All File Changes

v363_base to v364_preview (2018-03-26 to 2018-04-02) v364

• src/hg/cirm/cdw/cdwMakeValidFile/cdwMakeValidFile.c
  • lines changed 16, context: html, text, full: html, text
    bc9feb9a6512078e52149ffb1bb0eff266d62339 Sat Mar 31 14:01:26 2018 -0700
    Fixing bug caused by our last race mitigation. We were no longer getting duplicate rows in cdwValidFile, but now the babyName was not getting changed to a licensePlate after a successful retry.
• src/hg/cirm/cdw/cdwQaAgent/cdwQaAgent
  • lines changed 13, context: html, text, full: html, text
    d12952c125be21476e79af0676064e8fe3b3a9f1 Wed Mar 28 22:02:52 2018 -0700
    adding missing cdwQaAgent script used by pipeline for validation. adding missing cdwCreateGroup to makefile.
• src/hg/cirm/cdw/cdwQaAgent/makefile
  • lines changed 2, context: html, text, full: html, text
    d12952c125be21476e79af0676064e8fe3b3a9f1 Wed Mar 28 22:02:52 2018 -0700
    adding missing cdwQaAgent script used by pipeline for validation. adding missing cdwCreateGroup to makefile.
  • lines changed 3, context: html, text, full: html, text
    1cfdc355ddaee18b9bbd275b7185ac79a8548d3d Fri Mar 30 23:39:39 2018 -0700
    fixed clean target in makefile
• src/hg/cirm/cdw/makefile
  • lines changed 2, context: html, text, full: html, text
    d12952c125be21476e79af0676064e8fe3b3a9f1 Wed Mar 28 22:02:52 2018 -0700
    adding missing cdwQaAgent script used by pipeline for validation. adding missing cdwCreateGroup to makefile.
• src/hg/cirm/cdw/oneShot/cdwJobCleanFailed/cdwJobCleanFailed.c
  • lines changed 126, context: html, text, full: html, text
    2d67474e380be456bfb674a61553cfa0f3d4ad90 Fri Mar 30 23:32:21 2018 -0700
    adding a hack of a little program to clean out failed job rows (and duplicate success rows) from cdwJob. Only to be run when the batch is no active with anything queued or running, and there are still some failures which were not fixed by the previous retry. Then run this program and it will clear out the cdwJob table for the given submitId, leaving only failed jobs that were NOT successfully re-run later. This allows it to mitigate a bug in cdwCheckValidation retry.
• src/hg/cirm/cdw/oneShot/cdwJobCleanFailed/makefile
  • lines changed 3, context: html, text, full: html, text
    2d67474e380be456bfb674a61553cfa0f3d4ad90 Fri Mar 30 23:32:21 2018 -0700
    adding a hack of a little program to clean out failed job rows (and duplicate success rows) from cdwJob. Only to be run when the batch is no active with anything queued or running, and there are still some failures which were not fixed by the previous retry. Then run this program and it will clear out the cdwJob table for the given submitId, leaving only failed jobs that were NOT successfully re-run later. This allows it to mitigate a bug in cdwCheckValidation retry.
• src/hg/hgTracks/gencodeTracks.c
  • lines changed 1, context: html, text, full: html, text
    0894a7b7b123ba04bc474582e17b8af408cbb1af Mon Mar 26 11:40:05 2018 -0700
    gp was freed -- but it is used later during the draw stage for baseColoring, so don't free it here.
