User contributions for Rhead

18 June 2012

• 21:4921:49, 18 June 2012 diff hist −47‎ Other genome browsers ‎ →‎Non-UCSC (genome.ucsc.edu) Browsers: re-worded redundant sentence

30 May 2012

• 00:0600:06, 30 May 2012 diff hist +622‎ ThreeStateTrackDb ‎ Added notes about hgFindSpec support, from http://redmine.soe.ucsc.edu/issues/7334#note-20.

11 January 2012

• 23:2523:25, 11 January 2012 diff hist +178‎ Presentations ‎ Added 2012 section and Brooke Rhead QA Genecats slides
• 23:1523:15, 11 January 2012 diff hist +48‎ N File:QaReleaseProcess.pdf ‎ 1-11-2012 Genecats on QA release process. (pdf) current
• 23:1323:13, 11 January 2012 diff hist +80‎ N File:QaReleaseProcess.pptx ‎ 1-11-2012 Genecats presentation on the current QA release process. (powerPoint) current

13 October 2011

• 22:0622:06, 13 October 2011 diff hist +1‎ Spreadsheet links to Genome Browser views ‎ →‎Customizing the links: changed omimGene to omimGene2

16 September 2011

• 18:5318:53, 16 September 2011 diff hist −965‎ ThreeStateTrackDb ‎ Removed migration plan.

16 August 2011

• 00:3700:37, 16 August 2011 diff hist +51‎ Finding nearby genes ‎ made galaxy alternative a link and changed tool to its actual name on that site

11 August 2011

• 22:1122:11, 11 August 2011 diff hist +219‎ Nm User talk:Bettina Kempkes ‎ Welcome! current
• 22:1122:11, 11 August 2011 diff hist +14‎ Nm User:Bettina Kempkes ‎ Creating user page with biography of new user. current

9 August 2011

• 23:3423:34, 9 August 2011 diff hist +218‎ Nm User talk:Verónica ponce ‎ Welcome! current
• 23:3423:34, 9 August 2011 diff hist +476‎ Nm User:Verónica ponce ‎ Creating user page with biography of new user. current

3 March 2011

• 03:0603:06, 3 March 2011 diff hist +36‎ Pushing trackDb ‎ adding the phrase "trackDb and friends"

1 March 2011

• 20:0120:01, 1 March 2011 diff hist +38‎ Windows testing machine ‎ →‎Logging in from Linux: bold some text for people who rtfm'd and still didn't get it

25 February 2011

• 02:2802:28, 25 February 2011 diff hist +111‎ SNP Track QA ‎ check for masked fasta downloads on human
• 00:4500:45, 25 February 2011 diff hist −649‎ SNP Track QA ‎ cutting out instructions that are generic

