All File Changes
v278_preview to v278_preview2 (2013-01-08 to 2013-01-15) v278
- .gitignore
- src/hg/hgBlat/hgBlat.c
- lines changed 38, context: html, text, full: html, text
fixing blat documentation to match our use of stepSize=5 with hgBlat/gfServer which we have been doing since hgPcr came out.
- src/hg/hgFileUi/hgFileUi.c
- lines changed 2, context: html, text, full: html, text
Fix problem introduced by #9328. #9944 hgFileUi track description appears twice
- src/hg/hgGene/hgGene.c
- lines changed 4, context: html, text, full: html, text
fix bug in first fix in #9668 where hgGene crashed near the bottom of the page which is why no one caught it. Also, added a little code to save position in cart after getting it from a gene name.
- src/hg/hgGene/synonym.c
- lines changed 6, context: html, text, full: html, text
fix bug in first fix in #9668 where hgGene crashed near the bottom of the page which is why no one caught it. Also, added a little code to save position in cart after getting it from a gene name.
- src/hg/hgc/hgc.c
- lines changed 17, context: html, text, full: html, text
redmine 9269: Change track exonJunctionPrimers to of type bedDetail 14 to minimize impact to hgc.c based on Hiram's feedback from CR #9927
- lines changed 1, context: html, text, full: html, text
fix linkout URL to DECIPHER #8840
- lines changed 1, context: html, text, full: html, text
Add hgc handler. #9954 ENCODE Regulation: DNase Clusters V2
- lines changed 5, context: html, text, full: html, text
Make hgc's doDgv SQL query more specific -- latest data has thousandsof nameless items, which were all appearing in hgc when clicking on one.
- lines changed 30, context: html, text, full: html, text
remove Stanford SOURCE link from refGene and few other places #9962
- lines changed 3, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/hgc/peakClusters.c
- lines changed 1, context: html, text, full: html, text
Sort cluster lists by metadata terms for more reliable ordering. Needed for #9954 ENCODE Regulation: DNase Clusters V2
- src/hg/htdocs/FAQ/FAQreleases.html
- lines changed 2, context: html, text, full: html, text
Added petMar2 (redmine #9153)
- lines changed 1, context: html, text, full: html, text
Updating release information for bosTau7 to 4.6.1 MLQ# 9936
- src/hg/htdocs/goldenPath/credits.html
- lines changed 3, context: html, text, full: html, text
Added petMar2 (redmine #9153)
- lines changed 7, context: html, text, full: html, text
Updated the lamprey credits section
- lines changed 1, context: html, text, full: html, text
Fixed a broken link in the lamprey section
- src/hg/htdocs/images/phylo/mm10_60way.gif
- lines changed 0, context: html, text, full: html, text
added s to Glire and Euarchontoglire in mm10_60way image
- src/hg/lib/clusterInputAwgDnase.as
- lines changed 8, context: html, text, full: html, text
Trim unneeded experiment accession from supplementary table. #9554 ENCODE Regulation: DNase Clusters V2
- src/hg/lib/clusterInputAwgDnase.c
- lines changed 139, context: html, text, full: html, text
Trim unneeded experiment accession from supplementary table. #9554 ENCODE Regulation: DNase Clusters V2
- src/hg/lib/clusterInputAwgDnase.h
- lines changed 64, context: html, text, full: html, text
Trim unneeded experiment accession from supplementary table. #9554 ENCODE Regulation: DNase Clusters V2
- src/hg/lib/clusterInputAwgDnase.sql
- lines changed 14, context: html, text, full: html, text
Trim unneeded experiment accession from supplementary table. #9554 ENCODE Regulation: DNase Clusters V2
- src/hg/lib/hdb.c
- lines changed 7, context: html, text, full: html, text
do a little clean-up on error if extFile is missing or wrong size. In response to code review #9929. Thanks Angie!
- src/hg/lib/hui.c
- lines changed 3, context: html, text, full: html, text
Limit override of displaySubtracks setting to large composites having a matrix (so large tracks w/o matrix can default show all subtracks)
- src/hg/lib/pgSnp.c
- lines changed 9, context: html, text, full: html, text
Fixing VCF-to-pgSnp translation for sketchy VCF from Complete Genomics that has AN(=0) and no AC.
