All File Changes

v272_preview2 to v272_base (2012-08-21 to 2012-08-28) v272

• src/hg/hgLogin/hgLogin.c
  • lines changed 36, context: html, text, full: html, text
    Bug #8832 Modify hgLogin to use the right arguments depending on the version of mail on the system
  • lines changed 7, context: html, text, full: html, text
    Bug #8832 - Change mail.optionformat in hg.conf to mailx.version.
  • lines changed 16, context: html, text, full: html, text
    Undo Bug #8832 Modify hgLogin to use the right arguments depending on the version of mail on the system change
  • lines changed 5, context: html, text, full: html, text
    Bug 8832 using /usr/sbin/sendmail -t -oi option to send mail to user.
  • lines changed 7, context: html, text, full: html, text
    Minor identation change and typo coreection for bug 8832.
• src/hg/hgLogin/hgLogin.h
  • lines changed 1, context: html, text, full: html, text
    Bug #8832 Modify hgLogin to use the right arguments depending on the version of mail on the system
  • lines changed 1, context: html, text, full: html, text
    Bug #8832 - Change mail.optionformat in hg.conf to mailx.version.
  • lines changed 1, context: html, text, full: html, text
    Undo Bug #8832 Modify hgLogin to use the right arguments depending on the version of mail on the system change
• src/hg/hgTables/wiggle.c
  • lines changed 3, context: html, text, full: html, text
    Bug #8878 (Table browser fails after entering bad filter settings):Change errAbort to warning with suggestion for how to fix.
    
• src/hg/hgc/bigBedClick.c
  • lines changed 8, context: html, text, full: html, text
    adding score-filtering to bigBed hgc click
• src/hg/htdocs/ENCODE/index.html
  • lines changed 2, context: html, text, full: html, text
    Added new non-ENCODE publications page and new gateway page; made necessary modifications to other pages (redmine #8902)
• src/hg/htdocs/ENCODE/pubs.html
  • lines changed 5, context: html, text, full: html, text
    Added new non-ENCODE publications page and new gateway page; made necessary modifications to other pages (redmine #8902)
• src/hg/htdocs/ENCODE/pubsMain.html
  • lines changed 57, context: html, text, full: html, text
    Creating new pages for revised Publications section on ENCODE portal (redmine #8902)
  • lines changed 26, context: html, text, full: html, text
    Added new non-ENCODE publications page and new gateway page; made necessary modifications to other pages (redmine #8902)
• src/hg/htdocs/ENCODE/pubsOther.html
  • lines changed 1377, context: html, text, full: html, text
    Creating new pages for revised Publications section on ENCODE portal (redmine #8902)
  • lines changed 1124, context: html, text, full: html, text
    Added new non-ENCODE publications page and new gateway page; made necessary modifications to other pages (redmine #8902)
• src/hg/htdocs/goldenPath/pubs.html
  • lines changed 7, context: html, text, full: html, text
    Added mouse ENCODE pub.
  • lines changed 8, context: html, text, full: html, text
    added new pub
• src/hg/htdocs/images/Alligator_Mississippiensis.jpg
  • lines changed 0, context: html, text, full: html, text
    photo from Ed Green's Lab
• src/hg/inc/versionInfo.h
  • lines changed 1, context: html, text, full: html, text
    New version number v272
• src/hg/makeDb/doc/allMis1.txt
  • lines changed 71, context: html, text, full: html, text
    sequence ready for browser build
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeOpenChromChip.release2.notes
  • lines changed 272, context: html, text, full: html, text
    adding in notes files
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeOpenChromDnase.release3.notes
  • lines changed 1591, context: html, text, full: html, text
    adding in notes files
  • lines changed 22, context: html, text, full: html, text
    updating notes for open chrom dnase
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeOpenChromFaire.release2.notes
  • lines changed 206, context: html, text, full: html, text
    adding in notes
• src/hg/makeDb/doc/encodeDccMm9/wgEncodeCshlLongRnaSeq.release3.notes
  • lines changed 564, context: html, text, full: html, text
    Trying to clear up the issue with the Spleen samples
  • lines changed 9, context: html, text, full: html, text
    removed error in released and revoked
• src/hg/makeDb/doc/mm10.txt
  • lines changed 504, context: html, text, full: html, text
    completed rework of the phastCons phyloP groupings for the 60-way
  • lines changed 37, context: html, text, full: html, text
    downloads done for the new phastCons phyloP subsets
  • lines changed 4, context: html, text, full: html, text
    add note about phyloFit
• src/hg/makeDb/genbank/etc/dbload
  • lines changed 2, context: html, text, full: html, text
    add an option to not build the grepIndex, stop building it on beta #8906Also, fix the cleaning up of the temporary work space which wasn't working
    
• src/hg/makeDb/genbank/etc/hgwbeta-dbload
  • lines changed 1, context: html, text, full: html, text
    add an option to not build the grepIndex, stop building it on beta #8906Also, fix the cleaning up of the temporary work space which wasn't working
    
• src/hg/makeDb/genbank/etc/hgwbeta.dbs
  • lines changed 28, context: html, text, full: html, text
    Added 28 new assemblies.
