User contributions for Rhead
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29 August 2013
- 09:0909:09, 29 August 2013 diff hist +4,463 Scripting standards fleshed out everything current
31 July 2013
- 01:5701:57, 31 July 2013 diff hist +1,862 N Scripting standards this is a start . . . basically pasting in notes
24 July 2013
- 02:2902:29, 24 July 2013 diff hist +1,541 CGI Testing →hgVai: added instructions for testing hgVai
11 July 2013
- 02:1602:16, 11 July 2013 diff hist +52 Checking RR status through hgTracksRandom updated to reflect switch of job to qateam's crontab on hgwdev. (http://redmine.soe.ucsc.edu/issues/9708#note-33)
2 July 2013
- 22:5622:56, 2 July 2013 diff hist +176 Static content for new assemblies →Browser tree:: changed instructions for newsarch.html and indexNews.html to reflect current practice
1 July 2013
- 17:5217:52, 1 July 2013 diff hist 0 Sample .bashrc No edit summary
- 07:5207:52, 1 July 2013 diff hist +121 Sample .bashrc added categories
- 07:5007:50, 1 July 2013 diff hist +21 Training new Browser Staff →Logistics: added link to new sample .bashrc page
- 07:4807:48, 1 July 2013 diff hist +434 Sample .bashrc No edit summary
- 07:4007:40, 1 July 2013 diff hist +2,891 N Sample .bashrc Created page with " <pre> # Source global definitions if [ -f /etc/bashrc ]; then . /etc/bashrc fi # get colors on ls in emacs! alias ls='ls --color=auto' # various command shortcuts alias og='l..."
29 June 2013
- 02:2902:29, 29 June 2013 diff hist 0 m Training new Browser Staff →Logistics: typo
14 June 2013
- 08:0208:02, 14 June 2013 diff hist +14 Monitoring Tasks filled in missing information for checkGenomeMysql
31 May 2013
- 00:2700:27, 31 May 2013 diff hist +274 Updating blat servers added notes about genome-euro
30 May 2013
- 23:5623:56, 30 May 2013 diff hist +1,019 Outdated instructions for releasing an assembly added new section about genome-euro and the pullHgcentral script
28 May 2013
- 22:1022:10, 28 May 2013 diff hist −13 Public Hub QA →Stage the hub on Beta: took out the direction to run hubPublicCheck on beta . . . confirmed w/ braney that it doesn't matter where it is run
13 May 2013
- 21:2521:25, 13 May 2013 diff hist +77 CGI Testing →hgTables: added MAF as a "weird" hgTables type
5 April 2013
- 23:3223:32, 5 April 2013 diff hist +162 Outdated instructions for releasing an assembly →Review all tracks in the sub-pushQ: pointed out that several checks are done for all tracks at once in these instructions
- 23:2323:23, 5 April 2013 diff hist +222 Outdated instructions for releasing an assembly →Review all tracks in the sub-pushQ: added link to new track checklist and a note that Restr Enzyme and Short Match tracks don't need to be QAed
- 23:0723:07, 5 April 2013 diff hist +34 Outdated instructions for releasing an assembly →Review all tracks in the sub-pushQ: added links to genbank and ensembl pages
- 22:3422:34, 5 April 2013 diff hist −86 Outdated instructions for releasing an assembly →joinerCheck: removed redundant change directory commands
- 22:3422:34, 5 April 2013 diff hist +151 Outdated instructions for releasing an assembly →Check that common keys between tables are in sync: added a check for times
- 22:2622:26, 5 April 2013 diff hist +132 Outdated instructions for releasing an assembly →Check that it is not symlink on hgnfs1, that there is only one file, and is not in a subdirectory: pointed out that you can check whether a file is a symlink on hgnfs1 by looking at it on hgwbeta
- 00:2200:22, 5 April 2013 diff hist −1 CBSE citation format removed confusing period after PMID and PMCID
- 00:2100:21, 5 April 2013 diff hist −1 CBSE citation format →Basic format: whoops, no period needed
4 April 2013
- 22:3722:37, 4 April 2013 diff hist +17 CBSE citation format →Basic format: added PMID to basic format example
22 March 2013
- 23:1223:12, 22 March 2013 diff hist −177 Outdated instructions for releasing an assembly →genomeClade and gdbPdb: got rid of gdbPdb reference and reworded
- 23:0823:08, 22 March 2013 diff hist −67 Outdated instructions for releasing an assembly →blatServers: reword
- 22:2522:25, 22 March 2013 diff hist −65 Outdated instructions for releasing an assembly →Push the database and tables from hgwdev to hgwbeta: removed instruction to drop user-specific trackDb and hgFindSpec tables when the list comes from the pushQ
20 March 2013
- 23:4223:42, 20 March 2013 diff hist +212 QAing UCSC Genes →joinerCheck: added note to make sure kg{N}ToKg{N+1} is in all.joiner
13 March 2013
- 17:5417:54, 13 March 2013 diff hist +211 Pushing trackDb →Files: Added push of cv.ra to hgdownload, as requested in http://redmine.soe.ucsc.edu/issues/10346.
