angie: changes by file

review to branch (2009-02-17 to 2009-02-24) v201

• src/hg/hgTrackUi/hgTrackUi.c
  • 1.473 lines changed: 46, context: html, text, full: html, text
    Added dgvUi: filter items by publication reference.
• src/hg/hgTracks/simpleTracks.c
  • 1.63 lines changed: 43, context: html, text, full: html, text
    Added dgvMethods: filter items by publication reference.
• src/hg/inc/jksql.h
  • 1.80 lines changed: 1, context: html, text, full: html, text
    sc->conn->db can be NULL -- when printing out monitor messages, use 'db=?' instead of NULL.
• src/hg/lib/dgv.as
  • 1.2 lines changed: 2, context: html, text, full: html, text
    Corrected description of thickStart and thickEnd.
• src/hg/lib/hgFind.c
  • 1.217 lines changed: 4, context: html, text, full: html, text
    When testing xrefTable existence, use sqlTableExists instead of hTableOrSplitExists in order to support an xrefTable in some other db. hTableOrSplitExists actually uses a cached 'show tables' from the current db.
  • 1.216 lines changed: 2, context: html, text, full: html, text
    Bugfix: addPslResultToHgp: strip initial all_ from tableName (we used to use the lowercased GenBank type!).
  • 1.215 lines changed: 193, context: html, text, full: html, text
    Refactored findMrnaPos and its callees, and added support for intronEst.
• src/hg/lib/jksql.c
  • 1.127 lines changed: 12, context: html, text, full: html, text
    sc->conn->db can be NULL -- when printing out monitor messages, use 'db=?' instead of NULL.
• src/hg/makeDb/doc/dm2.txt
  • 1.23 lines changed: 5, context: html, text, full: html, text
    bdtnpChipper (old change): corrected regex, found another subtrack.
• src/hg/makeDb/doc/dm3.txt
  • 1.24 lines changed: 116, context: html, text, full: html, text
    Added bdtnpChipper (liftOver from dm2).
• src/hg/makeDb/doc/hg17.txt
  • 1.119 lines changed: 14, context: html, text, full: html, text
    Remove thin tails from DGV (SAB feedback).
• src/hg/makeDb/doc/hg18.txt
  • 1.350 lines changed: 160, context: html, text, full: html, text
    Remove thin tails from DGV (SAB feedback). Added 5 tracks from Human Genome Diversity Project.
• src/hg/makeDb/doc/mm9.txt
  • 1.90 lines changed: 54, context: html, text, full: html, text
    Updated komp (now called IKMC) w/new data from Carol Bult.
• src/hg/makeDb/trackDb/human/hg18/pgSnp.html
  • 1.6 lines changed: 75, context: html, text, full: html, text
    New ref for NA18507, new links, reformatting and a couple wording tweaks.
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
  • 1.374 lines changed: 9, context: html, text, full: html, text
    Oops, PSU didn't do the sequencing of NA18507; dropping the SOLiD NA18507 subtrack, at least until I can get more info about it. Thanks Belinda!
  • 1.373 lines changed: 4, context: html, text, full: html, text
    pgSnp: if I were not making slides for the SAB meeting I would not be spending so much time on capitalization and punctuation, but here we are.
  • 1.372 lines changed: 9, context: html, text, full: html, text
    pgSnp: New info from Belinda (thanks!) and a couple more label tweaks.
• src/hg/makeDb/trackDb/mouse/komp.html
  • 1.4 lines changed: 45, context: html, text, full: html, text
    komp (IKMC): updates from Carol Bult.