All File Changes

v234_base to v235_preview (2010-06-22 to 2010-06-29) v235

• .gitignore
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    ignore ~ files created by gedit and other programs
• src/README
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    chmod -x and file name correction to README.local.git.source
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    Initial Git Instruction
• src/hg/encode/DAFs/2.0/licrMm9Histone.daf
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    Updated LICR MM9 Dafs to be consistent with other mouse DAFS
• src/hg/encode/DAFs/2.0/licrMm9Tfbs.daf
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    Updated LICR MM9 Dafs to be consistent with other mouse DAFS
• src/hg/encode/DAFs/2.0/psuMm95c.daf
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    Initial drafts of MM9, Haridson grant (PSU) Dafs (4 DataType, 5 Dafs)
• src/hg/encode/DAFs/2.0/psuMm9DnaseSeq.daf
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    Initial drafts of MM9, Haridson grant (PSU) Dafs (4 DataType, 5 Dafs)
• src/hg/encode/DAFs/2.0/psuMm9Histone.daf
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    Initial drafts of MM9, Haridson grant (PSU) Dafs (4 DataType, 5 Dafs)
• src/hg/encode/DAFs/2.0/psuMm9RnaSeq.daf
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    Initial drafts of MM9, Haridson grant (PSU) Dafs (4 DataType, 5 Dafs)
• src/hg/encode/DAFs/2.0/psuMm9Tfbs.daf
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    Initial drafts of MM9, Haridson grant (PSU) Dafs (4 DataType, 5 Dafs)
• src/hg/encode/DAFs/2.0/stanfordMm9Hist.daf
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    Updated Stanfor/Yale MM9 Dafs to be consistent with other mouse DAFS
• src/hg/encode/DAFs/2.0/stanfordMm9Tfbs.daf
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    Updated Stanfor/Yale MM9 Dafs to be consistent with other mouse DAFS
• src/hg/encode/DAFs/2.0/stanfordMm9TfbsInput.daf
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    Updated Stanfor/Yale MM9 Dafs to be consistent with other mouse DAFS
• src/hg/encode/encodeMergeReplicates/encodeMergeReplicates.c
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    Improving readability by adding comments and moving a few lines around in response to Brian's review.
• src/hg/encode/encodeMergeReplicatesBatch/encodeMergeReplicatesBatch.c
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    Working on program that will set up batch file to merge replicates.
• src/hg/encode/encodeMergeReplicatesBatch/expected.ra
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    Working on program that will set up batch file to merge replicates.
• src/hg/encode/encodeMergeReplicatesBatch/expected.sh
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    Working on program that will set up batch file to merge replicates.
• src/hg/encode/encodeMergeReplicatesBatch/makefile
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    Working on program that will set up batch file to merge replicates.
• src/hg/encode/encodeMergeReplicatesBatch/test.in
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    Working on program that will set up batch file to merge replicates.
• src/hg/encode/encodePatchTdb/encodePatchTdb.c
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    Changes to allow viewInTheMiddle template trackDb files to be patched in properly
• src/hg/encode/encodeStatus/hgShowEncodeSubmissions
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    Link to composite should be db aware
• src/hg/encode/encodeValidate/config/cv.ra
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    A few more minor fixes from Katrina
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    incorporating feedback from Katrina and from review
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    fix typo
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    Filled out details for 2 antibodies for Broad
• src/hg/encode/hgEncodeSubmit/lib/pipeline_background.rb
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    doubling download timeout to 20 hours
• src/hg/hgApi/hgApi.c
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    Added hgsqlProfile to support connecting to dbs using the profile name
• src/hg/hgGene/hgGeneData/C_elegans/ce6/otherOrgs.ra
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    Rebuilt BlastTab tables of rn4 and ce6 to correct hgGene other org problems.
• src/hg/hgGene/hgGeneData/Rat/rn4/otherOrgs.ra
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    Correct a typo.
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    Rebuilt BlastTab tables of rn4 and ce6 to correct hgGene other org problems.
• src/hg/hgTrackUi/hgTrackUi.c
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    Fixing order of subtracks of supertracks in hgTrackUi so works for both wgEncodeReg and for wgEncodeHistone....
