/data/volvox_formatted_names/names/853/5.json | 1 +
tests/data/volvox_formatted_names/names/85f/4.json | 1 +
tests/data/volvox_formatted_names/names/86e/9.json | 1 +
tests/data/volvox_formatted_names/names/877/8.json | 1 +
tests/data/volvox_formatted_names/names/87b/4.json | 1 +
tests/data/volvox_formatted_names/names/88f/3.json | 1 +
tests/data/volvox_formatted_names/names/895/9.json | 1 +
tests/data/volvox_formatted_names/names/8a5/2.json | 1 +
tests/data/volvox_formatted_names/names/8b2/2.json | 1 +
tests/data/volvox_formatted_names/names/8b4/f.json | 1 +
tests/data/volvox_formatted_names/names/8bb/3.json | 1 +
tests/data/volvox_formatted_names/names/8ca/f.json | 1 +
tests/data/volvox_formatted_names/names/8cb/6.json | 1 +
tests/data/volvox_formatted_names/names/8d0/f.json | 1 +
tests/data/volvox_formatted_names/names/8d2/2.json | 1 +
tests/data/volvox_formatted_names/names/8df/c.json | 1 +
tests/data/volvox_formatted_names/names/8e1/6.json | 1 +
tests/data/volvox_formatted_names/names/8f1/0.json | 1 +
tests/data/volvox_formatted_names/names/903/d.json | 1 +
tests/data/volvox_formatted_names/names/909/3.json | 1 +
tests/data/volvox_formatted_names/names/90b/6.json | 1 +
tests/data/volvox_formatted_names/names/91b/7.json | 1 +
tests/data/volvox_formatted_names/names/925/5.json | 1 +
tests/data/volvox_formatted_names/names/932/4.json | 1 +
tests/data/volvox_formatted_names/names/937/b.json | 1 +
tests/data/volvox_formatted_names/names/945/b.json | 1 +
tests/data/volvox_formatted_names/names/949/1.json | 1 +
tests/data/volvox_formatted_names/names/952/e.json | 1 +
tests/data/volvox_formatted_names/names/958/c.json | 1 +
tests/data/volvox_formatted_names/names/96b/3.json | 1 +
tests/data/volvox_formatted_names/names/989/b.json | 1 +
tests/data/volvox_formatted_names/names/994/c.json | 1 +
tests/data/volvox_formatted_names/names/9c5/0.json | 1 +
tests/data/volvox_formatted_names/names/9c5/c.json | 1 +
tests/data/volvox_formatted_names/names/9cb/f.json | 1 +
tests/data/volvox_formatted_names/names/9d8/7.json | 1 +
tests/data/volvox_formatted_names/names/9dd/b.json | 1 +
tests/data/volvox_formatted_names/names/9df/1.json | 1 +
tests/data/volvox_formatted_names/names/9e1/e.json | 1 +
tests/data/volvox_formatted_names/names/9e3/4.json | 1 +
tests/data/volvox_formatted_names/names/9eb/1.json | 1 +
tests/data/volvox_formatted_names/names/9f9/b.json | 1 +
tests/data/volvox_formatted_names/names/9fb/b.json | 1 +
tests/data/volvox_formatted_names/names/9fb/e.json | 1 +
tests/data/volvox_formatted_names/names/a04/4.json | 1 +
tests/data/volvox_formatted_names/names/a09/8.json | 1 +
tests/data/volvox_formatted_names/names/a12/d.json | 1 +
tests/data/volvox_formatted_names/names/a16/a.json | 1 +
tests/data/volvox_formatted_names/names/a19/3.json | 1 +
tests/data/volvox_formatted_names/names/a1e/3.json | 1 +
tests/data/volvox_formatted_names/names/a31/9.json | 1 +
tests/data/volvox_formatted_names/names/a32/7.json | 1 +
tests/data/volvox_formatted_names/names/a3c/0.json | 1 +
tests/data/volvox_formatted_names/names/a3f/3.json | 1 +
tests/data/volvox_formatted_names/names/a4b/4.json | 1 +
tests/data/volvox_formatted_names/names/a63/4.json | 1 +
tests/data/volvox_formatted_names/names/a71/a.json | 1 +
