mikep: changes by file

branch to review (2009-02-09 to 2009-02-17) v200

• src/hg/encode/DAFs/GisDnaPet.daf
  • 1.3 lines changed: 38, context: html, text, full: html, text
    draft including discordant tag alignments
• src/hg/encode/DAFs/HelicosRnaSeq.daf
  • 1.1 lines changed: 48, context: html, text, full: html, text
    first version of helicos rna seq daf
• src/hg/encode/DAFs/WoldRnaSeq.daf
  • 1.2 lines changed: 30, context: html, text, full: html, text
    version of D?F that was successfully loaded
• src/hg/encode/DAFs/WoldRnaSeq.ex.ddf
  • 1.3 lines changed: 33, context: html, text, full: html, text
    version of D?F that was successfully loaded
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • 1.56 lines changed: 1, context: html, text, full: html, text
    allow 12-column beds for Wold
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • 1.154 lines changed: 2, context: html, text, full: html, text
    test for table name too long
  • 1.153 lines changed: 17, context: html, text, full: html, text
    fixed mismatched duplicates of downloadOnly logic by moving to a function
  • 1.152 lines changed: 7, context: html, text, full: html, text
    forgot a <tab>
  • 1.151 lines changed: 1, context: html, text, full: html, text
    forgot a <tab>
  • 1.150 lines changed: 6, context: html, text, full: html, text
    fixes to first 21 ccolumns of psl format (commas at end of last 3)
  • 1.149 lines changed: 2, context: html, text, full: html, text
    assuming last column is optional as missing from some data
  • 1.148 lines changed: 3, context: html, text, full: html, text
    allow commas
  • 1.147 lines changed: 1, context: html, text, full: html, text
    allow dots in there
  • 1.146 lines changed: 6, context: html, text, full: html, text
    allow pipes in the name in bowtie
  • 1.145 lines changed: 3, context: html, text, full: html, text
    allowing gene name to comprise any char but <tab>
  • 1.144 lines changed: 3, context: html, text, full: html, text
    RawData3 and RawData4 types are for Wold lab
  • 1.143 lines changed: 85, context: html, text, full: html, text
    validation rules for new Wold download types
  • 1.142 lines changed: 48, context: html, text, full: html, text
    added null validators for rpkm, fasta, bowtie, psl formats
• src/hg/encode/encodeValidate/config/cv.ra
  • 1.72 lines changed: 4, context: html, text, full: html, text
    shortening names for sake of 64 char table name limit in mysql
  • 1.71 lines changed: 2, context: html, text, full: html, text
    shortening for table name limit of 64 chars for Wold
  • 1.70 lines changed: 4, context: html, text, full: html, text
    no algorithm applicable for some data like download only sequences
  • 1.69 lines changed: 10, context: html, text, full: html, text
    new tag map algorithms for Wold
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.153 lines changed: 484, context: html, text, full: html, text
    First version of Wold tracks
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.47 lines changed: 2, context: html, text, full: html, text
    v201 preview
• src/utils/qa/weeklybld/doNewBranch32.csh
  • 1.6 lines changed: 1, context: html, text, full: html, text
    dont hang on input
• src/utils/qa/weeklybld/doRobots.csh
  • 1.12 lines changed: 3, context: html, text, full: html, text
    get stdin from dev/null
• src/utils/qa/weeklybld/doZip.csh
  • 1.7 lines changed: 3, context: html, text, full: html, text
    dont hang on input