File Changes for hiram

v244_base to v245_preview (2010-12-07 to 2010-12-14) v245

• src/hg/htdocs/ENCODE/downloads.html
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    trying to clean up git garbage
• src/hg/htdocs/goldenPath/help/hg18ToHg19LiftOver.html
  • lines changed 2, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/htdocs/images/17.jpg
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    trying to clean up git garbage
• src/hg/makeDb/doc/danRer7.txt
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    now running genbank
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    done with genbank
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    initial assembly in the pushQ
• src/hg/makeDb/doc/hg18.txt
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    indicate grp creation for denisova assembly
• src/hg/makeDb/doc/hg19.txt
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    added Neandertal contigs bam
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    trying to clean up git garbage
  • lines changed 47, context: html, text, full: html, text
    adding neandertal bam contigs
• src/hg/makeDb/genbank/etc/align.dbs
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    Added danRer7.
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 15, context: html, text, full: html, text
    adding danRer7 definition
  • lines changed 1, context: html, text, full: html, text
    better specification of danRer7.11.ooc file location
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 1, context: html, text, full: html, text
    Added danRer7.
• src/hg/makeDb/trackDb/human/denisova.html
  • lines changed 52, context: html, text, full: html, text
    updated denisova documentation
  • lines changed 2, context: html, text, full: html, text
    fix bwa reference
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwDgf.ra
  • lines changed 49, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/makefile
  • lines changed 1, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/metaDb/public/wgEncodeUwDgf.ra
  • lines changed 1247, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/targetScanS.html
  • lines changed 57, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 12, context: html, text, full: html, text
    trying to clean up git garbage
  • lines changed 4, context: html, text, full: html, text
    adding overrides for ntHumChimpCodingDiff and ntSssTop5p
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCaltechRnaSeq.html
  • lines changed 70, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.html
  • lines changed 34, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibMethylRrbs.ra
  • lines changed 261, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.ra
  • lines changed 130, context: html, text, full: html, text
    trying to clean up git garbage
• src/hg/makeDb/trackDb/human/trackDb.denisova.ra
  • lines changed 15, context: html, text, full: html, text
    adding denisova sequence to the display
  • lines changed 31, context: html, text, full: html, text
    updated denisova documentation
• src/hg/utils/automation/HgAutomate.pm
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    removing pk from the kluster hubs
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    broken check-in
• src/hg/utils/automation/doHgNearBlastp.pl
  • lines changed 2, context: html, text, full: html, text
    removing pk from the kluster hubs
• src/hg/utils/refreshNamedSessionCustomTracks/beta.trashCleanMonitor.sh
  • lines changed 79, context: html, text, full: html, text
    cron scripts running on hgnfs1 as of 08 Dec 2010
• src/hg/utils/refreshNamedSessionCustomTracks/beta.trashCleaner.csh
  • lines changed 267, context: html, text, full: html, text
    cron scripts running on hgnfs1 as of 08 Dec 2010
• src/hg/utils/refreshNamedSessionCustomTracks/rr.trashCleanMonitor.sh
  • lines changed 77, context: html, text, full: html, text
    cron scripts running on hgnfs1 as of 08 Dec 2010
• src/hg/utils/refreshNamedSessionCustomTracks/rr.trashCleaner.csh
  • lines changed 286, context: html, text, full: html, text
    cron scripts running on hgnfs1 as of 08 Dec 2010
• src/product/scripts/browserEnvironment.txt
  • lines changed 2, context: html, text, full: html, text
    add KNETFILE_HOOKS information