All File Changes

v309_base to v310_preview (2014-11-24 to 2014-12-08) v310

• src/beacon/README.txt
  • lines changed 31, context: html, text, full: html, text
    extending makefile refs #14393
  • lines changed 11, context: html, text, full: html, text
    additions to beacon readme, refs #14393
• src/beacon/accCounts.gdbm
  • lines changed 0, context: html, text, full: html, text
    extending makefile refs #14393
• src/beacon/insdcToUcsc.tab
  • lines changed 93, context: html, text, full: html, text
    extending makefile refs #14393
• src/beacon/makefile
  • lines changed 34, context: html, text, full: html, text
    extending makefile refs #14393
  • lines changed 2, context: html, text, full: html, text
    fixing typo in previous commit
  • lines changed 2, context: html, text, full: html, text
    another edit to beacon makefile, refs #14393
  • lines changed 3, context: html, text, full: html, text
    moving bigbed files to a location that is less lame, refs #14427
• src/beacon/query
  • lines changed 6, context: html, text, full: html, text
    moving bigbed files to a location that is less lame, refs #14427
• src/browserbox/root/updateBrowser.sh
  • lines changed 3, context: html, text, full: html, text
    small change to gbib updateBrowser script, refs #14342
• src/hg/hgTables/correlate.c
  • lines changed 3, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/filterFields.c
  • lines changed 3, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/hgTables.c
  • lines changed 257, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/hgTables.h
  • lines changed 16, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/mainPage.c
  • lines changed 110, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/schema.c
  • lines changed 2, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTables/wikiTrack.c
  • lines changed 23, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 5, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
  • lines changed 1, context: html, text, full: html, text
    add "coverage mode" to chains and knownGene
• src/hg/hgTracks/bedGraph.c
  • lines changed 2, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/hgTracks/hgTracks.c
  • lines changed 1, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
  • lines changed 13, context: html, text, full: html, text
    changing references to gif to png; fix documentation referring to slices to mention the newly-separated button slice
• src/hg/hgTracks/hgTracks.h
  • lines changed 4, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/hgTracks/imageV2.c
  • lines changed 9, context: html, text, full: html, text
    changing references to gif to png; fix documentation referring to slices to mention the newly-separated button slice
• src/hg/hgTracks/imageV2.h
  • lines changed 10, context: html, text, full: html, text
    changing references to gif to png; fix documentation referring to slices to mention the newly-separated button slice
• src/hg/hgTracks/menu.c
  • lines changed 1, context: html, text, full: html, text
    Fixes #14173. Enables more sophisticated link to table browser from hgGene, hgc, and hgTrackUi, if the table exists and is not a custom track, then hgTables will launch with the table automatically selected. We are really just restoring functionality that we used to have -- and which got nuked when we were simplifying and unifying our menus and adding submenus a few years ago.
• src/hg/hgTracks/multiWig.c
  • lines changed 4, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/hgTracks/simpleTracks.c
  • lines changed 193, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/hgTracks/wigTrack.c
  • lines changed 5, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/hgVai/hgVai.c
  • lines changed 4, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgVai/libifyMe.c
  • lines changed 192, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgVai/libifyMe.h
  • lines changed 4, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/hgVarAnnogrator/hgVarAnnogrator.c
  • lines changed 212, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html
  • lines changed 21, context: html, text, full: html, text
    Adding documentation about hubClear and emphasizing URL parameters to push out after v309 release refs #13382
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 1, context: html, text, full: html, text
    Changing a reference to visibility none to visibility hide
  • lines changed 13, context: html, text, full: html, text
    Updating trackDb doc about dragAndDrop after conversation with Max, highlighting it is for dragging subtraccks on the configuration, hgTrackUi, page.