- src/hg/lib/trackHub.c
- lines changed 2, context: html, text, full: html, text
increase limit of trackDb.txt to 64Mb. #9937We should probably look into whether we need to have a fixed limit at all
- src/hg/makeDb/doc/encodeAnalysisHg19/awg.txt
- lines changed 163, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 26, context: html, text, full: html, text
Rename Huh7.5 object as period in name bothered database. #9850 - ENCODE Uniform DNase1 HS
- lines changed 3, context: html, text, full: html, text
Creating the notes file. #9850 - ENCODE Uniform DNase1 HS
- lines changed 3, context: html, text, full: html, text
Needed to add metadata object for composite. #9850 - ENCODE Uniform DNase1 HS
- lines changed 3, context: html, text, full: html, text
Getting ready for QA. #9850 ENCODE Uniform DNase I HS track
- lines changed 184, context: html, text, full: html, text
More renames to make ENCODE tools happy. #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/doc/encodeAnalysisHg19/wgEncodeAwgDnaseUniform.release1.notes
- lines changed 287, context: html, text, full: html, text
Creating the notes file. #9850 - ENCODE Uniform DNase1 HS
- lines changed 287, context: html, text, full: html, text
Rename to make ENCODE tools happy. #9850 Uniform DNaseI HS
- src/hg/makeDb/doc/encodeAwgHg19/.awg.txt.swp
- lines changed 0, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/doc/encodeAwgHg19/awg.txt
- lines changed 154, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/doc/encodeDccHg19/awgUniform.txt
- lines changed 184, context: html, text, full: html, text
More renames to make ENCODE tools happy. #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeAwgDnaseUniform.release1.notes
- lines changed 287, context: html, text, full: html, text
Notes files for QA. #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/doc/encodeRegHg19.txt
- lines changed 793, context: html, text, full: html, text
Add make docs for ENCODE Regulation tracks (some pulled from hg18.txt)
- lines changed 61, context: html, text, full: html, text
Use AWG Dnase from new Uniform track as basis of Clustered DNase
- lines changed 115, context: html, text, full: html, text
Organize make doc and trackDb. #9954 ENCODE Regulation: DNase Clusters V2
- src/hg/makeDb/doc/encodeRegMm9.txt
- lines changed 15, context: html, text, full: html, text
Add make docs for ENCODE Regulation tracks (some pulled from hg18.txt)
- src/hg/makeDb/doc/hg19.txt
- lines changed 89, context: html, text, full: html, text
Starting V2 of ENCODE Regulation (#7526)
- lines changed 67, context: html, text, full: html, text
Added histones and TFBS, retrieving from EBI
- lines changed 40, context: html, text, full: html, text
Cluster DNase and load track
- lines changed 22, context: html, text, full: html, text
Finish formatting of RNA signal. Add to trackDb in Txn track
- lines changed 56, context: html, text, full: html, text
1. Add 10th cell type to Txn (HMEC). 2. Fix corrupt HepG2 Txn 3. Create track for Uniform DNase. #7526: ENCODE Regulation (V2)
- lines changed 55, context: html, text, full: html, text
Experiment with small RNA and FAIRE as potential tracks for ENCODE Regulation V2
- lines changed 196, context: html, text, full: html, text
Cluster TFBS from 2012 freeze
- lines changed 790, context: html, text, full: html, text
Move ENCODE Reg to its own make doc
- lines changed 4, context: html, text, full: html, text
Tools and trackDb updates. #7526: ENCODE regulation track update (in progress). #9954: DNase Clusters V2 (displayed on genome-test)
- lines changed 3, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/makeDb/doc/mm10.txt
- lines changed 3, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/makeDb/doc/mm9.txt
- lines changed 13, context: html, text, full: html, text
Start Mouse Integrated Regulatory track
- lines changed 14, context: html, text, full: html, text
Back out mm9 changes for now
- src/hg/makeDb/doc/musFur1.txt
- lines changed 1820, context: html, text, full: html, text
Adding new makedoc, for new assembly.
