CVS changes by file
branch to review (2010-02-02 to 2010-02-10) v225
- src/hg/archaeStuff/data/Genome-info-euk
- 1.19 lines changed: 17, context: html, text, full: html, text
update soybean and maize to new versions, add Brachypodium
- src/hg/archaeStuff/data/Genome-info-mods
- 1.97 lines changed: 8, context: html, text, full: html, text
change Cenarchaeum to Thaumarchaeota; use NCBI info for Nitr_mari
- src/hg/archaeStuff/scripts/archaeBrowser/Constant.pm
- src/hg/archaeStuff/scripts/archaeBrowser/OrganismDb.pm
- 1.50 lines changed: 11, context: html, text, full: html, text
Fixed CytoBand band sizes calc for genomes w/plasmids
- src/hg/archaeStuff/scripts/make-genome-info
- 1.19 lines changed: 15, context: html, text, full: html, text
fix duplicate dbname problem introduced by similar substrain names
- src/hg/blastToPsl/blast0To8.c
- 1.3 lines changed: 287, context: html, text, full: html, text
removed dead programs not being compiled
- src/hg/blastToPsl/blastToPsl.c
- 1.24 lines changed: 304, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/blastXmlToPsl.c
- 1.1 lines changed: 203, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/makefile
- 1.29 lines changed: 9, context: html, text, full: html, text
try number tree to get link rules to behave
- 1.28 lines changed: 4, context: html, text, full: html, text
even more dependency issues
- 1.27 lines changed: 2, context: html, text, full: html, text
fixed dependency problem
- 1.26 lines changed: 5, context: html, text, full: html, text
attempt to get autobuild working again by forcing a relink
- 1.25 lines changed: 1, context: html, text, full: html, text
fixed make issue
- 1.24 lines changed: 4, context: html, text, full: html, text
moved pslUniq out of complelely unrelated directory
- 1.23 lines changed: 60, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/ncbiBlast.c
- 1.1 lines changed: 4640, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/ncbiBlast.h
- 1.1 lines changed: 1484, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/pslBuild.c
- 1.1 lines changed: 284, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/pslBuild.h
- 1.1 lines changed: 32, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/pslChain.c
- 1.8 lines changed: 1092, context: html, text, full: html, text
removed dead programs not being compiled
- src/hg/blastToPsl/pslUniq.c
- 1.5 lines changed: 56, context: html, text, full: html, text
moved pslUniq out of complelely unrelated directory
- src/hg/blastToPsl/tests/expected/identityBugTest.psl
- src/hg/blastToPsl/tests/expected/mrna1Test.bscores
- 1.1 lines changed: 13, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/mrna1Test.psl
- 1.1 lines changed: 12, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/prot1Test.bscores
- 1.1 lines changed: 39, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/prot1Test.psl
- 1.1 lines changed: 72, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/prot2Test.bscores
- src/hg/blastToPsl/tests/expected/prot2Test.psl
- src/hg/blastToPsl/tests/expected/protDnaTest.psl
- 1.5 lines changed: 52, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/protMrnaEval1Test.psl
- 1.4 lines changed: 27, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/protMrnaEval2Test.psl
- src/hg/blastToPsl/tests/expected/protMrnaTest.psl
- 1.5 lines changed: 59, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/expected/tblastnTest.psl
- src/hg/blastToPsl/tests/input/blastn+.blast
- 1.1 lines changed: 206, context: html, text, full: html, text
added (disabled) test case for blast+
- src/hg/blastToPsl/tests/input/mrna1.blastn.xml
- 1.1 lines changed: 335, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/input/prot1.tblastn.xml
- 1.1 lines changed: 1446, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/input/prot2.psiblast.xml
- 1.1 lines changed: 229, context: html, text, full: html, text
added blastXmlToPsl
- src/hg/blastToPsl/tests/makefile
- 1.24 lines changed: 1, context: html, text, full: html, text
fixed make issue
- 1.23 lines changed: 41, context: html, text, full: html, text
added blastXmlToPsl
- 1.22 lines changed: 13, context: html, text, full: html, text
added (disabled) test case for blast+
- src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl
- 1.26 lines changed: 4, context: html, text, full: html, text
Added file count at end of html page, by QA request.
- src/hg/encode/encodeValidate/config/cv.ra
- 1.211 lines changed: 4, context: html, text, full: html, text
And one more time
- 1.210 lines changed: 48, context: html, text, full: html, text
More protocol naming adjustments
- 1.209 lines changed: 101, context: html, text, full: html, text
Made protocols more specific to groups. This is the only identification of a cell line to a praticular group
- 1.208 lines changed: 1, context: html, text, full: html, text
Marking prostate cell line as provisional since we have no approved protocol
- 1.207 lines changed: 6, context: html, text, full: html, text
Three cell lines for Crawford's group are no longer provisional.
- 1.206 lines changed: 43, context: html, text, full: html, text
Changed the sex of the human cell lines from Male to Unknown when there was no obvious gender data available.
- src/hg/encode/hgEncodeVocab/hgEncodeVocab.c
- src/hg/gbToFaRa/gbToFaRa.c
- 1.25 lines changed: 14, context: html, text, full: html, text
added option to include version in output fasta
- src/hg/hgCustom/hgCustom.c
- 1.138 lines changed: 3, context: html, text, full: html, text
Suppress the '[db]' if db is contained in assembly label (dbDb.description). (Thx Ann!)
- 1.137 lines changed: 4, context: html, text, full: html, text
Increased some char[] sizes that caused safef errors with custom track with name longer than 128, and some others that looked like they might.
- src/hg/hgGateway/hgGateway.c
- 1.113 lines changed: 3, context: html, text, full: html, text
have default clade mammal if none found
- src/hg/hgSuggest/hgSuggest.c
- 1.2 lines changed: 36, context: html, text, full: html, text
support exact matches; fix indentation
- 1.1 lines changed: 68, context: html, text, full: html, text
support gene auto-complete
- src/hg/hgSuggest/makefile
- 1.1 lines changed: 14, context: html, text, full: html, text
support gene auto-complete
- src/hg/hgTables/gffOut.c
- 1.20 lines changed: 3, context: html, text, full: html, text
Removed stray newline from tx IDs generated for tracks that have no name column.
- 1.19 lines changed: 1, context: html, text, full: html, text
Fixed too-small char[] size, found by Ann w/ENCODE tracks w/giant names, RT 1621.
