Commits for steve

v260_preview2 to v260_base (2011-11-22 to 2011-12-06) v260

• Changed ordering of organisms in placental and vertebrate section
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 62, context: html, text, full: html, text
• Removed the trailing '.2' from the sample queries because they caused an error when searching with the. Removed unnecessary period from a URL.
  • src/hg/makeDb/trackDb/gorilla/gorGor3/description.html - lines changed 4, context: html, text, full: html, text
• Removed a period from inside a link
  • src/hg/makeDb/trackDb/gorilla/gorGor3/description.html - lines changed 1, context: html, text, full: html, text
• Moved a period from inside to outside a link
  • src/hg/makeDb/trackDb/gibbon/nomLeu1/description.html - lines changed 1, context: html, text, full: html, text
• Added gorGor3 and nomLeu1
  • src/hg/makeDb/genbank/etc/rr.dbs - lines changed 2, context: html, text, full: html, text
• Removed '.2' and the note about version numbers from the sample query since the query including version numbers causes an error on beta and the RR
  • src/hg/makeDb/trackDb/gibbon/nomLeu1/description.html - lines changed 2, context: html, text, full: html, text
• Full text of journal article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/xenoRefGene.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/est.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/refGene.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/xenoMrna.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/intronEst.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full.
  • src/hg/makeDb/trackDb/mrna.html - lines changed 1, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full. Also updated 'Genbank: update' URL
  • src/hg/makeDb/trackDb/all_est.html - lines changed 2, context: html, text, full: html, text
• Full text of BLAT article is now free. Changed the URL from abstract to full. Also updated 'Genbank: update' URL
  • src/hg/makeDb/trackDb/all_mrna.html - lines changed 2, context: html, text, full: html, text
• Changed gorGor1 to gorGor3 and added nomLeu1 to primate section
  • src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 37, context: html, text, full: html, text
• Changed mailto:genome@soe.ucsc.edu link in the 'Converting genome coordinates between assemblies' section to point to the Contacts page
  • src/hg/htdocs/FAQ/FAQdownloads.html - lines changed 1, context: html, text, full: html, text
• Fixed a broken link and updated various outdated links
  • src/hg/makeDb/trackDb/human/encodeEgaspFull.html - lines changed 14, context: html, text, full: html, text
• Changed genome.imim.es to genome.crg.es
  • src/hg/makeDb/trackDb/human/encodeEgaspFull.html - lines changed 1, context: html, text, full: html, text
• Changed Aceview to AceView
  • src/hg/makeDb/trackDb/human/encodeEgaspFull.html - lines changed 1, context: html, text, full: html, text
• Changed 'Jigsaw' to 'JIGSAW'
  • src/hg/makeDb/trackDb/human/encodeEgaspFull.html - lines changed 5, context: html, text, full: html, text
• Fixed broken link and updated several outdated linkes
  • src/hg/makeDb/trackDb/human/encodeEgaspSuper.html - lines changed 46, context: html, text, full: html, text
• Fixed broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg17/encodeGisChipPetAll.html - lines changed 3, context: html, text, full: html, text
• Removed a link that was no longer valid. Updated some outdated links.
  • src/hg/makeDb/trackDb/human/hg16/encodeMlaganAlign.html - lines changed 17, context: html, text, full: html, text
• Removed a link that was no longer valid. Updated some outdated links.
  • src/hg/makeDb/trackDb/human/hg17/encodeMlaganAlign.html - lines changed 16, context: html, text, full: html, text
• Corrected journal citation format
  • src/hg/makeDb/trackDb/human/hg16/encodeMlaganAlign.html - lines changed 2, context: html, text, full: html, text
• Corrected journal citation format
  • src/hg/makeDb/trackDb/human/hg17/encodeTbaAlign.html - lines changed 18, context: html, text, full: html, text
• Corrected journal citation format
  • src/hg/makeDb/trackDb/human/hg17/encodeMlaganAlign.html - lines changed 7, context: html, text, full: html, text
• Corrected journal citation format
  • src/hg/makeDb/trackDb/human/hg16/encodeMlaganAlign.html - lines changed 7, context: html, text, full: html, text
• Removed comma before et. al.