tests/data/volvox_formatted_names/names/ab5/f.json | 1 +
tests/data/volvox_formatted_names/names/abe/7.json | 1 +
tests/data/volvox_formatted_names/names/acc/6.json | 1 +
tests/data/volvox_formatted_names/names/ad1/1.json | 1 +
tests/data/volvox_formatted_names/names/ad1/d.json | 1 +
tests/data/volvox_formatted_names/names/ad5/5.json | 1 +
tests/data/volvox_formatted_names/names/ad6/d.json | 1 +
tests/data/volvox_formatted_names/names/ad7/7.json | 1 +
tests/data/volvox_formatted_names/names/aec/4.json | 1 +
tests/data/volvox_formatted_names/names/b01/e.json | 1 +
tests/data/volvox_formatted_names/names/b12/2.json | 1 +
tests/data/volvox_formatted_names/names/b16/e.json | 1 +
tests/data/volvox_formatted_names/names/b39/5.json | 1 +
tests/data/volvox_formatted_names/names/b67/f.json | 1 +
tests/data/volvox_formatted_names/names/b7a/8.json | 1 +
tests/data/volvox_formatted_names/names/ba4/d.json | 1 +
tests/data/volvox_formatted_names/names/ba6/9.json | 1 +
tests/data/volvox_formatted_names/names/baf/2.json | 1 +
tests/data/volvox_formatted_names/names/bba/c.json | 1 +
tests/data/volvox_formatted_names/names/bce/2.json | 1 +
tests/data/volvox_formatted_names/names/bd6/d.json | 1 +
tests/data/volvox_formatted_names/names/bda/a.json | 1 +
tests/data/volvox_formatted_names/names/bdd/1.json | 1 +
tests/data/volvox_formatted_names/names/bdd/a.json | 1 +
tests/data/volvox_formatted_names/names/be4/3.json | 1 +
tests/data/volvox_formatted_names/names/be9/e.json | 1 +
tests/data/volvox_formatted_names/names/bf0/1.json | 1 +
tests/data/volvox_formatted_names/names/c00/f.json | 1 +
tests/data/volvox_formatted_names/names/c06/8.json | 1 +
tests/data/volvox_formatted_names/names/c12/9.json | 1 +
tests/data/volvox_formatted_names/names/c17/1.json | 1 +
tests/data/volvox_formatted_names/names/c1e/5.json | 1 +
tests/data/volvox_formatted_names/names/c38/1.json | 1 +
tests/data/volvox_formatted_names/names/c3b/f.json | 1 +
tests/data/volvox_formatted_names/names/c43/6.json | 1 +
tests/data/volvox_formatted_names/names/c46/b.json | 1 +
tests/data/volvox_formatted_names/names/c4e/6.json | 1 +
tests/data/volvox_formatted_names/names/c4f/c.json | 1 +
tests/data/volvox_formatted_names/names/c64/f.json | 1 +
tests/data/volvox_formatted_names/names/c71/1.json | 1 +
tests/data/volvox_formatted_names/names/c96/8.json | 1 +
tests/data/volvox_formatted_names/names/ca3/8.json | 1 +
tests/data/volvox_formatted_names/names/ca9/3.json | 1 +
tests/data/volvox_formatted_names/names/caa/c.json | 1 +
tests/data/volvox_formatted_names/names/cc5/b.json | 1 +
tests/data/volvox_formatted_names/names/cca/7.json | 1 +
tests/data/volvox_formatted_names/names/ccb/9.json | 1 +
tests/data/volvox_formatted_names/names/cd0/c.json | 1 +
tests/data/volvox_formatted_names/names/cdc/f.json | 1 +
tests/data/volvox_formatted_names/names/cde/a.json | 1 +
tests/data/volvox_formatted_names/names/ce6/7.json | 1 +
tests/data/volvox_formatted_names/names/cf0/b.json | 1 +
tests/data/volvox_formatted_names/names/cf6/6.json | 1 +
tests/data/volvox_formatted_names/names/d03/a.json | 1 +
tests/data/volvox_formatted_names/names/d05/0.json | 1 +
tests/data/volvox_formatted_names/names/d06/2.json | 1 +
tests/data/volvox_formatted_names/names/d07/b.json | 1 +
