CVS changes by file

review to branch (2010-01-04 to 2010-01-05) v222

• java/src/edu/ucsc/genome/qa/lib/HgTracks.java
  • 1.18 lines changed: 8, context: html, text, full: html, text
    Quick fix to keep TrackCheck from choking on supertracks.
• src/fuse/udcFuse/udcFuse.c
  • 1.7 lines changed: 42, context: html, text, full: html, text
    Make empty directory appear to be non-existent, so udcFuse doesn't get confused by an empty dir becoming a regular file (i.e. udcCache dir with bitmap and sparseData).
• src/hg/encode/encodePatchTdb/encodePatchTdb.c
  • 1.3 lines changed: 317, context: html, text, full: html, text
    Making it ignore parent track in patch.ra. Also making subTrack point to view instead of parent. Making indentation work.
• src/hg/encode/encodeValidate/config/cv.ra
  • 1.171 lines changed: 78, context: html, text, full: html, text
    Added antibody ZNF274 for Snyder lab and reordered a couple of antibodies
  • 1.170 lines changed: 18, context: html, text, full: html, text
    Altered 'pending' cell lines to put '(provisional)' in description.
  • 1.169 lines changed: 104, context: html, text, full: html, text
    Added 10 provisional cell lines for Stam lab
• src/hg/hgTracks/bamTrack.c
  • 1.22 lines changed: 2, context: html, text, full: html, text
    pairSearchRange can yield many items that are completely out of the window. Exclude those from tg->items so they don't inflate the item count and scare us off of making map links.
• src/hg/inc/versionInfo.h
  • 1.163 lines changed: 1, context: html, text, full: html, text
    "New version number v222"
• src/hg/makeDb/doc/hg18.txt
  • 1.393 lines changed: 26, context: html, text, full: html, text
    Documented changing Burge RNA-seq data format to BED and re-loading tables.
• src/hg/makeDb/doc/hg19.txt
  • 1.70 lines changed: 35, context: html, text, full: html, text
    Changed data for Burge RNA-seq track to BED format. Moved Exoniphy trackDb entry to human level trackDb.ra file.
• src/hg/makeDb/trackDb/human/hg16/trackDb.ra
  • 1.582 lines changed: 9, context: html, text, full: html, text
    Removed exoniphy entry as the exoniphy track has been added to human level as trackDb entry is the same for all human assemblies.
• src/hg/makeDb/trackDb/human/hg17/trackDb.ra
  • 1.434 lines changed: 9, context: html, text, full: html, text
    Removed exoniphy entry as the exoniphy track has been added to human level as trackDb entry is the same for all human assemblies.
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
  • 1.447 lines changed: 9, context: html, text, full: html, text
    Removed exoniphy entry as the exoniphy track has been added to human level as trackDb entry is the same for all human assemblies.
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.737 lines changed: 62, context: html, text, full: html, text
    fix up some GIS Pet tracks that were total not longPolyA. Also remove reference to wig files for signals
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • 1.80 lines changed: 9, context: html, text, full: html, text
    Removed exoniphy entry as the exoniphy track has been added to human level as trackDb entry is the same for all human assemblies.
• src/hg/makeDb/trackDb/human/trackDb.ra
  • 1.487 lines changed: 1, context: html, text, full: html, text
    Changed Burge RNA-seq track data type to bed 12.
  • 1.486 lines changed: 9, context: html, text, full: html, text
    added exoniphy to human level as trackDb entry is the same for all assemblies.
• src/hg/makeDb/trackDb/mouse/trackDb.ra
  • 1.176 lines changed: 12, context: html, text, full: html, text
    Removing jaxQTL, which had a name conflict with jaxQtl
• src/hg/tcga/pBamBam/makefile
  • 1.3 lines changed: 10, context: html, text, full: html, text
    initial commit
• src/hg/tcga/pBamBam/pBamStats.c
  • 1.2 lines changed: 6, context: html, text, full: html, text
    updated
  • 1.1 lines changed: 6, context: html, text, full: html, text
    initial commit
• src/utils/qa/weeklybld/buildCvsReports.csh
  • 1.25 lines changed: 6, context: html, text, full: html, text
    added output to display command executed
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.94 lines changed: 3, context: html, text, full: html, text
    v222 final build
• src/utils/qa/weeklybld/cvs-reports-d
  • 1.14 lines changed: 7, context: html, text, full: html, text
    trying to deal with new cvs version where cvs diff no longer supports non-existent revision 1.0 as a magical previous for a new file
• src/utils/qa/weeklybld/makeStrictBeta.csh
  • 1.7 lines changed: 3, context: html, text, full: html, text
    minor cleanup

• lines changed: 792
• files changed: 21