- lines changed 35, context: html, text, full: html, text
Updating makedoc, for new assembly.
- src/hg/makeDb/doc/ucscGenes/hg19.ucscGenes14.csh
- lines changed 27, context: html, text, full: html, text
ongoing work on UCSC genes for hg19 #9783
- src/hg/makeDb/mdbUpdate/mdbPrint.c
- lines changed 17, context: html, text, full: html, text
Enhancement to mdbPrint -composite option for readability of .ra file. It will now print the composite object first (previously relied strictly on alpha sorting)
- src/hg/makeDb/schema/all.joiner
- lines changed 5, context: html, text, full: html, text
adding identifier mm10Patch1ExtFileId for mm10 patch1
- lines changed 4, context: html, text, full: html, text
Added mm10 tablesIgnored section and added altSeqLiftOverPslP1 and altSeqPatchesP1 to it (redmine #8909)
- lines changed 1, context: html, text, full: html, text
add Mm10Patch1 to the chainDest list
- lines changed 1, context: html, text, full: html, text
Changed 'cpgIslandExt' back to 'cpgIsland%' per Brooke's code review (redmine #9919)
- lines changed 3, context: html, text, full: html, text
see redmine #9811 notes 3-4
- lines changed 1, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- lines changed 7, context: html, text, full: html, text
Added mm10snp137 to databasesIgnored. Moved the hg19.gwasCatalog/snp version reminder comment down (it moves with hg19.gwasCatalog.name).
- src/hg/makeDb/trackDb/apis/apiMel1/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/apis/apiMel2/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/chainNet.html
- lines changed 8, context: html, text, full: html, text
Changing references using getTrackReferences to point to NCBI Pubmed, QA of GCR Patch10 RM#9066
- src/hg/makeDb/trackDb/chicken/galGal2/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/chicken/galGal3/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/chicken/galGal4/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/drosophila/dm3/flyBaseGene.html
- lines changed 7, context: html, text, full: html, text
Updated journal links; dropped link to PubMed abstract; updated links to FlyBase
- src/hg/makeDb/trackDb/drosophila/dm3/flyBaseNoncoding.html
- lines changed 7, context: html, text, full: html, text
Updated journal links; dropped link to PubMed abstract; updated links to FlyBase
- src/hg/makeDb/trackDb/human/altSeqComposite.html
- lines changed 6, context: html, text, full: html, text
Changing references using getTrackReferences to point to NCBI Pubmed, QA of GCR Patch10 RM#9066
- src/hg/makeDb/trackDb/human/coriellDelDup.html
- lines changed 45, context: html, text, full: html, text
changes per data provider
- lines changed 1, context: html, text, full: html, text
dropped a comma per Luvina
- lines changed 4, context: html, text, full: html, text
small changes per coriell
- src/hg/makeDb/trackDb/human/decipher.html
- lines changed 25, context: html, text, full: html, text
Uodated journal link; made some other minor corrections (redmine #8840)
- src/hg/makeDb/trackDb/human/dgv.html
- lines changed 1, context: html, text, full: html, text
removing / on first /em to allow italics on references to show up for dgv.html RM#9401
- src/hg/makeDb/trackDb/human/hg19/chainSelf.html
- lines changed 12, context: html, text, full: html, text
Changing references using getTrackReferences to point to NCBI Pubmed, QA of GCR Patch10 RM#9066
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile
- lines changed 1, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeAwgDnase.ra
- lines changed 1854, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeAwgDnaseUniform.ra
- lines changed 1854, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 4, context: html, text, full: html, text
Rename Huh7.5 object as period in name bothered database. #9850 - ENCODE Uniform DNase1 HS
- lines changed 6, context: html, text, full: html, text
Needed to add metadata object for composite. #9850 - ENCODE Uniform DNase1 HS
- lines changed 7, context: html, text, full: html, text
Fix composite metadata object. #9850 - ENCODE Uniform DNase1 HS
- lines changed 10, context: html, text, full: html, text
Readability fix -- move composite object to start of file. Required tweak to mdbPrint. #9850 - ENCODE Uniform DNase1 HS
- lines changed 1, context: html, text, full: html, text