  • lines changed 5, context: html, text, full: html, text
    Correcting a typo and removing dragAndDrop from Composite Example after consulting Max in agreement
• src/hg/htdocs/images/Nasalis_larvatus.jpg
  • lines changed 0, context: html, text, full: html, text
    photo courtesy David Dennis - Wikimedia Commons refs #14437
• src/hg/htdocs/images/Rhinopithecus_roxellana.jpg
  • lines changed 0, context: html, text, full: html, text
    photo from Jack Hynes Wikimedia Commons http://jackhynes.tumblr.com/ refs #14438
• src/hg/htdocs/training/ashg2009/cincyData1.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/cincyData2.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/emoryData1.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/emoryData2.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/pageAdvTwo.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/pageOne.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/pageTwo.html
  • lines changed 6, context: html, text, full: html, text
    added square brackets around Submit buttons and removed some hanging end-of-line whitespace
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/ashg2009/quake.html
  • lines changed 1, context: html, text, full: html, text
    Fixing broken links on training/ashg/index.html pg. refs #14419
• src/hg/htdocs/training/index.html
  • lines changed 1, context: html, text, full: html, text
    Removing outdated link. refs #14419
  • lines changed 7, context: html, text, full: html, text
    Editing to remove redundant descriptions. refs #13712
• src/hg/inc/cartTrackDb.h
  • lines changed 20, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/inc/hCommon.h
  • lines changed 3, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/inc/hui.h
  • lines changed 6, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
• src/hg/inc/web.h
  • lines changed 1, context: html, text, full: html, text
    Fixes #14173. Enables more sophisticated link to table browser from hgGene, hgc, and hgTrackUi, if the table exists and is not a custom track, then hgTables will launch with the table automatically selected. We are really just restoring functionality that we used to have -- and which got nuked when we were simplifying and unifying our menus and adding submenus a few years ago.
• src/hg/inc/wikiTrack.h
  • lines changed 3, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/lib/cartTrackDb.c
  • lines changed 380, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/lib/hCommon.c
  • lines changed 5, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/lib/hui.c
  • lines changed 22, context: html, text, full: html, text
    add the ability to get coverage (wiggle) plots for bed type tracks #952
  • lines changed 2, context: html, text, full: html, text
    add "coverage mode" to chains and knownGene
• src/hg/lib/makefile
  • lines changed 1, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/lib/web.c
  • lines changed 32, context: html, text, full: html, text
    Fixes #14173. Enables more sophisticated link to table browser from hgGene, hgc, and hgTrackUi, if the table exists and is not a custom track, then hgTables will launch with the table automatically selected. We are really just restoring functionality that we used to have -- and which got nuked when we were simplifying and unifying our menus and adding submenus a few years ago.
• src/hg/lib/wikiTrack.c
  • lines changed 18, context: html, text, full: html, text
    Moved some hgTables code that had been copied into a couple differentplaces into a new lib module, cartTrackDb. hgGenome/import.c has code
    that is fairly similar but that also needs to filter out custom tracks
    that were generated by hgGenome.
    
• src/hg/makeDb/doc/eboVir3/newSequences.txt
  • lines changed 15, context: html, text, full: html, text
    refining the instructions refs #14278
• src/hg/makeDb/doc/hg19.txt
  • lines changed 37, context: html, text, full: html, text
    Data corrections and downloads file added. refs #14054
  • lines changed 31, context: html, text, full: html, text
    Experiment with PGx mappings of PeptideAtlas peptides
  • lines changed 19, context: html, text, full: html, text
    Modified entry for Cooper Developmental Delay track to reflect the latest efforts; refs #9391
  • lines changed 1, context: html, text, full: html, text
    Fixed name and date in section headers; refs #9391
  • lines changed 7, context: html, text, full: html, text
    Changed all instances of 'disease' to 'case'; refs #9391
• src/hg/makeDb/doc/hg38/hg38.txt
  • lines changed 99, context: html, text, full: html, text
    Added new section for creation of Cooper Developmental Delay track; refs #9391
  • lines changed 1, context: html, text, full: html, text
    Fixed name and date in section headers; refs #9391
  • lines changed 8, context: html, text, full: html, text
    Changed all instances of 'disease' to 'case'; refs #9391
• src/hg/makeDb/doc/mm9.txt
  • lines changed 127, context: html, text, full: html, text
    Mouse PeptideAtlas track. refs #14459
• src/hg/makeDb/genbank/etc/align.dbs
  • lines changed 1, context: html, text, full: html, text
    Added felCat8 - cat refs #14412
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 22, context: html, text, full: html, text
    Added felCat8; refs #14412
  • lines changed 17, context: html, text, full: html, text
    Added tarSyr2; refs #14410
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 2, context: html, text, full: html, text
    Added felCat8 - cat refs #14412
• src/hg/makeDb/hgLoadPsl/hgLoadPsl.c
  • lines changed 3, context: html, text, full: html, text
    include PID in tmp file name used when loading PSLs to avoid two process running in the same directory corrupting the input file
• src/hg/makeDb/outside/peptideAtlas/linkPeptideMappings.pl
  • lines changed 59, context: html, text, full: html, text
    Remove debug lines.