21 February 2011

• 03:1703:17, 21 February 2011 diff hist +157‎ Releasing an assembly ‎ →‎Check the release log: added note about editing
• 03:1303:13, 21 February 2011 diff hist +109‎ Releasing an assembly ‎ →‎Check the Genbank is running: added a check of gbLoaded table
• 03:1003:10, 21 February 2011 diff hist +54‎ Releasing an assembly ‎ →‎You may need to update all.joiner for the RR: more details
• 03:0303:03, 21 February 2011 diff hist +217‎ Releasing an assembly ‎ →‎Update/Add symlink in /usr/local/apache/htdocs-hgdownload/goldenPath/currentGenomes: more detailed instructions
• 02:5302:53, 21 February 2011 diff hist −76‎ Releasing an assembly ‎ →‎Push Downloads from hgwdev to hgdownload: simplified
• 02:5202:52, 21 February 2011 diff hist +27‎ Releasing an assembly ‎ →‎Announce the Release on genome@soe.ucsc.edu and genecats@soe.ucsc.edu: Announce on genome-announce instead of genome.
• 02:4902:49, 21 February 2011 diff hist +39‎ Releasing an assembly ‎ →‎Test the assembly tracks, BLAT and PCR on the RR: added liftover, wording change
• 02:4102:41, 21 February 2011 diff hist +176‎ Releasing an assembly ‎ →‎Adjust the release log in main pushQ: added note about getting track names, linked to release log
• 02:3602:36, 21 February 2011 diff hist +137‎ Releasing an assembly ‎ reordered genbank updates, dump/autodump of database and updating hgcentral steps
• 02:2702:27, 21 February 2011 diff hist −5‎ m Releasing an assembly ‎ →‎Update hgcentral
• 02:2302:23, 21 February 2011 diff hist +12‎ m Releasing an assembly ‎ →‎Update hgcentralbeta
• 02:2102:21, 21 February 2011 diff hist +143‎ Releasing an assembly ‎ →‎Update hgcentralbeta: added note about saving metadata files
• 02:1702:17, 21 February 2011 diff hist 0‎ m Releasing an assembly ‎ →‎double-check /gbdb files
• 02:1702:17, 21 February 2011 diff hist −1‎ m Releasing an assembly ‎ →‎=Ensure the active column in hgcentral.dbDb is set to 0
• 02:1602:16, 21 February 2011 diff hist +13‎ Releasing an assembly ‎ changed the order of ensuring active=0, checking /gbdb files, and adjusting the release log
• 02:0902:09, 21 February 2011 diff hist −14‎ Releasing an assembly ‎ →‎Check that all /gbdb files are present: make title match contents
• 02:0802:08, 21 February 2011 diff hist +162‎ Releasing an assembly ‎ →‎rsync /gbdb again as necessary: More explicit instructions. Don't necessarily want files to be the same as on hgwdev.
• 01:5601:56, 21 February 2011 diff hist +20‎ Releasing an assembly ‎ →‎Request rsync of entire database from push-request: Added note to check active=0, simplified the rest.
• 01:4601:46, 21 February 2011 diff hist +276‎ Releasing an assembly ‎ →‎Email warning to genome-mirror at least 24 hours before release: a couple of extra notes about finding sizes
• 01:3601:36, 21 February 2011 diff hist +1‎ m Releasing an assembly ‎ →‎Figure out if either you or Donna is going to edit the static docs
• 01:3501:35, 21 February 2011 diff hist +16‎ Releasing an assembly ‎ →‎Verify downloads: little wording/punc. changes
• 01:2001:20, 21 February 2011 diff hist −16‎ Releasing an assembly ‎ →‎Review all tracks in the sub-pushQ: took out redundant wording
• 01:1901:19, 21 February 2011 diff hist +1‎ m Releasing an assembly ‎ →‎Verify blastTabs are updated if needed
• 01:1801:18, 21 February 2011 diff hist +3‎ Releasing an assembly ‎ →‎Run featureBits to verify that the gold and gap tables together cover the entire genome: formatting
• 01:1601:16, 21 February 2011 diff hist +2‎ Releasing an assembly ‎ →‎Verify makedoc for all the tracks listed in the pushQ: access the database from mysqlbeta (not necessarily hgwbeta)
• 01:1101:11, 21 February 2011 diff hist −35‎ Releasing an assembly ‎ →‎liftOverChain: making it less wordy

18 February 2011

• 02:0702:07, 18 February 2011 diff hist +140‎ Releasing an assembly ‎ →‎Check that it is not symlink on hgnfs1 and that there is only one file and is not in a subdirectory
• 02:0002:00, 18 February 2011 diff hist +66‎ m Releasing an assembly ‎ →‎Turn on GenBank updates
• 01:5501:55, 18 February 2011 diff hist +39‎ Releasing an assembly ‎ →‎Push image file to hgwbeta and rr: added note about where to push from
• 01:4401:44, 18 February 2011 diff hist +38‎ Releasing an assembly ‎ →‎Push /gbdb/$db and html/description.html: little note about downloads
• 01:3701:37, 18 February 2011 diff hist −8‎ Releasing an assembly ‎ →‎liftOverChain: still had a specific example in there!
• 01:3601:36, 18 February 2011 diff hist +5‎ m Releasing an assembly ‎ →‎liftOverChain
• 01:3501:35, 18 February 2011 diff hist −34‎ Releasing an assembly ‎ →‎liftOverChain
• 01:2501:25, 18 February 2011 diff hist +8‎ Releasing an assembly ‎ →‎dbDb: fixed one spot that said beta where it should say test
• 01:1701:17, 18 February 2011 diff hist +50‎ Releasing an assembly ‎ →‎Push chain/net tables in other organisms: reword
• 00:2200:22, 18 February 2011 diff hist −10‎ Releasing an assembly ‎ →‎Create database on hgwbeta and push tables for $db: tweaked filenames so lines can be copied and pasted
• 00:1900:19, 18 February 2011 diff hist −47‎ Releasing an assembly ‎ →‎Add assembly to mirror exclude list: only root can write to the mirror exclude list...

