Commits for galt

v273_preview2 to v273_base (2012-09-11 to 2012-09-18) v273

• Revert "removing arbitrary limit on bigBed -- let users have more control"
  This reverts commit e4aec0c172a44c018885a6b9f33b7d65a8b8047b.
  
  I guess we are back to having a limit, but it will be increased from 500 to 3000
  
  • src/hg/hgTracks/bigBedTrack.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 2, context: html, text, full: html, text
• increasing BIGBEDMAXIMUMITEMS from 500 to 3000
  • src/hg/hgTracks/hgTracks.h - lines changed 1, context: html, text, full: html, text
• oops should use min instead of max
  • src/hg/hgTracks/bigBedTrack.c - lines changed 1, context: html, text, full: html, text
• adjust chromosome name from cosmicraw table for output
  • src/hg/hgc/hgc.c - lines changed 8, context: html, text, full: html, text
• add tracking of connect-failures to hgCustom and hgTracks which may have many bigDataUrls pointing to the same failing site; also fixed a bug in the timeout handling of EINTR
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/mainMain.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/renderMain.c - lines changed 2, context: html, text, full: html, text
  • src/inc/net.h - lines changed 17, context: html, text, full: html, text
  • src/lib/https.c - lines changed 10, context: html, text, full: html, text
  • src/lib/net.c - lines changed 135, context: html, text, full: html, text
• oops, missed including net.h in hgCustom to support setConnFailuresEnabled
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text
• turn setConnFailuresEnabled for v273, do not want to many changes at once
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/mainMain.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/renderMain.c - lines changed 1, context: html, text, full: html, text
• making tcp connect timeout be a define constant
  • src/inc/net.h - lines changed 2, context: html, text, full: html, text
  • src/lib/https.c - lines changed 4, context: html, text, full: html, text
  • src/lib/net.c - lines changed 1, context: html, text, full: html, text
• fixing problems related to cut and paste of url which was picking up trailing blanks - now by removing trailing newline before closing-td and adding jquery trim function we prevent those blanks and remove them even if they somehow get added by some other cause.
  • src/hg/hgHubConnect/hgHubConnect.c - lines changed 4, context: html, text, full: html, text