• src/hg/makeDb/trackDb/birds/geoFor1/cons7way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/cat/felCat4/cons6way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/chimp/panTro3/cons12way.html
  • lines changed 42, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/cow/bosTau4/multiz5way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/cow/bosTau4/phastConsElements5way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/drosophila/dm6/description.html
  • lines changed 3, context: html, text, full: html, text
    Chaning links on gateway description page, refs #4049
• src/hg/makeDb/trackDb/drosophila/dm6/trackDb.27way.ra
  • lines changed 7, context: html, text, full: html, text
    omit extraneous clade menus refs #4049
• src/hg/makeDb/trackDb/ebola/bunEbo1/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/eboVir2/cons49way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/eboVir3/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/eboVir3/iedbPred.html
  • lines changed 50, context: html, text, full: html, text
    adding iedb MHC predictions
• src/hg/makeDb/trackDb/ebola/eboVir3/iedbPred1.html
  • lines changed 32, context: html, text, full: html, text
    adding iedb MHC predictions
• src/hg/makeDb/trackDb/ebola/eboVir3/iedbPredClassIMac.html
  • lines changed 32, context: html, text, full: html, text
    adding iedb MHC predictions
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.iedbPred1.ra
  • lines changed 204, context: html, text, full: html, text
    adding the iedb pred tracks for the upcoming iedb manuscript
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.iedbPred2.ra
  • lines changed 154, context: html, text, full: html, text
    adding the iedb pred tracks for the upcoming iedb manuscript
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.newSequences.ra
  • lines changed 1, context: html, text, full: html, text
    adding KP178538.1 KP184503.1 DI389180.1 DI389182.1 refs #14278
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.ra
  • lines changed 38, context: html, text, full: html, text
    making the spAnnot track appear again in eboVir3
  • lines changed 3, context: html, text, full: html, text
    adding the iedb pred tracks for the upcoming iedb manuscript
  • lines changed 1, context: html, text, full: html, text
    trying to fix tdbCheck error
  • lines changed 2, context: html, text, full: html, text
    fixing uniprot track for ebola again
  • lines changed 5, context: html, text, full: html, text
    Making UniProt Annot track on by default
• src/hg/makeDb/trackDb/ebola/resEbo1/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/sudEbo1/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/taiEbo1/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/ebola/zaiEbo1/cons160way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/fugu/fr3/cons8way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/gorilla/gorGor3/cons11way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/human/hg19/cons100way.html
  • lines changed 35, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/human/hg19/cons46way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/human/hg19/peptideAtlas.html
  • lines changed 4, context: html, text, full: html, text
    Data corrections and downloads file added. refs #14054
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 13, context: html, text, full: html, text
    Data corrections and downloads file added. refs #14054
  • lines changed 25, context: html, text, full: html, text
    Fix merge conflict
  • lines changed 9, context: html, text, full: html, text
    Cooper section was inadvertently re-added by someone with an older version of trackDb.ra; re-removed section; refs #9391
  • lines changed 9, context: html, text, full: html, text
    Experiment with PGx mappings of PeptideAtlas peptides
• src/hg/makeDb/trackDb/human/hg19/wgEncodeAwgDnaseMasterSites.ra
  • lines changed 1, context: html, text, full: html, text
    Changing flag for public release of wgEncodeAwgDnaseMasterSites.ra, refs #13230
• src/hg/makeDb/trackDb/human/hg38/cons7way.html
  • lines changed 63, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/human/trackDb.ra
  • lines changed 3, context: html, text, full: html, text
    Changed all instances of 'disease' to 'case'; refs #9391
• src/hg/makeDb/trackDb/lamprey/petMar1/multiz6way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/lamprey/petMar1/phastConsElements6way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/lamprey/petMar2/cons7way.html
  • lines changed 63, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/lizard/anoCar2/cons7way.html
  • lines changed 45, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding nasLar1 to the build refs #14437
  • lines changed 1, context: html, text, full: html, text
    adding rhiRox1 to the build refs #14438
  • lines changed 1, context: html, text, full: html, text
    adding rheMac7 to the build refs #14474
• src/hg/makeDb/trackDb/marmoset/calJac1/multiz9way.html