17 February 2011

• 23:3823:38, 17 February 2011 diff hist +2‎ m Releasing an assembly ‎ →‎Check that any chain/net/liftOvers listed in the pushQ are to valid assemblies on the RR
• 23:3823:38, 17 February 2011 diff hist −131‎ Releasing an assembly ‎ →‎Check that there the chain/nets/liftOvers listed in the pushQ are to valid assemblies on the RR

16 February 2011

• 00:3200:32, 16 February 2011 diff hist +676‎ Genbank updates ‎No edit summary

10 February 2011

• 23:3023:30, 10 February 2011 diff hist +10‎ CGI Build Process ‎ →‎Push to hgwN only: added hgFileUi
• 22:4422:44, 10 February 2011 diff hist +2‎ Releasing an assembly ‎ →‎Chain/Nets/LiftOvers to other organisms: this part really just describes nets/chains/lifts to the new org
• 22:1222:12, 10 February 2011 diff hist −3‎ m Releasing an assembly ‎ →‎Stage on assembly on hgwbeta

8 February 2011

• 20:4520:45, 8 February 2011 diff hist +323‎ Releasing an assembly ‎ →‎Chain/Nets to other organisms: reorganized section

4 February 2011

• 00:0500:05, 4 February 2011 diff hist +202‎ Chains and Nets QA ‎ →‎After QAing on hgwbeta: Pushing to the RR: added a note to check downloads file and md5sum

1 February 2011

• 00:1100:11, 1 February 2011 diff hist +219‎ m GenomeAnnotation:hg19-10317 ‎No edit summary current
• 00:1000:10, 1 February 2011 diff hist −413‎ UCSCGeneAnnotation:hg19-10319 ‎ removed test. current
• 00:0900:09, 1 February 2011 diff hist +413‎ Nm UCSCGeneAnnotation:hg19-10319 ‎ New page: Category:Genome Annotation Canonical gene details [http://genome.cse.ucsc.edu/cgi-bin/hgGene?hgg_chrom=none&org=Human&db=0&hgg_gene=uc003ysa.1 AK125310 uc003ysa.1]<BR> <B>Description:<...
• 00:0300:03, 1 February 2011 diff hist +332‎ Nm GenomeAnnotation:hg19-10317 ‎ New page: Category:Genome Annotation [http://genome.cse.ucsc.edu/cgi-bin/hgTracks?db=hg19&wikiTrack=pack&position=chr8:128246689-128247138 hg19 chr8:128,246,689-128,247,138]  <B>'Brook...

31 January 2011

• 22:2822:28, 31 January 2011 diff hist +216‎ m GenomeAnnotation:hg18-10315 ‎No edit summary current
• 22:2722:27, 31 January 2011 diff hist +292‎ Nm GenomeAnnotation:hg18-10315 ‎ New page: Category:Genome Annotation [http://genome.cse.ucsc.edu/cgi-bin/hgTracks?db=hg18&wikiTrack=pack&position=chrX:150151892-150188311 hg18 chrX:150,151,892-150,188,311]  <B>'Brook...

27 January 2011

• 23:5023:50, 27 January 2011 diff hist +78‎ CGI Testing ‎ →‎hgTracks

26 January 2011

• 02:5102:51, 26 January 2011 diff hist +793‎ ThreeStateTrackDb ‎ added a section about super-tracks

22 January 2011

• 01:3701:37, 22 January 2011 diff hist +296‎ Nm GenomeAnnotation:hg18-401 ‎ New page: Category:Genome Annotation [http://genome.cse.ucsc.edu/cgi-bin/hgTracks?db=hg18&wikiTrack=pack&position=chrX:150762131-151694899 hg18 chrX:150,762,131-151,694,899]  <B>'brook... current

20 January 2011

• 00:0300:03, 20 January 2011 diff hist +5‎ m Releasing an assembly ‎ →‎Update hgcentralbeta: bold checkMetaData.csh

