kent: changes by file

branch to review (2010-01-05 to 2010-01-12) v223

• src/hg/encode/encodePatchTdb/encodePatchTdb.c
  • 1.8 lines changed: 24, context: html, text, full: html, text
    Removing some unused code.
  • 1.7 lines changed: 93, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
  • 1.6 lines changed: 5, context: html, text, full: html, text
    Getting rid of unused command line options.
  • 1.5 lines changed: 33, context: html, text, full: html, text
    Removing unused routine.
  • 1.4 lines changed: 35, context: html, text, full: html, text
    Implementing mode=replace
• src/hg/encode/encodePatchTdb/makefile
  • 1.3 lines changed: 3, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/test.sh
  • 1.2 lines changed: 2, context: html, text, full: html, text
    Adding another test case.
  • 1.1 lines changed: 2, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/trackDb.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/expected/add1.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/expected/add3.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/expected/composite.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Adding another test case.
• src/hg/encode/encodePatchTdb/tests/expected/replace1.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/expected/replace3.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/expected/replace3NoComment.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/in/add1.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/in/add3.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/in/composite.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Adding another test case.
• src/hg/encode/encodePatchTdb/tests/in/replace1.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/encode/encodePatchTdb/tests/in/replace3.ra
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Fixing stanza merge problem when there is no line before stanza in patch file. Fixing replace eating a stanza. Making replace just comment out old stanza by default, but there's a noComment option. Putting in test suite.
• src/hg/hgTracks/altGraphXTrack.c
  • 1.16 lines changed: 2, context: html, text, full: html, text
    Fixing indentation. Removing an unused define/ifdef. Adding braces for readability in a couple of places.
• src/hg/hgTracks/hgTracks.c
  • 1.1618 lines changed: 41, context: html, text, full: html, text
    Fixing indentation. Removing an unused define/ifdef. Adding braces for readability in a couple of places.
• src/hg/makeDb/hgTrackDb/hgTrackDb.c
  • 1.60 lines changed: 2, context: html, text, full: html, text
    Rescuing conservation track and others that have "subTrack parentTrack on" rather than just "subTrack parentTrack"
• src/utils/wigToBedGraph/makefile
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.
• src/utils/wigToBedGraph/testFixed.bedGraph
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.
• src/utils/wigToBedGraph/testFixed.wig
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.
• src/utils/wigToBedGraph/testVar.bedGraph
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.
• src/utils/wigToBedGraph/testVar.wig
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.
• src/utils/wigToBedGraph/wigToBedGraph.c
  • 1.1 lines changed: 0, context: html, text, full: html, text
    Utility to convert wigs to bedGraphs seems to be working in basic tests at least.