• src/hg/makeDb/genbank/src/ccds/createKeys.sql
  • lines changed 1, context: html, text, full: html, text
    NCBI changed the schema (again)
• src/hg/makeDb/genbank/src/ccds/createTables.sql
  • lines changed 2, context: html, text, full: html, text
    NCBI changed the schema (again)
• src/hg/makeDb/genbank/src/ccds/ncbiSql/createKeys.sql
  • lines changed 10, context: html, text, full: html, text
    NCBI changed the schema (again)
• src/hg/makeDb/genbank/src/ccds/ncbiSql/createTables.sql
  • lines changed 2, context: html, text, full: html, text
    NCBI changed the schema (again)
• src/hg/makeDb/genbank/src/dbload/gbDbLoadStep
  • lines changed 5, context: html, text, full: html, text
    add an option to not build the grepIndex, stop building it on beta #8906Also, fix the cleaning up of the temporary work space which wasn't working
    
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 2, context: html, text, full: html, text
    Approved all chagnes in beta/cv.ra and moved to public/cv.ra. Also fixed label for JMJD2A_(A300-861A-1) to be JMJD2A_(A300-861A). Redmine #8850.
  • lines changed 19, context: html, text, full: html, text
    Fixing antibody validation docs in CV
  • lines changed 1, context: html, text, full: html, text
    Adding antibody YY1 validation doc to cv
  • lines changed 32, context: html, text, full: html, text
    Fixing antibodies order in CV
  • lines changed 5, context: html, text, full: html, text
    Adding antibody validation docs
  • lines changed 21, context: html, text, full: html, text
    Adding validation docs to CV
  • lines changed 2, context: html, text, full: html, text
    Deprecating HEY1 antibody
  • lines changed 6, context: html, text, full: html, text
    Adding antibody validation docs to CV
  • lines changed 4, context: html, text, full: html, text
    Fixing antibody validation doc names
• src/hg/makeDb/trackDb/cv/beta/cv.ra
  • lines changed 2, context: html, text, full: html, text
    Approved all chagnes in beta/cv.ra and moved to public/cv.ra. Also fixed label for JMJD2A_(A300-861A-1) to be JMJD2A_(A300-861A). Redmine #8850.
• src/hg/makeDb/trackDb/cv/public/cv.ra
  • lines changed 2014, context: html, text, full: html, text
    Approved all chagnes in beta/cv.ra and moved to public/cv.ra. Also fixed label for JMJD2A_(A300-861A-1) to be JMJD2A_(A300-861A). Redmine #8850.