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    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/hg/hgTracks/factorSource.c
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    Making it so that in dense mode the darker, higher scoring, items are drawn on top of lighter items.
• src/hg/hgTracks/simpleTracks.c
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    Added logic so that mapBoxHc() not be called in dense mode. This enable clicking on dense mode to switch to pack mode.
• src/hg/hgTracks/wigTrack.c
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    Making log transform for wig more apparent in graph, and clarifying it's really ln(x+1) rather than the log(x) you might expect.
• src/hg/hgc/peakClusters.c
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    Getting list of tracks that are being clustered from a database table (defined by an inputTrackTable trackDb tag) rather than trying to figure them out from the trackDb subGroup data. This fixes a problem that sometimes caused tracks that should have appeared in the details page to be missed after the HudsonAlpha data integration into the wgEncodeRegTfbs track.
• src/hg/htdocs/ENCODE/cellTypesMouse.html
  • lines changed 60, context: html, text, full: html, text
    adding new mouse ENCODE specific pages that will be part of the ENCODE portal
  • lines changed 61, context: html, text, full: html, text
    adding new cell types controlled vocab page for mouse ENCODE
• src/hg/htdocs/ENCODE/controlledVocabulary.html
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    adding two new pages to the ENCODE portal
• src/hg/htdocs/ENCODE/dataStandards.html
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    refining new ENCODE portal pages
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    adding two new pages to the ENCODE portal
• src/hg/htdocs/ENCODE/downloads.html
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    Placing 'Loc' tracks to new grouping and Genecode Genes to new Genes group
• src/hg/htdocs/ENCODE/downloadsMouse.html
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    adding new mouse ENCODE specific pages that will be part of the ENCODE portal
  • lines changed 72, context: html, text, full: html, text
    adding specific mouse downloads page in prepartion for mouse ENCODE
• src/hg/htdocs/ENCODE/otherTerms.html
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    refining new ENCODE portal pages
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    adding new page for other controlled vocabulary terms
• src/hg/htdocs/ENCODE/releaseLog.html
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    "Encode release log update"
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    "Encode release log update"
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    "Encode release log update"
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    "Encode release log update"
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    "Encode release log update"
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    "Encode release log update"
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    "Encode release log update"
• src/hg/htdocs/admin/cvs.html
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    Initial Git Instruction
• src/hg/htdocs/admin/git.html
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    Initial Git Instruction
• src/hg/htdocs/goldenPath/pubs.html
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    Fixed typo.
• src/hg/htdocs/goldenPath/releaseLog.html
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    "Release log update"
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    "Release log update"
  • lines changed 1, context: html, text, full: html, text
    "Release log update"
  • lines changed 1, context: html, text, full: html, text
    "Release log update"
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    "Release log update"
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    "Release log update"
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    "Release log update"
• src/hg/htdocs/inc/encode.home.topbar.html
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    changed 'Terms' in topbar of ENCODE portal to 'Data Policy'
• src/hg/htdocs/inc/encode.topbar.html
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    changed 'Terms' in topbar of ENCODE portal to 'Data Policy'
• src/hg/inc/mdb.h
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    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
• src/hg/inc/sqlProg.h
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    Added hgsqlProfile to support connecting to dbs using the profile name
• src/hg/lib/clusterInputTrackTable.as
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    Defining a new table type for benefit of factorSource type tracks.
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    Adding clusterInputTrackTable.as and sql file to support regulatory cluster tracks.
• src/hg/lib/clusterInputTrackTable.sql
  • lines changed 4, context: html, text, full: html, text
    Defining a new table type for benefit of factorSource type tracks.
  • lines changed 14, context: html, text, full: html, text
    Adding clusterInputTrackTable.as and sql file to support regulatory cluster tracks.
• src/hg/lib/hui.c
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    Making it so that subtracks of composites without priorities are sorted by a case-insensitive comparision rather than a case sensitive comparison of label, which is consistent to how tracks are sorted elsewhere.
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    Making log transform for wig more apparent in graph, and clarifying it's really ln(x+1) rather than the log(x) you might expect.