tests/data/volvox_formatted_names/names/d08/4.json | 1 +
tests/data/volvox_formatted_names/names/d0e/5.json | 1 +
tests/data/volvox_formatted_names/names/d13/2.json | 1 +
tests/data/volvox_formatted_names/names/d25/4.json | 1 +
tests/data/volvox_formatted_names/names/d39/4.json | 1 +
tests/data/volvox_formatted_names/names/d68/4.json | 1 +
tests/data/volvox_formatted_names/names/d6f/f.json | 1 +
tests/data/volvox_formatted_names/names/d70/a.json | 1 +
tests/data/volvox_formatted_names/names/d75/3.json | 1 +
tests/data/volvox_formatted_names/names/d83/9.json | 1 +
tests/data/volvox_formatted_names/names/d89/4.json | 1 +
tests/data/volvox_formatted_names/names/da2/f.json | 1 +
tests/data/volvox_formatted_names/names/da8/0.json | 1 +
tests/data/volvox_formatted_names/names/daf/d.json | 1 +
tests/data/volvox_formatted_names/names/db9/4.json | 1 +
tests/data/volvox_formatted_names/names/dbc/d.json | 1 +
tests/data/volvox_formatted_names/names/dcc/d.json | 1 +
tests/data/volvox_formatted_names/names/dd1/a.json | 1 +
tests/data/volvox_formatted_names/names/ddc/3.json | 1 +
tests/data/volvox_formatted_names/names/de8/3.json | 1 +
tests/data/volvox_formatted_names/names/dee/4.json | 1 +
tests/data/volvox_formatted_names/names/df6/f.json | 1 +
tests/data/volvox_formatted_names/names/e04/f.json | 1 +
tests/data/volvox_formatted_names/names/e07/3.json | 1 +
tests/data/volvox_formatted_names/names/e0e/d.json | 1 +
tests/data/volvox_formatted_names/names/e14/e.json | 1 +
tests/data/volvox_formatted_names/names/e1a/4.json | 1 +
tests/data/volvox_formatted_names/names/e1b/2.json | 1 +
tests/data/volvox_formatted_names/names/e24/2.json | 1 +
tests/data/volvox_formatted_names/names/e25/3.json | 1 +
tests/data/volvox_formatted_names/names/e3f/f.json | 1 +
tests/data/volvox_formatted_names/names/e46/2.json | 1 +
tests/data/volvox_formatted_names/names/e4d/8.json | 1 +
tests/data/volvox_formatted_names/names/e61/2.json | 1 +
tests/data/volvox_formatted_names/names/e72/b.json | 1 +
tests/data/volvox_formatted_names/names/e77/5.json | 1 +
tests/data/volvox_formatted_names/names/e7c/5.json | 1 +
tests/data/volvox_formatted_names/names/e8b/f.json | 1 +
tests/data/volvox_formatted_names/names/e8e/6.json | 1 +
tests/data/volvox_formatted_names/names/e9c/2.json | 1 +
tests/data/volvox_formatted_names/names/ea1/6.json | 1 +
tests/data/volvox_formatted_names/names/ea6/b.json | 1 +
tests/data/volvox_formatted_names/names/eb8/f.json | 1 +
tests/data/volvox_formatted_names/names/eba/d.json | 1 +
tests/data/volvox_formatted_names/names/ebd/3.json | 1 +
tests/data/volvox_formatted_names/names/ec1/0.json | 1 +
tests/data/volvox_formatted_names/names/ed5/5.json | 1 +
tests/data/volvox_formatted_names/names/ee1/5.json | 1 +
tests/data/volvox_formatted_names/names/ee7/2.json | 1 +
tests/data/volvox_formatted_names/names/eed/3.json | 1 +
tests/data/volvox_formatted_names/names/ef2/4.json | 1 +
tests/data/volvox_formatted_names/names/eff/9.json | 1 +
tests/data/volvox_formatted_names/names/f07/3.json | 1 +
tests/data/volvox_formatted_names/names/f14/2.json | 1 +
tests/data/volvox_formatted_names/names/f15/6.json | 1 +
tests/data/volvox_formatted_names/names/f16/f.json | 1 +