  • src/hg/makeDb/trackDb/human/hg17/encodeGisChipPetAll.html - lines changed 1, context: html, text, full: html, text
• Re-italicized et al.
  • src/hg/makeDb/trackDb/human/hg16/encodeMlaganAlign.html - lines changed 2, context: html, text, full: html, text
• Re-italicized et al.
  • src/hg/makeDb/trackDb/human/hg17/encodeMlaganAlign.html - lines changed 2, context: html, text, full: html, text
• Re-italicized et al.
  • src/hg/makeDb/trackDb/human/hg17/encodeTbaAlign.html - lines changed 5, context: html, text, full: html, text
• Fixed a broken link. Updated some outdated links. Corrected citation format.
  • src/hg/makeDb/trackDb/human/hg17/encodeUppsalaChip.html - lines changed 6, context: html, text, full: html, text
• Updated an outdated link.
  • src/hg/makeDb/trackDb/human/hg17/encodeUppsalaChip.html - lines changed 1, context: html, text, full: html, text
• Fixed a broken link. Updated some outdated links. Corrected citation format.
  • src/hg/makeDb/trackDb/human/hg17/encodeUppsalaChipBut.html - lines changed 56, context: html, text, full: html, text
• Fixed a broken link. Updated an outdated link.
  • src/hg/makeDb/trackDb/human/hg17/encodeYaleChipRfbr.html - lines changed 6, context: html, text, full: html, text
• Fixed a broken link. Updated some outdated links.
  • src/hg/makeDb/trackDb/human/hapmapSnps.html - lines changed 15, context: html, text, full: html, text
• Fixed a broken link. Updated some outdated links.
  • src/hg/makeDb/trackDb/human/hg16/hg17Kg.html - lines changed 18, context: html, text, full: html, text
• Changed link to point directly to UniProt
  • src/hg/makeDb/trackDb/human/hg16/hg17Kg.html - lines changed 1, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg18/knownGene.html - lines changed 14, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/knownGene.html - lines changed 19, context: html, text, full: html, text
• Made a correction regarding UniProt
  • src/hg/makeDb/trackDb/knownGene.html - lines changed 1, context: html, text, full: html, text
• Made corrections regarding UniProt
  • src/hg/makeDb/trackDb/knownGene.html - lines changed 2, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg17/knownGene.html - lines changed 17, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/mouse/mm7/knownGene.html - lines changed 23, context: html, text, full: html, text
• Perlegen Sciences is no longer in business, so removed links. Also updated the journal link.
  • src/hg/makeDb/trackDb/human/perlegen.html - lines changed 9, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg17/sangamoDnaseHs.html - lines changed 13, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg18/stsMap.html - lines changed 7, context: html, text, full: html, text
• Updated some outdated links
  • src/hg/makeDb/trackDb/human/stsMap.html - lines changed 6, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/vistaEnhancers.html - lines changed 2, context: html, text, full: html, text
• Fixed a broken link and updated some outdated links
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeGisChipPetAll.html - lines changed 8, context: html, text, full: html, text
• Fixed broken link
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaMethyl27.html - lines changed 2, context: html, text, full: html, text
• Fixed a broken link and updated an outdated link
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaMethylSeq.html - lines changed 4, context: html, text, full: html, text
• Removed broken link. Created link to Roswell Park Cancer Institute. Updated outdated links.
  • src/hg/makeDb/trackDb/human/hg17/retroposons.html - lines changed 8, context: html, text, full: html, text
• Fixed broken links
  • src/hg/makeDb/trackDb/human/hg17/snpArray.html - lines changed 4, context: html, text, full: html, text