• src/hg/hgTracks/interactTrack.c
  • lines changed 23, context: html, text, full: html, text
    6db4d4f2dcc485622fe4b22f33c796d708c6fdea Mon Mar 26 16:28:35 2018 -0700
    Fixes to click handling. refs #17512
  • lines changed 30, context: html, text, full: html, text
    512679230186222fff846896d49d97d13b8d7e0e Tue Mar 27 14:39:58 2018 -0700
    Fix score display on mouseover, and cleanup item color code. refs #21109
  • lines changed 3, context: html, text, full: html, text
    cc56440c7eaef93003f3599de4ad38310549f209 Tue Mar 27 14:55:41 2018 -0700
    Fix problem found by QA note #22 (thanks Jairo!). refs #21109
  • lines changed 1, context: html, text, full: html, text
    eef613fa32e9478764c69f7e38420cdf1168e60c Wed Mar 28 15:18:09 2018 -0700
    Fix the fix (note #22). refs #21109
• src/hg/hgVai/hgVai.c
  • lines changed 5, context: html, text, full: html, text
    205d43b94283eb56c77a64f5e86e2a77295ab750 Mon Mar 12 10:38:40 2018 -0700
    hgVai: Add options for HGVS output from Gencode Basic/Comp tracks (not just RefSeq). Use variantProjector instead of gpFx to do predictions for genePreds by converting to PSL+CDS. refs #21142 The use of variantProjector resulted in significant changes to hg/lib/tests results: pgSnpKgDbToGpFx.txt: right-shifting, 'Z' -> '*' vepIndelTrimOut.txt: * right-shifting * per-allele consequences even for variants where allele doesn't affect consequence e.g. intron... this is a drawback, would be good to filter these after the fact to reduce to a single consequence * right-shifting intron -> splice_region for gene LSP1 * right-shifting coding_sequence_variant into just 3_prime_UTR_variant for ORJ81 * recognition of genome missing a base for EI24 (so insC restores frame and restores missing codon from genome-compensating transcripts) * exon numbers changing due to not counting too-short introns
• src/hg/hgc/interactClick.c
  • lines changed 35, context: html, text, full: html, text
    6db4d4f2dcc485622fe4b22f33c796d708c6fdea Mon Mar 26 16:28:35 2018 -0700
    Fixes to click handling. refs #17512
  • lines changed 5, context: html, text, full: html, text
    3f112eba0af44ffe8b5c15c7721f3e850afe9276 Wed Mar 28 15:14:07 2018 -0700
    Expand schema to include strand for each endpoint (request by Braney and Daniel Zerbino, to enable future support of rearrangements as well as bedPE). refs #21109
• src/hg/htdocs/goldenPath/gbdDescriptions.html
  • lines changed 3, context: html, text, full: html, text
    0f2f2657feb9aea7777973ed42670ef6d730fdfb Tue Mar 27 10:32:26 2018 -0700
    completing removal of .cse. in docs. refs #19134
• src/hg/htdocs/goldenPath/help/bigBed.html
  • lines changed 1, context: html, text, full: html, text
    0f2f2657feb9aea7777973ed42670ef6d730fdfb Tue Mar 27 10:32:26 2018 -0700
    completing removal of .cse. in docs. refs #19134
• src/hg/htdocs/goldenPath/help/bigMaf.html
  • lines changed 1, context: html, text, full: html, text
    25a9887b0e27d67c94d05c3a05e6cc6a306eb089 Mon Apr 2 09:14:53 2018 -0700
    Fixing typo in cut command for bigMaf, from Hiram email
• src/hg/htdocs/goldenPath/help/bigWig.html
  • lines changed 2, context: html, text, full: html, text
    0f2f2657feb9aea7777973ed42670ef6d730fdfb Tue Mar 27 10:32:26 2018 -0700
    completing removal of .cse. in docs. refs #19134
• src/hg/htdocs/goldenPath/help/gbib.html
  • lines changed 1, context: html, text, full: html, text
    0f2f2657feb9aea7777973ed42670ef6d730fdfb Tue Mar 27 10:32:26 2018 -0700
    completing removal of .cse. in docs. refs #19134
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 55, context: html, text, full: html, text
    febe48affe69dedcac36454f465faa7f62890099 Tue Mar 27 08:50:21 2018 -0700
