Commits for hiram

v379_preview to v379_preview2 (2019-03-04 to 2019-03-11) v379

0d2c1dd4e883a4f2a530ea773427cdeef39f001e Mon Mar 4 13:49:17 2019 -0800

• lastz/chain/net to mouse GRCm38B refs #22271
  • src/hg/makeDb/doc/hg38/lastzRuns.txt - lines changed 69, context: html, text, full: html, text

92464f409eeaa76ae789edca3bf933b0ca4dd092 Mon Mar 4 13:50:28 2019 -0800

• liftOver to GRCm38B refs #22271
  • src/hg/makeDb/doc/mm10.txt - lines changed 34, context: html, text, full: html, text

881d4ab8b17acb26d26ca500540795811247c6ae Wed Mar 6 11:40:25 2019 -0800

• adding display of mm10 liftOver chain (and psl) refs #22271
  • src/hg/makeDb/trackDb/mouse/GRCm38B/trackDb.ra - lines changed 75, context: html, text, full: html, text

d1799c0f6759b1f15e900d7258a305346a38fc62 Wed Mar 6 15:47:44 2019 -0800

• adding BED file for chainLinks refs #22271
  • src/hg/makeDb/trackDb/mouse/GRCm38B/trackDb.ra - lines changed 20, context: html, text, full: html, text

4b8a6c52d6c082137831ab42d67505c8d7c78a93 Thu Mar 7 14:08:47 2019 -0800

• expand findMotif to 32 character motifs and allow count of mis matches no redmine
  • src/utils/findMotif/findMotif.c - lines changed 219, context: html, text, full: html, text
  • src/utils/findMotif/tests/expected/test1.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test10.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test11.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test2.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test3.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test4.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test5.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test6.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test7.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test8.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/expected/test9.txt.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/hg19.chrM.fa.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/utils/findMotif/tests/makefile - lines changed 64, context: html, text, full: html, text

1e988e55a113409b757e34250b93e17bc0a3580d Thu Mar 7 14:11:59 2019 -0800

• expand findMotif to 32 character motifs and allow count of mis matches no redmine
  • src/utils/findMotif/makefile - lines changed 1, context: html, text, full: html, text

d2b661e1cc5c6d801b6f8fe35647389553840572 Fri Mar 8 09:22:21 2019 -0800

• specific db name for Mm10 chainNet refs #22271
  • src/hg/makeDb/trackDb/mouse/GRCm38B/trackDb.ra - lines changed 2, context: html, text, full: html, text

269fad91bedc7b9555069a97efbeac142982a750 Sat Mar 9 17:19:06 2019 -0800

• adding clean target no redmine
  • src/utils/findMotif/tests/makefile - lines changed 2, context: html, text, full: html, text

549109fbb63726d52bc0d3ed23482709c6b27795 Mon Mar 11 10:36:19 2019 -0700

• v379 preview2, refs #TICKETID
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text