- src/hg/hgTracks/bigBedTrack.c
- 1.5 lines changed: 33, context: html, text, full: html, text
Hopefully fixing bigBed so that it works in dense mode on a clean cart _and_ it works with custom tracks. Have tested these two anyway.
- 1.4 lines changed: 12, context: html, text, full: html, text
Moving bigBedFileOpen to a better place.
- src/hg/hgTracks/config.c
- 1.90 lines changed: 7, context: html, text, full: html, text
If the result of 'hFreezeName' (dbDb.description) contains the database name, as I intend to make happen, don't also show the database name in parens.
- 1.89 lines changed: 19, context: html, text, full: html, text
Changes that I have been sitting on awhile. More info on unexpected errors. Fixes to dragReorder. Support for simpler navigation links.
- src/hg/hgTracks/hgTracks.c
- 1.1623 lines changed: 11, context: html, text, full: html, text
If the result of 'hFreezeName' (dbDb.description) contains the database name, as I intend to make happen, don't also show the database name in parens.
- 1.1622 lines changed: 72, context: html, text, full: html, text
Changes that I have been sitting on awhile. More info on unexpected errors. Fixes to dragReorder. Support for simpler navigation links.
- 1.1621 lines changed: 10, context: html, text, full: html, text
Increased some char[] sizes that caused safef errors with custom track with name longer than 128, and some others that looked like they might.
- src/hg/hgTracks/hgTracks.h
- 1.199 lines changed: 2, context: html, text, full: html, text
Changes that I have been sitting on awhile. More info on unexpected errors. Fixes to dragReorder. Support for simpler navigation links.
- src/hg/hgTracks/imageV2.c
- 1.22 lines changed: 45, context: html, text, full: html, text
Safegaurds against empty tracks which can legitimately happen when there is no centerLabel
- 1.21 lines changed: 200, context: html, text, full: html, text
Changes that I have been sitting on awhile. More info on unexpected errors. Fixes to dragReorder. Support for simpler navigation links.
- 1.20 lines changed: 4, context: html, text, full: html, text
Increased some char[] sizes that caused safef errors with custom track with name longer than 128, and some others that looked like they might.
- src/hg/hgTracks/imageV2.h
- 1.14 lines changed: 4, context: html, text, full: html, text
Safegaurds against empty tracks which can legitimately happen when there is no centerLabel
- 1.13 lines changed: 3, context: html, text, full: html, text
Changes that I have been sitting on awhile. More info on unexpected errors. Fixes to dragReorder. Support for simpler navigation links.
- src/hg/hgTracks/simpleTracks.c
- 1.126 lines changed: 1, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- 1.125 lines changed: 3, context: html, text, full: html, text
pgSnpHeight: if we're in dense mode, no need to double the track height.
- 1.124 lines changed: 2, context: html, text, full: html, text
pgSnpDrawAt: removed the ceiling of 50 items for drawing the cool stacked colored bars -- performance is just fine, and display snaps into squish/dense anyway when there are thousands of items.
- 1.123 lines changed: 3, context: html, text, full: html, text
Increased some char[] sizes that caused safef errors with custom track with name longer than 128, and some others that looked like they might.
- src/hg/inc/suggest.h
- 1.1 lines changed: 16, context: html, text, full: html, text
code to support suggesting genes given a prefix typed by the user
- src/hg/inc/trackDb.h
- 1.53 lines changed: 3, context: html, text, full: html, text
Adding trackDbUpdateOldTag function to convert older format trackDb tags to current format. Specifically converting superTrack, compositeTrack, and subTrack tags to use the new container and parent tags instead.
- src/hg/instinct/hgGeneset/drawingCode.c
- src/hg/instinct/hgGeneset/frontend/css/hgHeatmapStyle.css
- 1.6 lines changed: 10, context: html, text, full: html, text
Added clustering button and made buttons look clickable
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_dots-small_75_2636d1_2x2.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_fine-grain_25_aaaaaa_60x60.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_flat_0_aaaaaa_40x100.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_flat_75_ffffff_40x100.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_glass_55_fbf9ee_1x400.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_glass_65_ffffff_1x400.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_glass_75_d9e4f8_1x400.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_glass_75_dadada_1x400.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-bg_inset-soft_95_fef1ec_1x100.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_222222_256x240.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_2e83ff_256x240.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_3d3d3d_256x240.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_454545_256x240.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_cd0a0a_256x240.png
- src/hg/instinct/hgGeneset/frontend/css/images/ui-icons_ffffff_256x240.png
- src/hg/instinct/hgGeneset/frontend/genesetView.html
- 1.7 lines changed: 3, context: html, text, full: html, text
More fixes
- 1.6 lines changed: 4, context: html, text, full: html, text
Added clustering button and made buttons look clickable
- 1.5 lines changed: 2, context: html, text, full: html, text
Started zoom in/out
- src/hg/instinct/hgGeneset/frontend/js/hgHeatmapGeneset.js
- 1.9 lines changed: 6, context: html, text, full: html, text
More fixes
- 1.8 lines changed: 23, context: html, text, full: html, text
Added clustering button and made buttons look clickable
- 1.7 lines changed: 14, context: html, text, full: html, text
Fixed thumbnail, auto request on load
- 1.6 lines changed: 36, context: html, text, full: html, text
Started zoom in/out
- src/hg/instinct/hgHeatmap2/hgHeatmapData/columnDb_grayCellLines.ra
- 1.4 lines changed: 1, context: html, text, full: html, text
fixed name of neveClass
- 1.3 lines changed: 78, context: html, text, full: html, text
Changed default vis of a bunch of the clinical features
- src/hg/instinct/hgHeatmap2/hgHeatmapFrontend/index.html
- src/hg/instinct/hgMicroscope/makefile
- 1.1 lines changed: 20, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope.as
- 1.1 lines changed: 60, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope.sql
- 1.1 lines changed: 88, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/README
- 1.1 lines changed: 12, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/bigImage.html
- 1.1 lines changed: 1098, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/configPage.c
- 1.1 lines changed: 37, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/configPage.h
