GDAC_clinicalDataPickerPipeline Execution Log 1:46 PM Tue Mar 12, '13

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/COAD/2711159/0.GDAC_clinicalDataMerger.Finished/COAD.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_coad.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix COAD
Execution Times:
Submitted: 13:46:05 12-03-13
Completed:
Elapsed: 01 hrs 13 mins 44 secs

step 1. GDAC_clinicalDataPicker [id: 344672] 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/COAD/2711159/0.GDAC_clinicalDataMerger.Finished/COAD.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_coad.tsv
nodeColumn 1
outPrefix COAD
Output Files:
 COAD.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 13:46:13 12-03-13
Completed: 14:22:16 12-03-13
Elapsed: 00 hrs 36 mins 02 secs

step 2. GDAC_clinicalDataPickerReport [id: 344673] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked COAD.clin.merged.picked.txt
Output Files:
 diagram_clinic.png
 tier1Data.txt
 paramStats.txt
 tier1_clinical_variables.txt
 nozzle.html
 report_tcga.html.RData
 report_private.html.RData
 report_private.html.html
 report_public.html.html
 report_tcga.html.html
 nozzle.RData
 report_public.html.RData
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 13:46:13 12-03-13
Completed: 14:59:48 12-03-13
Elapsed: 01 hrs 13 mins 34 secs