tdreszer: changes by commit

branch to review (2010-03-23 to 2010-03-30) v228

• Point peaks should be 1 based.
  • src/hg/hgc/encodeClick.c 1.13 - lines changed: 1, context: html, text, full: html, text
• Expanded to a near complet sort order list, added noMetaTbl option to compare old and new metadata methods, expanded fileMask to include bigWig, bigBed and BAM.
  • src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl 1.30 - lines changed: 17, context: html, text, full: html, text
• Check for metaTbl before querying.
  • src/hg/lib/metaTbl.c 1.5 - lines changed: 26, context: html, text, full: html, text
• Cleaned up the composite and dataType suffixes
  • src/hg/encode/DAFs/2.0/dukeDnaseSeq.daf 1.3 - lines changed: 1, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordChipSeq.daf 1.3 - lines changed: 3, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/uncFaireSeq.daf 1.4 - lines changed: 2, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/utAustinChipSeq.daf 1.3 - lines changed: 1, context: html, text, full: html, text
• Added link for antibody validation documents. Now if we can just get some.
  • src/hg/encode/hgEncodeVocab/hgEncodeVocab.c 1.31 - lines changed: 89, context: html, text, full: html, text
• Added missing JunD description and antibody validation document variable
  • src/hg/encode/encodeValidate/config/cv.ra 1.217 - lines changed: 103, context: html, text, full: html, text
• Peaks and Points oh my
  • src/hg/hgc/encodeClick.c 1.14 - lines changed: 1, context: html, text, full: html, text
• Added Zinba peaks to FAIRE portion of Open Chrom
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.931 - lines changed: 75, context: html, text, full: html, text
• Fixed bug that prevented non-metaTbl metadata from showing up without special flag
  • src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl 1.31 - lines changed: 9, context: html, text, full: html, text
• Last minute addition of Zinba peaks
  • src/hg/makeDb/doc/encodeDccHg18/openChromatinR3.notes.txt 1.4 - lines changed: 26, context: html, text, full: html, text
• Handle slightly changed metaTbl API
  • src/hg/lib/hui.c 1.267 - lines changed: 3, context: html, text, full: html, text
• Some adjustments recommened by Mark in code review
  • src/hg/inc/metaTbl.h 1.5 - lines changed: 19, context: html, text, full: html, text
  • src/hg/lib/metaTbl.c 1.6 - lines changed: 82, context: html, text, full: html, text
• Some adjustments recommended by Mark in code reivew
  • src/hg/makeDb/metaTblUpdate/metaTblPrint.c 1.4 - lines changed: 13, context: html, text, full: html, text
  • src/hg/makeDb/metaTblUpdate/metaTblUpdate.c 1.5 - lines changed: 10, context: html, text, full: html, text
• Fix to evaluating subtrackFourStateChecked checkBox
  • src/hg/lib/hui.c 1.268 - lines changed: 5, context: html, text, full: html, text
• Zinba peaks have qValue and no pValue
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.932 - lines changed: 3, context: html, text, full: html, text
• Ready for release3
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.48 - lines changed: 9, context: html, text, full: html, text
• Corrected metadata for 2 HAIB TFBS tracks that needed to be resubmitted
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.933 - lines changed: 2, context: html, text, full: html, text
• Forgot to set dateResubmitted
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.934 - lines changed: 2, context: html, text, full: html, text
• Added one Zinba peak and changed the view from Zinba Peaks to Peaks Zinba
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.935 - lines changed: 25, context: html, text, full: html, text
• Added one more Zinba peak
  • src/hg/makeDb/doc/encodeDccHg18/openChromatinR3.notes.txt 1.5 - lines changed: 2, context: html, text, full: html, text
• Initial check in of a subset of the stanford DAFs
  • src/hg/encode/DAFs/2.0/stanfordHg19Hist.daf 1.1 - lines changed: 43, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordHg19HistInput.daf 1.1 - lines changed: 37, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordHg19Tfbs.daf 1.1 - lines changed: 43, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordHg19TfbsInput.daf 1.1 - lines changed: 37, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordMm9Tfbs.daf 1.1 - lines changed: 43, context: html, text, full: html, text
  • src/hg/encode/DAFs/2.0/stanfordMm9TfbsInput.daf 1.1 - lines changed: 37, context: html, text, full: html, text