- 1.1 lines changed: 10, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/dot_clear.gif
- 1.1 lines changed: 0, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/hgMicroscope.c
- 1.1 lines changed: 729, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/hgMicroscope.h
- 1.1 lines changed: 51, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/makefile
- 1.1 lines changed: 31, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/microscopeSearch.c
- 1.1 lines changed: 488, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/microscopeSearch.h
- 1.1 lines changed: 38, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/testMicroscopeSearch
- 1.1 lines changed: 0, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/testMicroscopeSearch.c
- 1.1 lines changed: 67, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/testMicroscopeSearch.o
- 1.1 lines changed: 0, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscope/testVisiSearch.c
- 1.1 lines changed: 67, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscopeLoad/exampleLoadingScript/makefile
- src/hg/instinct/hgMicroscope/microscopeLoad/exampleLoadingScript/vgLoadTest.c
- src/hg/instinct/hgMicroscope/microscopeLoad/exampleLoadingScript/vgLoadTest.o
- src/hg/instinct/hgMicroscope/microscopeLoad/makefile
- 1.1 lines changed: 14, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscopeLoad/microscopeLoad.c
- 1.1 lines changed: 438, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscopeLoad/retest
- 1.1 lines changed: 5, context: html, text, full: html, text
Cancer version of visiGene
- src/hg/instinct/hgMicroscope/microscopeLoad/test/test.ra
- src/hg/instinct/hgMicroscope/microscopeLoad/test/test.tab
- src/hg/instinct/hgMicroscope/microscopeLoad/test/testcaptions.txt
- src/hg/instinct/lib/hgHeatmapLib.c
- 1.64 lines changed: 7, context: html, text, full: html, text
fixed json wrapper to be to spec
- src/hg/instinct/lib/json.c
- 1.6 lines changed: 8, context: html, text, full: html, text
cleaned up
- 1.5 lines changed: 11, context: html, text, full: html, text
fixed json wrapper to be to spec
- src/hg/instinct/webUserAdmin/webUserAdmin.c
- 1.13 lines changed: 10, context: html, text, full: html, text
Made checking for admin email more verbose
- src/hg/js/autocomplete.js
- 1.2 lines changed: 3, context: html, text, full: html, text
../cgi-bin/suggest => ../cgi-bin/hgSuggest
- 1.1 lines changed: 50, context: html, text, full: html, text
support stuff for auto-complete using jquery.autocomplete.js
- src/hg/js/hgGateway.js
- 1.1 lines changed: 12, context: html, text, full: html, text
javascript for hgGateway CGI
- src/hg/js/hui.js
- 1.50 lines changed: 38, context: html, text, full: html, text
Big changes to move matrix CB normalizeAll code from js to C. These changes should make the large composites less sluggish
- src/hg/js/jquery.autocomplete.js
- 1.2 lines changed: 8, context: html, text, full: html, text
patch which fixes following problem: up/down arrows didn't work on IE, Safari and Chrome; patch downloaded from: http://code.google.com/p/jqac/issues/detail?id=1
- 1.1 lines changed: 481, context: html, text, full: html, text
version 1.4.2 downloaded from http://code.google.com/p/jqac/
- src/hg/js/utils.js
- 1.27 lines changed: 14, context: html, text, full: html, text
Added some timing routines to help focus on selfish, inefficient code
- src/hg/lib/customFactory.c
- 1.116 lines changed: 2, context: html, text, full: html, text
limit custom tracks short label to 128 characters to avoid buffer overflow elsewhere
- src/hg/lib/genomicSuperDups.as
- 1.3 lines changed: 7, context: html, text, full: html, text
Added some missing fields compared tot the sql definition and changed some of the descriptions as suggested by the data provider for this track.
- src/hg/lib/genomicSuperDups.sql
- 1.6 lines changed: 2, context: html, text, full: html, text
Minor edits.
- 1.5 lines changed: 8, context: html, text, full: html, text
Changed descriptions for table columns based on feedback from data provider.
- src/hg/lib/hdb.c
- 1.418 lines changed: 2, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- src/hg/lib/hgFind.c
- 1.224 lines changed: 54, context: html, text, full: html, text
Added hook for specifying a search type: CGI var (not cart) singleSearch=knownCanonical (and maybe other types someday). This will support stable links to hgTracks views of gene symbols short-circuited to knownCanonical locations.
- 1.223 lines changed: 7, context: html, text, full: html, text
If the result of 'hFreezeName' (dbDb.description) contains the database name, as I intend to make happen, don't also show the database name in parens.
- src/hg/lib/hui.c
- 1.259 lines changed: 349, context: html, text, full: html, text
Big changes to move matrix CB normalizeAll code from js to C. These changes should make the large composites less sluggish
- 1.258 lines changed: 3, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- 1.257 lines changed: 14, context: html, text, full: html, text
a little more fix on the items in the conservation dialog to get views
- 1.256 lines changed: 4, context: html, text, full: html, text
fix up control in multiz's that changes how codon translation happens
- src/hg/lib/makefile
- src/hg/lib/rgdGene2.sql
- 1.1 lines changed: 15, context: html, text, full: html, text
Added rgdGene2.sql.
- src/hg/lib/rgdGeneXref2.sql
- 1.1 lines changed: 7, context: html, text, full: html, text
Created rgdGeneXref2.sql
- src/hg/lib/simpleRepeat.sql
- 1.9 lines changed: 1, context: html, text, full: html, text
the extra ; in the comment causes it to be invalid SQL ?
- src/hg/lib/suggest.c
- 1.3 lines changed: 1, context: html, text, full: html, text
one more try at rcsid
- 1.2 lines changed: 2, context: html, text, full: html, text
forgot the rcsid
- 1.1 lines changed: 18, context: html, text, full: html, text
code to support suggesting genes given a prefix typed by the user
- src/hg/lib/trackDbCustom.c
- 1.80 lines changed: 30, context: html, text, full: html, text
Making hgTracks be backwards compatible with older trackDb tables in case they didn't run hgTrackDb.
- 1.79 lines changed: 8, context: html, text, full: html, text
If the result of 'hFreezeName' (dbDb.description) contains the database name, as I intend to make happen, don't also show the database name in parens.
- 1.78 lines changed: 8, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- 1.77 lines changed: 12, context: html, text, full: html, text
Ifdeffing out some of the new code until I finish baking it.
- 1.76 lines changed: 40, context: html, text, full: html, text
Adding trackDbUpdateOldTag function to convert older format trackDb tags to current format. Specifically converting superTrack, compositeTrack, and subTrack tags to use the new container and parent tags instead.
