User contributions for Hiram

21:5521:55, 1 October 2018 diff hist +30‎ File:AwsAttachVolume.sh.txt ‎ add category tag current
21:5421:54, 1 October 2018 diff hist +148‎ N File:AwsAttachVolume.sh.txt ‎ Script for AWS instance initialization to attach a data volume to a running instance. Used in the startParaHub.sh script upon starting the machine.

16:5716:57, 27 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5716:57, 27 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb
16:4316:43, 27 September 2018 diff hist +28‎ m Internal steps of the browser when you load a page ‎ add category tag current

17:3517:35, 26 September 2018 diff hist 0‎ File:OpenStackParaHubSetup.sh.txt ‎ Hiram uploaded a new version of File:OpenStackParaHubSetup.sh.txt current
17:1017:10, 26 September 2018 diff hist 0‎ File:InitParasol.sh.txt ‎ Hiram uploaded a new version of File:InitParasol.sh.txt current
16:5716:57, 26 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5716:57, 26 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

20:3220:32, 25 September 2018 diff hist 0‎ File:NodeReport.sh.txt ‎ Hiram uploaded a new version of File:NodeReport.sh.txt current

16:5716:57, 22 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5716:57, 22 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:4916:49, 16 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:4916:49, 16 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5016:50, 13 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:4916:49, 13 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

21:2821:28, 4 September 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
21:2821:28, 4 September 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

23:0523:05, 24 August 2018 diff hist +254‎ Nm User:Ccpowell ‎ Creating user page for new user. current

05:1605:16, 20 August 2018 diff hist +47‎ Nm User:Zhuang809 ‎ Creating user page for new user. current
05:1405:14, 20 August 2018 diff hist +210‎ Nm User:Dschmelt ‎ Creating user page for new user.

16:5116:51, 9 August 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5016:50, 9 August 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

14:0114:01, 1 August 2018 diff hist +56‎ Nm User:Iolmo ‎ Creating user page for new user. current

16:5116:51, 18 July 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5116:51, 18 July 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5116:51, 15 July 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5116:51, 15 July 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5116:51, 14 July 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5116:51, 14 July 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

18:4818:48, 12 July 2018 diff hist 0‎ File:InitParasol.sh.txt ‎ Hiram uploaded a new version of File:InitParasol.sh.txt
18:4518:45, 12 July 2018 diff hist +53‎ m File:InitParasol.sh.txt ‎ add category tags
17:4317:43, 12 July 2018 diff hist +54‎ m File:OpenStackStartParaHub.sh.txt ‎ add category tags current
17:4217:42, 12 July 2018 diff hist +54‎ m File:OpenStackParaNodeSetup.sh.template.txt ‎ add category tags current
17:4217:42, 12 July 2018 diff hist +54‎ m File:OpenStackStartParaNode.sh.txt ‎ add category tags current
17:3517:35, 12 July 2018 diff hist +53‎ m File:OpenStackParaHubSetup.sh.txt ‎ add category tags
17:3117:31, 12 July 2018 diff hist 0‎ File:OpenStackParaHubSetup.sh.txt ‎ Hiram uploaded a new version of File:OpenStackParaHubSetup.sh.txt
16:5216:52, 12 July 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5116:51, 12 July 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
16:5116:51, 12 July 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5116:51, 12 July 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

21:4621:46, 11 July 2018 diff hist 0‎ File:OpenStackParaHubSetup.sh.txt ‎ Hiram uploaded a new version of File:OpenStackParaHubSetup.sh.txt
17:4217:42, 11 July 2018 diff hist 0‎ File:OpenStackParaNodeSetup.sh.template.txt ‎ Hiram uploaded a new version of File:OpenStackParaNodeSetup.sh.template.txt
17:2817:28, 11 July 2018 diff hist 0‎ File:OpenStackParaHubSetup.sh.txt ‎ Hiram uploaded a new version of File:OpenStackParaHubSetup.sh.txt
16:5116:51, 11 July 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5116:51, 11 July 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5216:52, 30 June 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5216:52, 30 June 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5216:52, 29 June 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb
00:3100:31, 29 June 2018 diff hist +53‎ File:NodeReport.sh.txt ‎ add category tags
00:2900:29, 29 June 2018 diff hist 0‎ File:NodeReport.sh.txt ‎ Hiram uploaded a new version of File:NodeReport.sh.txt

