Commits for braney

v379_preview2 to v379_base (2019-03-11 to 2019-03-18) v379

2698f5b2d4b7fab1aeb1f43c1b71e7c2ba60f70c Mon Mar 11 15:28:23 2019 -0700

• build the last few knownGene tables
  • src/hg/makeDb/doc/ucscGenes/mm10.ucscGenes18.sh - lines changed 79, context: html, text, full: html, text

95575eb62326537cb3320ffe2857426cffa8241a Tue Mar 12 16:32:00 2019 -0700

• long overdue descriptions for scopDesc and ucscScop
  • src/hg/lib/scopDesc.as - lines changed 7, context: html, text, full: html, text
  • src/hg/lib/ucscScop.as - lines changed 8, context: html, text, full: html, text

50ca3c9a73d51d63bba6dd2bfee922f564a4ceee Wed Mar 13 07:42:50 2019 -0700

• oops, typo
  • src/hg/lib/scopDesc.as - lines changed 1, context: html, text, full: html, text

a9bfddd1f195f8ca2c2cccad324c07a602804270 Wed Mar 13 15:31:37 2019 -0700

• add MANE track
  • src/hg/lib/mane.as - lines changed 28, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/mane.txt - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/mane.ra - lines changed 11, context: html, text, full: html, text

37e583238de2ba79e96bf85e4e80e43df46ce754 Wed Mar 13 15:36:12 2019 -0700

• oops, mane needs a change to top-level trackDb.ra
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text

ce84dec02479202e3c5da08720403faa4cf4f215 Thu Mar 14 12:09:42 2019 -0700

• support bigGenePred with no table as a native track
  • src/hg/hgc/hgc.c - lines changed 31, context: html, text, full: html, text
  • src/hg/inc/hgSeq.h - lines changed 7, context: html, text, full: html, text
  • src/hg/lib/hgSeq.c - lines changed 2, context: html, text, full: html, text

3e7e186eb590a862fd2318e6466a6bfdb8ed7ee7 Thu Mar 14 12:13:51 2019 -0700

• some tweaks to the MANE track
  • src/hg/makeDb/trackDb/human/hg38/mane.html - lines changed 13, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/mane.ra - lines changed 1, context: html, text, full: html, text

4672e9a6a8a89ab0e9485dc4563f2ff7464fb786 Thu Mar 14 14:12:56 2019 -0700

• tweaks to MANE trackDb and html
  • src/hg/makeDb/trackDb/human/hg38/mane.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/mane.ra - lines changed 1, context: html, text, full: html, text

4783d0c1b81fdc972d42ef22f4e11d2cda16ab1d Thu Mar 14 14:30:43 2019 -0700

• exclude mm10 from having protein in knownCanonical
  • src/hg/makeDb/schema/all.joiner - lines changed 1, context: html, text, full: html, text

880b589d0be70548993b29d1711c52bb9ce45be2 Sat Mar 16 13:22:56 2019 -0700

• having ccdsKgMap as part of the standard release breaks things when UCSC genes is in flux
  • src/hg/makeDb/genbank/etc/gbPerAssemblyTables.txt - lines changed 1, context: html, text, full: html, text