- src/hg/lib/wikiTrack.c
- 1.27 lines changed: 19, context: html, text, full: html, text
do not error out just because the wiki WEB site has disappeared
- src/hg/makeDb/doc/aplCal1.txt
- 1.11 lines changed: 22, context: html, text, full: html, text
adding trackDb.ra entry for aplCal1 chains/nets
- src/hg/makeDb/doc/calJac3.txt
- 1.1 lines changed: 62, context: html, text, full: html, text
Downloading new Marmoset assembly
- src/hg/makeDb/doc/equCab2.txt
- 1.29 lines changed: 5, context: html, text, full: html, text
enabled xeno refgene
- src/hg/makeDb/doc/hg18.txt
- 1.397 lines changed: 27, context: html, text, full: html, text
Added tRNAs track section.
- src/hg/makeDb/doc/hg19.txt
- 1.81 lines changed: 28, context: html, text, full: html, text
Added tRNAs track section.
- 1.80 lines changed: 9, context: html, text, full: html, text
Loaded new data for segmental duplications.
- 1.79 lines changed: 16, context: html, text, full: html, text
Added a 40mer sequence subtrack to the Mapability track.
- 1.78 lines changed: 32, context: html, text, full: html, text
Loaded corrected data for the Seg Dupes track.
- src/hg/makeDb/doc/mm9.txt
- 1.124 lines changed: 28, context: html, text, full: html, text
Added tRNAs track section.
- 1.123 lines changed: 54, context: html, text, full: html, text
Documented adding mapability track.
- 1.122 lines changed: 18, context: html, text, full: html, text
re-run the Panda chain net
- src/hg/makeDb/doc/monDom5.txt
- 1.18 lines changed: 9, context: html, text, full: html, text
re-run the Panda chain net
- src/hg/makeDb/doc/rn4.txt
- 1.37 lines changed: 27, context: html, text, full: html, text
Added tRNAs track section.
- src/hg/makeDb/doc/sacCer2.txt
- src/hg/makeDb/genbank/etc/align.dbs
- 1.110 lines changed: 1, context: html, text, full: html, text
turning ailMel1 back on after reload
- src/hg/makeDb/genbank/etc/genbank.conf
- 1.363 lines changed: 17, context: html, text, full: html, text
adding marmoset calJac3
- 1.362 lines changed: 1, context: html, text, full: html, text
adding multiz6way to genbank danRer6
- 1.361 lines changed: 2, context: html, text, full: html, text
adding multiz6way to genbank danRer6
- 1.360 lines changed: 1, context: html, text, full: html, text
enable xeno refseq on equCab2
- src/hg/makeDb/genbank/etc/hgwdev.dbs
- 1.114 lines changed: 1, context: html, text, full: html, text
turning ailMel1 back on after reload
- src/hg/makeDb/hgCgiData/Human/microarrayGroups.ra
- 1.101 lines changed: 3, context: html, text, full: html, text
fixed samples in grayCelllineSNPSeg
- src/hg/makeDb/hgTrackDb/hgTrackDb.c
- 1.61 lines changed: 2, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- src/hg/makeDb/schema/all.joiner
- 1.772 lines changed: 1, context: html, text, full: html, text
Added dupeOk to tRNAs identifier since, per Fan, it is known & OK for the name to be duplicated
- 1.771 lines changed: 12, context: html, text, full: html, text
Moved set for tRNAs and CGAP SAGE tracks from being above their identifier to the location with all the other set information
- 1.770 lines changed: 1, context: html, text, full: html, text
Fixed a typo.
- 1.769 lines changed: 9, context: html, text, full: html, text
Added section for tRNA tracks.
- 1.768 lines changed: 1, context: html, text, full: html, text
Added crgMapability subtracks to list of tables to be ignored for mm9.
- src/hg/makeDb/trackDb/README
- 1.100 lines changed: 6, context: html, text, full: html, text
Tweaking MATRIX section a bit as per Angie's suggestions.
- 1.99 lines changed: 47, context: html, text, full: html, text
Clarifying some view info.
- src/hg/makeDb/trackDb/cat/felCat3/trackDb.ra
- 1.27 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.26 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/cat/trackDb.chainNet.ra
- 1.6 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.5 lines changed: 7, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.4 lines changed: 1, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/cat/trackDb.ra
- 1.11 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.10 lines changed: 28, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chicken/galGal2/trackDb.chainNet.ra
- 1.8 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.7 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.6 lines changed: 1, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chicken/galGal2/trackDb.ra
- 1.78 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.77 lines changed: 28, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chicken/galGal3/trackDb.chainNet.ra
- 1.5 lines changed: 9, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chicken/galGal3/trackDb.ra
- 1.22 lines changed: 8, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.21 lines changed: 22, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.20 lines changed: 4, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chicken/trackDb.chainNet.ra
- 1.22 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.21 lines changed: 6, context: html, text, full: html, text
fixed shortLabel for chainNetDanRer2 for galGal2
- 1.20 lines changed: 7, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.19 lines changed: 3, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/chicken/trackDb.ra
- 1.25 lines changed: 6, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.24 lines changed: 6, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.23 lines changed: 7, context: html, text, full: html, text
moved all anoCar1 chains and nets to composite and dropped individual tracks
- 1.22 lines changed: 5, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.21 lines changed: 8, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.20 lines changed: 20, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chimp/panTro1/trackDb.chainNet.ra
- 1.5 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.4 lines changed: 3, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chimp/panTro2/trackDb.chainNet.ra
- 1.3 lines changed: 4, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- 1.2 lines changed: 0, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.1 lines changed: 11, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chimp/panTro2/trackDb.ra
- 1.54 lines changed: 10, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.53 lines changed: 3, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- 1.52 lines changed: 2, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/chimp/trackDb.chainNet.ra
- 1.14 lines changed: 9, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.13 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.12 lines changed: 2, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/chimp/trackDb.ra
- 1.35 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.34 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.33 lines changed: 5, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.32 lines changed: 6, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.31 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/cow/bosTau1/trackDb.ra
- 1.20 lines changed: 9, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/cow/bosTau2/trackDb.chainNet.ra
- 1.6 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.5 lines changed: 7, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/cow/bosTau2/trackDb.ra
- 1.11 lines changed: 18, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/cow/bosTau3/trackDb.chainNet.ra
- 1.4 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.3 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- 1.2 lines changed: 6, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/cow/bosTau4/trackDb.chainNet.ra