17:3517:35, 28 June 2018 diff hist +53‎ m Open Stack Parasol Installation ‎ add category tags current
16:5216:52, 28 June 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5216:52, 28 June 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5216:52, 27 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 27 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 24 June 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

16:5216:52, 23 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5916:59, 22 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5916:59, 22 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 21 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 21 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 20 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 20 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 19 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 19 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 16 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 16 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
16:5216:52, 16 June 2018 diff hist 0‎ File:Hg19.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg19.grcIncidentDb.bb
16:5216:52, 16 June 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

23:0223:02, 15 June 2018 diff hist +202‎ UCSC Multiple Alignments ‎ add mouse lemur micMur3 3-way alignment
23:0123:01, 15 June 2018 diff hist +2,715‎ N MicMur3 3-way conservation lastz parameters ‎ initial contents current
23:0023:00, 15 June 2018 diff hist +3,643‎ N MicMur3 3-way Genome size statistics ‎ initial contents current
23:0023:00, 15 June 2018 diff hist +2,324‎ N MicMur3 3-way conservation alignment ‎ initial contents current
16:5216:52, 15 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 15 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

17:4217:42, 12 June 2018 diff hist +53‎ Lastz DEF file parameters ‎ add category tags current
17:4117:41, 12 June 2018 diff hist +2,304‎ N Lastz DEF file parameters ‎ Created page with "Adjusting SEQ_LAP, SEQ_CHUNK and SEQ_LIMIT parameters for the lastz/chain/net pipeline. The goal of adjusting these parameters is to obtain a reasonable number of cluster job..."
17:2317:23, 12 June 2018 diff hist +47‎ DoBlastzChainNet.pl ‎ outlink to discussion of DEF file parameter adjustment

16:5216:52, 8 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 8 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 7 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 7 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 6 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 6 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 5 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 5 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 2 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 2 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 1 June 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 1 June 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5216:52, 31 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5216:52, 31 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5316:53, 25 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5316:53, 25 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
13:4413:44, 25 May 2018 diff hist +118‎ Nm User:Mingfu Wu ‎ Creating user page for new user. current

16:5316:53, 18 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:5316:53, 18 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:5316:53, 11 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb

16:3316:33, 4 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:3316:33, 4 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:3316:33, 3 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:3316:33, 3 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

16:3316:33, 2 May 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:3316:33, 2 May 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb

17:5017:50, 28 April 2018 diff hist +53‎ File:SizeVsTime.png ‎ adding category tags current
17:4917:49, 28 April 2018 diff hist +53‎ File:LastzProcessingTimeHistogram.png ‎ adding category tags current
17:3017:30, 28 April 2018 diff hist +1‎ m Cluster Jobs ‎ →‎Sick batch
17:2617:26, 28 April 2018 diff hist +103‎ Parasol job control system ‎ add pointer to cluster jobs guidelines
17:1617:16, 28 April 2018 diff hist +110‎ DoBlastzChainNet.pl ‎ →‎Parasol Job Control System
17:1017:10, 28 April 2018 diff hist +69‎ DoBlastzChainNet.pl ‎ →‎Compute resources
17:0917:09, 28 April 2018 diff hist +303‎ N File:LastzProcessingTimeHistogram.png ‎ lastz cluster compute time histogram 1,635 measurements from alignments performed at UCSC 459 measurements are less than 0.05 days (less than 1 hour) due to very small genome sizes 59 measurements are longer than 5 days processing time due to high c...
17:0517:05, 28 April 2018 diff hist +129‎ File:SizeVsTime.png ‎No edit summary
17:0417:04, 28 April 2018 diff hist +537‎ DoBlastzChainNet.pl ‎ add compute resources

23:1323:13, 27 April 2018 diff hist +213‎ N File:SizeVsTime.png ‎ lastz cluster run processing time vs. genome size blue points plot times 2 days or less processing time, left axis scale 0 - 2 days red points plot times over 2 days processing time, right axis scale 0 - 70 days