• src/hg/makeDb/trackDb/gator/allMis1/description.html
  • lines changed 63, context: html, text, full: html, text
    initial contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gator/allMis1/gap.html
  • lines changed 30, context: html, text, full: html, text
    initial contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gator/allMis1/gold.html
  • lines changed 34, context: html, text, full: html, text
    initial contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gator/allMis1/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg18/wgEncodeSangerGencode.html
  • lines changed 7, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/chainCanFam2.ra
  • lines changed 7, context: html, text, full: html, text
    prepare for release of chain/net canFam3 to replace canFam2
• src/hg/makeDb/trackDb/human/hg19/chainCanFam3.ra
  • lines changed 7, context: html, text, full: html, text
    prepare for release of chain/net canFam3 to replace canFam2
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCshlLongRnaSeq.ra
  • lines changed 53, context: html, text, full: html, text
    Adding last two submissions
  • lines changed 122, context: html, text, full: html, text
    name change of spikeins
  • lines changed 825, context: html, text, full: html, text
    added GEO accession numbers for release 2 of CSHL long hg19
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra
  • lines changed 250, context: html, text, full: html, text
    adding in missing tracks for haib tfbs
  • lines changed 223, context: html, text, full: html, text
    removing not used controls
  • lines changed 191, context: html, text, full: html, text
    adding expIds and accessions
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra
  • lines changed 335, context: html, text, full: html, text
    added in expIds and accessions
  • lines changed 208, context: html, text, full: html, text
    prepping tracks for approval
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra
  • lines changed 439, context: html, text, full: html, text
    prepping tracks for approval
  • lines changed 27, context: html, text, full: html, text
    adding in last missing track
  • lines changed 451, context: html, text, full: html, text
    made it so that treatment is not on by default
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromFaire.ra
  • lines changed 320, context: html, text, full: html, text
    added metadata
  • lines changed 83, context: html, text, full: html, text
    added in md5sums
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/makefile
  • lines changed 1, context: html, text, full: html, text
    Staging on beta, UNC/BSU Proteogenomics ProtGenc (Release1/Final)RM#8419
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromChip.ra
  • lines changed 5802, context: html, text, full: html, text
    Staging on beta for Open Chrom TFBS UTA (Release 2) RM#4144
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromDnase.ra
  • lines changed 4075, context: html, text, full: html, text
    Staging Duke DNaseI HS (Release 3) on beta (redmine #7962)
  • lines changed 27, context: html, text, full: html, text
    Matt added the Myometr Overlap Signal track (redmine #7962)
  • lines changed 451, context: html, text, full: html, text
    Matt made some metadata changes (redmine #7962)
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUncBsuProtGenc.ra
  • lines changed 522, context: html, text, full: html, text
    Staging on beta, UNC/BSU Proteogenomics ProtGenc (Release1/Final)RM#8419
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/wgEncodeOpenChromChip.ra
  • lines changed 5802, context: html, text, full: html, text
    Staging on public Open Chrom TFBS Chip (Release2) RM#4144
• src/hg/makeDb/trackDb/human/hg19/netCanFam2.ra
  • lines changed 7, context: html, text, full: html, text
    prepare for release of chain/net canFam3 to replace canFam2
• src/hg/makeDb/trackDb/human/hg19/netCanFam3.ra
  • lines changed 7, context: html, text, full: html, text
    prepare for release of chain/net canFam3 to replace canFam2
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 16, context: html, text, full: html, text
    prepare for release of chain/net canFam3 to replace canFam2
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 1, context: html, text, full: html, text
    Staging on beta, UNC/BSU Proteogenomics ProtGenc (Release1/Final)RM#8419
  • lines changed 2, context: html, text, full: html, text
    Staging Duke DNaseI HS (Release 3) on beta (redmine #7962)
  • lines changed 2, context: html, text, full: html, text
    Staging on beta for Open Chrom TFBS UTA (Release 2) RM#4144
  • lines changed 2, context: html, text, full: html, text
    Staging on public Open Chrom TFBS Chip (Release2) RM#4144
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencode.html
  • lines changed 7, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeSuper.html
  • lines changed 3, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV10.html
  • lines changed 6, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV11.html
  • lines changed 3, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV12.html
  • lines changed 3, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV13.html
  • lines changed 3, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV3.html
