contributors:team_2:runlog
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contributors:team_2:runlog [2015/05/17 05:09] charles |
contributors:team_2:runlog [2015/09/02 16:19] (current) ceisenhart ↷ Page moved from soapdenovo2:runlog to contributors:team_2:runlog |
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| - | ==== Run 1 log file ==== | + | ==== Run 1 log ==== |
| # This file contains all the commands and explanations for the commands\\ | # This file contains all the commands and explanations for the commands\\ | ||
| Line 54: | Line 54: | ||
| # Used a total of 333894.594 CPU seconds (~92.7 CPU hours) and 20.366 Gb of\\ | # Used a total of 333894.594 CPU seconds (~92.7 CPU hours) and 20.366 Gb of\\ | ||
| # max virtual memory. | # max virtual memory. | ||
| - | |||
| - | |||
| - | # May 10 2015 | ||
| - | # 2nd assembly run. Lucigen mate-pair data is the only new addition to this | ||
| - | # assembly. | ||
| - | # | ||
| - | # run sparse pregraph for DBG assembly using config_file for 4 libraries | ||
| - | # SW018_S1_L001, SW018_S1_L007, SW019_S2_L008, and | ||
| - | |||
| - | SOAPdenovo2-63mer sparse_pregraph -s ../config_file -K 61 -g 15 -z 2500000000 -d 1 -e 1 -r 0 -p 20 -o soapdenovo2_sparseGraph_2 | ||
| - | |||
| - | # 2nd Run took about 4 hours and 45 minutes on 12 cores with 60 gb memory. | ||
| - | # Used a total of 127383.665 CPU seconds (~35.4 CPU hours) and 58.941 Gb of | ||
| - | # max virtual memory. | ||
| - | |||
| - | SOAPdenovo2-63mer contig -s ../config_file -p 12 -g soapdenovo2_sparseGraph_2 | ||
| - | |||
| - | # 2nd Run took about 18 minutes on 12 cores with 10 gb memory. | ||
| - | # Used a total of 856.445 CPU seconds (~14.3 CPU minutes) and 5.781 Gb of | ||
| - | # max virtual memory. | ||
| - | |||
| - | SOAPdenovo2-63mer map -p 12 -k 61 -s ../config_file -g soap_denovo2_mapStep_2 | ||
| - | |||
| - | # 2nd Run took about 2 hours and 55 minutes on 12 cores with 30 gb memory. | ||
| - | # Used a total of 53220.443 CPU seconds (~14.78 CPU hours) and 78.048 Gb of | ||
| - | # max virtual memory. | ||
| - | |||
| - | SOAPdenovo2-63mer scaff -F -p 12 -g soap_denovo2_scaffStep_2 | ||
| - | |||
| - | # 2nd Run took about 31 hours and 10 minutes on 30 cores with 50 gb memory (requires at least 50 gb, otherwise job will fail). | ||
| - | # Used a total of 390771.403 CPU seconds (~108.55 CPU hours) and 21.282 Gb | ||
| - | # of max virtual memory. | ||
contributors/team_2/runlog.1431839368.txt.gz · Last modified: 2015/05/17 05:09 by charles
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