User contributions for Rhead

23 February 2012

• 20:0320:03, 23 February 2012 diff hist +103‎ UCSC Genes Staging Process ‎ →‎Databases and Tables: added hgNearOk=1 note
• 20:0220:02, 23 February 2012 diff hist +33‎ UCSC Genes Staging Process ‎ →‎Searching: clarified that this was for human and mouse
• 19:4819:48, 23 February 2012 diff hist +67‎ UCSC Genes Staging Process ‎ →‎Releasing to the public website: added headers, moved push of search files up
• 19:4119:41, 23 February 2012 diff hist +26‎ UCSC Genes Staging Process ‎ →‎Staging on hgwbeta: added headers
• 19:4019:40, 23 February 2012 diff hist +41‎ UCSC Genes Staging Process ‎ →‎Data Involved: added headers; added note about alt events only being on human and mouse
• 19:2919:29, 23 February 2012 diff hist −172‎ QAing UCSC Genes ‎ →‎wiki pages about known genes: turned links into wiki links
• 06:5806:58, 23 February 2012 diff hist +855‎ UCSC Genes Staging Process ‎ →‎Releasing to the public website: added notes about symlinks, pushing the tables, isPcr
• 06:3906:39, 23 February 2012 diff hist 0‎ m QAing UCSC Genes ‎No edit summary
• 06:3806:38, 23 February 2012 diff hist +23‎ QAing UCSC Genes ‎ →‎Links to Other UCSC Genes Genomewiki Pages: added ucsc genes tables link
• 06:3706:37, 23 February 2012 diff hist −17‎ QAing UCSC Genes ‎ collapsted the re-build problem section into the QAing the related tables section
• 06:3306:33, 23 February 2012 diff hist +337‎ QAing UCSC Genes ‎ added suggestions for dealing with redmine tickets
• 06:2806:28, 23 February 2012 diff hist +781‎ QAing UCSC Genes ‎ Added sections for a common rebuild pitfall and for QAing the many related tables
• 06:1306:13, 23 February 2012 diff hist +252‎ QAing UCSC Genes ‎ Made "Comparison to previous build" section specifically about human and mouse; added instruction to get help from developer/jim
• 06:0406:04, 23 February 2012 diff hist −41‎ QAing UCSC Genes ‎ →‎Determining the tables involved: fixed link
• 06:0206:02, 23 February 2012 diff hist −1,224‎ QAing UCSC Genes ‎ Removed HGGeneCheck instructions. This takes a week and failed to find errors in many runs, including several real errors for rn4.
• 06:0006:00, 23 February 2012 diff hist +23‎ Post-Release-Checklist ‎ →‎Add the link to the protein database /goldenPath/proteinDB/proteinsYYMMDD/database/: clarified downloads.html link, changed title of section
• 05:5405:54, 23 February 2012 diff hist +44‎ m Post-Release-Checklist ‎ →‎Update the metadata in hgcentral: clarified what hgNearOk does
• 05:5305:53, 23 February 2012 diff hist +2‎ Post-Release-Checklist ‎ →‎Update the metadata in hgcentral: removed hgPbOk and defaultDb instructions
• 05:4005:40, 23 February 2012 diff hist +21‎ Post-Release-Checklist ‎ →‎Exon Primer Links: clarified that exonPrimer is only for human and mouse
• 03:0503:05, 23 February 2012 diff hist −3‎ Post-Release-Checklist ‎ →‎HGNC Links to us: Elspeth Bruford at HNGC informed me that Michael Lush is no longer with the project.

14 February 2012

• 00:4400:44, 14 February 2012 diff hist +248‎ UCSC Genes tables ‎ added blastTabs section
• 00:3700:37, 14 February 2012 diff hist −1,827‎ UCSC Genes Staging Process ‎ removed list of assembly tables; added link to new UCSC Genes tables page
• 00:3200:32, 14 February 2012 diff hist +6‎ m UCSC Genes tables ‎ made headers slightly smaller
• 00:3100:31, 14 February 2012 diff hist +14‎ UCSC Genes tables ‎ Added "__FORCETOC__" to force a table of contents to show up at the beginning of the page
• 00:2400:24, 14 February 2012 diff hist +64‎ QAing UCSC Genes ‎ →‎wiki pages about known genes: added new ucsc genes tables page
• 00:2300:23, 14 February 2012 diff hist +322‎ UCSC Genes tables ‎ Added more titles, a link, and categories
• 00:0700:07, 14 February 2012 diff hist +839‎ UCSC Genes tables ‎ added proteins and sp tables

13 February 2012

• 23:4423:44, 13 February 2012 diff hist +979‎ N UCSC Genes tables ‎ Created page with "These are the lists of tables that were pushed with the latest UCSC Genes tracks. Please keep this page up to date! ;hg19 (January 2012 :bioCycMapDesc :bioCycPathway :ccdsKgMa..."