24 January 2013
- 18:4218:42, 24 January 2013 diff hist +52 Creating a pushQ Entry No edit summary
4 December 2012
- 01:2001:20, 4 December 2012 diff hist −42 CGI testing responsibilities →Brooke: moved hgLogin to the "test only if it has changed" category, per Chin.
21 November 2012
- 19:1419:14, 21 November 2012 diff hist +188 Outdated instructions for releasing an assembly →Double-check /gbdb files: added note about using "ls -lL" to see timestamps
20 November 2012
- 19:1019:10, 20 November 2012 diff hist +51 Outdated instructions for releasing an assembly →Update hgcentral: clarified note about updating defaultDb
6 November 2012
- 19:3219:32, 6 November 2012 diff hist +128 Outdated instructions for releasing an assembly →Adjust the release log in main pushQ: added note about consensus on not listing downloads
15 October 2012
- 19:0919:09, 15 October 2012 diff hist +278 Ensembl QA No edit summary
11 October 2012
- 19:3519:35, 11 October 2012 diff hist +8 m Minimal browser fixed path to organism.lst
- 19:3019:30, 11 October 2012 diff hist +7 m Minimal browser No edit summary
- 19:3019:30, 11 October 2012 diff hist +58 Minimal browser changed genbank tracks required per discussion w/ braney and jim (also http://redmine.soe.ucsc.edu/issues/7668)
8 October 2012
- 21:3221:32, 8 October 2012 diff hist +58 Minimal browser added categories
- 21:3121:31, 8 October 2012 diff hist −69 Checking RR status through hgTracksRandom removed the "training" categories from this page, since most people don't need to worry about hgTracksRandom
5 October 2012
- 23:3623:36, 5 October 2012 diff hist +54 GenBank QA →Other checks: linked to minimal browser page
- 01:2001:20, 5 October 2012 diff hist −72 New track checklist took out pre-QA labels
12 September 2012
- 18:1718:17, 12 September 2012 diff hist +99 Checking RR status through hgTracksRandom added link to cacti graphs, fixed a typo, added greg to the crontab snippet
29 August 2012
- 23:5123:51, 29 August 2012 diff hist −10 CGI testing responsibilities removed "tests and" from "tests and tracks issues for hgTracks" -- the testing is part of the hgTracks tester's job
- 23:5023:50, 29 August 2012 diff hist +95 CGI testing responsibilities made it more clear that hgTracks needs to be tested every time
- 00:1000:10, 29 August 2012 diff hist +109 Ensembl QA clarified the moving of lines in the trackVersion table based on steve, hiram, and pauline's input
28 August 2012
- 23:5723:57, 28 August 2012 diff hist +241 Outdated instructions for releasing an assembly added note to push hgFixed tables
24 August 2012
- 03:1203:12, 24 August 2012 diff hist 0 Outdated instructions for releasing an assembly →Update hgcentralbeta: moved liftOverChain bit after defaultDb bit
18 August 2012
- 00:4100:41, 18 August 2012 diff hist +89 Conservation Track QA →Make a list of all organisms for which there are nets & chains and put them in phylogenetic order: added a link to Wellcome's interactive tree of life
17 August 2012
- 23:1423:14, 17 August 2012 diff hist +159 Conservation Track QA →Make a list of all organisms for which there are nets & chains and put them in phylogenetic order: more wikipedia links
- 23:0423:04, 17 August 2012 diff hist +108 Conservation Track QA →Make a list of all organisms for which there are nets & chains and put them in phylogenetic order: added taxonomy browser back. It's not useless. :)
- 22:5722:57, 17 August 2012 diff hist +169 Conservation Track QA →Make a list of all organisms for which there are nets & chains and put them in phylogenetic order: added links to relevant wikipedia pages
- 19:4719:47, 17 August 2012 diff hist +111 Details pages -- conventions added note that SOE links should use ".soe." instead of ".cse." (per Jorge)
- 00:1800:18, 17 August 2012 diff hist +6 Conservation Track QA took out reference to NCBI taxonomy browser after having trouble with it (e.g., human, chimp, and gorilla all appear to be at same level but shouldn't be)
16 August 2012
- 22:4722:47, 16 August 2012 diff hist +132 GenBank QA →Tracks: added location of genbank counts file
- 19:1119:11, 16 August 2012 diff hist +37 Conservation Track QA moved instruction to check the maf file annotation types agains the display to "things we used to do"
- 02:4002:40, 16 August 2012 diff hist +220 GenBank QA added note to compare current tracks to those on a previous assembly, if available
15 August 2012
- 21:4721:47, 15 August 2012 diff hist −3 Genbank updates changed make command, per braney current
26 July 2012
- 18:3318:33, 26 July 2012 diff hist +80 Static Page Protocol →Files Destined for the Round Robin and Mirrors (Public Documents): added note about gitu
- 03:0203:02, 26 July 2012 diff hist +335 Static Page Protocol →Files Destined for the Round Robin and Mirrors (Public Documents): added note about using FIND=find, noted in redmine #8410
2 July 2012
- 22:3322:33, 2 July 2012 diff hist −155 Genbank updates Removed instructions to delete from /cluster/data/genbank/data/ftp (per Braney). Made the instructions generic for enabling and disabling.
