Commits for braney

v315_preview2 to v315_base (2015-04-13 to 2015-04-20) v315

• add kgTargetSeq8 to blat servers (for new mm10 UCSC genes)
  
  • src/hg/makeDb/doc/ucscGenes/mm10.ucscGenes15.csh - lines changed 3, context: html, text, full: html, text
• fix some mm10 UCSC genes errors in all.joiner
  
  • src/hg/makeDb/schema/all.joiner - lines changed 7, context: html, text, full: html, text
• fix a hgTables problem with tracks with '.' in them in track hubs #15182
  
  • src/hg/hgTables/hgTables.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTables/joining.c - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/joiner.c - lines changed 1, context: html, text, full: html, text
• first cut at NCBI Gene Annotations track for (N|X)(M|R) gene annotations from
  NCBI #13673
  
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 22, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/gff3ToGenePred.c - lines changed 27, context: html, text, full: html, text
• update the knownGeneOld table to be version 7 in trackDb
  
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra - lines changed 4, context: html, text, full: html, text
• add knownGeneOld7.html file
  
  • src/hg/makeDb/trackDb/mouse/mm10/knownGeneOld7.html - lines changed 10, context: html, text, full: html, text
• add a few new feature types to the processing of gff3ToGenePred (rRNA,
  ncRNA, primary-transcript)
  
  • src/hg/lib/genePred.c - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/gff3ToGenePred.c - lines changed 17, context: html, text, full: html, text
  • src/inc/gff3.h - lines changed 3, context: html, text, full: html, text
  • src/lib/gff3.c - lines changed 3, context: html, text, full: html, text
• make doc for NCBI Genes track
  
  • src/hg/makeDb/doc/danRer10/ncbiGene.txt - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/ncbiGene.txt - lines changed 35, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10.txt - lines changed 33, context: html, text, full: html, text
  • src/hg/makeDb/doc/rn6.txt - lines changed 34, context: html, text, full: html, text
• hgTracks and trackDb changes for NCBI Genes track
  
  • src/hg/hgTracks/simpleTracks.c - lines changed 22, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 46, context: html, text, full: html, text
• changing the name of NCBI Genes to NCBI RefSeq Genes
  
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 2, context: html, text, full: html, text
• change message for redirect (#15110)
  
  • src/hg/lib/web.c - lines changed 14, context: html, text, full: html, text
• a momentous decision (per Brianl) to change the redirect statement
  
  • src/hg/lib/web.c - lines changed 1, context: html, text, full: html, text
• add ncbiRefOverlap track
  
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 11, context: html, text, full: html, text