File Changes for hiram

v310_base to v311_preview (2015-01-05 to 2014-01-12) v311

• src/hg/hgTracks/rmskJoinedTrack.c
  • lines changed 150, context: html, text, full: html, text
    bring up to date with Robert's latest code to help fix bugs refs #9741
• src/hg/htdocs/images/Macaca_fascicularis.jpg
  • lines changed 0, context: html, text, full: html, text
    photo from Rhett A. Butler mongabay.com refs #11174
• src/hg/makeDb/doc/hg38/scanAssemblyReport.pl
  • lines changed 87, context: html, text, full: html, text
    finding equivalent names in GCA_000001405.17_GRCh38.p2_assembly_report.txt refs #14167
• src/hg/makeDb/doc/macFas5/initialBuild.txt
  • lines changed 480, context: html, text, full: html, text
    ready for pushQ after genbank is loaded refs #11174
• src/hg/makeDb/doc/macFas5/ucscCompositeAgp.pl
  • lines changed 44, context: html, text, full: html, text
    ready for pushQ after genbank is loaded refs #11174
• src/hg/makeDb/doc/macFas5/unlocalized.pl
  • lines changed 66, context: html, text, full: html, text
    ready for pushQ after genbank is loaded refs #11174
• src/hg/makeDb/doc/macFas5/unplaced.pl
  • lines changed 34, context: html, text, full: html, text
    ready for pushQ after genbank is loaded refs #11174
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 22, context: html, text, full: html, text
    Added nasLar1; refs #14437
  • lines changed 22, context: html, text, full: html, text
    Added macFas5; refs #11174
• src/hg/makeDb/genbank/src/lib/gbGenome.c
  • lines changed 2, context: html, text, full: html, text
    Added nasLar1; refs #14437
  • lines changed 2, context: html, text, full: html, text
    Added macFas5; refs #11174
• src/hg/makeDb/schema/all.joiner
  • lines changed 8, context: html, text, full: html, text
    adding panPan1 refs #8231
  • lines changed 7, context: html, text, full: html, text
    tweaking panPan1 to be clean joinerCheck refs #8231
  • lines changed 16, context: html, text, full: html, text
    adding macFas5 rules refs #11174
• src/hg/makeDb/trackDb/ebola/eboVir3/newSeqs.html
  • lines changed 19, context: html, text, full: html, text
    adding new sequences KP260799.1 KP260800.1 KP260801.1 KP260802.1 KP271018.1 KP271019.1 KP271020.1 refs #14278
  • lines changed 2, context: html, text, full: html, text
    fixup isolate description for two refs #14278
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.newSequences.ra
  • lines changed 1, context: html, text, full: html, text
    adding new sequences KP260799.1 KP260800.1 KP260801.1 KP260802.1 KP271018.1 KP271019.1 KP271020.1 refs #14278
• src/hg/makeDb/trackDb/ebola/eboVir3/trackDb.ra
  • lines changed 1, context: html, text, full: html, text
    adding new sequences KP260799.1 KP260800.1 KP260801.1 KP260802.1 KP271018.1 KP271019.1 KP271020.1 refs #14278
• src/hg/makeDb/trackDb/human/hg38/cons17way.html
  • lines changed 448, context: html, text, full: html, text
    documentation for 17-way primates refs #14560
  • lines changed 19, context: html, text, full: html, text
    description page for 17-way conservation refs #14560
• src/hg/makeDb/trackDb/human/hg38/hg38primateChainNet.html
  • lines changed 2, context: html, text, full: html, text
    description page for 17-way conservation refs #14560
• src/hg/makeDb/trackDb/human/hg38/trackDb.17way.ra
  • lines changed 2, context: html, text, full: html, text
    description page for 17-way conservation refs #14560
• src/hg/makeDb/trackDb/joinedRmsk.ra
  • lines changed 1, context: html, text, full: html, text
    allow pack squish modes refs #9741
• src/hg/makeDb/trackDb/joinedRmskComposite.ra
  • lines changed 2, context: html, text, full: html, text
    allow pack squish modes refs #9741
• src/hg/makeDb/trackDb/macaca/macFas5/description.html
  • lines changed 63, context: html, text, full: html, text
    initial files from makeGenomeDb.ra refs #11174
• src/hg/makeDb/trackDb/macaca/macFas5/gap.html
  • lines changed 32, context: html, text, full: html, text
    initial files from makeGenomeDb.ra refs #11174
• src/hg/makeDb/trackDb/macaca/macFas5/gold.html
  • lines changed 34, context: html, text, full: html, text
    initial files from makeGenomeDb.ra refs #11174
• src/hg/makeDb/trackDb/macaca/macFas5/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial files from makeGenomeDb.ra refs #11174
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding macFas5 to the build refs #11174
• src/hg/makeDb/trackDb/tarsier/tarSyr2/cons17way.html
  • lines changed 5, context: html, text, full: html, text
    documentation for 17-way primates refs #14560
  • lines changed 18, context: html, text, full: html, text
    description page for 17-way conservation refs #14560
• src/utils/qa/makeCytoBandIdeo.csh
  • lines changed 2, context: html, text, full: html, text
    can not use commands that fail in a csh -fe script since any command that fails stops the script immediately refs #11174
• src/utils/qa/weeklybld/buildEnv.csh
  • lines changed 2, context: html, text, full: html, text
    v311 preview1 refs #14648