Commits for markd

v374_preview2 to v374_base (2018-11-05 to 2018-11-12) v374

00a0d93a2032a4547ae62657fb98edd8247888ce Fri Nov 9 18:24:43 2018 -0800

• added gencode V29 final
  • src/hg/inc/encode/wgEncodeGencodeHgnc.h - lines changed 64, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.as - lines changed 6, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.c - lines changed 126, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.sql - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/hg38.txt - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeGenerateTrackDbs - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 16, context: html, text, full: html, text
  • src/hg/makeDb/schema/all.joiner - lines changed 5, context: html, text, full: html, text

97ce2992da15a56f4bf44c30918586189ebed5d4 Sat Nov 10 08:00:59 2018 -0800

• fixed release data label on All GENCODE V29
  • src/hg/makeDb/doc/hg19.txt - lines changed 36, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/hg38.txt - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 24, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeSuper.html - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV29.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV29.ra - lines changed 1, context: html, text, full: html, text

d5fe3b53cdb1439931f37b5e87e3172472009e75 Sat Nov 10 08:09:13 2018 -0800

• added tagType entry for new GENCODE table
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

e35316da983301ef1a6fb40490a08e52333e9908 Sat Nov 10 11:34:18 2018 -0800

• import of All GENCODE v29lift37
  • src/hg/makeDb/doc/hg19.txt - lines changed 15, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/schema/all.joiner - lines changed 91, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV29lift37.html - lines changed 32, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV29lift37.ra - lines changed 224, context: html, text, full: html, text

0bba06928b53c75f8f04c13f50319650982938b8 Sat Nov 10 15:47:34 2018 -0800

• renamed new gencode table for hgnc to geneSymbol, since mouse has MGI not HGNC. Import of GENCODE mouse VM19;
  • src/hg/inc/encode/wgEncodeGencodeGeneSymbol.h - lines changed 64, context: html, text, full: html, text
  • src/hg/inc/encode/wgEncodeGencodeHgnc.h - lines changed 64, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeGeneSymbol.as - lines changed 6, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeGeneSymbol.c - lines changed 126, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeGeneSymbol.sql - lines changed 12, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.as - lines changed 6, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.c - lines changed 126, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeHgnc.sql - lines changed 12, context: html, text, full: html, text
  • src/hg/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10.txt - lines changed 37, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeGenerateTrackDbs - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 15, context: html, text, full: html, text
  • src/hg/makeDb/schema/all.joiner - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM19.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/wgEncodeGencodeVM19.ra - lines changed 286, context: html, text, full: html, text

22e980eb254f6bfc8c6b5c9ef7a067297d96bcd4 Sun Nov 11 04:52:32 2018 -0800

• missed manual edit of genereated file
  • src/hg/lib/encode/wgEncodeGencodeGeneSymbol.c - lines changed 1, context: html, text, full: html, text