File Changes for hiram

v331_base to v332_preview (2016-04-11 to 2016-04-18) v332

• src/hg/hgc/hgc.c
  • lines changed 1, context: html, text, full: html, text
    adding Entrez nuccore link to gold fragment details page refs #17168
    
• src/hg/htdocs/images/Rousettus_aegyptiacus.jpg
  • lines changed 0, context: html, text, full: html, text
    photographer Oren Peles wikimedia commons via https://commons.wikimedia.org/wiki/User:MathKnight refs #17167
    
• src/hg/makeDb/doc/felCat3.txt
  • lines changed 16, context: html, text, full: html, text
    liftOver from felCat3 to felCat8 refs #16879
    
• src/hg/makeDb/doc/galGal4.txt
  • lines changed 19, context: html, text, full: html, text
    liftOver to galGal5 refs #17168
    
• src/hg/makeDb/doc/galGal5/initialBuild.txt
  • lines changed 565, context: html, text, full: html, text
    beginning build for galGal5 refs #17168
    
  • lines changed 147, context: html, text, full: html, text
    fixup INSDC track construction procedure added gold search rule and running RM and TRF refs #17168
    
  • lines changed 162, context: html, text, full: html, text
    running genbank refs #17168
    
  • lines changed 10, context: html, text, full: html, text
    running genbank blatServer assigned and liftOver to galGal4 refs #17168
    
• src/hg/makeDb/doc/galVar1/initialBuild.txt
  • lines changed 128, context: html, text, full: html, text
    done and in the pushQ refs #17180
    
  • lines changed 13, context: html, text, full: html, text
    added blat server refs #17180
    
• src/hg/makeDb/doc/mm10.txt
  • lines changed 20, context: html, text, full: html, text
    fixup chrM INSDC name refs #17132
    
• src/hg/makeDb/doc/rn3.txt
  • lines changed 16, context: html, text, full: html, text
    liftOver from rn3 ro rn6 refs #16879
    
• src/hg/makeDb/doc/rouAeg1/initialBuild.txt
  • lines changed 625, context: html, text, full: html, text
    beginning rouAeg1 build refs #17167
    
  • lines changed 192, context: html, text, full: html, text
    added INSDC track and gold assembly search rule and running RM and TRF refs #17167
    
• src/hg/makeDb/genbank/etc/align.dbs
  • lines changed 1, context: html, text, full: html, text
    Added galVar1 - Galeopterus variegatus/Malayan flying lemur refs #17180
    
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 19, context: html, text, full: html, text
    Added galGal5; refs #17168
    
  • lines changed 1, context: html, text, full: html, text
    fixup galGal5; refs #17168
    
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 1, context: html, text, full: html, text
    Added galVar1 - Galeopterus variegatus/Malayan flying lemur refs #17180
    
• src/hg/makeDb/schema/all.joiner
  • lines changed 10, context: html, text, full: html, text
    adding rules for galVar1 refs #17180
    
• src/hg/makeDb/trackDb/bats/rouAeg1/description.html
  • lines changed 63, context: html, text, full: html, text
    adding rouAeg1 to the build refs #17167
    
• src/hg/makeDb/trackDb/bats/rouAeg1/gap.html
  • lines changed 29, context: html, text, full: html, text
    adding rouAeg1 to the build refs #17167
    
• src/hg/makeDb/trackDb/bats/rouAeg1/gold.html
  • lines changed 34, context: html, text, full: html, text
    adding rouAeg1 to the build refs #17167
    
• src/hg/makeDb/trackDb/bats/rouAeg1/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    adding rouAeg1 to the build refs #17167
    
• src/hg/makeDb/trackDb/chicken/galGal5/description.html
  • lines changed 63, context: html, text, full: html, text
    initial files for galGal5 refs #17168
    
• src/hg/makeDb/trackDb/chicken/galGal5/gap.html
  • lines changed 32, context: html, text, full: html, text
    initial files for galGal5 refs #17168
    
• src/hg/makeDb/trackDb/chicken/galGal5/gold.html
  • lines changed 36, context: html, text, full: html, text
    initial files for galGal5 refs #17168
    
• src/hg/makeDb/trackDb/chicken/galGal5/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial files for galGal5 refs #17168
    
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    initial files for galGal5 refs #17168
    
  • lines changed 1, context: html, text, full: html, text
    adding rouAeg1 to the build refs #17167
    
• src/hg/utils/automation/doNcbiRefSeq.pl
  • lines changed 9, context: html, text, full: html, text
    fixup coding gene selection refs #13673
    
• src/hg/utils/automation/prepConfig.pl
  • lines changed 131, context: html, text, full: html, text
    add script to prepare the config.ra file for a genome assembly refs #17167
    
  • lines changed 19, context: html, text, full: html, text
    reorganize to use single genomic.fna.gz file and correct preparation of db.config.ra data refs #17168
    
  • lines changed 13, context: html, text, full: html, text
    correctly set genomeCladePriority refs #17168
    
• src/hg/utils/automation/ucscCompositeAgp.pl
  • lines changed 22, context: html, text, full: html, text
    reorganize to use single genomic.fna.gz file and correct preparation of db.config.ra data refs #17168
    
• src/hg/utils/automation/unlocalizedWithChroms.pl
  • lines changed 41, context: html, text, full: html, text
    reorganize to use single genomic.fna.gz file and correct preparation of db.config.ra data refs #17168
    
• src/hg/utils/automation/unplacedWithChroms.pl
  • lines changed 25, context: html, text, full: html, text
    reorganize to use single genomic.fna.gz file and correct preparation of db.config.ra data refs #17168
    
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 2, context: html, text, full: html, text
    v332 preview1 refs #17072