- 1.2 lines changed: 8, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.1 lines changed: 4, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- src/hg/makeDb/trackDb/cow/bosTau4/trackDb.ra
- 1.22 lines changed: 9, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.21 lines changed: 4, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- src/hg/makeDb/trackDb/cow/trackDb.chainNet.ra
- 1.11 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.10 lines changed: 4, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/cow/trackDb.ra
- 1.7 lines changed: 7, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.6 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/dog/canFam1/trackDb.chainNet.ra
- 1.5 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/dog/canFam1/trackDb.ra
- 1.40 lines changed: 22, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/dog/canFam2/trackDb.chainNet.ra
- 1.6 lines changed: 0, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/dog/canFam2/trackDb.ra
- 1.49 lines changed: 8, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/dog/trackDb.chainNet.ra
- 1.18 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.17 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.16 lines changed: 7, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/dog/trackDb.ra
- 1.45 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.44 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.43 lines changed: 26, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.42 lines changed: 9, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.41 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.40 lines changed: 33, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/drosophila/dm2/trackDb.ra
- 1.60 lines changed: 3, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/elephant/loxAfr3/trackDb.ra
- 1.4 lines changed: 15, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/fugu/fr1/description.html
- 1.28 lines changed: 1, context: html, text, full: html, text
changed spp half of name to lower case
- src/hg/makeDb/trackDb/fugu/fr1/trackDb.chainNet.ra
- 1.2 lines changed: 1, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/fugu/fr2/description.html
- 1.10 lines changed: 1, context: html, text, full: html, text
changes spp half of name to lower case
- src/hg/makeDb/trackDb/fugu/fr2/trackDb.chainNet.ra
- 1.2 lines changed: 7, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/fugu/trackDb.chainNet.ra
- 1.9 lines changed: 17, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.8 lines changed: 1, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/fugu/trackDb.ra
- 1.78 lines changed: 17, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.77 lines changed: 26, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.76 lines changed: 9, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.75 lines changed: 12, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.74 lines changed: 28, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- 1.73 lines changed: 35, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.72 lines changed: 2, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/guineaPig/cavPor3/trackDb.ra
- 1.11 lines changed: 9, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.10 lines changed: 6, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.9 lines changed: 7, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/guineaPig/trackDb.chainNet.ra
- 1.7 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/horse/equCab1/trackDb.chainNet.ra
- 1.4 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.3 lines changed: 9, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- 1.2 lines changed: 1, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/horse/trackDb.chainNet.ra
- 1.9 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/horse/trackDb.ra
- 1.26 lines changed: 16, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.25 lines changed: 23, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.24 lines changed: 21, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/gwasCatalog.html
- 1.2 lines changed: 1, context: html, text, full: html, text
added hyphen to Genome-Wide
- src/hg/makeDb/trackDb/human/hg16/trackDb.ra
- 1.586 lines changed: 8, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.585 lines changed: 20, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/hg17/trackDb.chainNet.ra
- 1.19 lines changed: 6, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.18 lines changed: 6, context: html, text, full: html, text
Changed xenTro1 chain and net shortLabels to match chainNet shortLabels.
- src/hg/makeDb/trackDb/human/hg17/trackDb.ra
- 1.452 lines changed: 24, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.451 lines changed: 8, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.450 lines changed: 13, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.449 lines changed: 8, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.448 lines changed: 22, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.447 lines changed: 20, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.446 lines changed: 6, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.445 lines changed: 26, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/hg18/pgVenter.html
- 1.2 lines changed: 31, context: html, text, full: html, text
Long since obsoleted by composite track details (pgSnp.html). thx Pauline!
- src/hg/makeDb/trackDb/human/hg18/pgWatson.html
- 1.2 lines changed: 29, context: html, text, full: html, text
Long since obsoleted by composite track details (pgSnp.html). thx Pauline!
- src/hg/makeDb/trackDb/human/hg18/trackDb.chainNet.ra
- 1.16 lines changed: 9, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.15 lines changed: 3, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/hg18/trackDb.ra
- 1.465 lines changed: 24, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.464 lines changed: 28, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.463 lines changed: 8, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.462 lines changed: 22, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.461 lines changed: 22, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.460 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.459 lines changed: 28, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
- 1.865 lines changed: 65, context: html, text, full: html, text
Standardized metadata to 'antibody=Input'.
- 1.864 lines changed: 22, context: html, text, full: html, text
take out fileName for signals in CSHL short RNA
- 1.863 lines changed: 9, context: html, text, full: html, text
get Caltech directional data to be colored by strand
- 1.862 lines changed: 60, context: html, text, full: html, text
properly attach directional metadata to mislabeled tables
- 1.861 lines changed: 72, context: html, text, full: html, text
removed entire blocks for subtracks being dropped from ENCODE UW DNaseI HS track (release 2) rather than my previous change of just removing release beta tag
- 1.860 lines changed: 9, context: html, text, full: html, text
removed release beta from subtracks being dropped from ENCODE UW DNaseI HS track (release 2)
- src/hg/makeDb/trackDb/human/hg18/wgEncodeMapability.html
- 1.14 lines changed: 11, context: html, text, full: html, text
Added CRG Alignablity track details.
- src/hg/makeDb/trackDb/human/hg19/trackDb.enc.ra
- 1.2 lines changed: 10, context: html, text, full: html, text
Added a 40mer sequence subtrack to the Mapability track.
