All File Changes

v268_preview to v268_preview2 (2012-05-22 to 2012-05-29) v268

• python/lib/ucscGb/encode/track.py
  • lines changed 13, context: html, text, full: html, text
    changing the way current trackDb is determined more robust, and doesn't fail when there's no alpha
• src/hg/encode/DAFs/3.0/hg19/wgEncodeGisDnaPet.daf
  • lines changed 1, context: html, text, full: html, text
    Removing quick option
• src/hg/encode/encodeAnnounce/announceBoilerplate.html
  • lines changed 4, context: html, text, full: html, text
    Add portal URL to more info section
• src/hg/encode/encodeQaPrepareRelease/encodeQaPrepareRelease
  • lines changed 3, context: html, text, full: html, text
    fixing header
• src/hg/encode/hgEncodeApi/hgEncodeApi.c
  • lines changed 3, context: html, text, full: html, text
    Use DCC accession instead of ExpId's to find experiments in metaDb
• src/hg/encode/hgEncodeVocab/hgEncodeVocab.c
  • lines changed 11, context: html, text, full: html, text
    Adjusting hgEncodeVocab to not fail on Input.
• src/hg/encode/qaAddTrackReferences/qaAddTrackReferences
  • lines changed 17, context: html, text, full: html, text
    added in functionality to get the link to the original journal (or as close as ncbi does)
• src/hg/encode/qaUpdateMetadata/qaUpdateMetadata
  • lines changed 2, context: html, text, full: html, text
    minor maintenence
• src/hg/encode/raMerge/raMerge
  • lines changed 3, context: html, text, full: html, text
    minor maintenence
• src/hg/hgTracks/cds.c
  • lines changed 33, context: html, text, full: html, text
    add ability to highlight linkedFeatures with a colored box around the existing boxes. Will be used by Mark to highlight Gencode genes that satisfy filtering requirements.
• src/hg/hgTracks/hgTracks.h
  • lines changed 1, context: html, text, full: html, text
    add ability to highlight linkedFeatures with a colored box around the existing boxes. Will be used by Mark to highlight Gencode genes that satisfy filtering requirements.
• src/hg/hgTracks/simpleTracks.c
  • lines changed 34, context: html, text, full: html, text
    add ability to highlight linkedFeatures with a colored box around the existing boxes. Will be used by Mark to highlight Gencode genes that satisfy filtering requirements.
• src/hg/htdocs/ENCODE/dataMatrix/chipMatrix.css
  • lines changed 15, context: html, text, full: html, text
    Moving CSS files to standard location, request from QA
• src/hg/htdocs/ENCODE/dataMatrix/dataMatrix.css
  • lines changed 169, context: html, text, full: html, text
    Moving CSS files to standard location, request from QA
• src/hg/htdocs/ENCODE/dataMatrix/dataSummary.css
  • lines changed 74, context: html, text, full: html, text
    Moving CSS files to standard location, request from QA
• src/hg/htdocs/ENCODE/dataMatrix/encodeChipMatrixInclude.html
  • lines changed 1, context: html, text, full: html, text
    Move CSS files to standard dir in response to QA request
• src/hg/htdocs/ENCODE/dataMatrix/encodeDataMatrixInclude.html
  • lines changed 16, context: html, text, full: html, text
    Readability cosmetics
  • lines changed 8, context: html, text, full: html, text
    Helper function generalized and moved to lib. Calls to this were in previous checkin
  • lines changed 1, context: html, text, full: html, text
    Move CSS files to standard dir in response to QA request
• src/hg/htdocs/ENCODE/dataMatrix/encodeDataSummaryInclude.html
  • lines changed 1, context: html, text, full: html, text
    Move CSS files to standard dir in response to QA request
• src/hg/htdocs/ENCODE/downloads.html
  • lines changed 5, context: html, text, full: html, text
    adding GIS ChIA-PET to the downloads, redmine# 1664
• src/hg/htdocs/ENCODE/index.html
  • lines changed 69, context: html, text, full: html, text
    Update news section (new Mouse data, Experiment matrix)
• src/hg/htdocs/FAQ/FAQdownloads.html
  • lines changed 4, context: html, text, full: html, text
    Corrected sentence ... it was in error, per redmine #7247.
• src/hg/htdocs/admin/hgFindSpecHowTo.html
  • lines changed 652, context: html, text, full: html, text
    Replaced the hgFindSpecHowTo page with a link to the genomewiki version of the same file.