tests/data/volvox_formatted_names/names/f1b/f.json | 1 +
tests/data/volvox_formatted_names/names/f26/8.json | 1 +
tests/data/volvox_formatted_names/names/f30/7.json | 1 +
tests/data/volvox_formatted_names/names/f32/9.json | 1 +
tests/data/volvox_formatted_names/names/f46/a.json | 1 +
tests/data/volvox_formatted_names/names/f4a/2.json | 1 +
tests/data/volvox_formatted_names/names/f4d/1.json | 1 +
tests/data/volvox_formatted_names/names/f57/7.json | 1 +
tests/data/volvox_formatted_names/names/f5b/d.json | 1 +
tests/data/volvox_formatted_names/names/f61/3.json | 1 +
tests/data/volvox_formatted_names/names/f6d/5.json | 1 +
tests/data/volvox_formatted_names/names/f73/7.json | 1 +
tests/data/volvox_formatted_names/names/f78/7.json | 1 +
tests/data/volvox_formatted_names/names/f85/3.json | 1 +
tests/data/volvox_formatted_names/names/f85/6.json | 1 +
tests/data/volvox_formatted_names/names/fa3/b.json | 1 +
tests/data/volvox_formatted_names/names/fa9/a.json | 1 +
tests/data/volvox_formatted_names/names/faa/9.json | 1 +
tests/data/volvox_formatted_names/names/fae/4.json | 1 +
tests/data/volvox_formatted_names/names/fb0/b.json | 1 +
tests/data/volvox_formatted_names/names/fb2/e.json | 1 +
tests/data/volvox_formatted_names/names/fb5/d.json | 1 +
tests/data/volvox_formatted_names/names/fb6/8.json | 1 +
tests/data/volvox_formatted_names/names/fc9/5.json | 1 +
tests/data/volvox_formatted_names/names/fc9/9.json | 1 +
tests/data/volvox_formatted_names/names/fcc/d.json | 1 +
tests/data/volvox_formatted_names/names/fcd/7.json | 1 +
tests/data/volvox_formatted_names/names/fce/a.json | 1 +
tests/data/volvox_formatted_names/names/fd7/c.json | 1 +
tests/data/volvox_formatted_names/names/fe3/7.json | 1 +
tests/data/volvox_formatted_names/names/ff9/d.json | 1 +
tests/data/volvox_formatted_names/names/ffc/2.json | 1 +
tests/data/volvox_formatted_names/names/meta.json | 1 +
tests/data/volvox_formatted_names/seq/refSeqs.json | 1 +
tests/data/volvox_formatted_names/trackList.json | 348 +
tests/data/volvox_formatted_names/tracks.conf | 15 +
.../tracks/Alignments/ctgA/names.txt | 149 +
.../tracks/CDS/ctgA/names.txt | 6 +
.../tracks/Clones/ctgA/names.txt | 1 +
.../tracks/EST/ctgA/names.txt | 6 +
.../tracks/ExampleFeatures/ctgA/names.txt | 16 +
.../tracks/ExampleFeatures/ctgB/names.txt | 3 +
.../tracks/Genes/ctgA/names.txt | 1 +
.../tracks/Motifs/ctgA/names.txt | 15 +
.../tracks/NameTest/ctgA/names.txt | 4 +
.../tracks/ReadingFrame/ctgA/names.txt | 5 +
.../tracks/Transcript/ctgA/names.txt | 1 +
.../tracks/snps/ctgA/names.txt | 1 +
tests/data/volvox_formatted_refseqs/seq/ctgA/0.txt | 1 +
tests/data/volvox_formatted_refseqs/seq/ctgA/1.txt | 1 +
tests/data/volvox_formatted_refseqs/seq/ctgA/2.txt | 1 +
tests/data/volvox_formatted_refseqs/seq/ctgB/0.txt | 1 +
.../data/volvox_formatted_refseqs/seq/refSeqs.json | 16 +
tests/data/volvox_formatted_refseqs/trackList.json | 15 +
tests/data/volvox_formatted_refseqs/tracks.conf | 0
tests/install_selenium.sh | 15 +
tests/js_tests/index.html | 76 +
tests/js_tests/lib/jasmine-1.2.0/MIT.LICENSE | 20 +
tests/js_tests/lib/jasmine-1.2.0/jasmine-html.js | 616 +
tests/js_tests/lib/jasmine-1.2.0/jasmine.css | 81 +
tests/js_tests/lib/jasmine-1.2.0/jasmine.js | 2529 ++
tests/js_tests/run-jasmine.js | 93 +