Add missing metadata. #9850 Uniform DNaseI HS
- lines changed 1, context: html, text, full: html, text
Magic number update. #9850 Uniform DNaseI HS
- lines changed 13, context: html, text, full: html, text
Add missing dccAccessions (mostly these are the treatment experiments) and fix an incorrect treatment. #9850 Uniform DNaseI HS
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/makefile
- lines changed 1, context: html, text, full: html, text
Staging Encode AWG DNase Uniform track (RM#9850) (Release 1) on beta
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeAwgDnaseUniform.ra
- lines changed 1866, context: html, text, full: html, text
Staging Encode AWG DNase Uniform track (RM#9850) (Release 1) on beta
- src/hg/makeDb/trackDb/human/hg19/trackDb.ra
- lines changed 6, context: html, text, full: html, text
Made adjustments for chain/net tracks to appear properly (redmine #9153)
- lines changed 2, context: html, text, full: html, text
Staging GRC hg19 Patch10 on beta, RM #9066
- lines changed 1, context: html, text, full: html, text
redmine 9269: Change track exonJunctionPrimers to of type bedDetail 14 to minimize impact to hgc.c based on Hiram's feedback from CR #9927
- lines changed 1, context: html, text, full: html, text
Adding GRC 9 back to alpha, should have only removed it from beta, RM#9066
- lines changed 2, context: html, text, full: html, text
Adding GRC Patch 10 for RR release, removing patch 9, RM#9066
- lines changed 2, context: html, text, full: html, text
updated gwas info with snp137, redmine #9811
- lines changed 1, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
- lines changed 3, context: html, text, full: html, text
Cluster DNase and load track
- lines changed 14, context: html, text, full: html, text
Merge branch 'master' into reg
- lines changed 3, context: html, text, full: html, text
1. Add 10th cell type to Txn (HMEC). 2. Fix corrupt HepG2 Txn 3. Create track for Uniform DNase. #7526: ENCODE Regulation (V2)
- lines changed 3, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 1, context: html, text, full: html, text
Corrections to pubs section of track description. #9850 - ENCODE Uniform DNase1 HS
- lines changed 5, context: html, text, full: html, text
Organize make doc and trackDb. #9954 ENCODE Regulation: DNase Clusters V2
- lines changed 1, context: html, text, full: html, text
Staging Encode AWG DNase Uniform track (RM#9850) (Release 1) on beta
- src/hg/makeDb/trackDb/human/hg19/wgEncodeAwgDnase.ra
- lines changed 894, context: html, text, full: html, text
1. Add 10th cell type to Txn (HMEC). 2. Fix corrupt HepG2 Txn 3. Create track for Uniform DNase. #7526: ENCODE Regulation (V2)
- lines changed 911, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/trackDb/human/hg19/wgEncodeAwgDnaseUniPk.html
- lines changed 59, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/trackDb/human/hg19/wgEncodeAwgDnaseUniform.html
- lines changed 59, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 11, context: html, text, full: html, text
Corrections to pubs section of track description. #9850 - ENCODE Uniform DNase1 HS
- lines changed 46, context: html, text, full: html, text
Major pass on track description. #9850 - ENCODE Uniform DNase1 HS
- src/hg/makeDb/trackDb/human/hg19/wgEncodeAwgDnaseUniform.ra
- lines changed 911, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 2, context: html, text, full: html, text
Some renames for clarity/consistency (and to make ENCODE tools happy). #9850 - ENCODE Uniform DNase1 HS
- lines changed 5, context: html, text, full: html, text
Fix signal filtering settings. #9850 - ENCODE Uniform DNase1 HS
- lines changed 1, context: html, text, full: html, text
Rename Huh7.5 object as period in name bothered database. #9850 - ENCODE Uniform DNase1 HS
- lines changed 2, context: html, text, full: html, text
Prune overlong track labels found by QA. #9850 ENCODE Uniform DNaseI HS
- lines changed 127, context: html, text, full: html, text
Trim trackDb to remove redundacies and to make filters consistent (subtrack vs. composite). Response to QA. #9850 ENCODE Uniform DNaseI HS
- lines changed 132, context: html, text, full: html, text
Reverting track type. NarrowPeak visibilities don't seem to work properly at composite level (only shows 3 vis options).