- src/hg/makeDb/trackDb/human/hg19/trackDb.ra
- 1.96 lines changed: 2, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.95 lines changed: 2, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.94 lines changed: 2, context: html, text, full: html, text
moved all anoCar1 chains and nets to composite and dropped individual tracks
- 1.93 lines changed: 2, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.92 lines changed: 5, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.91 lines changed: 2, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.90 lines changed: 4, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.89 lines changed: 2, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.88 lines changed: 5, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/trackDb.chainNet.ra
- 1.34 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/human/trackDb.ra
- 1.512 lines changed: 6, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.511 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.510 lines changed: 13, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.509 lines changed: 14, context: html, text, full: html, text
moved all braFlo1 chains and nets to composite and dropped individual tracks
- 1.508 lines changed: 8, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.507 lines changed: 13, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.506 lines changed: 7, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.505 lines changed: 6, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.504 lines changed: 12, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.503 lines changed: 10, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/lamprey/trackDb.chainNet.ra
- 1.5 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/lamprey/trackDb.ra
- 1.8 lines changed: 8, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/lizard/trackDb.chainNet.ra
- 1.8 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.7 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/lizard/trackDb.ra
- 1.10 lines changed: 7, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/makefile
- 1.283 lines changed: 1, context: html, text, full: html, text
adding calJac3 to the build
- src/hg/makeDb/trackDb/marmoset/calJac3/description.html
- 1.1 lines changed: 129, context: html, text, full: html, text
initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/marmoset/calJac3/gap.html
- 1.1 lines changed: 63, context: html, text, full: html, text
initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/marmoset/calJac3/gold.html
- 1.1 lines changed: 22, context: html, text, full: html, text
initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/marmoset/calJac3/trackDb.ra
- 1.1 lines changed: 40, context: html, text, full: html, text
initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/marmoset/trackDb.ra
- 1.13 lines changed: 12, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.12 lines changed: 7, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/medaka/oryLat1/trackDb.chainNet.ra
- 1.1 lines changed: 11, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/medaka/oryLat1/trackDb.ra
- 1.14 lines changed: 3, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/medaka/trackDb.chainNet.ra
- 1.8 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/medaka/trackDb.ra
- 1.27 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.26 lines changed: 9, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.25 lines changed: 6, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.24 lines changed: 40, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- 1.23 lines changed: 30, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/mouse/mm5/trackDb.ra
- 1.53 lines changed: 15, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/mouse/mm6/trackDb.chainNet.ra
- 1.1 lines changed: 11, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/mouse/mm6/trackDb.ra
- 1.57 lines changed: 3, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.56 lines changed: 2, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/mouse/mm7/trackDb.chainNet.ra
- 1.17 lines changed: 9, context: html, text, full: html, text
moved all fr1chains and nets to composite and dropped individual tracks
- 1.16 lines changed: 6, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.15 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.14 lines changed: 6, context: html, text, full: html, text
Changed xenTro1 chain and net shortLabels to match chainNet shortLabels.
- src/hg/makeDb/trackDb/mouse/mm7/trackDb.ra
- 1.64 lines changed: 8, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.63 lines changed: 8, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.62 lines changed: 3, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/mouse/mm8/trackDb.chainNet.ra
- 1.12 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/mouse/mm8/trackDb.ra
- 1.65 lines changed: 8, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/mouse/mm9/mapability.html
- 1.2 lines changed: 1, context: html, text, full: html, text
Changed assembly name.
- 1.1 lines changed: 20, context: html, text, full: html, text
Description for mapability track.
- src/hg/makeDb/trackDb/mouse/mm9/trackDb.chainNet.ra
- 1.9 lines changed: 42, context: html, text, full: html, text
moved all TetNig1 chains and nets to composite and dropped individual tracks
- 1.8 lines changed: 51, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra
- 1.82 lines changed: 5, context: html, text, full: html, text
Minor edit of track name.
- 1.81 lines changed: 1, context: html, text, full: html, text
Minor edit of track name.
- 1.80 lines changed: 50, context: html, text, full: html, text
Added Mapability track with subtracks from CRG.
- 1.79 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.78 lines changed: 6, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.77 lines changed: 7, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/mouse/trackDb.chainNet.ra
- 1.32 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.31 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/mouse/trackDb.ra
- 1.205 lines changed: 6, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.204 lines changed: 9, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.203 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.202 lines changed: 7, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.201 lines changed: 9, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.200 lines changed: 6, context: html, text, full: html, text
moved all braFlo1 chains and nets to composite and dropped individual tracks
- 1.199 lines changed: 11, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.198 lines changed: 10, context: html, text, full: html, text
moved all anoCar1 chains and nets to composite and dropped individual tracks
- 1.197 lines changed: 25, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.196 lines changed: 28, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.195 lines changed: 10, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.194 lines changed: 18, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.193 lines changed: 4, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/monDom1/trackDb.chainNet.ra
- 1.6 lines changed: 8, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.5 lines changed: 8, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/monDom1/trackDb.ra
- 1.27 lines changed: 5, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/opossum/monDom2/trackDb.ra
- 1.4 lines changed: 17, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/monDom4/trackDb.chainNet.ra
- 1.12 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.11 lines changed: 1, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/opossum/monDom4/trackDb.ra
- 1.28 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.27 lines changed: 5, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/monDom5/trackDb.chainNet.ra
- 1.6 lines changed: 21, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/monDom5/trackDb.ra
- 1.33 lines changed: 14, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.32 lines changed: 38, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.31 lines changed: 13, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/trackDb.chainNet.ra
- 1.21 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.20 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.19 lines changed: 16, context: html, text, full: html, text
fixed shortLabel for chainNet{mm6,danRer2} for monDom1
- 1.18 lines changed: 3, context: html, text, full: html, text
dropped two errant tildes
- 1.17 lines changed: 16, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/opossum/trackDb.ra
- 1.50 lines changed: 7, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.49 lines changed: 29, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.48 lines changed: 7, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.47 lines changed: 34, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.46 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.45 lines changed: 28, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/orangutan/ponAbe2/trackDb.ra
- 1.20 lines changed: 10, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/orangutan/trackDb.chainNet.ra
- 1.10 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.9 lines changed: 1, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/platypus/trackDb.chainNet.ra
- 1.13 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.12 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/platypus/trackDb.ra
- 1.15 lines changed: 9, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/rat/rn3/trackDb.chainNet.ra
- 1.5 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/rat/rn3/trackDb.ra
- 1.67 lines changed: 26, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/rat/rn4/rgdGene2.html
- 1.1 lines changed: 25, context: html, text, full: html, text
Created rgdGene2.html.
- src/hg/makeDb/trackDb/rat/rn4/trackDb.chainNet.ra
- 1.1 lines changed: 9, context: html, text, full: html, text
moved all mm7 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/rat/rn4/trackDb.ra
- 1.56 lines changed: 9, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.55 lines changed: 2, context: html, text, full: html, text
moved all mm7 chains and nets to composite and dropped individual tracks
- 1.54 lines changed: 12, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.53 lines changed: 8, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/rat/rn5/trackDb.ra
- 1.4 lines changed: 10, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/rat/trackDb.chainNet.ra
- 1.22 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.21 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.20 lines changed: 7, context: html, text, full: html, text
changed animal name to o_Organism for several
- 1.19 lines changed: 6, context: html, text, full: html, text
Changed bosTau4 chain and net shortLabels to match chainNet shortLabels.