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.css
  • lines changed 1, context: html, text, full: html, text
    Fixed bad close anchor tags and fixed css that caused filterBy table entry to be hidden.
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 333, context: html, text, full: html, text
    Fixed bad close anchor tags and fixed css that caused filterBy table entry to be hidden.
• src/hg/htdocs/images/4.jpg
  • lines changed 0, context: html, text, full: html, text
    added some new number balls for liftOvers to, e.g, rn5
• src/hg/htdocs/images/5.jpg
  • lines changed 0, context: html, text, full: html, text
    added some new number balls for liftOvers to, e.g, rn5
• src/hg/htdocs/images/6.jpg
  • lines changed 0, context: html, text, full: html, text
    added some new number balls for liftOvers to, e.g, rn5
• src/hg/htdocs/inc/global-nav-bar.inc
  • lines changed 22, context: html, text, full: html, text
    cleanup file so it is includeable by CGIs (remove .js and .css includes and view menu, which is added only by hgTracks)
  • lines changed 28, context: html, text, full: html, text
    fill-in some of the static links (some don't exist yet; those are left as XXXX); use relative links with assumption that this is used in cgi-bin
  • lines changed 1, context: html, text, full: html, text
    Added corrent link for mirrors how-to.
• src/hg/htdocs/style/encodeDataMatrix.css
  • lines changed 169, context: html, text, full: html, text
    Moving CSS files to standard location, request from QA
• src/hg/htdocs/style/encodeDataSummary.css
  • lines changed 74, context: html, text, full: html, text
    Moving CSS files to standard location, request from QA
• src/hg/htdocs/style/makefile
  • lines changed 2, context: html, text, full: html, text
    Move CSS files to standard dir in response to QA request
• src/hg/htdocs/style/nice_menu.css
  • lines changed 3, context: html, text, full: html, text
    Commenting out styles that interfere with HGStyle.css. Change color for a test.
  • lines changed 21, context: html, text, full: html, text
    Added some styles at bottom for test/demo.
• src/hg/inc/encode/encodeExp.h
  • lines changed 4, context: html, text, full: html, text
    Use DCC accession instead of ExpId's to find experiments in metaDb
• src/hg/inc/trackVersion.h
  • lines changed 3, context: html, text, full: html, text
    add getTrackVersion (#8032)
• src/hg/js/encodeDataMatrix.js
  • lines changed 1, context: html, text, full: html, text
    Clean up navigation between pages
• src/hg/js/encodeDataSummary.js
  • lines changed 2, context: html, text, full: html, text
    Clean up navigation between pages
• src/hg/js/encodeMatrix.js
  • lines changed 9, context: html, text, full: html, text
    Clean up navigation between pages
  • lines changed 2, context: html, text, full: html, text
    Remove non-working control on floating header
• src/hg/lib/cart.c
  • lines changed 7, context: html, text, full: html, text
    Removing out of form input tag.
• src/hg/lib/encode/encodeExp.c
  • lines changed 7, context: html, text, full: html, text
    Use DCC accession instead of ExpId's to find experiments in metaDb
• src/hg/lib/ensFace.c
  • lines changed 1, context: html, text, full: html, text
    add "name = ensGene" to select in ensGeneTrackVersion to include to fix problem caused by entries for other tracks in trackVersion table
• src/hg/lib/jksql.c
  • lines changed 6, context: html, text, full: html, text
    make mysql load error detection the default
• src/hg/lib/trackDbCustom.c
  • lines changed 6, context: html, text, full: html, text
    fix bug looking at unitialized variable #8028
• src/hg/lib/trackVersion.c
  • lines changed 21, context: html, text, full: html, text
    add getTrackVersion (#8032)
• src/hg/makeDb/doc/bosTau7.txt
  • lines changed 22, context: html, text, full: html, text
    bosTau7 initial release.