• src/hg/lib/mdb.c
  • lines changed 86, context: html, text, full: html, text
    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
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    Fixed treatment!= to be interpreted as treatment NOT EXISTS
• src/hg/lib/sqlProg.c
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    Added hgsqlProfile to support connecting to dbs using the profile name
• src/hg/lib/web.c
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    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/hg/makeDb/doc/ce6.txt
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    Rebuilt BlastTab tables of rn4 and ce6 to correct hgGene other org problems.
• src/hg/makeDb/doc/hg18.txt
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    Adding inputTrackList build, and removing some old no longer used steps from the part on the wgEncodeReg clusters.
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    Second pass through wgEncodeReg build doc.
• src/hg/makeDb/doc/proteins/090821.txt
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    Updated Reactome tables.
• src/hg/makeDb/doc/rn4.txt
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    Rebuilt BlastTab tables of rn4 and ce6 to correct hgGene other org problems.
• src/hg/makeDb/hgBedsToBedExps/hgBedsToBedExps.c
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    Adding -dupeLetterOk option. Closing a file left dangling open.
• src/hg/makeDb/mdbUpdate/mdbPrint.c
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    Added special features to mdbPrint to print SQL insert statements for expTable and spacial case extension for adding expIds to exisiting mdb objects.
• src/hg/makeDb/schema/all.joiner
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    adding affyDrosDev tables to tablesIgnored
• src/hg/makeDb/trackDb/README
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    Adding inputTrackTable tag to trackDb, which is used by details page of factorSource type tracks.
• src/hg/makeDb/trackDb/drosophila/dm2/affyDrosDevSignal.html
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    Removing broken link
• src/hg/makeDb/trackDb/drosophila/dm2/affyDrosDevTransfrags.html
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    Removing broken link
• src/hg/makeDb/trackDb/drosophila/dm3/affyDrosDevSignal.html
  • lines changed 5, context: html, text, full: html, text
    Removing broken link
• src/hg/makeDb/trackDb/drosophila/dm3/affyDrosDevTransfrags.html
  • lines changed 5, context: html, text, full: html, text
    Removing broken link
• src/hg/makeDb/trackDb/guineaPig/cavPor3/trackDb.ra
  • lines changed 12, context: html, text, full: html, text
    making refSeq (and other tracks for cavPor3) on hide by default since there is nothing in them for the default position
• src/hg/makeDb/trackDb/human/affyExonArray.html
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    Cleaned up some wording
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    Typo fix
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    Adding an HTML page for the Affy Exon track
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeHudsonalphaChipSeq.ra
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    One more fileName error that Jim caught
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    Changed some file names that Jim noticed were inaccurate
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
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    tweak ucsfBrainMethylation
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
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    Adding HepG2 cell line to wgEncodeReg tracks. Making room for this in the rainbow color scheme.
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    Adding inputTrackTable tags to wgEncodeReg subtracks that need it.
