User contributions for Rhead
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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
2 November 2011
- 19:1819:18, 2 November 2011 diff hist +276 New track checklist →Label lengths (pre-QA): added instructions for how to check these for pre-QA
- 02:4502:45, 2 November 2011 diff hist −530 Outdated instructions for releasing an assembly →Verify that the number of records in the upstream*.zip files is consistent: removed! These are made by an automated process now, and are less prone to error.
1 November 2011
- 19:5719:57, 1 November 2011 diff hist +356 Outdated instructions for releasing an assembly →Read and verify READMEs: added an instruction to check the genbank.conf file against the upstream* readme
- 19:5519:55, 1 November 2011 diff hist +280 Outdated instructions for releasing an assembly →Next day follow-up: added note to check for genbank-generated downloads
- 18:1218:12, 1 November 2011 diff hist +104 UCSC Genes Staging Process →Releasing to the public website: added the beginning of isPcr instructions
- 00:3600:36, 1 November 2011 diff hist −151 UCSC Genes Staging Process →Tables in the Assembly Database: took out reference to table lists in source tree
- 00:3500:35, 1 November 2011 diff hist +26 UCSC Genes Staging Process →Data Involved: there are 3 tables needed for the old ucsc genes track; not one
31 October 2011
- 19:0319:03, 31 October 2011 diff hist +145 Outdated instructions for releasing an assembly →Turn on GenBank updates: changed mark -> brian; added etc-update-server to the make per brian
- 19:0019:00, 31 October 2011 diff hist +92 Outdated instructions for releasing an assembly →Verify downloads: clarified how automatic downloads show up
28 October 2011
- 01:4901:49, 28 October 2011 diff hist +74 New track checklist →Track description (pre-QA): added link to our details pages conventions
27 October 2011
- 19:0119:01, 27 October 2011 diff hist −99 Outdated instructions for releasing an assembly →Verify downloads: clarification on automatic downloads from mark
- 18:0018:00, 27 October 2011 diff hist −21 New track checklist →All details: 1 data point (pre-QA): took out instruction to look in table for a data point
- 17:5817:58, 27 October 2011 diff hist −9 New track checklist →Downloads (pre-QA)
- 17:3817:38, 27 October 2011 diff hist +1 m New track checklist →Track description (pre-QA): reorganized slightly
- 03:5703:57, 27 October 2011 diff hist +31 Outdated instructions for releasing an assembly →Pre-staging of assembly on hgwbeta: added instruction to claim the redmine ticket in addition to claiming the assembly in the push queue
- 03:5503:55, 27 October 2011 diff hist +135 Outdated instructions for releasing an assembly changed instructions for n-scan request from emailing markd and jeltje to making a redmine ticket and assigning it to mark
- 03:4603:46, 27 October 2011 diff hist +406 Outdated instructions for releasing an assembly →Verify downloads: added note about the genbank downloads that get automatically generated.