  • lines changed 7, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV4.html
  • lines changed 7, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV7.html
  • lines changed 6, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV9.html
  • lines changed 6, context: html, text, full: html, text
    fixing the GENCODE Gene data release policy to reflect that the data are available for use without restrictions, redmine 8905
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release3.ra
  • lines changed 45, context: html, text, full: html, text
    adding in missing tracks for haib tfbs
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.release2.html
  • lines changed 10, context: html, text, full: html, text
    fixed contacts page
  • lines changed 2, context: html, text, full: html, text
    qa fixes for open chrom chip
  • lines changed 14, context: html, text, full: html, text
    fixed things for qa
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.release2.ra
  • lines changed 100, context: html, text, full: html, text
    fixed things for qa
  • lines changed 36, context: html, text, full: html, text
    updated density sig labels to be consistent
  • lines changed 36, context: html, text, full: html, text
    making the S lower case
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.release3.html
  • lines changed 320, context: html, text, full: html, text
    moving html file over
  • lines changed 25, context: html, text, full: html, text
    qa html fixes
  • lines changed 2, context: html, text, full: html, text
    more qa fixes
  • lines changed 2, context: html, text, full: html, text
    more label fixes, and html fixes
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.release3.ra
  • lines changed 12, context: html, text, full: html, text
    prepping tracks for approval
  • lines changed 323, context: html, text, full: html, text
    first pass at labels and other qa things
  • lines changed 262, context: html, text, full: html, text
    more qa fixes for duke dnase
  • lines changed 4, context: html, text, full: html, text
    more label corrections
  • lines changed 0, context: html, text, full: html, text
    label change for iPS NIHi7
  • lines changed 0, context: html, text, full: html, text
    reversing label change for iPS NIHi7
  • lines changed 2, context: html, text, full: html, text
    changinh over html and release date
  • lines changed 155, context: html, text, full: html, text
    redid short labels for QA
  • lines changed 19, context: html, text, full: html, text
    more label fixes, and html fixes
  • lines changed 8, context: html, text, full: html, text
    adding in last missing track
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.release2.ra
  • lines changed 73, context: html, text, full: html, text
    adding in last of the tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProtGenc.release1.html
  • lines changed 17, context: html, text, full: html, text
    update in corresponding to Brian's comments Q7-26
  • lines changed 10, context: html, text, full: html, text
    add the column definition besides the column name, as the definition instead of the name is displayed in the detail page of the track of bigBed file
  • lines changed 5, context: html, text, full: html, text
    fixed some redundancy in display convention after adding the definition
  • lines changed 5, context: html, text, full: html, text
    Correcting small punctuation details for UNC BSU ProtGenc (Release1)RM#8419
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUncBsuProtGenc.release1.ra
  • lines changed 1, context: html, text, full: html, text
    fix orders
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding Alligator to the build
• src/hg/makeDb/trackDb/mouse/mm10/cons60way.html
  • lines changed 15, context: html, text, full: html, text
    new grouping with euarchontoglire subset
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.60way.ra
  • lines changed 25, context: html, text, full: html, text
    rework groups in mm10 60-way phastCons and phyloP
  • lines changed 44, context: html, text, full: html, text
    remove the Vertebrate subsets
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeCaltechRnaSeq.ra
  • lines changed 4, context: html, text, full: html, text
    added double-compression fixed md5s into Caltech mm9
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeCshlLongRnaSeq.ra
  • lines changed 272, context: html, text, full: html, text
    Adding back md5sums
  • lines changed 67, context: html, text, full: html, text
    Updating the replaced notice
  • lines changed 3, context: html, text, full: html, text
    Adding a objStatus replaced
  • lines changed 2, context: html, text, full: html, text
    Trying to clear up the issue with the Spleen samples
  • lines changed 163, context: html, text, full: html, text
    Adding in the fixes for Steve in ticket 8652
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhHist.ra
  • lines changed 73, context: html, text, full: html, text
    changing labs over to Stanford-m
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhTfbs.ra
  • lines changed 133, context: html, text, full: html, text
    changing labs over to Stanford-m
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra
  • lines changed 134, context: html, text, full: html, text
    Added missing replicate 1. Redmine #4468.