• src/hg/makeDb/doc/canFam3.txt
  • lines changed 31, context: html, text, full: html, text
    assembly is in the pushQ 006099 RedMine 6348
  • lines changed 7, context: html, text, full: html, text
    eliminate 6000 tables by using canFam3.perChromTables for the genbank operations
• src/hg/makeDb/doc/ce10.txt
  • lines changed 162, context: html, text, full: html, text
    human proteins for Mark
• src/hg/makeDb/doc/dm3.txt
  • lines changed 164, context: html, text, full: html, text
    added Human Proteins in response to an ENCODE related request from Mark
• src/hg/makeDb/doc/echTel1.txt
  • lines changed 79, context: html, text, full: html, text
    new and better repeat masker masking
  • lines changed 1, context: html, text, full: html, text
    correct timing for last bit of RM run
  • lines changed 57, context: html, text, full: html, text
    construct gc5Base track and into the pushQ
• src/hg/makeDb/doc/encodeDccHg19/wgEncodeCshlLongRnaSeq.release2.notes
  • lines changed 523, context: html, text, full: html, text
    Updating the notes file with attic files and name changes
  • lines changed 523, context: html, text, full: html, text
    updating notes for cshl long
  • lines changed 21, context: html, text, full: html, text
    fixes to prep for qa
• src/hg/makeDb/doc/galGal3.txt
  • lines changed 19, context: html, text, full: html, text
    liftOver to galGal4
• src/hg/makeDb/doc/hg19.txt
  • lines changed 10, context: html, text, full: html, text
    load COSMIC v59
  • lines changed 29, context: html, text, full: html, text
    Track #8017 (IKMC track update): updated mm9 & hg19 tracks and MGI url.
• src/hg/makeDb/doc/mm9.txt
  • lines changed 63, context: html, text, full: html, text
    Track #8017 (IKMC track update): updated mm9 & hg19 tracks and MGI url.
• src/hg/makeDb/doc/rn5.txt
  • lines changed 29, context: html, text, full: html, text
    assembly is in the pushQ 006097 RedMine 7269
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 1, context: html, text, full: html, text
    canFam3 should be perChromTables no
• src/hg/makeDb/hgFindSpec/hgFindSpec.c
  • lines changed 8, context: html, text, full: html, text
    temporarily changing errAbort to warning at request of Brooke
  • lines changed 9, context: html, text, full: html, text
    angie suggests old solaris machines may not be able to handle a null %s string pointer
• src/hg/makeDb/trackDb/cow/bosTau2/description.html
  • lines changed 2, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/cow/bosTau3/description.html
  • lines changed 2, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/cow/bosTau5/description.html
  • lines changed 2, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/cow/bosTau6/description.html
  • lines changed 2, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/cow/bosTau7/description.html
  • lines changed 2, context: html, text, full: html, text
    added image sizes
  • lines changed 6, context: html, text, full: html, text
    restored some lost bosTau7 descripton info from blown merge
  • lines changed 49, context: html, text, full: html, text
    Adding project URL.
  • lines changed 97, context: html, text, full: html, text
    Merge desciption.html
  • lines changed 3, context: html, text, full: html, text
    polished description.html, gold.html, gap.html
  • lines changed 1, context: html, text, full: html, text
    Change pharsing based on Ann's feedback.
• src/hg/makeDb/trackDb/cow/bosTau7/gap.html
  • lines changed 34, context: html, text, full: html, text
    polished description.html, gold.html, gap.html
• src/hg/makeDb/trackDb/cow/bosTau7/gold.html
  • lines changed 12, context: html, text, full: html, text
    polished description.html, gold.html, gap.html
• src/hg/makeDb/trackDb/cv/alpha/cv.ra
  • lines changed 2, context: html, text, full: html, text
    adding the termId as required
  • lines changed 108, context: html, text, full: html, text
    Adding tissue haematopoietic
  • lines changed 5, context: html, text, full: html, text
    Adding blood vessel tissue to CV
  • lines changed 6, context: html, text, full: html, text
    adding in new view Exons DeNovo
  • lines changed 8, context: html, text, full: html, text
    Correcting spelling of mappability in CV
• src/hg/makeDb/trackDb/cv/public/cv.ra
  • lines changed 60, context: html, text, full: html, text
    Moved over approved changes to public/cv.ra. Redmine #8000.
• src/hg/makeDb/trackDb/elephant/loxAfr1/description.html
  • lines changed 1, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/elephant/loxAfr2/description.html
  • lines changed 2, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/human/hg17/trackDb.ra
  • lines changed 3, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCshlLongRnaSeq.ra
  • lines changed 2, context: html, text, full: html, text
    fixes to prep for qa
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCshlShortRnaSeq.ra
  • lines changed 325, context: html, text, full: html, text
    removing dccRep
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGisRnaPet.ra
  • lines changed 1, context: html, text, full: html, text
    Removing rnaExtract as an expVar. It is not intended as a variable
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeReg.ra
  • lines changed 87, context: html, text, full: html, text
    cloned over TfbsCLustered table and revoked old one.
