File Changes for markd

v305_preview2 to v305_base (2014-08-25 to 2014-09-02) v305

• src/hg/makeDb/doc/mm10.txt
  • lines changed 54, context: html, text, full: html, text
    import mouse GENCODE VM3
• src/hg/makeDb/schema/all.joiner
  • lines changed 80, context: html, text, full: html, text
    import mouse GENCODE VM3
• src/hg/makeDb/trackDb/human/hg38/trackDb.wgEncode.ra
  • lines changed 7, context: html, text, full: html, text
    add ensembl version to gencode label
• src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV20.ra
  • lines changed 5, context: html, text, full: html, text
    add ensembl version to gencode label
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra
  • lines changed 3, context: html, text, full: html, text
    import mouse GENCODE VM3
• src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM3.html
  • lines changed 311, context: html, text, full: html, text
    import mouse GENCODE VM3
• src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM3.ra
  • lines changed 263, context: html, text, full: html, text
    import mouse GENCODE VM3
• src/hg/pslCDnaFilter/cDnaStats.c
  • lines changed 25, context: html, text, full: html, text
    add option to save filtering statistics to file rather then writing to stderr
• src/hg/pslCDnaFilter/cDnaStats.h
  • lines changed 2, context: html, text, full: html, text
    add option to save filtering statistics to file rather then writing to stderr
• src/hg/pslCDnaFilter/pslCDnaFilter.c
  • lines changed 11, context: html, text, full: html, text
    add option to save filtering statistics to file rather then writing to stderr
• src/hg/pslCDnaFilter/tests/expected/blackListTest/keep.psl
  • lines changed 15, context: html, text, full: html, text
    for some reason expected test order was wrong
  • lines changed 79, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/decayMinCoverTest/keep.psl
  • lines changed 2, context: html, text, full: html, text
    for some reason expected test order was wrong
  • lines changed 31, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/globalBestTest/keep.psl
  • lines changed 4, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/hapGlobalTest/keep.psl
  • lines changed 6, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/hapLocalTest/keep.psl
  • lines changed 6, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/localBestTest/keep.psl
  • lines changed 8, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/maxAlignTest/keep.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/minSpan10Test/keep.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/noopTest/keep.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/noopTest/weird.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/overlapTest/weird.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/uniqueMappedHapTest/keep.psl
  • lines changed 4, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/expected/weirdOverlappedFilterTest/weird.psl
  • lines changed 2, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/tests/makefile
  • lines changed 2, context: html, text, full: html, text
    add option to save filtering statistics to file rather then writing to stderr
  • lines changed 1, context: html, text, full: html, text
    fix problem with sort order of pslCDnaFilter test results being non-deterministic in some cases
• src/hg/pslCDnaFilter/usage.txt
  • lines changed 3, context: html, text, full: html, text
    add option to save filtering statistics to file rather then writing to stderr