9 February 2012

• 00:3600:36, 9 February 2012 diff hist 0‎ m Post-Release-Checklist ‎ →‎Exoniphy: fixed misspelling
• 00:1900:19, 9 February 2012 diff hist +78‎ Post-Release-Checklist ‎ →‎UniProtKB: updated file locations
• 00:1500:15, 9 February 2012 diff hist −104‎ Post-Release-Checklist ‎ →‎Alert Ensembl: updated with emails and info supplied by Paul Flicek.
• 00:1000:10, 9 February 2012 diff hist +26‎ Post-Release-Checklist ‎ →‎Exoniphy: added Adam's email address

24 January 2012

• 23:2623:26, 24 January 2012 diff hist +222‎ BlastTabs ‎ →‎How to QA blastTabs: a loop for checking the hgBlastTab counts in the other dbs
• 23:1323:13, 24 January 2012 diff hist 0‎ BlastTabs ‎ →‎How to QA blastTabs: changed sacCer2 to sacCer3 in list of joiner identifiers
• 22:5622:56, 24 January 2012 diff hist +2‎ m BlastTabs ‎ →‎How to QA blastTabs: don't need headers in loop output
• 21:4821:48, 24 January 2012 diff hist +295‎ BlastTabs ‎ →‎How to QA blastTabs: added a loop for checking counts
• 05:4905:49, 24 January 2012 diff hist 0‎ QAing UCSC Genes ‎ →‎Comparison to previous build: updated second table with stats after rebuild of ucsc genes
• 05:4905:49, 24 January 2012 diff hist 0‎ QAing UCSC Genes ‎ →‎Comparison to previous build: updated table with stats after rebuild of ucsc genes

29 December 2011

• 01:0401:04, 29 December 2011 diff hist +78‎ UCSC Genes Staging Process ‎ clarified the organisms for which we build ucsc genes

15 November 2011

• 19:0519:05, 15 November 2011 diff hist +689‎ New track checklist ‎ →‎Searching (pre-QA): totally revamped this section to make it easier for pre-QA

10 November 2011

• 18:4418:44, 10 November 2011 diff hist +88‎ Pre-QA ‎ →‎Find track in browser & go to hgTrackUi: added link to assemblies list

4 November 2011

• 23:2323:23, 4 November 2011 diff hist −91‎ New track checklist ‎ →‎Searching (pre-QA): took out instructions to run checkHgFindSpec alone, since it depends on hgFindSpec_user if a trackDb_user is specified in .hg.conf
• 23:1823:18, 4 November 2011 diff hist +78‎ QAing UCSC Genes ‎ →‎Comparison to previous build: added note to check counts in knownCanonical, too
• 22:0122:01, 4 November 2011 diff hist +113‎ QAing UCSC Genes ‎ →‎HGGeneCheck: lots of small clarifications
• 21:2321:23, 4 November 2011 diff hist +1,987‎ QAing UCSC Genes ‎ added "comparison to previous build" section based on notes from Jim
• 20:4520:45, 4 November 2011 diff hist +70‎ QAing UCSC Genes ‎ →‎Other random notes: changed the header, clarified sentence.
• 19:2019:20, 4 November 2011 diff hist +307‎ QAing UCSC Genes ‎ →‎Actual steps: reformatting; took out instructions to run knownGene.csh; added Jim's joinerCheck instructions
• 18:4918:49, 4 November 2011 diff hist −1,641‎ QAing UCSC Genes ‎ →‎Background: stop spinning wheels looking for the right tables to push
• 00:5200:52, 4 November 2011 diff hist +16‎ Details pages -- conventions ‎ added degree symbols to list of things that should use html names
• 00:2300:23, 4 November 2011 diff hist +57‎ Details pages -- conventions ‎ added note about american spellings