Commits for braney

v295_preview2 to v295_base (2014-01-27 to 2014-02-03) v295

• add "-clientLoad" to call to hgLoadPsl in synBlastp.csh
  • src/hg/utils/automation/synBlastp.csh - lines changed 1, context: html, text, full: html, text
• make pslToBed tests less bloated
  • src/hg/pslToBed/tests/expected/doTest1.bed - lines changed 285, context: html, text, full: html, text
  • src/hg/pslToBed/tests/expected/doTest1.bed.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/pslToBed/tests/expected/doTest2.bed - lines changed 55307, context: html, text, full: html, text
  • src/hg/pslToBed/tests/expected/doTest2.bed.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/pslToBed/tests/input/test1.psl - lines changed 285, context: html, text, full: html, text
  • src/hg/pslToBed/tests/input/test1.psl.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/pslToBed/tests/input/test2.cds - lines changed 43689, context: html, text, full: html, text
  • src/hg/pslToBed/tests/input/test2.cds.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/pslToBed/tests/input/test2.psl - lines changed 55307, context: html, text, full: html, text
  • src/hg/pslToBed/tests/input/test2.psl.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/pslToBed/tests/makefile - lines changed 5, context: html, text, full: html, text
• fix a problem with disappearing narrow peaks in bigWig display. See #12558
  • src/lib/bbiRead.c - lines changed 1, context: html, text, full: html, text
• fix up tests for gff3ToPsl in response to a code review.
  • src/hg/utils/gff3ToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/expected/patch1test.psl - lines changed 266, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/expected/patch1test.psl.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/utils/gff3ToPsl/tests/input/chrom.sizes.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/utils/gff3ToPsl/tests/input/haploMaps.gff - lines changed 269, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/input/haploMaps.gff.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/utils/gff3ToPsl/tests/makefile - lines changed 2, context: html, text, full: html, text
• some changes from danile to make it a bit more obvious what overlappingmeans wrt bigWigCat.
  
  • src/utils/bigWigCat/bigWigCat.c - lines changed 16, context: html, text, full: html, text
• backing out a change I made the other day to bigWig summary levelparsing
  
  • src/lib/bbiRead.c - lines changed 1, context: html, text, full: html, text