Commits for kent

v351_preview2 to v351_base (2017-06-19 to 2017-06-26) v351

0224d9fec00cf13eaf200b6630ee24106434cc03 Tue Jun 20 07:59:44 2017 -0700

• Adding instructions on how to rebuild database.
  • src/hg/cirm/cdw/lib/resetCdw - lines changed 131, context: html, text, full: html, text

c81b9d0e412e65c9bf35abe82a813477ed87f204 Fri Jun 23 12:38:52 2017 -0700

• Making a tag value renaming program.
  • src/tagStorm/makefile - lines changed 4, context: html, text, full: html, text
  • src/tagStorm/tagStormRenameVals/makefile - lines changed 3, context: html, text, full: html, text
  • src/tagStorm/tagStormRenameVals/tagStormRenameVals.c - lines changed 145, context: html, text, full: html, text
  • src/tagStorm/tagStormRenameVals/test.3col - lines changed 3, context: html, text, full: html, text
  • src/tagStorm/tagStormRenameVals/test.in - lines changed 249, context: html, text, full: html, text

c1301fcc986b4f85193dc9279ecb582bf2754621 Fri Jun 23 12:41:54 2017 -0700

• Making it so that you can have same source and dest.
  • src/tagStorm/tagStormRenameTags/tagStormRenameTags.c - lines changed 12, context: html, text, full: html, text

29d48c738193b3cfa30ca447a8b73aabda617c48 Mon Jun 26 08:04:52 2017 -0700

• Updating per code review to be more conservative about parsing out accessions at end of URLs. refs#19646
  • src/hca/fromGeo/geoStormToHcaStorm/expected.tags - lines changed 137, context: html, text, full: html, text
  • src/hca/fromGeo/geoStormToHcaStorm/geoStormToHcaStorm.c - lines changed 4, context: html, text, full: html, text

cbf20a6cc8b6b751bdbf50d2b17df70206706b0a Mon Jun 26 08:07:48 2017 -0700

• Removing some ifdef OLDs
  • src/hca/fromArrayExpress/arrayExpressStormToHcaStorm/arrayExpressStormToHcaStorm.c - lines changed 48, context: html, text, full: html, text
  • src/hca/fromGeo/geoStormToHcaStorm/geoStormToHcaStorm.c - lines changed 50, context: html, text, full: html, text

95a654f3f094dcee3c3a6301743f1cbd4359d828 Mon Jun 26 08:09:24 2017 -0700

• Added a comment in response to code review.
  • src/hca/fromGeo/geoToTagStorm/geoToTagStorm.c - lines changed 1, context: html, text, full: html, text

d4228428913bd26a1031a2acc156a0b0d777ea45 Mon Jun 26 08:11:31 2017 -0700

• Improving comments in csv.h. Make eraseTrailingSpaces keep track of number of spaces erased, and using this to keep a dyString->stringSize accurate.
  • src/inc/common.h - lines changed 3, context: html, text, full: html, text
  • src/inc/csv.h - lines changed 1, context: html, text, full: html, text
  • src/lib/common.c - lines changed 8, context: html, text, full: html, text
  • src/lib/csv.c - lines changed 5, context: html, text, full: html, text

286acef256a2c9184166e0ad4b136e9a39c3281d Mon Jun 26 08:13:15 2017 -0700

• Works on comma separated values now.
  • src/tagStorm/tagStormCheck/tagStormCheck.c - lines changed 23, context: html, text, full: html, text
  • src/tagStorm/tagStormCheck/test.schema - lines changed 2, context: html, text, full: html, text
  • src/tagStorm/tagStormCheck/test.tags - lines changed 1, context: html, text, full: html, text

582f9a568c34a562851a3561845f15945be860be Mon Jun 26 08:13:47 2017 -0700

• Adding 'tag' option to restict things to a single tag.
  • src/tagStorm/tagStormInfo/tagStormInfo.c - lines changed 7, context: html, text, full: html, text

9632e533bf1e99abde7ce09b9abf57f8c314c8b6 Mon Jun 26 08:15:06 2017 -0700

• Addressing command line variable (cl prefix rather than g).
  • src/README - lines changed 3, context: html, text, full: html, text

f976fa0d9ee4d21594ddd87a5518382810c67f93 Mon Jun 26 08:17:22 2017 -0700

• Added noneOk option so can use in scripts against files that don't need joining. Also made it so that joining tag doesn't need to have unique values, which I needed for some ontology stuff.
  • src/tagStorm/tagStormJoinTab/tagStormJoinTab.c - lines changed 8, context: html, text, full: html, text

0550596afcd3618f80cd556b984d03008bfb289b Mon Jun 26 08:18:02 2017 -0700

• Editing out -xxx=XXX option since there were none.
  • src/tagStorm/tagStormRenameVals/tagStormRenameVals.c - lines changed 2, context: html, text, full: html, text