• src/hg/makeDb/trackDb/human/hg18/wgEncodeBuOrchid.html
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    added display color information to description page
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile
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    Metadata for UNC OpenChromatin UNC FAIRE June 2010 freeze
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    Metadata for Duke Open Chrom DNase June 2010 freeze
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    Metadata for UTA Open Chrom ChIPseq June 2010 freeze
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    Metadata for Broad Histone June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeBroadHistone.ra
  • lines changed 47, context: html, text, full: html, text
    Removed some erroneous dateResubmitteds
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    Metadata for Broad Histone June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra
  • lines changed 3028, context: html, text, full: html, text
    Updated all metadata for HAIB TFBS for June 22 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra
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    Metadata for UTA Open Chrom ChIPseq June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra
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    Metadata for Duke Open Chrom DNase June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromFaire.ra
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    Metadata for UNC OpenChromatin UNC FAIRE June 2010 freeze
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSydhHistone.ra
  • lines changed 37, context: html, text, full: html, text
    Updated metaData to include new submissions and consolidated lab name
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    Added 2 new submissions to track. Changed tagAligns to Bam files; updated metaData and index.html
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSydhTfbs.ra
  • lines changed 639, context: html, text, full: html, text
    Added new metaData and updated orginal dates of resubmitted data
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 4, context: html, text, full: html, text
    Adding the Affy Exon track
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    Typo fix
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
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    Adding the new Caltech RNA-seq track
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    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
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    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
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    Adding the CSHL Long and Caltech RNA tracks
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    Removeing Cshl include as Cricket says it is not ready
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    move CSHL short to its own include file
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    Adding UTA ChIP data for June Freeze to hg19
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    Adding Broad Histone June 2010 freeze tracks
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    add RikenCage
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeCaltechRnaSeq.ra
  • lines changed 1054, context: html, text, full: html, text
    Adding the new Caltech RNA-seq track
  • lines changed 95, context: html, text, full: html, text
    Adding the CSHL Long and Caltech RNA tracks
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeCshlLongRnaSeq.ra
  • lines changed 240, context: html, text, full: html, text
    Adding the CSHL Long and Caltech RNA tracks
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeHaibTfbs.ra
  • lines changed 2138, context: html, text, full: html, text
    Added new submissions from data freeze. Add track to Composite: ENCODE Transcription Factor Binding
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSydhHistone.ra
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    Updated short lables to 17 character length
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    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
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    Added 2 new submissions to track. Changed tagAligns to Bam files; updated metaData and index.html
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeSydhTfbs.ra
  • lines changed 5, context: html, text, full: html, text
    Updated short labels to 17 characters. Add track to Composite: ENCODE Transcription Factor Binding
• src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHistone.html
  • lines changed 129, context: html, text, full: html, text
    Adding Broad Histone June 2010 freeze tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHistone.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
  • lines changed 1229, context: html, text, full: html, text
    Adding Broad Histone June 2010 freeze tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCaltechRnaSeq.html
  • lines changed 169, context: html, text, full: html, text
    Adding Caltech track description
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlLongRnaSeq.html
  • lines changed 160, context: html, text, full: html, text
    Adding the CSHL Long and Caltech RNA tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.html
  • lines changed 69, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 309, context: html, text, full: html, text
    Adding UTA ChIP data for June Freeze to hg19
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra
  • lines changed 3, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
  • lines changed 969, context: html, text, full: html, text
    Adding UTA ChIP data for June Freeze to hg19
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.html
  • lines changed 65, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 309, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.ra
  • lines changed 649, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
  • lines changed 925, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.html
  • lines changed 269, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.ra
  • lines changed 925, context: html, text, full: html, text
    Adding UNC FAIRE June 2010 freeze data to hg19 and updated Open Chrom descriptions
• src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra
  • lines changed 87, context: html, text, full: html, text
    add RikenCage
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.ra
  • lines changed 1, context: html, text, full: html, text
    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.ra
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    Adding Duke DNase June 2010 freeze data to hg19 and moving composites to supertracks
• src/hg/makeDb/trackDb/marmoset/calJac3/trackDb.ra
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    making refSeq (and other tracks for cavPor3) on hide by default since there is nothing in them for the default position
• src/hg/makeDb/trackDb/mouse/mm9/trackDb.ra
  • lines changed 3, context: html, text, full: html, text
    Edited short labels for Scripture tracks.
  • lines changed 3, context: html, text, full: html, text
    Changed visibility for scripture tracks to "hide".
  • lines changed 3, context: html, text, full: html, text
    Changed settings for scripture tracks to bed 12.
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    Added stuff for scripture tracks (scripture_ES, scripture_MLF, scripture_NPC).
• src/hg/makeDb/trackDb/tagTypes.tab
  • lines changed 1, context: html, text, full: html, text
    Adding inputTrackTable tag to trackDb, which is used by details page of factorSource type tracks.
• src/hg/oneShot/freen/freen.c
  • lines changed 49, context: html, text, full: html, text
    Freen does some colorful stuff.
• src/hg/regulate/regClusterBedExpCfg/cellLetter.tab
  • lines changed 25, context: html, text, full: html, text
    Improved comment.