13 December 2010

• 21:3121:31, 13 December 2010 diff hist +500‎ CGI Testing ‎ →‎hgTracks: added more about TrackCheck, hgw0, and the new error when the image is too high

9 December 2010

• 01:1701:17, 9 December 2010 diff hist +650‎ CGI Testing ‎ →‎hgGene: Updated!
• 00:5500:55, 9 December 2010 diff hist +45‎ CGI Testing ‎ →‎hgPal: Clarified that there are 3 ways to get to hgPal.
• 00:5300:53, 9 December 2010 diff hist +225‎ CGI Testing ‎ →‎hgTracks: added a link to TrackCheck instructions
• 00:4800:48, 9 December 2010 diff hist +842‎ CGI Testing ‎ →‎track search: Added instructions from Katrina

2 December 2010

• 01:5801:58, 2 December 2010 diff hist +50‎ CGI Testing ‎ →‎hgGenome: added a check and directions for finding CGI
• 01:5201:52, 2 December 2010 diff hist +294‎ CGI Testing ‎ →‎hgLiftOver, hgConvert: a start of testing liftOver and convert -- please add to it!
• 01:1301:13, 2 December 2010 diff hist +197‎ CGI Testing ‎ added link to version notes

23 November 2010

• 00:4000:40, 23 November 2010 diff hist +321‎ New track checklist ‎ →‎Push to hgwbeta: Added a note about opening existing tracks on beta before staging them.

8 November 2010

• 07:0207:02, 8 November 2010 diff hist +1‎ m New track checklist ‎ →‎Downloads
• 07:0107:01, 8 November 2010 diff hist +839‎ New track checklist ‎ →‎Downloads: added instructions for pushing downloads

4 November 2010

• 21:4121:41, 4 November 2010 diff hist +14‎ Pushing trackDb ‎ →‎Files: cv.ra actually lives within the encode dir

2 November 2010

• 07:1307:13, 2 November 2010 diff hist +3‎ m ThreeStateTrackDb ‎ tiny typos

29 October 2010

• 21:4421:44, 29 October 2010 diff hist −4‎ Pushing trackDb ‎ →‎Files
• 21:2621:26, 29 October 2010 diff hist −161‎ Pushing trackDb ‎ →‎Files: changing cv.ra instruction now that brian is implementing alpha/beta/public
• 01:3401:34, 29 October 2010 diff hist +44‎ Pushing trackDb ‎ →‎Files: added victoria's suggestion to push cv.ra to hgwbeta-public for now
• 01:2801:28, 29 October 2010 diff hist +49‎ Pushing trackDb ‎ →‎Tables: added caveat that we only need to push the metaDb table if it exists in a db.
• 01:2101:21, 29 October 2010 diff hist +7‎ New track checklist ‎ →‎Tables are sorted and internally consistent
• 01:2001:20, 29 October 2010 diff hist +424‎ New track checklist ‎ →‎Tables are sorted and internally consistent: added more details and changed formatting (thanks, Greg!)
• 00:2300:23, 29 October 2010 diff hist +1,155‎ Pushing trackDb ‎ Added details about trix files

28 October 2010

• 21:1721:17, 28 October 2010 diff hist +68‎ Pushing trackDb ‎No edit summary
• 18:5218:52, 28 October 2010 diff hist −9‎ Pushing trackDb ‎No edit summary

27 October 2010

• 19:2219:22, 27 October 2010 diff hist +824‎ Pushing trackDb ‎ Initial cut.
• 19:0719:07, 27 October 2010 diff hist +577‎ N Pushing trackDb ‎ start of page

21 October 2010

• 22:4622:46, 21 October 2010 diff hist 0‎ Training new Browser Staff ‎ →‎Training person-to-person (in rough chronological order): moved trackDb stuff to a little later
• 22:1922:19, 21 October 2010 diff hist +25‎ File:Browsermap.pdf ‎No edit summary
• 18:5118:51, 21 October 2010 diff hist −5‎ Training new Browser Staff ‎ Removed CVS references and added git and redmine references

18 October 2010

• 05:1205:12, 18 October 2010 diff hist +2‎ Static Page JS Protocol ‎ Changed "push to beta" to "do a make on beta"

14 October 2010

• 20:5920:59, 14 October 2010 diff hist +116‎ CGI Build Process ‎ added style directory instructions for hgwbeta-public