    Staging hgCollection news, Jairo The Awesome to push out for release, refs #21066
• src/hg/htdocs/images/Pan_troglodytes.jpg
  • lines changed 0, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/htdocs/images/hgCollectionNewsDemo.jpg
  • lines changed 0, context: html, text, full: html, text
    1c2b499c076e5fecb27476ecfaba1ab4d5b15974 Tue Mar 27 08:33:42 2018 -0700
    Staging hgCollection news blurb image, rm #21066
• src/hg/htdocs/images/homeIconSprite.png
  • lines changed 0, context: html, text, full: html, text
    8dd59121a680c36d939fc3393873e11c16faee95 Mon Apr 2 09:58:26 2018 -0700
    Replacing home icon with one with a more transparent background, no ticket
• src/hg/htdocs/inc/hgCollectionHelpInclude.html
  • lines changed 3, context: html, text, full: html, text
    febe48affe69dedcac36454f465faa7f62890099 Tue Mar 27 08:50:21 2018 -0700
    Staging hgCollection news, Jairo The Awesome to push out for release, refs #21066
• src/hg/htdocs/indexNews.html
  • lines changed 10, context: html, text, full: html, text
    febe48affe69dedcac36454f465faa7f62890099 Tue Mar 27 08:50:21 2018 -0700
    Staging hgCollection news, Jairo The Awesome to push out for release, refs #21066
• src/hg/htdocs/staff.html
  • lines changed 1, context: html, text, full: html, text
    b68c8a38b1659ae3b246d41d453c68c347c026b2 Mon Mar 26 11:01:25 2018 -0700
    updating staff page, no rm
• src/hg/inc/interact.h
  • lines changed 9, context: html, text, full: html, text
    6db4d4f2dcc485622fe4b22f33c796d708c6fdea Mon Mar 26 16:28:35 2018 -0700
    Fixes to click handling. refs #17512
  • lines changed 11, context: html, text, full: html, text
    3f112eba0af44ffe8b5c15c7721f3e850afe9276 Wed Mar 28 15:14:07 2018 -0700
    Expand schema to include strand for each endpoint (request by Braney and Daniel Zerbino, to enable future support of rearrangements as well as bedPE). refs #21109
• src/hg/inc/interactUi.h
  • lines changed 1, context: html, text, full: html, text
    512679230186222fff846896d49d97d13b8d7e0e Tue Mar 27 14:39:58 2018 -0700
    Fix score display on mouseover, and cleanup item color code. refs #21109
• src/hg/js/hgVai.js
  • lines changed 4, context: html, text, full: html, text
    205d43b94283eb56c77a64f5e86e2a77295ab750 Mon Mar 12 10:38:40 2018 -0700
    hgVai: Add options for HGVS output from Gencode Basic/Comp tracks (not just RefSeq). Use variantProjector instead of gpFx to do predictions for genePreds by converting to PSL+CDS. refs #21142 The use of variantProjector resulted in significant changes to hg/lib/tests results: pgSnpKgDbToGpFx.txt: right-shifting, 'Z' -> '*' vepIndelTrimOut.txt: * right-shifting * per-allele consequences even for variants where allele doesn't affect consequence e.g. intron... this is a drawback, would be good to filter these after the fact to reduce to a single consequence * right-shifting intron -> splice_region for gene LSP1 * right-shifting coding_sequence_variant into just 3_prime_UTR_variant for ORJ81 * recognition of genome missing a base for EI24 (so insC restores frame and restores missing codon from genome-compensating transcripts) * exon numbers changing due to not counting too-short introns
• src/hg/lib/annoGratorGpVar.c
  • lines changed 216, context: html, text, full: html, text
    205d43b94283eb56c77a64f5e86e2a77295ab750 Mon Mar 12 10:38:40 2018 -0700