• src/hg/regulate/regClusterBedExpCfg/regClusterBedExpCfg.c
  • lines changed 61, context: html, text, full: html, text
    Adding tabList and cellLetter options. Mistakenly checked in test case for cellLetter with previous commit.
• src/hg/utils/automation/Encode.pm
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    Mark incoming ENCODE submissions as 'post' JUne 2010 freeze
• src/hg/utils/automation/doHgNearBlastp.pl
  • lines changed 1, context: html, text, full: html, text
    Fixed a bug.
• src/hg/utils/automation/makefile
  • lines changed 45, context: html, text, full: html, text
    proper parallel list makefile
• src/hg/utils/mdbQuery/mdbQuery.c
  • lines changed 1, context: html, text, full: html, text
    Improved comment.
  • lines changed 6, context: html, text, full: html, text
    Turning 3col to 4col output.
  • lines changed 3, context: html, text, full: html, text
    Making metaObject be a synonym for obj in selects.
  • lines changed 1, context: html, text, full: html, text
    Making ra output use metaObject rather than obj.
  • lines changed 7, context: html, text, full: html, text
    Improving some comments and a function name.
  • lines changed 12, context: html, text, full: html, text
    Adding error message when no from clause.
• src/inc/htmshell.h
  • lines changed 7, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/inc/net.h
  • lines changed 4, context: html, text, full: html, text
    initial paraFetch work - the fast multiple connection parallel downloader
• src/lib/htmshell.c
  • lines changed 5, context: html, text, full: html, text
    SuperTracks needed to be slReversed before displaying. Took opportunity to add warnBox to top of hgTrackUi as it should be.
• src/lib/net.c
  • lines changed 28, context: html, text, full: html, text
    fixed minor bug needing to check eof right away; also added restartTotalDownloaded so that totalDownloaded gets tracked properly on auto-restart
  • lines changed 107, context: html, text, full: html, text
    adding auto-restart
  • lines changed 18, context: html, text, full: html, text
    adding date so that restarts can compare to help confirm that the file has not changed
  • lines changed 7, context: html, text, full: html, text
    adding URL and fileSize to status file for verification in future restarts
  • lines changed 16, context: html, text, full: html, text
    adding more triggers to write status file whenever 100MB of data are downloaded
  • lines changed 39, context: html, text, full: html, text
    added writeParaFetchStatus for both restarting failed downloads and reporting progress
  • lines changed 20, context: html, text, full: html, text
    more re-arranging to support retrying unfinished parts
  • lines changed 80, context: html, text, full: html, text
    re-arranging to support retrying unfinished parts
  • lines changed 22, context: html, text, full: html, text
    using tempname equal to output name with ".paraFetch" extension until download is complete, then rename the tempfile to the real name when all done
  • lines changed 249, context: html, text, full: html, text
    initial paraFetch work - the fast multiple connection parallel downloader
  • lines changed 1, context: html, text, full: html, text
    https should have been there long ago
• src/lib/tests/fetchUrlTest.c
  • lines changed 44, context: html, text, full: html, text
    adding capability to grab a url without the http response header embedded
• src/lib/tests/makefile
  • lines changed 3, context: html, text, full: html, text
    initial paraFetch utility checkin
  • lines changed 3, context: html, text, full: html, text
    initial paraFetch work - the fast multiple connection parallel downloader
• src/lib/tests/paraFetch.c
  • lines changed 40, context: html, text, full: html, text
    initial paraFetch utility checkin
  • lines changed 40, context: html, text, full: html, text
    initial paraFetch work - the fast multiple connection parallel downloader
• src/product/README.cvs.access
  • lines changed 5, context: html, text, full: html, text
    Initial Git Instruction
• src/product/README.local.cvs.source
  • lines changed 5, context: html, text, full: html, text
    Initial Git Instruction
• src/product/README.local.git.source
  • lines changed 0, context: html, text, full: html, text
    chmod -x and file name correction to README.local.git.source
  • lines changed 72, context: html, text, full: html, text
    Initial Git Instruction
• src/utils/git-reports/git-reports.c
  • lines changed 2, context: html, text, full: html, text
    all the way out to one million matches old cvs reports
  • lines changed 2, context: html, text, full: html, text
    adding more context for some big files
  • lines changed 9, context: html, text, full: html, text
    temporary workaround for an initial commit which has no parent
• src/utils/git-reports/makefile
  • lines changed 1, context: html, text, full: html, text
    allow to get arguments from parent make commands
• src/utils/paraFetch/makefile
  • lines changed 21, context: html, text, full: html, text
    initial paraFetch utility checkin
• src/utils/paraFetch/paraFetch.c
  • lines changed 6, context: html, text, full: html, text
    paraFetch utility should exit 1 on failure to let caller know
  • lines changed 40, context: html, text, full: html, text
    initial paraFetch utility checkin
• src/utils/qa/getGbdbBeta.csh
  • lines changed 1, context: html, text, full: html, text
    Changed the copy step at the end to a move, to keep files from accumulating in the qateam home directory.
