GDAC_MergedClusteringPipeline Execution Log 6:36 PM Thu May 2, '13

Running as user: cgaadm_deadline

GDAC_mergedClustering1 mrnacnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140907/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 mrnahc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_ConsensusClusteringPipeline/LUSC-TP/3140904/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 copynumber file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3144293/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 methlyationcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3141119/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 mergedfile LUSC-TP
GDAC_mergedClustering1 PredictionU133aTCGA file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140849/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 PredictionU133aPhilips file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140851/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 mRNAseqcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140845/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 mRNAseqhc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140852/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 miRseqcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140870/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
GDAC_mergedClustering1 miRseqhc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140869/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
Execution Times:
Submitted: 18:36:09 02-05-13
Completed:
Elapsed: 01 hrs 08 mins 10 secs

step 1. GDAC_mergedClustering [id: 397752] merge all clustering result

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00253:22
mrnacnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140907/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
mrnahc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_ConsensusClusteringPipeline/LUSC-TP/3140904/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
mirnacnmf
mirnahc
copynumber file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3144293/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
methlyationhc
methlyationcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3141119/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
mergedfile LUSC-TP
PredictionU133aTCGA file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140849/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
PredictionU133aPhilips file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140851/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
PredictionUNCTCGA
mRNAseqcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140845/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
mRNAseqhc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140852/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
miRseqcnmf file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_CnmfIntegratedPipeline/LUSC-TP/3140870/3.GDAC_CNMFselectcluster.Finished/LUSC-TP.bestclus.txt
miRseqhc file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_RNAseq_ConsensusClusteringPipeline/LUSC-TP/3140869/3.GDAC_selectBestcluster.Finished/LUSC-TP.bestclus.txt
Output Files:
 LUSC-TP.mergedcluster.txt
 LUSC-TP.transferedmergedcluster.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 18:36:09 02-05-13
Completed: 18:36:28 02-05-13
Elapsed: 00 hrs 00 mins 18 secs

step 2. GDAC_mergedReport [id: 397753]

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00254:3
mergedcluster LUSC-TP.mergedcluster.txt
Output Files:
 report.html
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 18:36:09 02-05-13
Completed: 19:44:19 02-05-13
Elapsed: 01 hrs 08 mins 09 secs