    hgVai: Add options for HGVS output from Gencode Basic/Comp tracks (not just RefSeq). Use variantProjector instead of gpFx to do predictions for genePreds by converting to PSL+CDS. refs #21142 The use of variantProjector resulted in significant changes to hg/lib/tests results: pgSnpKgDbToGpFx.txt: right-shifting, 'Z' -> '*' vepIndelTrimOut.txt: * right-shifting * per-allele consequences even for variants where allele doesn't affect consequence e.g. intron... this is a drawback, would be good to filter these after the fact to reduce to a single consequence * right-shifting intron -> splice_region for gene LSP1 * right-shifting coding_sequence_variant into just 3_prime_UTR_variant for ORJ81 * recognition of genome missing a base for EI24 (so insC restores frame and restores missing codon from genome-compensating transcripts) * exon numbers changing due to not counting too-short introns
• src/hg/lib/hui.c
  • lines changed 2, context: html, text, full: html, text
    1ba9bbfc04ca370a4830141fe7a9160669411563 Sat Mar 31 22:01:49 2018 -0700
    move incorrect check for wgEncodeSangerGencode track
• src/hg/lib/interact.as
  • lines changed 1, context: html, text, full: html, text
    6db4d4f2dcc485622fe4b22f33c796d708c6fdea Mon Mar 26 16:28:35 2018 -0700
    Fixes to click handling. refs #17512
  • lines changed 7, context: html, text, full: html, text
    3f112eba0af44ffe8b5c15c7721f3e850afe9276 Wed Mar 28 15:14:07 2018 -0700
    Expand schema to include strand for each endpoint (request by Braney and Daniel Zerbino, to enable future support of rearrangements as well as bedPE). refs #21109
• src/hg/lib/interact.c
  • lines changed 38, context: html, text, full: html, text
    6db4d4f2dcc485622fe4b22f33c796d708c6fdea Mon Mar 26 16:28:35 2018 -0700
    Fixes to click handling. refs #17512
  • lines changed 36, context: html, text, full: html, text
    3f112eba0af44ffe8b5c15c7721f3e850afe9276 Wed Mar 28 15:14:07 2018 -0700
    Expand schema to include strand for each endpoint (request by Braney and Daniel Zerbino, to enable future support of rearrangements as well as bedPE). refs #21109
• src/hg/lib/interact.sql
  • lines changed 16, context: html, text, full: html, text
    3f112eba0af44ffe8b5c15c7721f3e850afe9276 Wed Mar 28 15:14:07 2018 -0700
    Expand schema to include strand for each endpoint (request by Braney and Daniel Zerbino, to enable future support of rearrangements as well as bedPE). refs #21109
• src/hg/lib/interactUi.c
  • lines changed 1, context: html, text, full: html, text
    5b1a9a30e0a50a6464a420a093784d3b5f6e7c7d Tue Mar 27 15:13:25 2018 -0700
    Fix score display on mouseover, and cleanup item color code. refs #21109
• src/hg/lib/tests/expected/annoGrator/pgSnpKgDbToGpFx.txt
  • lines changed 20, context: html, text, full: html, text
    205d43b94283eb56c77a64f5e86e2a77295ab750 Mon Mar 12 10:38:40 2018 -0700
    hgVai: Add options for HGVS output from Gencode Basic/Comp tracks (not just RefSeq). Use variantProjector instead of gpFx to do predictions for genePreds by converting to PSL+CDS. refs #21142 The use of variantProjector resulted in significant changes to hg/lib/tests results: pgSnpKgDbToGpFx.txt: right-shifting, 'Z' -> '*' vepIndelTrimOut.txt: * right-shifting * per-allele consequences even for variants where allele doesn't affect consequence e.g. intron... this is a drawback, would be good to filter these after the fact to reduce to a single consequence * right-shifting intron -> splice_region for gene LSP1 * right-shifting coding_sequence_variant into just 3_prime_UTR_variant for ORJ81 * recognition of genome missing a base for EI24 (so insC restores frame and restores missing codon from genome-compensating transcripts) * exon numbers changing due to not counting too-short introns
• src/hg/lib/tests/expected/annoGrator/vepOutIndelTrim.txt
  • lines changed 89, context: html, text, full: html, text
    205d43b94283eb56c77a64f5e86e2a77295ab750 Mon Mar 12 10:38:40 2018 -0700
