tdreszer: changes by commit

branch to review (2009-10-13 to 2009-10-20) v218

• Nine more UwChIP submissions
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.577 - lines changed: 300, context: html, text, full: html, text
• Removed 3 tables erroneously listed as new. Thanks Ann
  • src/hg/makeDb/doc/encodeDccHg18/yaleUpdate9-30.notes.txt 1.3 - lines changed: 4, context: html, text, full: html, text
• Keeping up to date
  • src/hg/makeDb/doc/encodeDccHg18/broadBernstein.txt 1.6 - lines changed: 48, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg18/dukeUtaUncCrawford.txt 1.8 - lines changed: 438, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg18/uwStam.txt 1.2 - lines changed: 102, context: html, text, full: html, text
  • src/hg/makeDb/doc/encodeDccHg18/yaleDavisHarvardSnyder.txt 1.8 - lines changed: 692, context: html, text, full: html, text
• Cleaned up commented out and replaced tracks
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.585 - lines changed: 193, context: html, text, full: html, text
• Added one last submission for Terry. Fixed some DNCT view limits and colors
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.586 - lines changed: 87, context: html, text, full: html, text
• Release 2 is out the door.
  • src/hg/makeDb/doc/encodeDccHg18/yaleDavisHarvardSnyder.txt 1.9 - lines changed: 74, context: html, text, full: html, text
• Getting things ready for Release2
  • src/hg/makeDb/doc/encodeDccHg18/broadBernstein.txt 1.7 - lines changed: 390, context: html, text, full: html, text
• Minor edit
  • src/hg/makeDb/doc/encodeDccHg18/broadChipSeq.notes.txt 1.2 - lines changed: 5, context: html, text, full: html, text
• Minor edits - no change of table/file lists
  • src/hg/makeDb/doc/encodeDccHg18/broadChipSeq.notes.txt 1.4 - lines changed: 304, context: html, text, full: html, text
• Altered E2F1 to HA-E2F1 at Farnham's request
  • src/hg/encode/encodeValidate/config/cv.ra 1.135 - lines changed: 4, context: html, text, full: html, text
• Type HA-E2F1 not H1-E2F1
  • src/hg/encode/encodeValidate/config/cv.ra 1.136 - lines changed: 20, context: html, text, full: html, text
• Don't you know I am just trying to up my total modified lines in cvs-reports.
  • src/hg/encode/encodeValidate/config/cv.ra 1.137 - lines changed: 14, context: html, text, full: html, text
• No sooner is Yale publicly released than errors are found that need correction. HA to HA-E2F1 and make GM12989 and K562 tracks on by default
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.587 - lines changed: 14, context: html, text, full: html, text
• Metatdata typo
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.588 - lines changed: 1, context: html, text, full: html, text
• Changed Broad link by request of Charles Epstein
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeBroadChipSeq.html 1.15 - lines changed: 1, context: html, text, full: html, text
• Fixed Broad metadata, 5 cases of H3K04me1 which should have been H3K4me1
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.590 - lines changed: 5, context: html, text, full: html, text
• Changed UwDGF signals settings as per Stam lab.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.591 - lines changed: 4, context: html, text, full: html, text
• bedGraph 4 cannot handle viewLimits on same line
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.592 - lines changed: 6, context: html, text, full: html, text
• Cleaned up the release notes a little and removed references to Raw Signals
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeBroadChipSeq.html 1.19 - lines changed: 32, context: html, text, full: html, text
• Added dyStringCreate which will create a new dyString from printf style content.
  • src/inc/common.h 1.156 - lines changed: 4, context: html, text, full: html, text
  • src/inc/dystring.h 1.19 - lines changed: 3, context: html, text, full: html, text
  • src/lib/dystring.c 1.24 - lines changed: 12, context: html, text, full: html, text
• Added dimensionZchecked for supporting the new 3-way dimension checkboxes
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra 1.421 - lines changed: 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.595 - lines changed: 10, context: html, text, full: html, text
• Added findWordByDemiliter which allows searching a string for a word, but the word must be set off by a delimiter.
  • src/lib/common.c 1.134 - lines changed: 33, context: html, text, full: html, text
• Added halfVis class to support 3-way matrix CBs
  • src/lib/cheapcgi.c 1.125 - lines changed: 1, context: html, text, full: html, text
• Changes to support the matrix 3-way CBs. Requires hui.js to be uptodate as well.
  • src/hg/lib/hui.c 1.241 - lines changed: 44, context: html, text, full: html, text
• Major changes to support the matrix 3-way CBs. Also some cleanup of old code.
  • src/hg/js/hui.js 1.38 - lines changed: 459, context: html, text, full: html, text