User contributions for Hiram
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7 June 2018
- 16:5216:52, 7 June 2018 diff hist 0 File:Mm10.grcIncidentDb.bb Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
6 June 2018
- 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
5 June 2018
- 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
2 June 2018
- 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
1 June 2018
- 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
31 May 2018
- 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
25 May 2018
- 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
18 May 2018
- 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
11 May 2018
- 16:5316:53, 11 May 2018 diff hist 0 File:Mm9.grcIncidentDb.bb Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
4 May 2018
- 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
3 May 2018
- 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
2 May 2018
- 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
28 April 2018
- 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
27 April 2018
- 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
26 April 2018
- 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
25 April 2018
- 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
23 April 2018
- 16:3316:33, 23 April 2018 diff hist +99 Nm User:Bwolford Creating user page for new user. current
19 April 2018
- 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
16 April 2018
- 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
- 18:0618:06, 16 April 2018 diff hist +1 m Open Stack Parasol Installation →Parasol nodes
- 17:5717:57, 16 April 2018 diff hist +977 Open Stack Parasol Installation elaborate the start up procedure
- 17:3117:31, 16 April 2018 diff hist +2,058 Open Stack Parasol Installation elaborate the start up procedure
- 16:5216:52, 16 April 2018 diff hist +473 Open Stack Parasol Installation →Parasol Hub
- 16:3316:33, 16 April 2018 diff hist +248 Open Stack Parasol Installation pointer to open stack CLI install
- 15:5915:59, 16 April 2018 diff hist +810 N Open Stack Parasol Installation initial contents
15 April 2018
- 16:1416:14, 15 April 2018 diff hist +230 N File:OpenStackParaNodeSetup.sh.template.txt Corresponding script to use with OpenStackStartParaNode.sh.txt This template script is configured by OpenStackStartParaNode.sh.txt then installed on the machine and run during start up to configure it for parasol node operations.
- 16:1316:13, 15 April 2018 diff hist +235 N File:OpenStackStartParaNode.sh.txt Script to use with Open Stack to start up a machine instance configured for parasol node operations Requires a corresponding script OpenStackParaNodeSetup.sh.template.txt which is sent to the machine for configuration during start up.
- 16:1216:12, 15 April 2018 diff hist +179 N File:OpenStackParaHubSetup.sh.txt Corresponding script to go with OpenStackStartParaHub.sh.txt This script is sent to the machine and used there during startup to configure the machine for parasol hub operations.
- 16:1016:10, 15 April 2018 diff hist +160 N File:OpenStackStartParaHub.sh.txt script to start up an Open Stack parasol hub machine instance Also requires the OpenStackParaHubSetup.sh.txt script which configures the machine upon start up.
12 April 2018
- 19:3319:33, 12 April 2018 diff hist 0 File:Hg38.grcIncidentDb.bb Hiram uploaded a new version of File:Hg38.grcIncidentDb.bb
- 02:1302:13, 12 April 2018 diff hist 0 File:NodeReport.sh.txt Hiram uploaded a new version of File:NodeReport.sh.txt
9 April 2018
- 17:1717:17, 9 April 2018 diff hist +188 Parasol job control system No parasol jobs in parasol jobs
- 17:1517:15, 9 April 2018 diff hist +321 Whole genome alignment howto adding note to reference the doChainNetBlastz.pl script
8 April 2018
- 02:2602:26, 8 April 2018 diff hist 0 112 fly pair wise alignments reorg % location current
- 02:1002:10, 8 April 2018 diff hist +17,405 112 fly pair wise alignments genome and taxId links
7 April 2018
- 23:5923:59, 7 April 2018 diff hist +6,272 112 fly pair wise alignments with accession link
- 23:5523:55, 7 April 2018 diff hist +13,848 N 112 fly pair wise alignments initial contents needs out links
6 April 2018
- 21:1321:13, 6 April 2018 diff hist +1,632 DoBlastzChainNet.pl adding how it works
- 20:5920:59, 6 April 2018 diff hist +1,961 DoBlastzChainNet.pl adding four categories of DEF files
- 20:2420:24, 6 April 2018 diff hist +53 m DoBlastzChainNet.pl use rsync instead of ftp
- 20:2020:20, 6 April 2018 diff hist 0 m DoBlastzChainNet.pl →Install scripts and kent command line utilities
- 20:1320:13, 6 April 2018 diff hist +136 Parasol job control system add bedSingleCover.pl to binaries
- 20:1220:12, 6 April 2018 diff hist +343 DoBlastzChainNet.pl indicate lastz binary is in UCSC downloads, add bedSingleCover.pl
- 20:0820:08, 6 April 2018 diff hist −2 DoBlastzChainNet.pl lastz-1.04.00 binary is now in UCSC downloads
- 16:3316:33, 6 April 2018 diff hist 0 File:Mm9.grcIncidentDb.bb Hiram uploaded a new version of File:Mm9.grcIncidentDb.bb
- 16:3316:33, 6 April 2018 diff hist 0 File:Mm10.grcIncidentDb.bb Hiram uploaded a new version of File:Mm10.grcIncidentDb.bb
- 06:0406:04, 6 April 2018 diff hist −123 m DoBlastzChainNet.pl →PATH setup
- 06:0206:02, 6 April 2018 diff hist +1,487 DoBlastzChainNet.pl note track hub files
- 05:3605:36, 6 April 2018 diff hist +45 m DoBlastzChainNet.pl →Install scripts and kent command line utilities
- 05:3405:34, 6 April 2018 diff hist +30 m DoBlastzChainNet.pl →Obtain genome sequences
- 05:3205:32, 6 April 2018 diff hist +123 m DoBlastzChainNet.pl →Prerequisites
- 05:3105:31, 6 April 2018 diff hist −4 m DoBlastzChainNet.pl →PATH setup
- 05:3005:30, 6 April 2018 diff hist +3,276 DoBlastzChainNet.pl Reciprocal Best