15:2915:29, 26 April 2018 diff hist +374‎ LiftOver Howto ‎ added note about the scripts now available current
15:2015:20, 26 April 2018 diff hist 0‎ Whole genome alignment howto ‎ →‎2018 UPDATE NOTE
15:2015:20, 26 April 2018 diff hist 0‎ Whole genome alignment howto ‎ corrected doBlastzChainNet.pl
15:1815:18, 26 April 2018 diff hist 0‎ Minimal Steps For LiftOver ‎ corrected doBlastzChainNet.pl current
15:1715:17, 26 April 2018 diff hist +33‎ N DoChainNetBlastz.pl ‎ Hiram moved page DoChainNetBlastz.pl to DoBlastzChainNet.pl: previous title was incorrect current
15:1715:17, 26 April 2018 diff hist 0‎ m DoBlastzChainNet.pl ‎ Hiram moved page DoChainNetBlastz.pl to DoBlastzChainNet.pl: previous title was incorrect
15:1415:14, 26 April 2018 diff hist −1‎ DoBlastzChainNet.pl ‎ corrected command
15:1315:13, 26 April 2018 diff hist +374‎ Minimal Steps For LiftOver ‎ add redirect note to completed scripts
15:0615:06, 26 April 2018 diff hist +53‎ Same species lift over construction ‎ add category tags current
15:0515:05, 26 April 2018 diff hist +326‎ Same species lift over construction ‎ adding note to see new page for this procedure
00:2200:22, 26 April 2018 diff hist +24‎ DoSameSpeciesLiftOver.pl ‎ capture script output in do.log
00:2000:20, 26 April 2018 diff hist +2,681‎ DoSameSpeciesLiftOver.pl ‎ show result files, scripts used and cluster job run times

22:4122:41, 25 April 2018 diff hist +767‎ DoSameSpeciesLiftOver.pl ‎ running the command
22:3122:31, 25 April 2018 diff hist +40‎ DoSameSpeciesLiftOver.pl ‎ add NCBI assembly link
22:3022:30, 25 April 2018 diff hist +120‎ DoSameSpeciesLiftOver.pl ‎ note about bin/blat
22:2822:28, 25 April 2018 diff hist −252‎ DoSameSpeciesLiftOver.pl ‎ no need to mention lastz here
22:2722:27, 25 April 2018 diff hist +135‎ DoSameSpeciesLiftOver.pl ‎ adding kent informatics
21:4821:48, 25 April 2018 diff hist +1,483‎ DoSameSpeciesLiftOver.pl ‎ ooc file construction
21:1521:15, 25 April 2018 diff hist +2,142‎ DoSameSpeciesLiftOver.pl ‎ Obtain genome sequences and working directories
20:3120:31, 25 April 2018 diff hist +53‎ DoSameSpeciesLiftOver.pl ‎ add category tags
20:3020:30, 25 April 2018 diff hist +3,385‎ N DoSameSpeciesLiftOver.pl ‎ initial contents copied from doBlastzChainNet.pl
16:0816:08, 25 April 2018 diff hist +173‎ Parasol job control system ‎ add licensing
16:0716:07, 25 April 2018 diff hist +173‎ DoBlastzChainNet.pl ‎ add licensing

16:3316:33, 23 April 2018 diff hist +99‎ Nm User:Bwolford ‎ Creating user page for new user. current

16:3316:33, 19 April 2018 diff hist 0‎ File:Mm9.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
16:3316:33, 19 April 2018 diff hist 0‎ File:Mm10.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
16:3316:33, 19 April 2018 diff hist 0‎ File:Hg38.grcIncidentDb.bb ‎ Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb

21:3221:32, 16 April 2018 diff hist +316‎ Open Stack Parasol Installation ‎ →‎Prerequisites
21:2721:27, 16 April 2018 diff hist +145‎ Parasol job control system ‎ add see also
21:2421:24, 16 April 2018 diff hist +33‎ Open Stack Parasol Installation ‎ →‎Parasol Hub
21:2121:21, 16 April 2018 diff hist +569‎ Open Stack Parasol Installation ‎ →‎Parasol nodes
21:1021:10, 16 April 2018 diff hist +1,679‎ Open Stack Parasol Installation ‎ →‎Parasol nodes
18:0618:06, 16 April 2018 diff hist −1‎ m Open Stack Parasol Installation ‎ →‎Parasol nodes

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