    hgVai: Add options for HGVS output from Gencode Basic/Comp tracks (not just RefSeq). Use variantProjector instead of gpFx to do predictions for genePreds by converting to PSL+CDS. refs #21142 The use of variantProjector resulted in significant changes to hg/lib/tests results: pgSnpKgDbToGpFx.txt: right-shifting, 'Z' -> '*' vepIndelTrimOut.txt: * right-shifting * per-allele consequences even for variants where allele doesn't affect consequence e.g. intron... this is a drawback, would be good to filter these after the fact to reduce to a single consequence * right-shifting intron -> splice_region for gene LSP1 * right-shifting coding_sequence_variant into just 3_prime_UTR_variant for ORJ81 * recognition of genome missing a base for EI24 (so insC restores frame and restores missing codon from genome-compensating transcripts) * exon numbers changing due to not counting too-short introns
• src/hg/lib/variantProjector.c
  • lines changed 42, context: html, text, full: html, text
    e83a6e8aac3501b503ca69156cfae2187ebd619a Fri Mar 23 12:36:04 2018 -0700
    Make vpTranscriptToGpFx more consistent with gpFxPredEffect for frameshift variants by including full sequences for {codon,aa}{Old,New}. refs #21142
• src/hg/makeDb/doc/felCat9/initialBuild.txt
  • lines changed 1, context: html, text, full: html, text
    6591cc19941330f314782433e25071fded0b383b Mon Mar 26 11:00:22 2018 -0700
    correct blatServers entry refs #21043
• src/hg/makeDb/doc/hg38/lastzRuns.txt
  • lines changed 86, context: html, text, full: html, text
    c298bdb9715ab130b1f3b10de2aca3adda0dbd36 Tue Mar 27 10:36:15 2018 -0700
    completed hg38 and mm10 lastz/chainNet refs #20980
• src/hg/makeDb/doc/mm10.txt
  • lines changed 80, context: html, text, full: html, text
    c298bdb9715ab130b1f3b10de2aca3adda0dbd36 Tue Mar 27 10:36:15 2018 -0700
    completed hg38 and mm10 lastz/chainNet refs #20980
• src/hg/makeDb/doc/ponAbe3/initialBuild.txt
  • lines changed 284, context: html, text, full: html, text
    c298bdb9715ab130b1f3b10de2aca3adda0dbd36 Tue Mar 27 10:36:15 2018 -0700
    completed hg38 and mm10 lastz/chainNet refs #20980
• src/hg/makeDb/genbank/etc/align.dbs
  • lines changed 1, context: html, text, full: html, text
    2353159ee4baa6788e8ede16c922e7d1cd602fe2 Mon Mar 26 11:14:36 2018 -0700
    adding ponAbe3/cat refs #20980
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 23, context: html, text, full: html, text
    2353159ee4baa6788e8ede16c922e7d1cd602fe2 Mon Mar 26 11:14:36 2018 -0700
    adding ponAbe3/cat refs #20980
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 2, context: html, text, full: html, text
    2353159ee4baa6788e8ede16c922e7d1cd602fe2 Mon Mar 26 11:14:36 2018 -0700
    adding ponAbe3/cat refs #20980
• src/hg/makeDb/trackDb/blatFr1.html
  • lines changed 1, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chicken/snp147.shared.html
  • lines changed 32, context: html, text, full: html, text
    986242c1a32733cd75ce3242499aa586ebcb4c78 Thu Mar 29 08:22:43 2018 -0700
    Fixing broken links for galGal5, no Redmine.
• src/hg/makeDb/trackDb/chimp/bacEndPairs.html
  • lines changed 2, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro1/axtNetHg16.html
  • lines changed 3, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro1/ctgPos.html
  • lines changed 2, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro1/description.html
  • lines changed 6, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/chimp/panTro1/gold.html
  • lines changed 2, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro1/humanDels.html
  • lines changed 4, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro1/snp125.html
  • lines changed 8, context: html, text, full: html, text
    46a2443af9a83469692baf6119cf37ee1c7a6a8f Tue Mar 27 10:29:35 2018 -0700
    Fixing broken links for panTro1, no Redmine.
