mikep: changes by file

branch to review (2009-07-07 to 2009-07-15) v210

• src/hg/encode/DAFs/CshlLongRnaSeq.daf
  • 1.2 lines changed: 2, context: html, text, full: html, text
    new datatype as this will be a separate composite track from CshlRnaSeq (short RNA-seq)
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • 1.68 lines changed: 1, context: html, text, full: html, text
    dont need comment
  • 1.67 lines changed: 5, context: html, text, full: html, text
    removed deprecated warning and added check for raw directory
• src/hg/makeDb/hgLoadBed/makefile
  • 1.23 lines changed: 4, context: html, text, full: html, text
    fixing same problem with g+w, teh fiels are alrady this permission
  • 1.22 lines changed: 4, context: html, text, full: html, text
    merging fix for weekly build, stops make failing with error if done sequentially by 2 different people
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.419 lines changed: 31, context: html, text, full: html, text
    new GIS RnaSeq data
  • 1.417 lines changed: 210, context: html, text, full: html, text
    GIS PET new tracks loaded
  • 1.415 lines changed: 59, context: html, text, full: html, text
    fixed up coloring and track short/long labels to all be standard for CSHL and Affy and fixed up track settings for Transfrags
  • 1.413 lines changed: 26, context: html, text, full: html, text
    CSHL Long RNA-seq is a new composite type
  • 1.412 lines changed: 18, context: html, text, full: html, text
    Long RNA Seq for CSHL
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCshlLoRnaSeq.html
  • 1.3 lines changed: 8, context: html, text, full: html, text
    updated documentation
  • 1.2 lines changed: 22, context: html, text, full: html, text
    formatting
  • 1.1 lines changed: 115, context: html, text, full: html, text
    first version of doc for CSHL Long RNA-seq
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCshlRnaSeq.html
  • 1.7 lines changed: 60, context: html, text, full: html, text
    updated documentation
• src/hg/perf/hgTracksRandom.c
  • 1.16 lines changed: 1, context: html, text, full: html, text
    notify the database being queried unless -quiet
  • 1.15 lines changed: 5, context: html, text, full: html, text
    get default database from default genome instead of hg17
• src/lib/htmlPage.c
  • 1.37 lines changed: 1, context: html, text, full: html, text
    allow INPUT tags inside SCRIPT tags for where we have javascript modifying FORM controls
• src/utils/qa/weeklybld/buildBeta.csh
  • 1.18 lines changed: 1, context: html, text, full: html, text
    better errror message
• src/utils/qa/weeklybld/buildCgi32.csh
  • 1.18 lines changed: 1, context: html, text, full: html, text
    different link line with gbWarn in it
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.68 lines changed: 2, context: html, text, full: html, text
    v211 preview
  • 1.67 lines changed: 3, context: html, text, full: html, text
    to build with SSL and BAM
• src/utils/qa/weeklybld/buildUtils.csh
  • 1.16 lines changed: 1, context: html, text, full: html, text
    colon after variable is interpreted by CSH, oops