  • lines changed 2, context: html, text, full: html, text
    added in full fileName
  • lines changed 5, context: html, text, full: html, text
    added in md5sums
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSydhTfbs.ra
  • lines changed 7, context: html, text, full: html, text
    Fixed error in meta-data that should have replaced 1 experiment with another. Redmine #7827.
  • lines changed 876, context: html, text, full: html, text
    Fixed md5sum's that were generated by old method.
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeHaibRnaSeq.ra
  • lines changed 130, context: html, text, full: html, text
    releasing fix of Raw Signal labels which were originally incorrectly labeled as Signals, also releasing GEO accesssions, redmine #1710
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/makefile
  • lines changed 1, context: html, text, full: html, text
    releasing GIS ChIA-Pet (release 1), redmine# 1664
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/wgEncodeGisChiaPet.ra
  • lines changed 1647, context: html, text, full: html, text
    releasing GIS ChIA-Pet (release 1), redmine# 1664
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/wgEncodeHaibRnaSeq.ra
  • lines changed 130, context: html, text, full: html, text
    releasing fix of Raw Signal labels which were originally incorrectly labeled as Signals, also releasing GEO accesssions, redmine #1710
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 6, context: html, text, full: html, text
    Remove leftover release alpha vs. beta,public split for gwasCatalog. (#1656)
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 1, context: html, text, full: html, text
    releasing GIS ChIA-Pet (release 1), redmine# 1664
  • lines changed 2, context: html, text, full: html, text
    moving dev tracks to new cell tiers
  • lines changed 8, context: html, text, full: html, text
    staging GENCODE Super Track, redmine# 7633
  • lines changed 8, context: html, text, full: html, text
    fixed a typo and releasing GENCODE Super track, accidentally changed 2 release tags that weren't related to genecode in a previous commit so I reverted them back in this commit. Redmine# 7633
  • lines changed 2, context: html, text, full: html, text
    releasing fix of Raw Signal labels which were originally incorrectly labeled as Signals, also releasing GEO accesssions, redmine #1710
  • lines changed 3, context: html, text, full: html, text
    actually realized the release tags were part of gencode. Changed to public for GENCODE super track release, redmine# 7633
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.release2.ra
  • lines changed 1010, context: html, text, full: html, text
    fixes to prep for qa
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlShortRnaSeq.release3.ra
  • lines changed 551, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeSuper.html
  • lines changed 5, context: html, text, full: html, text
    html changes for Vanessa
  • lines changed 1, context: html, text, full: html, text
    Fixed a typo in the GENCODE super track, redmine# 7633
  • lines changed 0, context: html, text, full: html, text
    fixed a typo and releasing GENCODE Super track, accidentally changed 2 release tags that weren't related to genecode in a previous commit so I reverted them back in this commit. Redmine# 7633
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV11.release2.ra
  • lines changed 18, context: html, text, full: html, text
    Moving lines from main stanza to the Genes view
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV12.ra
  • lines changed 1, context: html, text, full: html, text
    Getting the super track to contain V12 and have the right priority
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibRnaSeq.html
  • lines changed 2, context: html, text, full: html, text
    releasing fix of Raw Signal labels which were originally incorrectly labeled as Signals, also releasing GEO accesssions, redmine #1710
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibRnaSeq.ra
  • lines changed 45, context: html, text, full: html, text
    releasing fix of Raw Signal labels which were originally incorrectly labeled as Signals, also releasing GEO accesssions, redmine #1710
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release3.ra
  • lines changed 1049, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.release2.ra
  • lines changed 143, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.release2.ra
  • lines changed 78, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeReg.release2.ra
  • lines changed 1, context: html, text, full: html, text
    forgot to incldue the modified trackDb
  • lines changed 18, context: html, text, full: html, text
    Moving Release 2 to 3 and making a new change on 2
• src/hg/makeDb/trackDb/human/hg19/wgEncodeReg.release3.ra
  • lines changed 347, context: html, text, full: html, text
    Moving Release 2 to 3 and making a new change on 2
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSuper.release2.ra
  • lines changed 1, context: html, text, full: html, text
    Getting the super track to contain V12 and have the right priority
• src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhTfbs.release3.ra
  • lines changed 12, context: html, text, full: html, text
    Fixed error in meta-data that should have replaced 1 experiment with another. Redmine #7827.