  • lines changed 9, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/marmoset/calJac1/phastConsElements9way.html
  • lines changed 8, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/marmoset/calJac3/cons13way.html
  • lines changed 7, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/mouse/mm10/cons60way.html
  • lines changed 34, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/mouse/mm9/cons30way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra
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    Mouse PeptideAtlas track. refs #14459
• src/hg/makeDb/trackDb/phastConsElements.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/platypus/ornAna1/multiz6way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/platypus/ornAna1/phastConsElements6way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/proboscis/nasLar1/description.html
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    adding nasLar1 to the build refs #14437
• src/hg/makeDb/trackDb/proboscis/nasLar1/gap.html
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    adding nasLar1 to the build refs #14437
• src/hg/makeDb/trackDb/proboscis/nasLar1/gold.html
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    adding nasLar1 to the build refs #14437
• src/hg/makeDb/trackDb/proboscis/nasLar1/trackDb.ra
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    adding nasLar1 to the build refs #14437
• src/hg/makeDb/trackDb/rat/rn5/.cons13way.html.swp
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
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    removing accidentally added temp file
• src/hg/makeDb/trackDb/rat/rn5/cons13way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/rhesus/rheMac7/description.html
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    initial files from makeGenomeDb.pl refs #14474
• src/hg/makeDb/trackDb/rhesus/rheMac7/gap.html
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    initial files from makeGenomeDb.pl refs #14474
• src/hg/makeDb/trackDb/rhesus/rheMac7/gold.html
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    initial files from makeGenomeDb.pl refs #14474
• src/hg/makeDb/trackDb/rhesus/rheMac7/trackDb.ra
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    initial files from makeGenomeDb.pl refs #14474
• src/hg/makeDb/trackDb/rhinopithecus/rhiRox1/description.html
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    initial files from makeGenomeDb.pl refs #14438
• src/hg/makeDb/trackDb/rhinopithecus/rhiRox1/gap.html
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    initial files from makeGenomeDb.pl refs #14438
• src/hg/makeDb/trackDb/rhinopithecus/rhiRox1/gold.html
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    initial files from makeGenomeDb.pl refs #14438
• src/hg/makeDb/trackDb/rhinopithecus/rhiRox1/trackDb.ra
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    initial files from makeGenomeDb.pl refs #14438
• src/hg/makeDb/trackDb/sacCer/multizYeast.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/sheep/oviAri3/trackDb.ra
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    Fixing typo found in code review. refs #14419
• src/hg/makeDb/trackDb/trackDb.chainNet.insects.ra
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    remove alpha release tag for droSim1 droSec1 droPer1 anoGam1 refs #4049
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    remove alpha release tag for dm6 refs #4049
• src/hg/makeDb/trackDb/trackDb.ra
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    now using trackDb.chainNet.insects.ra refs #4049
• src/hg/makeDb/trackDb/worm/ce10/cons7way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/worm/ce10/cons9way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/worm/ce6/multiz6way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/worm/ce6/phastConsElements6way.html
  • lines changed 8, context: html, text, full: html, text
    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makeDb/trackDb/xenTro/xenTro3/cons9way.html
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    Adding new Lastz reference to Conservation track page of any assembly added in 2007 or later. Also updated references on many of the Conservation track pages. refs #14061
• src/hg/makefile
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    added liftOver to list of test that are atomatically run
• src/hg/utils/automation/EnsGeneAutomate.pm
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    adding definitions for v78 release refs #14462
• src/hg/utils/hubPublicCheck/makefile
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    better makefile for utils apps build refs #14364
• src/hg/utils/makefile
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    adding hubPublicCheck to the public build refs #14364
• src/hg/utils/otto/clinvar/clinVarToBed
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    hinting at the pathogenic status with itemRgb
• src/utils/qa/weeklybld/buildEnv.csh
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    v310 preview1 refs #14494

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