tdreszer: changes by commit

branch to review (2010-03-02 to 2010-03-16) v227

• Making sure all of Jurkat files/tables are treated as if new. Thanks Katrina for noticing this problem.
  • src/hg/makeDb/doc/encodeDccHg18/uwDnaseSeq.release3.notes.txt 1.3 - lines changed: 32, context: html, text, full: html, text
• HAIB TFBS HepG2/SRF has only one replicate which has been renamed rep1
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.900 - lines changed: 10, context: html, text, full: html, text
• Changed a whole lot of Seqs to seqs
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.901 - lines changed: 157, context: html, text, full: html, text
• Noticed some more discrepencies
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.902 - lines changed: 12, context: html, text, full: html, text
• Only rep2 for HepG2/SRF so promoting it to rep1
  • src/hg/makeDb/doc/encodeDccHg18/haibTfsbRelease2Lists.txt 1.5 - lines changed: 13, context: html, text, full: html, text
• Getting ready for release3
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.904 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeChromatinMap.html 1.29 - lines changed: 42, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeChromatinMapRelease2.html 1.1 - lines changed: 331, context: html, text, full: html, text
• Included index.html and others
  • src/hg/makeDb/doc/encodeDccHg18/broadChipSeqRelease3Lists.txt 1.2 - lines changed: 10, context: html, text, full: html, text
• Reworked paths and included index.html
  • src/hg/makeDb/doc/encodeDccHg18/openChromatinR3.notes.txt 1.2 - lines changed: 592, context: html, text, full: html, text
• Reworked paths - again
  • src/hg/makeDb/doc/encodeDccHg18/openChromatinR3.notes.txt 1.3 - lines changed: 250, context: html, text, full: html, text
• Moved certain terms from 'Control' to explicitly 'input'
  • src/hg/encode/encodeValidate/config/cv.ra 1.214 - lines changed: 47, context: html, text, full: html, text
• Added 'input'
  • src/hg/encode/encodeValidate/config/fields.ra 1.26 - lines changed: 5, context: html, text, full: html, text
• alpha/beta ize Yale TFBS
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.905 - lines changed: 1657, context: html, text, full: html, text
• Loaded in missing IgG-rab input for Yale TFBS
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.906 - lines changed: 203, context: html, text, full: html, text
• Renamed tables and files to match metadata on Yale TFSB
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.907 - lines changed: 44, context: html, text, full: html, text
• Unrevoked HUVEC for YDH TFBS now that input is loaded.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.909 - lines changed: 75, context: html, text, full: html, text
• Release 2 should go out in March 2010 hopefully
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaChipSeq.html 1.23 - lines changed: 1, context: html, text, full: html, text
• Added HeLa/Brg1/IgG-mus as last holdout from Jan 2010 freeze to YDH TFBS
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.910 - lines changed: 21, context: html, text, full: html, text
• Getting ready for Release3
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseqRelease2.html 1.1 - lines changed: 217, context: html, text, full: html, text
• Removed revoked crud and set up html for YDH TFSB release2 so that Release3 can proceed
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.911 - lines changed: 25, context: html, text, full: html, text
• utils.js needs to be there whether advancedJavascriptFeatures is on or not
  • src/hg/hgTracks/hgTracks.c 1.1634 - lines changed: 2, context: html, text, full: html, text
• Change which is currently ifdeffed out, that avoids warning
  • src/hg/hgTracks/simpleTracks.c 1.128 - lines changed: 7, context: html, text, full: html, text
• Move some javascript code into c to speed handling massive images
  • src/hg/hgTracks/imageV2.c 1.25 - lines changed: 2, context: html, text, full: html, text
  • src/hg/js/hgTracks.js 1.59 - lines changed: 41, context: html, text, full: html, text
• Fixed postToSaveSettings 'this' should have been 'obj'
  • src/hg/js/hgTracks.js 1.60 - lines changed: 1, context: html, text, full: html, text
• Fixed halfVis style
  • src/lib/cheapcgi.c 1.132 - lines changed: 1, context: html, text, full: html, text
• halfVis not ready for primetime, because ff and ie can't agree
  • src/lib/cheapcgi.c 1.133 - lines changed: 1, context: html, text, full: html, text
• Replaced 2 cgiString calls with cartString calls.
  • src/hg/hgc/encodeClick.c 1.12 - lines changed: 2, context: html, text, full: html, text
• Minor change to clarify, though I don't think postTheForm has ever been called without the href
  • src/hg/js/utils.js 1.29 - lines changed: 5, context: html, text, full: html, text
• Fix bug with map area clicking
  • src/hg/hgTracks/imageV2.c 1.26 - lines changed: 1, context: html, text, full: html, text
  • src/hg/js/hgTracks.js 1.61 - lines changed: 13, context: html, text, full: html, text