tests/js_tests/spec/AddFiles.spec.js | 32 +
tests/js_tests/spec/BAM.spec.js | 377 +
tests/js_tests/spec/BED.spec.js | 74 +
tests/js_tests/spec/BEDTabix.spec.js | 77 +
tests/js_tests/spec/BigWig.spec.js | 272 +
tests/js_tests/spec/ConfigManager.spec.js | 98 +
tests/js_tests/spec/ExportGFF3.spec.js | 14 +
tests/js_tests/spec/FeatureLayout.spec.js | 70 +
tests/js_tests/spec/GBrowseParseTestBasic.conf | 104 +
tests/js_tests/spec/GBrowseParser.spec.js | 83 +
tests/js_tests/spec/GFF3.spec.js | 187 +
.../js_tests/spec/GFF3ParserCheckDeeperFeatures.js | 23 +
tests/js_tests/spec/GFF3ParserSpec.js | 184 +
tests/js_tests/spec/GFF3Tabix.spec.js | 61 +
tests/js_tests/spec/GFF3toJbrowseJsonSpec.js | 108 +
tests/js_tests/spec/LazyArray.spec.js | 84 +
tests/js_tests/spec/NestedFrequencyTable.spec.js | 40 +
tests/js_tests/spec/RESTStore.spec.js | 174 +
tests/js_tests/spec/RegularizeRefSeqs.spec.js | 29 +
tests/js_tests/spec/RemoteBinaryFile.spec.js | 44 +
tests/js_tests/spec/SPARQLStore.spec.js | 51 +
tests/js_tests/spec/SequenceChunkStore.spec.js | 151 +
tests/js_tests/spec/TabixIndex.spec.js | 41 +
tests/js_tests/spec/TabixIndexedFile.spec.js | 56 +
tests/js_tests/spec/TwoBit.spec.js | 217 +
tests/js_tests/spec/Util.spec.js | 63 +
tests/js_tests/spec/VCF.spec.js | 42 +
tests/perl_tests/00.compile.t | 62 +
tests/perl_tests/add-json.pl.t | 37 +
tests/perl_tests/bam-to-json.pl.t | 45 +
tests/perl_tests/bin/fasta_to_fkfa.pl | 16 +
tests/perl_tests/bin/fkfa_to_fasta.pl | 13 +
tests/perl_tests/bin/make_fake_modencode.pl | 50 +
tests/perl_tests/biodb-to-json.pl.t | 261 +
tests/perl_tests/conf_format.t | 69 +
tests/perl_tests/draw-basepair-track.pl.t | 69 +
tests/perl_tests/fakefasta.t | 54 +
tests/perl_tests/featurestream.t | 49 +
tests/perl_tests/flatfile-to-json.pl.t | 443 +
tests/perl_tests/genbank.t | 163 +
tests/perl_tests/generate-names-incremental.pl.t | 73 +
tests/perl_tests/generate-names-issue.pl.t.fix | 72 +
tests/perl_tests/generate-names.pl.t | 89 +
tests/perl_tests/json.t | 40 +
tests/perl_tests/lazy_nclist.t | 152 +
tests/perl_tests/lib/FakeFasta.pm | 137 +
tests/perl_tests/lib/FileSlurping.pm | 111 +
tests/perl_tests/maker2jbrowse.t | 30 +
tests/perl_tests/nclist.t | 52 +
tests/perl_tests/prepare-refseqs.pl.t | 194 +
tests/perl_tests/remove-track.pl.t | 64 +
tests/perl_tests/ucsc-to-json.pl.t | 71 +
tests/perl_tests/wig-to-json.pl.t | 154 +
tests/selenium_tests/embedded_mode_test.py | 13 +
tests/selenium_tests/jasmine_test.py | 21 +
.../selenium_tests/jbrowse_selenium/JBrowseTest.py | 260 +
tests/selenium_tests/jbrowse_selenium/__init__.py | 1 +
.../jbrowse_selenium/track_selectors.py | 90 +
.../modencode_faceted_tracksel_test.py | 18 +
tests/selenium_tests/name_server.py | 70 +
tests/selenium_tests/volvox_REST_names_test.py | 79 +
tests/selenium_tests/volvox_biodb_121_test.py | 40 +
tests/selenium_tests/volvox_biodb_test.py | 259 +
tests/selenium_tests/welcome_page_test.py | 9 +
.../selenium_tests/yeast_biodb_compressed_test.py | 17 +
tests/selenium_tests/yeast_biodb_test.py | 105 +
tests/travis.conf | 28 +
1209 files changed, 194345 insertions(+)
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/jbrowse.git
More information about the debian-med-commit
mailing list