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 2, context: html, text, full: html, text
    v235 preview
• src/utils/qa/weeklybld/buildGitReports.csh
  • lines changed 1, context: html, text, full: html, text
    fixing branch report
  • lines changed 5, context: html, text, full: html, text
    fixing branch report
• src/utils/qa/weeklybld/buildZip.csh
  • lines changed 1, context: html, text, full: html, text
    faster, pussycat
  • lines changed 4, context: html, text, full: html, text
    fixing zip paths
• src/utils/qa/weeklybld/cherryPickCommits.csh
  • lines changed 2, context: html, text, full: html, text
    error message belows with git show not git cherry-pick
  • lines changed 2, context: html, text, full: html, text
    adding another common error condition
  • lines changed 15, context: html, text, full: html, text
    little fix
  • lines changed 4, context: html, text, full: html, text
    minor tweaks
  • lines changed 175, context: html, text, full: html, text
    first attempt at git automated patching using the cherry-pick method
• src/utils/qa/weeklybld/coBranch.csh
  • lines changed 5, context: html, text, full: html, text
    fixing build scripts to not use confusing var $dir
• src/utils/qa/weeklybld/doHgNearTestRobot.csh
  • lines changed 2, context: html, text, full: html, text
    removing unneeded single quotes around email subject in several build scripts
• src/utils/qa/weeklybld/doHgTablesTestRobot.csh
  • lines changed 2, context: html, text, full: html, text
    removing unneeded single quotes around email subject in several build scripts
• src/utils/qa/weeklybld/doJavaUtilBuild.csh
  • lines changed 2, context: html, text, full: html, text
    fix typo in doJavaUtilBuild.csh
  • lines changed 3, context: html, text, full: html, text
    fixing build scripts to not use confusing var $dir
• src/utils/qa/weeklybld/doLiftOverTestRobot.csh
  • lines changed 1, context: html, text, full: html, text
    little path fixes to these due to modifying JAVABUILD setting earlier
• src/utils/qa/weeklybld/doNewBranch.csh
  • lines changed 6, context: html, text, full: html, text
    check if we are on the master branch before running
  • lines changed 2, context: html, text, full: html, text
    removing unneeded single quotes around email subject in several build scripts
  • lines changed 1, context: html, text, full: html, text
    fixing typo
• src/utils/qa/weeklybld/doSearchRobot.csh
  • lines changed 2, context: html, text, full: html, text
    removing unneeded single quotes around email subject in several build scripts
• src/utils/qa/weeklybld/doTrackCheckRobot.csh
  • lines changed 1, context: html, text, full: html, text
    fix path to full.props
  • lines changed 1, context: html, text, full: html, text
    little path fixes to these due to modifying JAVABUILD setting earlier
• src/utils/qa/weeklybld/makeUserApps.csh
  • lines changed 6, context: html, text, full: html, text
    more path oddness
  • lines changed 3, context: html, text, full: html, text
    fixing build scripts to not use confusing var $dir
• src/utils/qa/weeklybld/tagBeta.csh
  • lines changed 43, context: html, text, full: html, text
    convert to git - uses special merge -s ours
• src/utils/wigCorrelate/makefile
  • lines changed 1, context: html, text, full: html, text
    fixing zlib dependencies in makefile

• lines changed: 35432
• files changed: 226