File Changes for steve

v277_base to v278_preview (2012-12-18 to 2013-01-08) v278

• src/hg/htdocs/goldenPath/newsarch.html
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    Removed extraneous 'boliviensis' from saiBol1 Latin name
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    Removed extraneous 'boliviensis' from saiBol1
• src/hg/htdocs/indexNews.html
  • lines changed 1, context: html, text, full: html, text
    Removed extraneous 'boliviensis' from saiBol1 Latin name
  • lines changed 1, context: html, text, full: html, text
    Removed extraneous 'boliviensis' from saiBol1
• src/hg/makeDb/genbank/etc/hgwbeta.dbs
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    Added petMar2 to hgwbeta.dbs; fixed ordering in hgwdev.dbs (redmine #9153)
• src/hg/makeDb/genbank/etc/hgwdev.dbs
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    Added petMar2 to hgwbeta.dbs; fixed ordering in hgwdev.dbs (redmine #9153)
• src/hg/makeDb/genbank/etc/rr.dbs
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    Added petMar2 (redmine #9153)
• src/hg/makeDb/schema/all.joiner
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    Changed 'cpgIsland%' to 'cpgIslandExt' - cpgIslandExt was not being recognized in the tables ignored list
• src/hg/makeDb/trackDb/affyAllExonProbes.html
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    Updated link
• src/hg/makeDb/trackDb/apis/apiMel1/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/apis/apiMel2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/chicken/galGal2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/chicken/galGal3/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/chicken/galGal4/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau1/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau3/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau4/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau5/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau6/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/cow/bosTau7/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/drosophila/geneMapper.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/firstEF.html
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    Fixed broken links
• src/hg/makeDb/trackDb/human/hg17/encodeMavidAlign.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/hg17/encodeMavidCons.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/hg17/encodeMsaElements.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/hg19/cosmic.html
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    Updated links; fixed so links would open in a new window
• src/hg/makeDb/trackDb/human/slamMouse.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/slamNonCodingMouse.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/slamNonCodingRat.html
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    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/slamRat.html
  • lines changed 1, context: html, text, full: html, text
    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/human/trackDb.chainNet.ra
  • lines changed 3, context: html, text, full: html, text
    Added priority section for petMar2 to various trackDb.chainNet.ra files; adjusted release tags for petMar1/2 chainNet.ra files in the main trackDb.chainNet.ra file (redmine #9153)
• src/hg/makeDb/trackDb/human/vistaEnhancers.html
  • lines changed 1, context: html, text, full: html, text
    Fixed broken links
• src/hg/makeDb/trackDb/lamprey/petMar1/description.html
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    Updated photo link (redmine #9153)
• src/hg/makeDb/trackDb/lamprey/petMar2/cons7way.html
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    Updated links in References section; made other minor corrections (redmine #9153)
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    Fixed entries in the 'Gene tracks used for codon translation' table (redmine #9153)
• src/hg/makeDb/trackDb/lamprey/petMar2/description.html
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    Updated photo link (redmine #9153)
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    Made minor corrections (redmine #9153)
• src/hg/makeDb/trackDb/lamprey/petMar2/gap.html
  • lines changed 3, context: html, text, full: html, text
    Made minor corrections (redmine #9153)
• src/hg/makeDb/trackDb/lamprey/petMar2/gold.html
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    Made minor corrections (redmine #9153)
• src/hg/makeDb/trackDb/lancelet/trackDb.chainNet.ra
  • lines changed 3, context: html, text, full: html, text
    Added priority section for petMar2 to various trackDb.chainNet.ra files; adjusted release tags for petMar1/2 chainNet.ra files in the main trackDb.chainNet.ra file (redmine #9153)
• src/hg/makeDb/trackDb/mouse/slamHuman.html
  • lines changed 2, context: html, text, full: html, text
    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/mouse/slamNonCodingHuman.html
  • lines changed 3, context: html, text, full: html, text
    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/mouse/trackDb.chainNet.ra
  • lines changed 3, context: html, text, full: html, text
    Added priority section for petMar2 to various trackDb.chainNet.ra files; adjusted release tags for petMar1/2 chainNet.ra files in the main trackDb.chainNet.ra file (redmine #9153)
• src/hg/makeDb/trackDb/opossum/monDom1/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/opossum/monDom2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/opossum/monDom4/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/opossum/monDom5/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/pig/susScr2/description.html
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    Updated link
• src/hg/makeDb/trackDb/rat/rn1/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/rat/rn2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/rat/rn3/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/rat/rn4/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/rat/rn5/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/rat/slamHuman.html
  • lines changed 2, context: html, text, full: html, text
    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/rat/slamNonCodingHuman.html
  • lines changed 6, context: html, text, full: html, text
    Updated links to the now-defunct baboon.math.berkeley.edu server; updated links to Mercator
• src/hg/makeDb/trackDb/trackDb.chainNet.ra
  • lines changed 2, context: html, text, full: html, text
    Added priority section for petMar2 to various trackDb.chainNet.ra files; adjusted release tags for petMar1/2 chainNet.ra files in the main trackDb.chainNet.ra file (redmine #9153)
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    Adjusted release tags for petMar1/2 (redmine #9153)
• src/hg/makeDb/trackDb/zebrafish/danRer1/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer2/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer3/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer4/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer5/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer6/description.html
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    Updated photo links
• src/hg/makeDb/trackDb/zebrafish/danRer7/description.html
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    Updated photo links