13 June 2012
- 19:3119:31, 13 June 2012 diff hist −20 Outdated instructions for releasing an assembly →Push the database and tables from hgwdev to hgwbeta: removed another instruction to leave out tableDescriptions table when pushing from dev to beta
- 19:2819:28, 13 June 2012 diff hist −18 Outdated instructions for releasing an assembly →Push the database and tables from hgwdev to hgwbeta: took out instruction to remove tableDescriptions
7 June 2012
- 02:3602:36, 7 June 2012 diff hist +147 CGI Testing added Cricket's suggestion for using the CSHL Long RNA Seq track as a stress test track
25 May 2012
- 21:2521:25, 25 May 2012 diff hist +18 Post-Release-Checklist →UniProtKB: changed the bit about running makeUniProtFile.csh in a specific directory. RM#7308.
14 May 2012
- 23:1223:12, 14 May 2012 diff hist +3 Outdated instructions for releasing an assembly →Push image file to hgwbeta and rr: changed to specify push from beta to rr, not dev
10 May 2012
- 21:2621:26, 10 May 2012 diff hist +305 Updating blat servers added note to notify mirrors
23 April 2012
- 20:4320:43, 23 April 2012 diff hist −10 Outdated instructions for releasing an assembly moved pressing the done button in the push queue to the end
- 20:1920:19, 23 April 2012 diff hist 0 Outdated instructions for releasing an assembly moved check for phylogenetic order to staging section
13 March 2012
- 18:0618:06, 13 March 2012 diff hist +361 Post-Release-Checklist →UniProtKB: updated with info from Benoit Bely at UniProt
24 February 2012
- 04:1604:16, 24 February 2012 diff hist +348 QAing UCSC Genes →QAing the many related tables: example loop for getting table row counts
- 04:0604:06, 24 February 2012 diff hist +165 QAing UCSC Genes →QAing the Gene Set: one more note from Jim about checking kgXref
- 04:0204:02, 24 February 2012 diff hist +244 UCSC Genes Staging Process added section for unused tables
- 03:5903:59, 24 February 2012 diff hist +458 QAing UCSC Genes Added FASTA Alignments section
- 03:3503:35, 24 February 2012 diff hist +44 UCSC Genes Staging Process →Download page: push the cds fasta files
- 03:3303:33, 24 February 2012 diff hist −34 UCSC Genes Staging Process →Databases: removed redundant link to ucsc genes tables
- 03:1503:15, 24 February 2012 diff hist +225 QAing UCSC Genes →QAing the Gene Set: Added featureBits note.