- 03:3803:38, 27 October 2011 diff hist +247 Outdated instructions for releasing an assembly →Verify that the number of records in the upstream*.zip files is consistent: added instructions to count the records in each file without unzipping
26 October 2011
- 22:3922:39, 26 October 2011 diff hist +15 CGI testing responsibilities mini-shuffle: move hgTables tickets to go w/ hgTables tester, replace it w/ hgHubConnect, and give Steve Mary's old CGIs
24 October 2011
- 18:1718:17, 24 October 2011 diff hist +15 CGI testing responsibilities →List of CGIs that we don't test
20 October 2011
- 18:0518:05, 20 October 2011 diff hist +215 QAing UCSC Genes →Actual steps: extra notes about HGGeneCheck
19 October 2011
- 00:4100:41, 19 October 2011 diff hist +45 UCSC Genes Staging Process →Data Involved: clarified hgdownload files
18 October 2011
- 19:4219:42, 18 October 2011 diff hist +47 Post-Release-Checklist →Post Release Checklist for UCSC Genes: formatting
- 19:3519:35, 18 October 2011 diff hist +1,211 Post-Release-Checklist →Post Release Checklist for UCSC Genes: moved list of people to alert/email from staging process page to here
- 19:3519:35, 18 October 2011 diff hist −1,211 UCSC Genes Staging Process →Releasing to the public website: moved list of people to alert/email to post-release-checklist
- 19:0919:09, 18 October 2011 diff hist −329 Post-Release-Checklist →Post Release Checklist for UCSC Genes: removed known gene lists instructions
- 18:5418:54, 18 October 2011 diff hist −506 UCSC Genes Staging Process →Releasing to the public website: removed instructions for known gene lists for google (we don't do this anymore)
- 18:4918:49, 18 October 2011 diff hist +214 UCSC Genes Staging Process →Data Involved: added hgPal files
10 October 2011
- 23:4423:44, 10 October 2011 diff hist +51 Training new Browser Staff →Logistics: added link to galt's notes on ssh authentication
6 October 2011
- 00:0400:04, 6 October 2011 diff hist +20 UCSC Genes Staging Process →Details About UniProt and Proteome Databases: simplified wording
5 October 2011
- 23:2823:28, 5 October 2011 diff hist +868 UCSC Genes Staging Process →Details About UniProt and Proteome Databases: more info on the symlinks
- 21:3321:33, 5 October 2011 diff hist +1 UCSC Genes Staging Process →Data Involved: there are 6 other blastTab assemblies, not 5
3 October 2011
- 22:4522:45, 3 October 2011 diff hist +287 GenBank QA →Other checks: added location of file that contains mrna/est/refSeq counts
30 September 2011
- 22:1522:15, 30 September 2011 diff hist −19 m GenBank QA →Tables: formatting
- 19:1319:13, 30 September 2011 diff hist +2,556 N GenBank QA used old documentation at http://genecats.cse.ucsc.edu/qa/test-protocols/tracks.html as a starting point
29 September 2011
- 23:2023:20, 29 September 2011 diff hist +1,627 UCSC Genes Staging Process →Details About UniProt and Proteome Databases: Fan has shed some light on our setup!
28 September 2011
- 23:5423:54, 28 September 2011 diff hist −60 QAing UCSC Genes →Tables Related to UCSC Genes That are Separate tracks: removed omim tables - these are only related to refSeq genes now
27 September 2011
- 03:3203:32, 27 September 2011 diff hist +328 QA scripts added checkBOT
- 03:1203:12, 27 September 2011 diff hist +20 QA scripts →mypush: formatting
- 03:1003:10, 27 September 2011 diff hist +56 QA scripts link to new track checklist scripts, took out "no .csh" comments
- 03:0403:04, 27 September 2011 diff hist +717 QA scripts added mypush, added <pre> tags to make usage statements look nicer
- 02:4402:44, 27 September 2011 diff hist +5,786 QA scripts many more added!
- 02:1102:11, 27 September 2011 diff hist +1,483 QA scripts getting started with redmine 3183
26 September 2011
- 22:1922:19, 26 September 2011 diff hist −386 CGI testing responsibilities removed guest CGI mumbo-jumbo (redmine #4576)
23 September 2011
- 21:4521:45, 23 September 2011 diff hist +176 Details pages -- conventions added notes about links
14 September 2011
- 22:2822:28, 14 September 2011 diff hist +13 Static Page Protocol →Files for Internal Use: reformatted to match other sections
- 22:2522:25, 14 September 2011 diff hist +45 Static Page Protocol →Files Destined for hgdownload: reformatted to match previous sections
- 21:2721:27, 14 September 2011 diff hist +105 Static Page Protocol added optional instruction for making your own sandbox to htdocsExtras section
- 21:2421:24, 14 September 2011 diff hist +20 Static Page Protocol →Large Files either Destined for the Round Robin or are Linked on the Genome Wiki (These files were too large to be checked into the main htdocs repository): reformatted/reworded to match above
- 21:1821:18, 14 September 2011 diff hist −3 Static Page Protocol →Files Destined for the Round Robin and Mirrors (Public Documents): reformatted and reworded