- src/hg/makeDb/trackDb/human/hg19/wgEncodeReg.release4.ra
- lines changed 366, context: html, text, full: html, text
Organize make doc and trackDb. #9954 ENCODE Regulation: DNase Clusters V2
- lines changed 1, context: html, text, full: html, text
Tools and trackDb updates. #7526: ENCODE regulation track update (in progress). #9954: DNase Clusters V2 (displayed on genome-test)
- src/hg/makeDb/trackDb/human/hg19/wgEncodeRegDnaseClustered.release2.html
- lines changed 28, context: html, text, full: html, text
Track description for updated track. #9954 ENCODE Regulation: DNase Clusters V2
- lines changed 30, context: html, text, full: html, text
Add Methods section to track description. Other refinements. #9954: ENCODE Regulation: DNase Clusters V2
- src/hg/makeDb/trackDb/human/hg19/wgEncodeRegV2.ra
- lines changed 100, context: html, text, full: html, text
Finish formatting of RNA signal. Add to trackDb in Txn track
- lines changed 16, context: html, text, full: html, text
Add HeLa and HepG2 to Txn
- lines changed 15, context: html, text, full: html, text
1. Add 10th cell type to Txn (HMEC). 2. Fix corrupt HepG2 Txn 3. Create track for Uniform DNase. #7526: ENCODE Regulation (V2)
- lines changed 126, context: html, text, full: html, text
Add experimental short RNA and Transfac/Jaspar motif tracks to look at in context of integrated regulatory track update
- lines changed 2, context: html, text, full: html, text
Use AWG Dnase from new Uniform track as basis of Clustered DNase
- src/hg/makeDb/trackDb/human/hg19Patch10/trackDb.ra
- lines changed 0, context: html, text, full: html, text
adding hg19Patch10 to the build
- src/hg/makeDb/trackDb/human/omimAvSnp.html
- lines changed 2, context: html, text, full: html, text
the omim track nows gets SNP's out of snp137 instead of snp132 #7311
- src/hg/makeDb/trackDb/human/trackDb.ra
- lines changed 2, context: html, text, full: html, text
changes per data provider
- src/hg/makeDb/trackDb/lamprey/petMar2/cons7way.html
- lines changed 1, context: html, text, full: html, text
Fixed journal URL - updated from early version to final version - per Brooke's code review (redmine #9919)
- src/hg/makeDb/trackDb/lamprey/trackDb.chainNet.ra
- lines changed 3, context: html, text, full: html, text
Made adjustments for chain/net tracks to appear properly (redmine #9153)
- src/hg/makeDb/trackDb/makefile
- lines changed 1, context: html, text, full: html, text
adding hg19Patch10 to the build so it can have a trackDb file
- src/hg/makeDb/trackDb/medaka/oryLat1/description.html
- src/hg/makeDb/trackDb/medaka/oryLat2/description.html
- src/hg/makeDb/trackDb/medaka/trackDb.chainNet.ra
- lines changed 1, context: html, text, full: html, text
Removed release tag from petMar1 entry
- src/hg/makeDb/trackDb/mouse/mm10/trackDb.60way.ra
- lines changed 22, context: html, text, full: html, text
changed names from Glire to Glires and same for Euarchontoglires
- src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra
- lines changed 1, context: html, text, full: html, text
redmine 9269: Change track exonJunctionPrimers to of type bedDetail 14 to minimize impact to hgc.c based on Hiram's feedback from CR #9927
- lines changed 1, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/makeDb/trackDb/mouse/mm10/trackDb.vertebrateChainNet.ra
- lines changed 4, context: html, text, full: html, text
Made adjustments for chain/net tracks to appear properly (redmine #9153)
- src/hg/makeDb/trackDb/opossum/monDom1/description.html
- lines changed 2, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/opossum/monDom2/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/opossum/monDom4/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/opossum/monDom5/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/qPcrPrimers.html
- lines changed 91, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- lines changed 7, context: html, text, full: html, text
Changed format of quotes in text to be html-friendly.
