File Changes for hiram

v270_base to v271_preview (2012-07-17 to 2012-07-24) v271

• src/hg/makeDb/doc/choHof1.txt
  • lines changed 19, context: html, text, full: html, text
    done and in the pushQ 006261 redmin 7668
• src/hg/makeDb/doc/dasNov3.txt
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    done and in the pushQ
• src/hg/makeDb/doc/dipOrd1.txt
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    done and in the pushQ
• src/hg/makeDb/doc/eriEur1.txt
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    done and in the pushQ
• src/hg/makeDb/doc/felCat4.txt
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    felCat5 done and in the pushQ
• src/hg/makeDb/doc/felCat5.txt
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    felCat5 done and in the pushQ
• src/hg/makeDb/doc/gadMor1.txt
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    gadMor1 done and in the pushQ
• src/hg/makeDb/doc/hg19.txt
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    done with the patch 9 build
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    loaded tables for the primary track
• src/hg/makeDb/doc/hg19Patch9.txt
  • lines changed 586, context: html, text, full: html, text
    running repeat masker then ready for alignments
  • lines changed 70, context: html, text, full: html, text
    done with the patch 9 build
  • lines changed 3, context: html, text, full: html, text
    loaded tables for the primary track
• src/hg/makeDb/schema/all.joiner
  • lines changed 1, context: html, text, full: html, text
    adding choHof1 to transMapDb list
• src/hg/makeDb/trackDb/alpaca/vicPac1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/alpaca/vicPac1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/alpaca/vicPac1/trackDb.ra
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/armadillo/dasNov3/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/armadillo/dasNov3/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/armadillo/dasNov3/trackDb.ra
  • lines changed 19, context: html, text, full: html, text
    setting default visibilities
• src/hg/makeDb/trackDb/baboon/papHam1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/baboon/papHam1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/baboon/papHam1/trackDb.ra
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/birds/melUnd1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/birds/melUnd1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/bushbaby/otoGar3/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/bushbaby/otoGar3/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/cat/felCat5/trackDb.ra
  • lines changed 14, context: html, text, full: html, text
    setting default tracks
• src/hg/makeDb/trackDb/dolphin/turTru2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/dolphin/turTru2/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gadMor/gadMor1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gadMor/gadMor1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gadMor/gadMor1/trackDb.ra
  • lines changed 14, context: html, text, full: html, text
    setting default tracks
• src/hg/makeDb/trackDb/gibbon/nomLeu2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/gibbon/nomLeu2/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/hedgehog/eriEur1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/hedgehog/eriEur1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/hedgehog/eriEur1/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
  • lines changed 15, context: html, text, full: html, text
    setting default visibility tracks
• src/hg/makeDb/trackDb/human/hg19/altSeqComposite9.ra
  • lines changed 104, context: html, text, full: html, text
    specific for patch9
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    testing patch9 tracks
• src/hg/makeDb/trackDb/human/hg19Patch9/description.html
  • lines changed 62, context: html, text, full: html, text
    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19Patch9/gap.html
  • lines changed 31, context: html, text, full: html, text
    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19Patch9/gold.html
  • lines changed 36, context: html, text, full: html, text
    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19Patch9/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    initial files from makeGenomeDb.pl
  • lines changed 30, context: html, text, full: html, text
    enable the ctgPos2, altSequence and testChainHg19 tracks
• src/hg/makeDb/trackDb/kangarooRat/dipOrd1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/kangarooRat/dipOrd1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/kangarooRat/dipOrd1/trackDb.ra
  • lines changed 7, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
  • lines changed 13, context: html, text, full: html, text
    adjusting default track vis
• src/hg/makeDb/trackDb/latCha/latCha1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/latCha/latCha1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding hg19Patch9 to the build
  • lines changed 1, context: html, text, full: html, text
    not ready for papAnu1
• src/hg/makeDb/trackDb/manatee/triMan1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/manatee/triMan1/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/megabat/pteVam1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/megabat/pteVam1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/megabat/pteVam1/trackDb.ra
  • lines changed 7, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/moleRat/hetGla2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/moleRat/hetGla2/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/oreNil/oreNil2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/oreNil/oreNil2/gold.html
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/pig/susScr3/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/pig/susScr3/gold.html
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/pika/ochPri2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/pika/ochPri2/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/pika/ochPri2/trackDb.ra
  • lines changed 7, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/rhesus/rheMac3/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/rhesus/rheMac3/gold.html
  • lines changed 22, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/rockHyrax/proCap1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/rockHyrax/proCap1/gold.html
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/rockHyrax/proCap1/trackDb.ra
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    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/saiBol/saiBol1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/saiBol/saiBol1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/shrew/sorAra1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/shrew/sorAra1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/shrew/sorAra1/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/sloth/choHof1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/sloth/choHof1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/sloth/choHof1/trackDb.ra
  • lines changed 6, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
  • lines changed 19, context: html, text, full: html, text
    setting default track visibilities
• src/hg/makeDb/trackDb/squirrel/speTri2/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/squirrel/speTri2/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/tarsier/tarSyr1/gap.html
  • lines changed 62, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/tarsier/tarSyr1/gold.html
  • lines changed 21, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/tarsier/tarSyr1/trackDb.ra
  • lines changed 7, context: html, text, full: html, text
    up to date page contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/treeShrew/tupBel1/gap.html
  • lines changed 31, context: html, text, full: html, text
    up to date contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/treeShrew/tupBel1/gold.html
  • lines changed 33, context: html, text, full: html, text
    up to date contents from makeGenomeDb.pl
• src/hg/makeDb/trackDb/treeShrew/tupBel1/trackDb.ra
  • lines changed 7, context: html, text, full: html, text
    minimal trackDb for gold gap pickup
• src/hg/utils/automation/makeDownloads.pl
  • lines changed 1, context: html, text, full: html, text
    fixing hgsc.bcm.edu conditions for use URL