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUmassDekker5C.html
  • lines changed 1, context: html, text, full: html, text
    Fixed supplemental links that were pointing to the test server for Uw5C & UmassDekker5C, redmine# 7245
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUw5C.html
  • lines changed 1, context: html, text, full: html, text
    Fixed supplemental links that were pointing to the test server for Uw5C & UmassDekker5C, redmine# 7245
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.release4.ra
  • lines changed 199, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.release5.ra
  • lines changed 628, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.release4.ra
  • lines changed 672, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwTfbs.release4.ra
  • lines changed 3581, context: html, text, full: html, text
    moving dev tracks to new cell tiers
• src/hg/makeDb/trackDb/human/trackDb.encode.ra
  • lines changed 5, context: html, text, full: html, text
    Trying to fix the fact that there are multiple copies of the same search
• src/hg/makeDb/trackDb/human/trackDb.ra
  • lines changed 25, context: html, text, full: html, text
    Track #34 (dbVar for human): moved up Curated Benign subtrack at b0b'srequest; made all subtracks visible by default at ISCA people's request.
    
  • lines changed 1, context: html, text, full: html, text
    bump COSMIC dataVersion up to v59 (#6730)
  • lines changed 2, context: html, text, full: html, text
    Track #34 (dbVar) / #7090 (ISCA data update): with b0b's permission,tweaking bedGraph subtrack names from "Cumulative" to "Total".
    
• src/hg/makeDb/trackDb/kangarooRat/dipOrd1/description.html
  • lines changed 6, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/mouse/mm7/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/beta/wgEncodePsuTfbs.ra
  • lines changed 578, context: html, text, full: html, text
    removing restriction time stamps, adding GEO accessions, removing old stanzas that don't correspond to any files that are used in the download's directory
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/public/wgEncodePsuTfbs.ra
  • lines changed 578, context: html, text, full: html, text
    removing restriction time stamps, adding GEO accessions, removing old stanzas that don't correspond to any files that are used in the download's directory
• src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    Track #8017 (IKMC track update): updated mm9 & hg19 tracks and MGI url.
• src/hg/makeDb/trackDb/mouse/trackDb.ra
  • lines changed 5, context: html, text, full: html, text
    Track #8017 (IKMC track update): updated mm9 & hg19 tracks and MGI url.
  • lines changed 25, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/rabbit/oryCun1/description.html
  • lines changed 1, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/saiBol/saiBol1/description.html
  • lines changed 6, context: html, text, full: html, text
    added some whitespace around images and adjusted bounding box to make images bigger
• src/hg/makeDb/trackDb/trackDb.ra
  • lines changed 4, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/worm/ce10/trackDb.ra
  • lines changed 9, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/zebrafish/danRer3/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/makeDb/trackDb/zebrafish/trackDb.ra
  • lines changed 24, context: html, text, full: html, text
    Got rid of duplicate hgFindSpec searches. See: http://redmine.soe.ucsc.edu/issues/7334#note-31.
• src/hg/utils/automation/loadCosmic.pl
  • lines changed 102, context: html, text, full: html, text
    lots of refactoring; add some sanity statistics
  • lines changed 7, context: html, text, full: html, text
    handle chr25 (== chrM)
• src/parasol/parasol/parasol.c
  • lines changed 73, context: html, text, full: html, text
    Added freeBatch option to parasol command. documented default behavior of -results option
• src/product/README.trackDb
  • lines changed 1, context: html, text, full: html, text
    Fixed typo.
• src/utils/qa/qaGbTracks
  • lines changed 31, context: html, text, full: html, text
    Got rid of the tableList global. Replaced the single option in the parser with a tableFile option, made the table positional argument take any number of arguments, and moved the parsing of the table list into the parseCommandLine function. See redmine 7939#note-5.
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 2, context: html, text, full: html, text
    v268 preview2
• src/utils/qa/weeklybld/buildHgCentralSql.csh
  • lines changed 11, context: html, text, full: html, text
    Fixed hgCenetral.sql build script as per Hiram's advice on redmine 8036.
  • lines changed 17, context: html, text, full: html, text
    Extended Hiram's ignore-table logic to the create and fill section as per redmine 8036.

• lines changed: 17160
• files changed: 156