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/beta/wgEncodeCaltechRnaSeq.ra
  • lines changed 4, context: html, text, full: html, text
    added double-compression fixed md5s into Caltech mm9
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/beta/wgEncodeCshlLongRnaSeq.ra
  • lines changed 344, context: html, text, full: html, text
    Staging CSHL Long RNA-seq (Release 3) on beta (redmine #8652)
  • lines changed 163, context: html, text, full: html, text
    Cricket made some metaDb changes (redmine #8652)
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/beta/wgEncodeSydhTfbs.ra
  • lines changed 133, context: html, text, full: html, text
    Staging on beta Stanford Yale TFBS, adding metaDb see RM#8913
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/public/wgEncodeSydhTfbs.ra
  • lines changed 133, context: html, text, full: html, text
    staging on public Stanford Yale TFBS updating MetaDB RM#8913
• src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra
  • lines changed 2, context: html, text, full: html, text
    Staging CSHL Long RNA-seq (Release 3) on beta (redmine #8652)
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCshlLongRnaSeq.release3.html
  • lines changed 145, context: html, text, full: html, text
    Steve fixes for ticket 8652
  • lines changed 1, context: html, text, full: html, text
    Adding in the fixes for Steve in ticket 8652
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodeCshlLongRnaSeq.release3.ra
  • lines changed 186, context: html, text, full: html, text
    Steve fixes for ticket 8652
  • lines changed 31, context: html, text, full: html, text
    Adding in the fixes for Steve in ticket 8652
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.release3.ra
  • lines changed 1, context: html, text, full: html, text
    add viewLimits scale
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuDnase.html
  • lines changed 5, context: html, text, full: html, text
    Making edits, adding links, based on code review suggestions RM#8853
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuDnase.ra
  • lines changed 2, context: html, text, full: html, text
    Changing Dnase to DNase for short label on track, code review RM#8853
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.release2.ra
  • lines changed 27, context: html, text, full: html, text
    Added missing replicate 1. Redmine #4468.
• src/hg/makeDb/trackDb/rat/rn3/description.html
  • lines changed 1, context: html, text, full: html, text
    Fixed broken link
• src/hg/makeDb/trackDb/rat/rn4/description.html
  • lines changed 1, context: html, text, full: html, text
    Fixed broken link
• src/hg/makeDb/trackDb/tagTypes.tab
  • lines changed 1, context: html, text, full: html, text
    rework groups in mm10 60-way phastCons and phyloP
• src/hg/makeDb/trackDb/trackDb.chainNet.ra
  • lines changed 51, context: html, text, full: html, text
    adding canFam3 definitions to hg19
• src/hg/utils/automation/Encode.pm
  • lines changed 19, context: html, text, full: html, text
    updating Encode.pm file type detection mechanisms
• src/hg/utils/automation/configFiles/geoFor1.config.ra
  • lines changed 23, context: html, text, full: html, text
    Medium ground finch, aka Darwin Finch
• src/hg/utils/automation/ensGene/oreNil1.ensGene.ra
  • lines changed 6, context: html, text, full: html, text
    Add 3 more ensGene.ra for assemblies introduced in ensGene v68 update.
• src/hg/utils/automation/ensGene/otoGar3.ensGene.ra
  • lines changed 6, context: html, text, full: html, text
    Add 3 more ensGene.ra for assemblies introduced in ensGene v68 update.
• src/hg/utils/automation/ensGene/sarHar1.ensGene.ra
  • lines changed 6, context: html, text, full: html, text
    Add 3 more ensGene.ra for assemblies introduced in ensGene v68 update.
• src/inc/bbiFile.h
  • lines changed 4, context: html, text, full: html, text
    bbiRead.c::bbiSummariesInRegion fixed to handle bbi->isSwapped
• src/lib/bbiRead.c
  • lines changed 14, context: html, text, full: html, text
    bbiRead.c::bbiSummariesInRegion fixed to handle bbi->isSwapped
  • lines changed 25, context: html, text, full: html, text
    more fixes to bbi for byteswapping
  • lines changed 1, context: html, text, full: html, text
    fix type in function description comment
• src/utils/bigBedInfo/bigBedInfo.c
  • lines changed 15, context: html, text, full: html, text
    print out chrom coordinates on zoom levels, added in response to #8871
• src/utils/qa/checkMetaData.csh
  • lines changed 12, context: html, text, full: html, text
    Changed the check for genomeClade so that it matches the whole word from the dbDb.genome field instead of using mysql LIKE. This was causing problems for pairs of organisms with similar names, such as tree shrew and shrew and guinea pig and pig.
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 3, context: html, text, full: html, text
    v272 final build

• lines changed: 32371
• files changed: 163