- src/hg/makeDb/trackDb/rat/trackDb.ra
- 1.77 lines changed: 26, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.76 lines changed: 26, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.75 lines changed: 13, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.74 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.73 lines changed: 28, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/rhesus/rheMac1/trackDb.chainNet.ra
- 1.1 lines changed: 11, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/rhesus/rheMac1/trackDb.ra
- 1.9 lines changed: 11, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/rhesus/rheMac2/trackDb.ra
- 1.53 lines changed: 12, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- src/hg/makeDb/trackDb/rhesus/trackDb.chainNet.ra
- 1.11 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.10 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.9 lines changed: 7, context: html, text, full: html, text
changed animal name to o_Organism for several
- src/hg/makeDb/trackDb/rhesus/trackDb.ra
- 1.23 lines changed: 26, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.22 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.21 lines changed: 26, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/stickleback/trackDb.chainNet.ra
- 1.11 lines changed: 7, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.10 lines changed: 7, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.9 lines changed: 1, context: html, text, full: html, text
Fixed typo. Thanks, tdbQuery.
- 1.8 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/stickleback/trackDb.ra
- 1.32 lines changed: 27, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.31 lines changed: 27, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.30 lines changed: 7, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.29 lines changed: 5, context: html, text, full: html, text
moved all anoCar1 chains and nets to composite and dropped individual tracks
- 1.28 lines changed: 28, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.27 lines changed: 28, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.26 lines changed: 26, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/tRNAs.html
- 1.3 lines changed: 13, context: html, text, full: html, text
Edited the credits & references to fit the pubMed format
- src/hg/makeDb/trackDb/tagTypes.tab
- 1.10 lines changed: 1, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- src/hg/makeDb/trackDb/tetraodon/trackDb.chainNet.ra
- 1.13 lines changed: 7, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.12 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.11 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/tetraodon/trackDb.ra
- 1.58 lines changed: 17, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.57 lines changed: 7, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.56 lines changed: 26, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.55 lines changed: 6, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.54 lines changed: 7, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.53 lines changed: 26, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.52 lines changed: 13, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.51 lines changed: 26, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/trackDb.chainNet.ra
- 1.79 lines changed: 5, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.78 lines changed: 3, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.77 lines changed: 3, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.76 lines changed: 5, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.75 lines changed: 8, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.74 lines changed: 4, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.73 lines changed: 4, context: html, text, full: html, text
moved all braFlo1 chains and nets to composite and dropped individual tracks
- 1.72 lines changed: 4, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.71 lines changed: 4, context: html, text, full: html, text
moved all TetNig1 chains and nets to composite and dropped individual tracks
- 1.70 lines changed: 4, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.69 lines changed: 4, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.68 lines changed: 4, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.67 lines changed: 4, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.66 lines changed: 4, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.65 lines changed: 6, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.64 lines changed: 4, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- 1.63 lines changed: 49, context: html, text, full: html, text
adding aplCal1 chain/net
- 1.62 lines changed: 4, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.61 lines changed: 4, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.60 lines changed: 4, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- 1.59 lines changed: 1, context: html, text, full: html, text
Removed a stray release alpha from netMm7 track.
- src/hg/makeDb/trackDb/trackDb.ra
- 1.616 lines changed: 28, context: html, text, full: html, text
moved all danRer3 chains and nets to composite and dropped individual tracks
- 1.615 lines changed: 24, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.614 lines changed: 26, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.613 lines changed: 26, context: html, text, full: html, text
moved all fr2 chains and nets to composite and dropped individual tracks
- 1.612 lines changed: 42, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.611 lines changed: 25, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.610 lines changed: 27, context: html, text, full: html, text
moved all braFlo1 chains and nets to composite and dropped individual tracks
- 1.609 lines changed: 27, context: html, text, full: html, text
moved all petMar1 chains and nets to composite and dropped individual tracks
- 1.608 lines changed: 27, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.607 lines changed: 27, context: html, text, full: html, text
moved all taeGut1 chains and nets to composite and dropped individual tracks
- 1.606 lines changed: 52, context: html, text, full: html, text
moved all cavPor3 chains and nets to composite and dropped individual tracks
- 1.605 lines changed: 76, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.604 lines changed: 25, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.603 lines changed: 81, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.602 lines changed: 27, context: html, text, full: html, text
moved all gasAcu1 chains and nets to composite and dropped individual tracks
- 1.601 lines changed: 28, context: html, text, full: html, text
moved all ornAna1 chains and nets to composite and dropped individual tracks
- 1.600 lines changed: 27, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.599 lines changed: 27, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/urchin/strPur1/trackDb.ra
- 1.10 lines changed: 24, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/xenTro/trackDb.chainNet.ra
- 1.12 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.11 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.10 lines changed: 1, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/xenTro/trackDb.ra
- 1.32 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.31 lines changed: 3, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.30 lines changed: 28, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.29 lines changed: 11, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- 1.28 lines changed: 26, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/xenTro/xenTro1/trackDb.chainNet.ra
- 1.5 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.4 lines changed: 3, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/xenTro/xenTro1/trackDb.ra
- 1.45 lines changed: 7, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.44 lines changed: 27, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/xenTro/xenTro2/trackDb.chainNet.ra
- 1.5 lines changed: 9, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/xenTro/xenTro2/trackDb.ra
- 1.26 lines changed: 24, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.25 lines changed: 6, context: html, text, full: html, text
moved all rn4 chains and nets to composite and dropped individual tracks
- 1.24 lines changed: 6, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebraFinch/trackDb.chainNet.ra
- 1.3 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/zebraFinch/trackDb.ra
- 1.10 lines changed: 8, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- src/hg/makeDb/trackDb/zebrafish/danRer1/trackDb.ra
- 1.38 lines changed: 6, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.37 lines changed: 6, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/danRer3/trackDb.chainNet.ra
- 1.6 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.5 lines changed: 3, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/danRer3/trackDb.ra
- 1.61 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.60 lines changed: 7, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.59 lines changed: 20, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.58 lines changed: 48, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/danRer4/trackDb.chainNet.ra
- 1.7 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.6 lines changed: 9, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.5 lines changed: 3, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/danRer4/trackDb.ra
- 1.46 lines changed: 28, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.45 lines changed: 28, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.44 lines changed: 8, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.43 lines changed: 8, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.42 lines changed: 15, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/danRer5/trackDb.ra
- 1.32 lines changed: 10, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.31 lines changed: 6, context: html, text, full: html, text
moved all danRer1 chains and nets to composite and dropped individual tracks
- 1.30 lines changed: 21, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.29 lines changed: 46, context: html, text, full: html, text
moved all mm9 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/trackDb.chainNet.ra
- 1.16 lines changed: 6, context: html, text, full: html, text
Changing netHg18 and chainHg18 to composites.