- lines changed 62, context: html, text, full: html, text
Whitespace changes. Also fixed a few more instances of non-html-friendly quotes.
- src/hg/makeDb/trackDb/qpcrPrimers.html
- lines changed 91, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/makeDb/trackDb/rat/rn1/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/rat/rn2/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/rat/rn3/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/rat/rn4/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/rat/rn5/description.html
- lines changed 1, context: html, text, full: html, text
Added '%20' into photo links per Brooke's code review (redmine #9919); also fixed a broken link in monDom1
- src/hg/makeDb/trackDb/tagTypes.tab
- lines changed 1, context: html, text, full: html, text
changed names from Glire to Glires and same for Euarchontoglires
- lines changed 2, context: html, text, full: html, text
Removed 'glire' and 'euarchontoglire' lines
- src/hg/makeDb/trackDb/trackDb.chainNet.ra
- lines changed 1, context: html, text, full: html, text
Uncommented the include statement for the chainNetPetMar1.ra file
- src/hg/makeDb/trackDb/trackDb.ra
- lines changed 1, context: html, text, full: html, text
redmine 9269: Change track exonJunctionPrimers to of type bedDetail 14 to minimize impact to hgc.c based on Hiram's feedback from CR #9927
- lines changed 3, context: html, text, full: html, text
redmine #9269 rename track, redmine title, and html file name from exonJunctionPrimers to qPcrPrimers.
- src/hg/oneShot/wgEncodeRegTfbsDedupeHelp/makefile
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Cluster TFBS from 2012 freeze
- src/hg/oneShot/wgEncodeRegTfbsDedupeHelp/wgEncodeRegTfbsDedupeHelp.c
- lines changed 71, context: html, text, full: html, text
Cluster TFBS from 2012 freeze
- src/hg/pslDiff/pslDiff.c
- lines changed 16, context: html, text, full: html, text
add an option to pslDiff to check for same locus #7568
- src/hg/regulate/regClusterAttachMetadataToTableOfTables/regClusterAttachMetadataToTableOfTables.c
- lines changed 21, context: html, text, full: html, text
Tools updates for next iteration of Integrated Regulatory track
- src/hg/regulate/regClusterBedExpCfg/regClusterBedExpCfg.c
- lines changed 11, context: html, text, full: html, text
Tools updates for next iteration of Integrated Regulatory track
- src/hg/regulate/regClusterMakeTableOfTables/regClusterMakeTableOfTables.c
- lines changed 9, context: html, text, full: html, text
Cluster DNase and load track
- lines changed 32, context: html, text, full: html, text
Tools updates for next iteration of Integrated Regulatory track
- src/hg/utils/automation/buildOmimTracks.csh
- lines changed 167, context: html, text, full: html, text
remove old versions of these scripts #5172
- src/hg/utils/automation/checkOmim.sh
- lines changed 129, context: html, text, full: html, text
remove old versions of these scripts #5172
- src/hg/utils/omim/buildOmimTracks.csh
- lines changed 1, context: html, text, full: html, text
the omim track nows gets SNP's out of snp137 instead of snp132 #7311
- src/inc/common.mk
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Make common.mk consistent with policy of not stripping binaries by default (Mark D. recommendation, on advisement from Hiram). This takes care of all those directories that haven't had strip removed or commented out of makefiles (e.g. tools)
- lines changed 1, context: html, text, full: html, text
Switch STRIP to true in the interests of minimalism (thanks Angie)
- src/lib/cheapcgi.c
- lines changed 18, context: html, text, full: html, text
calling exit(1) after receiving SIGTERM allows atexit cleanup when apache kills timed-out cgi
- src/utils/bedGraphToBigWig/bedGraphToBigWig.c
- lines changed 6, context: html, text, full: html, text
Changing setMaxAlloc default to 100G, and making an undocumented maxGigs command line option to address bedGraphToBigWigh memory issue in redmine #9935
- src/utils/qa/weeklybld/buildEnv.csh
- lines changed: 18162
- files changed: 186