Commits for markd

v385_preview2 to v385_base (2019-07-15 to 2019-07-22) v385

b73bfc991690da58e96387bf39fab34f51b02894 Mon Jul 15 15:29:30 2019 -0700

• specify mouse ignored gencode tables as a wild card to match all versions
  • src/hg/makeDb/schema/all.joiner - lines changed 2, context: html, text, full: html, text

852192003e5f8886030929c8ccba081463b92fa4 Wed Jul 17 16:41:58 2019 -0700

• updated gencode links to match site changes
  • src/hg/makeDb/outside/gencode/gencodeGenerateTrackDbs - lines changed 4, context: html, text, full: html, text

420df98ed5d99b83c27e449769189e1f7e5e462a Wed Jul 17 19:06:38 2019 -0700

• changed some generated URL due to changes in gencode site
  • src/hg/makeDb/outside/gencode/gencodeGenerateTrackDbs - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV31lift37.html - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM22.html - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM22.ra - lines changed 1, context: html, text, full: html, text

9c9bcde0ff7379019dcce66c23471c2848dc884b Wed Jul 17 19:18:37 2019 -0700

• updated gencode biotypes and tags links due to site changes
  • src/hg/hgc/gencodeClick.c - lines changed 2, context: html, text, full: html, text

71c6d9c65dcbb95c4c1840a2409e7457aed62c66 Wed Jul 17 19:21:15 2019 -0700

• removed links to HAVANA as database is archives and HAVANA ids are on their way out
  • src/hg/hgc/gencodeClick.c - lines changed 7, context: html, text, full: html, text

438d43910f377e7abe8b81cb9b04acaadaca1b6d Thu Jul 18 13:04:33 2019 -0700

• indicated that GENCODE gene/transcript status columns are obsolete
  • src/hg/inc/encode/wgEncodeGencodeAttrs.h - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeAttrs.as - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeAttrs.sql - lines changed 2, context: html, text, full: html, text

29b6acc8ad1b89ba768559f56246a1ec5c58f1ae Fri Jul 19 08:27:30 2019 -0700

• obtain HAL include and library from a version-specific directory to allow easily moving to a new version
  • src/inc/common.mk - lines changed 1, context: html, text, full: html, text