- 1.15 lines changed: 6, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- 1.14 lines changed: 1, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/makeDb/trackDb/zebrafish/trackDb.ra
- 1.71 lines changed: 9, context: html, text, full: html, text
Changing netHg17 and chainHg17 to chainNetHg17 composite tracks.
- 1.70 lines changed: 8, context: html, text, full: html, text
moved all fr1 chains and nets to composite and dropped individual tracks
- 1.69 lines changed: 43, context: html, text, full: html, text
moved chainNet from trackDb.ra to trackDb.chainNet.ra
- 1.68 lines changed: 27, context: html, text, full: html, text
moved all oryLat2 chains and nets to composite and dropped individual tracks
- 1.67 lines changed: 16, context: html, text, full: html, text
moved all mm8 chains and nets to composite and dropped individual tracks
- src/hg/oneShot/freen/freen.c
- 1.97 lines changed: 36, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- src/hg/oneShot/tdbRewriteViewsToSubtracks1/makefile
- 1.1 lines changed: 17, context: html, text, full: html, text
Making a single file rewriter for track in the middle.
- src/hg/oneShot/tdbRewriteViewsToSubtracks1/tdbRewriteViewsToSubtracks1.c
- 1.1 lines changed: 696, context: html, text, full: html, text
Making a single file rewriter for track in the middle.
- src/hg/utils/automation/doRecipBest.pl
- 1.12 lines changed: 9, context: html, text, full: html, text
allow use of lastz or blastz directory
- src/hg/utils/automation/makeGenomeDb.pl
- 1.27 lines changed: 5, context: html, text, full: html, text
handle chrom names for chromInfo that are longer than 16 chars
- 1.26 lines changed: 11, context: html, text, full: html, text
fixup usage of AGP files with comments and FASTA with Genbank ID lines
- src/hg/utils/makefile
- 1.20 lines changed: 2, context: html, text, full: html, text
moved pslUniq out of complelely unrelated directory
- src/hg/utils/mutationClassifier/mutationClassifier.c
- 1.4 lines changed: 67, context: html, text, full: html, text
code cleanup per jim's feedback
- src/hg/utils/pslUniq/makefile
- 1.1 lines changed: 17, context: html, text, full: html, text
moved pslUniq out of complelely unrelated directory
- src/hg/utils/pslUniq/pslUniq.c
- 1.4 lines changed: 8, context: html, text, full: html, text
Clean up pslUniq and place it into the build
- 1.3 lines changed: 18, context: html, text, full: html, text
added option to allow for N entries (dumb name then eh?)
- 1.2 lines changed: 3, context: html, text, full: html, text
some clean up
- 1.1 lines changed: 47, context: html, text, full: html, text
only one record of each query name gets through
- src/hg/utils/rgdGeneXref2/makefile
- src/hg/utils/rgdGeneXref2/rgdGeneXref2.c
- 1.1 lines changed: 115, context: html, text, full: html, text
Created rgdGeneXref2.c.
- src/hg/utils/tdbQuery/tdbQuery.c
- 1.29 lines changed: 3, context: html, text, full: html, text
Changing 'subTrack' to 'parent' internally. A backwards compatability routine will make it so either tag can be used in a trackDb file.
- 1.28 lines changed: 3, context: html, text, full: html, text
Taking out a half-baked change.
- 1.27 lines changed: 63, context: html, text, full: html, text
Getting rid of settingsByView stuff. Adding in converter to container/parent syntax. Fix to parent-not-found error message.
- src/hg/utils/tdbQuery/tdbRecord.c
- 1.7 lines changed: 5, context: html, text, full: html, text
Getting to compile in Linux.
- 1.6 lines changed: 75, context: html, text, full: html, text
Getting rid of settingsByView stuff. Adding in converter to container/parent syntax. Fix to parent-not-found error message.
- src/hg/utils/tdbQuery/tdbRecord.h
- 1.3 lines changed: 4, context: html, text, full: html, text
Getting rid of settingsByView stuff. Adding in converter to container/parent syntax. Fix to parent-not-found error message.
- src/hg/visiGene/README.txt
- src/hg/visiGene/makefile
- src/hg/visiGene/microscope.as
- src/hg/visiGene/microscope.sql
- src/inc/bigBed.h
- 1.18 lines changed: 30, context: html, text, full: html, text
Removing bigBedFileCreate which is no longer in library.
- src/inc/cheapcgi.h
- 1.71 lines changed: 7, context: html, text, full: html, text
Needed to rewrite the 2way CB routines. Now called fourWay
- src/lib/bigBed.c
- 1.27 lines changed: 1, context: html, text, full: html, text
Making bigBedCoverageIntervals() static.
- 1.26 lines changed: 4, context: html, text, full: html, text
Fixed memory leaks.
- src/lib/cheapcgi.c
- 1.131 lines changed: 30, context: html, text, full: html, text
Needed to rewrite the 2way CB routines. Now called fourWay
- src/lib/htmshell.c
- 1.65 lines changed: 5, context: html, text, full: html, text
Fixed the warnbox to make hidden 'OK' not be picked up by select all.
- src/utils/qa/findLevel.csh
- 1.20 lines changed: 6, context: html, text, full: html, text
cheap fix to find more-or-less only the track you're looking for. the better way to fix this would be to figure out the quotes, and include the tableName in the tdbQuery statement.
- src/utils/qa/getDbSize.csh
- 1.16 lines changed: 5, context: html, text, full: html, text
adjust column width to allow for Tb-level files
- src/utils/qa/qaEncodeTracks.csh
- src/utils/qa/weeklybld/buildEnv.csh
- src/utils/qa/weeklybld/doNewBranch.csh
- 1.34 lines changed: 46, context: html, text, full: html, text
re-arranging to run utils early
- lines changed: 23843
- files changed: 294