Commits for chmalee

v394_base to v395_preview (2020-02-17 to 2020-02-24) v395

800312e66545e7d7fd4805c99717bd32c4b47c33 Tue Feb 18 16:49:45 2020 -0800

• Fixing spurious newline stripping in hubCheck. When checking a subGroupN line for a composite track, a warn is thrown and hubCheck continues, if a single stanza has multiple cases of bad subGroups, then all these warning messages were stuck together and not being printed correctly, refs #24958
  • src/hg/utils/hubCheck/hubCheck.c - lines changed 23, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/expected/manyErrors.output.txt - lines changed 2, context: html, text, full: html, text

bcaf231f7de3921efe6814afe820e1ba4b1e1be0 Wed Feb 19 11:55:53 2020 -0800

• Adding a test for missing hub description or genome description pages, refs #13428
  • src/hg/utils/hubCheck/hubCheck.c - lines changed 34, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/expected/manyErrors.output.txt - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/expected/output1.txt - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/makefile - lines changed 1, context: html, text, full: html, text

5b16886cc31572cdab8c383bfbdd2ad60de13617 Thu Feb 20 14:15:01 2020 -0800

• Fixups to hubCheck html option so that checking for hub description page and genome description pages works, refs #24958
  • src/hg/utils/hubCheck/hubCheck.c - lines changed 40, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/expected/output1.txt - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/hubCheck/tests/expected/output2.txt - lines changed 2, context: html, text, full: html, text

e974e46d75d40bcb0bed9e23282cf897c038ab04 Thu Feb 20 18:04:34 2020 -0800

• Documenting hub validator in example hg.conf
  • src/product/ex.hg.conf - lines changed 4, context: html, text, full: html, text

db063154dcf9c02922ff4b94922d713c2bbb5f4c Fri Feb 21 16:37:35 2020 -0800

• Don't use udc to check for existence of hub description pages unless the file is a local file. The polytracts hub does not return a Content-Length header for the hub description page so even though it exists udcExists() doesn't find it, refs Lou email
  • src/hg/utils/hubCheck/hubCheck.c - lines changed 7, context: html, text, full: html, text