Commits for markd

v356_preview2 to v356_base (2017-10-02 to 2017-10-09) v356

5b5d272fab3ad3385a7b4069e35993f4571ccd7d Mon Oct 2 12:02:24 2017 -0700

• correctly handle CDS gap closing when there is an insertion in the genome
  • src/hg/utils/transMapPslToGenePred/tests/expected/cds2InsertTest.mapped.gp - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/expected/fill30Test.mapped.gp - lines changed 38, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/expected/fillTest30.mapped.gp - lines changed 38, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/input/chimp.mapped.psl - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/input/chimp.src.gp - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/transMapPslToGenePred.c - lines changed 11, context: html, text, full: html, text

15cda765912e9420345a2064ce0ab94925d4a3d9 Mon Oct 2 23:20:12 2017 -0700

• updated test result and added a test
  • src/hg/utils/transMapPslToGenePred/tests/expected/cds2InsertTest.mapped.gp - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/expected/codingFillTest.mapped.gp - lines changed 5, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/expected/fill30Test.mapped.gp - lines changed 6, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/expected/fillTest.mapped.gp - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/input/chimp.mapped.psl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/input/chimp.src.gp - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/makefile - lines changed 2, context: html, text, full: html, text

93ca761b2f6f6c010203502ea22f569ab460d4c8 Tue Oct 3 12:21:22 2017 -0700

• fixed typo
  • src/hg/utils/transMapPslToGenePred/transMapPslToGenePred.c - lines changed 1, context: html, text, full: html, text

8e1263f6d7474b51d69d4560fe4f548675b12c5b Tue Oct 3 12:26:17 2017 -0700

• improved comment (testing redmine)
  • src/hg/utils/transMapPslToGenePred/transMapPslToGenePred.c - lines changed 1, context: html, text, full: html, text

4d34c553439377b296f1487d764c74c09ad43810 Wed Oct 4 23:47:19 2017 -0700

• added some test cases for attributes
  • src/hg/utils/gff3ToGenePred/tests/expected/mm10GencodeTest.attrs - lines changed 77, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/expected/mm10GencodeTest.gp - lines changed 6, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/expected/nameAttrNameTest.attrs - lines changed 28, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/expected/useNameTest.attrs - lines changed 28, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/input/mm10Gencode.gff3 - lines changed 150, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/makefile - lines changed 11, context: html, text, full: html, text