- 03:1403:14, 24 February 2012 diff hist −2 m QAing UCSC Genes →QAing the uniProt and proteome databases
- 03:1303:13, 24 February 2012 diff hist +186 QAing UCSC Genes →QAing the uniProt and proteome databases: formatting; adding note about symlinks
- 02:2202:22, 24 February 2012 diff hist +57 UCSC Genes Staging Process →uniProt and Proteome databases: added note to push the READMEs
- 02:2002:20, 24 February 2012 diff hist +7 m UCSC Genes Staging Process →Update the hgcentral database
- 02:1602:16, 24 February 2012 diff hist +225 QAing UCSC Genes →QAing the many related tables: list of tables that should have same counts
- 02:0902:09, 24 February 2012 diff hist −2 UCSC Genes Staging Process →update isPcr: changed header name
- 01:5801:58, 24 February 2012 diff hist +711 UCSC Genes Staging Process split pcr target into hgwbeta and RR sections
- 01:2001:20, 24 February 2012 diff hist +786 QAing UCSC Genes added PCR Target section
- 00:5000:50, 24 February 2012 diff hist −412 UCSC Genes Staging Process Moved intro information from here to the QAing page
- 00:4600:46, 24 February 2012 diff hist −64 QAing UCSC Genes →Tables Related to UCSC Genes That are Separate tracks: noted that exoniphy will no longer be built
- 00:4200:42, 24 February 2012 diff hist −133 QAing UCSC Genes removed links to other ucsc genes pages from bottom of page
- 00:4100:41, 24 February 2012 diff hist +274 QAing UCSC Genes Moved intro information here from the Staging page
- 00:3200:32, 24 February 2012 diff hist −209 UCSC Genes Staging Process →Post-Release: Removed section now that all ucsc genes wiki pages are linked on every page
- 00:3100:31, 24 February 2012 diff hist +151 Post-Release-Checklist added "wiki pages about known genes" section
- 00:3000:30, 24 February 2012 diff hist +147 UCSC Genes Staging Process added "wiki pages about known genes" section
- 00:2900:29, 24 February 2012 diff hist +149 UCSC Genes tables added "wiki pages about known genes" section
- 00:2600:26, 24 February 2012 diff hist +66 QAing UCSC Genes →wiki pages about known genes: reordered links, added note about staging link
- 00:1100:11, 24 February 2012 diff hist −509 Post-Release-Checklist removed details about hgcentral, otherOrgs.ra and uniProt (they're in the QAing and Staging pages now), and added announcement section
23 February 2012
- 22:3522:35, 23 February 2012 diff hist −221 Post-Release-Checklist →Exoniphy: removed this section per Ann and Hiram.
- 21:0421:04, 23 February 2012 diff hist +1,106 QAing UCSC Genes Added a section for QAing uniProt and proteome databases
- 20:1120:11, 23 February 2012 diff hist +232 QAing UCSC Genes →QAing the many related tables: Added note to check Old UCSC Genes, Alt Events and blastTab tables.
- 20:0620:06, 23 February 2012 diff hist 0 UCSC Genes Staging Process →Files for Searching: changed hg18 to <db>
- 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
12 September 2011
- 22:2822:28, 12 September 2011 diff hist +3 New track checklist →Chromosome coverage: wording tweak
- 22:2822:28, 12 September 2011 diff hist −89 New track checklist →Chromosome coverage: rearranged section. Replaced graphs.csh with histogram option on countPerChrom.csh.
9 September 2011
- 18:1218:12, 9 September 2011 diff hist +106 CBSE citation format added preference to link directly to journal articles if they are open access (per donna per david)
- 18:0718:07, 9 September 2011 diff hist +92 New track checklist →Track description: links should go directly to journal articles if they are open access (per donna per david)
2 September 2011
- 19:1619:16, 2 September 2011 diff hist −2 m New track checklist →Track description
- 19:1619:16, 2 September 2011 diff hist +210 New track checklist →Track description: clarified where links should go
1 September 2011
- 22:1722:17, 1 September 2011 diff hist −176 Make your own virtual space →Populate my /usr/local/apache/cgi-bin-myusername/ directory for the first time by doing the following:: took out reference to QA, as this is for everyone; said to put env vars in config file
30 August 2011
- 22:2422:24, 30 August 2011 diff hist +26 CGI Testing →hgTables: added note to try filtering on related tables
- 21:3121:31, 30 August 2011 diff hist +294 CGI Testing →hgTables: updating after taking over this CGI and talking to mary about how she was testing it
24 August 2011
- 01:2601:26, 24 August 2011 diff hist −216 QA Home Page →Mailing List Maven: we now keep track of the mail list schedule on the google calendar
- 01:2001:20, 24 August 2011 diff hist +1 m QA scripts →Scripts
9 August 2011
- 01:1501:15, 9 August 2011 diff hist +192 CGI Testing →TrackCheck: small fixes, added directions to get to hgw0 logs
- 01:0101:01, 9 August 2011 diff hist +977 CGI Testing →hgTracks: adding in more information about TrackCheck
4 August 2011
- 19:4919:49, 4 August 2011 diff hist +474 Creating a pushQ Entry Added instruction to name related tracks
- 18:5718:57, 4 August 2011 diff hist −93 Creating a pushQ Entry reworded notes
- 18:4518:45, 4 August 2011 diff hist +5 Creating a pushQ Entry changed /data/apache/ to /usr/local/apache
- 18:4518:45, 4 August 2011 diff hist +35 Creating a pushQ Entry ann says we don't use the "online help" field.