• src/hg/makeDb/trackDb/chimp/panTro2/description.html
  • lines changed 6, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/chimp/panTro3/description.html
  • lines changed 6, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/chimp/panTro4/description.html
  • lines changed 3, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/chimp/panTro5/description.html
  • lines changed 3, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/chimp/panTro6/description.html
  • lines changed 3, context: html, text, full: html, text
    ed844818e7f382dc81ac32f8e331ce123c08e7d6 Wed Mar 28 14:19:04 2018 -0700
    changing chimp image to actual Clint and changing photo credit
• src/hg/makeDb/trackDb/drosophila/dm6/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/drosophila/trackDb.ra
  • lines changed 4, context: html, text, full: html, text
    0825d62a08f82ef33359842880e9424d4ab11ec4 Thu Mar 29 10:50:46 2018 -0700
    eliminate refGene overrides refs #20215
• src/hg/makeDb/trackDb/orangutan/ponAbe3/trackDb.ra
  • lines changed 5, context: html, text, full: html, text
    43d1da85314892351163cdbdc455f6b755f9d0f0 Mon Mar 26 14:39:00 2018 -0700
    add gold/assembly search rule refs #20980
• src/hg/makeDb/trackDb/rat/rn6/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/rat/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    a1dbf724141584bc217ed0834985f31e4b143afc Thu Mar 29 12:37:18 2018 -0700
    Fixing refGene overrides for rn6 and ce11, refs #20215
• src/hg/makeDb/trackDb/sacCer/sacCer3/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/worm/ce11/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/worm/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    a1dbf724141584bc217ed0834985f31e4b143afc Thu Mar 29 12:37:18 2018 -0700
    Fixing refGene overrides for rn6 and ce11, refs #20215
• src/hg/makeDb/trackDb/xenTro/xenTro7/trackDb.ra
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    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/xenTro/xenTro9/trackDb.ra
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    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/zebrafish/danRer10/trackDb.ra
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    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/makeDb/trackDb/zebrafish/danRer11/trackDb.ra
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    0f8f02cfe2c1640a463b3301a421ad31126a3b4d Thu Mar 29 10:22:52 2018 -0700
    Adding beta release tag to NCBI RefSeq tracks for non-human model orgs, refs #20215
• src/hg/utils/automation/HgAutomate.pm
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    06f60068a0de355358219ac069df1195add93ccb Thu Mar 29 12:54:31 2018 -0700
    clean up path names in blastz-run-ucsc and add noHost option for dbHost argument refs #18874
• src/hg/utils/automation/blastz-run-ucsc
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    06f60068a0de355358219ac069df1195add93ccb Thu Mar 29 12:54:31 2018 -0700
    clean up path names in blastz-run-ucsc and add noHost option for dbHost argument refs #18874
• src/hg/utils/automation/doBlastzChainNet.pl
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    06f60068a0de355358219ac069df1195add93ccb Thu Mar 29 12:54:31 2018 -0700
    clean up path names in blastz-run-ucsc and add noHost option for dbHost argument refs #18874
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    7ef6ca622f7f5f8e8d15cc3e8c0cc40bafb25565 Thu Mar 29 17:17:17 2018 -0700
    cleanup syntenic net when zero result refs #18874
• src/hg/utils/automation/doRecipBest.pl
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    e67cb260d2dfa553eb01402526eef0fb28b6fbcd Thu Mar 29 18:42:21 2018 -0700
    add skipDownload option and complete load bigBed construction when db does not exist refs #18874
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    66afcba20d10fa309fa23cb334a1828a7bcfc985 Thu Mar 29 20:49:10 2018 -0700
    better consistent name for the featureBits result refs #18874
• src/utils/qa/weeklybld/buildEnv.csh
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    0bed3906b7c99c93eca430c70bd4e09340d15e82 Mon Apr 2 09:59:33 2018 -0700
    v364 preview1 refs #21106
• src/utils/qa/weeklybld/doNewBranch.csh
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    8e89f3fab99781016c94b1d7f149bb3f7b1a4882 Thu Mar 29 14:27:05 2018 -0700
    remove cath email from build scripts no redmine
• src/utils/qa/weeklybld/doNewReview.csh
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    8e89f3fab99781016c94b1d7f149bb3f7b1a4882 Thu Mar 29 14:27:05 2018 -0700
    remove cath email from build scripts no redmine
• src/utils/qa/weeklybld/doNewReview2.csh
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    8e89f3fab99781016c94b1d7f149bb3f7b1a4882 Thu Mar 29 14:27:05 2018 -0700
    remove cath email from build scripts no redmine

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