Mutsig_cluster_nozzle Execution Log 6:57 AM Wed Apr 10, '13

Running as user: cgaadm_deadline

mutsig2cluster_new1 sample gene table file file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/MutSigRun/LAML-TB/2910342/LAML-TB.sample_sig_gene_table.txt
Correlate_Cluster_mutation_onlysig2 clinical info file file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/LAML-TB/2907506/1.GDAC_mergedClustering.Finished/LAML-TB.transferedmergedcluster.txt
Correlate_Cluster_mutation_onlysig2 filter cluster smaller than 3
Correlate_Cluster_mutation_onlysig2 output name LAML-TB
Correlate_Cluster_mutation_onlysig2 figure height 5
Correlate_Cluster_mutation_onlysig2 figure width 9
Correlate_Cluster_mutation_onlysig2 survival legend position OUT
Correlate_Cluster_mutation_onlysig2 pvalue cutoff 0.05
Correlate_Cluster_mutation_onlysig2 qvalue cutoff 0.25
Correlate_Cluster_mutation_onlysig2 make figure ONLYSIG
Correlate_Cluster_mutation_onlysig2 nozzle ver Nozzle.R1
Execution Times:
Submitted: 06:57:43 10-04-13
Completed:
Elapsed: 07 hrs 18 mins 30 secs

step 1. mutsig2cluster_new [id: 377377] Convert mutsig results to cluster files

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00336:4
sample gene table file file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/MutSigRun/LAML-TB/2910342/LAML-TB.sample_sig_gene_table.txt
maf file
sig gene file
sig gene q cutoff 0.01
output name
Output Files:
 LAML-TB.mutsig.cluster.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 06:57:43 10-04-13
Completed: 14:09:16 10-04-13
Elapsed: 07 hrs 11 mins 33 secs

step 2. Correlate_Cluster_mutation_onlysig [id: 377378]

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00503:3
cluster label file LAML-TB.mutsig.cluster.txt
clinical info file file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/LAML-TB/2907506/1.GDAC_mergedClustering.Finished/LAML-TB.transferedmergedcluster.txt
features used ALL
filter cluster smaller than 3
output name LAML-TB
figure height 5
figure width 9
survival legend position OUT
pvalue cutoff 0.05
qvalue cutoff 0.25
make figure ONLYSIG
nozzle ver Nozzle.R1
options MUTSIG
report title
job description
Output Files:
 D2V2.pdf
 D2V2.png
 D3V3.png
 D3V3.pdf
 D3V6.png
 D3V6.pdf
 D4V2.png
 D4V2.pdf
 D4V5.png
 D4V6.png
 D4V5.pdf
 D4V6.pdf
 D5V2.png
 D5V2.pdf
 D5V3.png
 D5V3.pdf
 D5V5.png
 D5V5.pdf
 D5V6.png
 D5V6.pdf
 D6V2.png
 D6V2.pdf
 D7V2.png
 D7V2.pdf
 D8V1.png
 D8V1.pdf
 D8V2.png
 D8V2.pdf
 D8V3.png
 D8V3.pdf
 D8V5.png
 D8V5.pdf
 D8V6.png
 D8V6.pdf
 D10V1.png
 D10V1.pdf
 D10V2.png
 D10V3.png
 D10V2.pdf
 D10V3.pdf
 D10V5.png
 D10V5.pdf
 D10V6.png
 D10V6.pdf
 D20V1.png
 D20V1.pdf
 table.1.txt
 nozzle.RData
 nozzle.html
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 06:57:43 10-04-13
Completed: 14:16:11 10-04-13
Elapsed: 07 hrs 18 mins 28 secs