- 02:4702:47, 4 August 2011 diff hist +245 Details pages -- conventions made a few things less verbose, reordered/reworded, added a few notes
- 02:2502:25, 4 August 2011 diff hist +24 m Creating a pushQ Entry No edit summary
- 02:2002:20, 4 August 2011 diff hist +434 Creating a pushQ Entry added more of the missing push queue sections
- 01:5901:59, 4 August 2011 diff hist +14 Creating a pushQ Entry No edit summary
- 01:5501:55, 4 August 2011 diff hist +42 Creating a pushQ Entry reformatted notes
- 01:3701:37, 4 August 2011 diff hist +163 Creating a pushQ Entry added another link for using release tags if editing trackDb
- 01:3401:34, 4 August 2011 diff hist +680 Creating a pushQ Entry added to push queue instructions
- 01:0701:07, 4 August 2011 diff hist +225 Creating a pushQ Entry added to checklist for track being complete
- 00:3800:38, 4 August 2011 diff hist +252 CGI testing responsibilities reformatting, adding guest cgi
- 00:1900:19, 4 August 2011 diff hist −36 CGI Testing moved hgTables up since it will always be tested; reworded a couple of things
- 00:1100:11, 4 August 2011 diff hist +245 CGI Testing updating with new directive of systematically testing only hgTracks and hgTables
3 August 2011
- 22:2422:24, 3 August 2011 diff hist +98 CGI testing responsibilities links to version notes and testing instructions
- 22:1322:13, 3 August 2011 diff hist +373 CGI testing responsibilities new CGI duties after Jim said we should focus testing on hgTracks and hgTables
23 July 2011
- 03:2403:24, 23 July 2011 diff hist +94 CGI Testing →hgTracks
19 July 2011
- 22:1922:19, 19 July 2011 diff hist +30 CGI testing responsibilities →no one
- 22:1822:18, 19 July 2011 diff hist +76 CGI testing responsibilities →no one
- 22:0522:05, 19 July 2011 diff hist +121 CGI Testing added hgHubConnect
28 June 2011
- 21:1021:10, 28 June 2011 diff hist +394 CGI Testing Added larry's directions for finding the error console in IE
- 19:0619:06, 28 June 2011 diff hist 0 New track checklist →FeatureBits and Gaps: changed getYield example now that the script doesn't use only the CDS parts of refGene
24 June 2011
- 19:0419:04, 24 June 2011 diff hist +14 New track checklist →FeatureBits and Gaps: changed union to intersection in getYield.csh output (the script is changed, too)
- 18:5818:58, 24 June 2011 diff hist +10 New track checklist moved comparison section to be next to featureBits
22 June 2011
- 01:2201:22, 22 June 2011 diff hist +592 New track checklist →FeatureBits and Gaps: Added more about comparing new tracks to existing tracks after QA meeting with Jim.
17 June 2011
- 02:1902:19, 17 June 2011 diff hist −379 New track checklist →Index: removed section. Jim's says that we started doing this in 2003 due to a bug in mysql that was causing the index not to load right. We would find any problems now from performance checks.
16 June 2011
- 00:3900:39, 16 June 2011 diff hist −297 New track checklist →Default Position: deleted this section, per Jim.
- 00:3800:38, 16 June 2011 diff hist −236 New track checklist →Protein sequence check (gene annotations only): removed this section, per Jim.
8 June 2011
- 19:1919:19, 8 June 2011 diff hist +430 CGI Testing added note about using the error console
23 April 2011
- 01:1401:14, 23 April 2011 diff hist +199 SNP Track QA added links to angie's presentation
- 01:0501:05, 23 April 2011 diff hist +184 SNP Track QA formatting and added note about haplotypes and PAR regions.
- 00:5800:58, 23 April 2011 diff hist 0 m SNP Track QA capitalized things
- 00:5500:55, 23 April 2011 diff hist −5 SNP Track QA switched to using section headers instead of bullets
- 00:5300:53, 23 April 2011 diff hist −182 SNP Track QA added trackUi checks and description page info; reorganized a bit
- 00:3100:31, 23 April 2011 diff hist +73 SNP Track QA →AT RELEASE BE SURE TO:: downloads.html link
- 00:2900:29, 23 April 2011 diff hist +753 SNP Track QA added info about snp-masked fasta files, ls-snp/chimera links, and genome graphs
