GDAC_clinicalDataPickerPipeline Execution Log 1:37 PM Fri Sep 14, '12

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/CESC/1708458/0.GDAC_clinicalDataMerger.Finished/CESC.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2012_08_22/stage3_params_clin_cesc.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix CESC
Execution Times:
Submitted: 13:37:38 14-09-12
Completed:
Elapsed: 00 hrs 18 mins 00 secs

step 1. GDAC_clinicalDataPicker [id: 165875] Picks out the clinical paramters of interest

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00312:26
stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/CESC/1708458/0.GDAC_clinicalDataMerger.Finished/CESC.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2012_08_22/stage3_params_clin_cesc.tsv
nodeColumn 1
outPrefix CESC
Output Files:
 CESC.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 13:39:03 14-09-12
Completed: 13:51:46 14-09-12
Elapsed: 00 hrs 12 mins 43 secs

step 2. GDAC_clinicalDataPickerReport [id: 165876] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked CESC.clin.merged.picked.txt
Output Files:
 nozzle.html
 diagram_clinic.png
 tier1Data.txt
 nozzle.RData
 paramStats.txt
 report_public.html.RData
 tier1_clinical_variables.txt
 report_tcga.html.RData
 report_private.html.RData
 report_private.html.html
 report_public.html.html
 report_tcga.html.html
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 13:39:03 14-09-12
Completed: 13:55:35 14-09-12
Elapsed: 00 hrs 16 mins 31 secs