markd: changes by file

review to branch (2009-06-30 to 2009-07-07) v210

• src/hg/autoSql/autoSql.c
  • 1.38 lines changed: 10, context: html, text, full: html, text
    adjust enum/set values to be valid C indentifiers
• src/hg/autoSql/makefile
  • 1.16 lines changed: 6, context: html, text, full: html, text
    adjust enum/set values to be valid C indentifiers
• src/hg/inc/gbSeq.h
  • 1.1 lines changed: 81, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/inc/hCommon.h
  • 1.25 lines changed: 4, context: html, text, full: html, text
    deleted no longer needed function
• src/hg/inc/refSeqStatus.h
  • 1.2 lines changed: 42, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/gbSeq.as
  • 1.1 lines changed: 14, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/gbSeq.c
  • 1.1 lines changed: 168, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/gbSeq.sql
  • 1.1 lines changed: 19, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/genbankTables.as
  • 1.6 lines changed: 14, context: html, text, full: html, text
    removed gbSeq, as it is in it's own file
• src/hg/lib/makefile
  • 1.391 lines changed: 1, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/refSeqStatus.as
  • 1.3 lines changed: 1, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/refSeqStatus.c
  • 1.4 lines changed: 39, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/lib/refSeqStatus.sql
  • 1.2 lines changed: 2, context: html, text, full: html, text
    added some .h files for genbank tables
• src/hg/makeDb/genbank/etc/dbload
  • 1.29 lines changed: 3, context: html, text, full: html, text
    don't adjust core limit
• src/hg/makeDb/genbank/src/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    added program to quickly validate refseq tables
• src/hg/makeDb/genbank/src/inc/gbDefs.h
  • 1.9 lines changed: 1, context: html, text, full: html, text
    added program to quickly validate refseq tables
• src/hg/pslCDnaFilter/algo.txt
  • 1.3 lines changed: 1, context: html, text, full: html, text
    fixed typo in help
  • 1.2 lines changed: 3, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/cDnaAligns.c
  • 1.19 lines changed: 10, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/cDnaAligns.h
  • 1.13 lines changed: 1, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/cDnaStats.c
  • 1.2 lines changed: 40, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/cDnaStats.h
  • 1.2 lines changed: 15, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/overlapFilter.c
  • 1.8 lines changed: 91, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
  • 1.7 lines changed: 2, context: html, text, full: html, text
    clairfed documentation
• src/hg/pslCDnaFilter/overlapFilter.h
  • 1.5 lines changed: 8, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
  • 1.4 lines changed: 2, context: html, text, full: html, text
    clairfed documentation
• src/hg/pslCDnaFilter/pslCDnaFilter.c
  • 1.21 lines changed: 63, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/usage.txt
  • 1.11 lines changed: 2, context: html, text, full: html, text
    fixed typo in help
  • 1.10 lines changed: 9, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
  • 1.9 lines changed: 2, context: html, text, full: html, text
    clairfed documentation
• src/hg/pslCDnaFilter/tests/makefile
  • 1.13 lines changed: 9, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/globalBestTest/filt.out
  • 1.3 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/hapGlobalTest/filt.out
  • 1.2 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/hapLocalTest/filt.out
  • 1.2 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/hapLocalXenoTest/filt.out
  • 1.2 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/localBestTest/filt.out
  • 1.3 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/minAlnSizeTest/filt.out
  • 1.4 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/nonRepMismatchTest/filt.out
  • 1.2 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/nonRepSizeTest/filt.out
  • 1.4 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/noopTest/filt.out
  • 1.6 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/noopTest/weird.psl
  • 1.2 lines changed: 9, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/overlapTest/filt.out
  • 1.9 lines changed: 4, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/overlapTest/weird.psl
  • 1.5 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/hg/pslCDnaFilter/tests/expected/repMatchTest/filt.out
  • 1.7 lines changed: 2, context: html, text, full: html, text
    added option to drop weird overlapps independent of other filtering
• src/parasol/paraHub/makefile
  • 1.20 lines changed: 1, context: html, text, full: html, text
    fixed library list so SSL can be included