GDAC_clinicalDataPickerPipeline Execution Log 7:44 PM Mon Jul 2, '12

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/STAD/1445458/0.GDAC_clinicalDataMerger.Finished/STAD.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/clinical/2012_05_14/stage3_params_clin_stad.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix STAD
Execution Times:
Submitted: 19:44:18 02-07-12
Completed:
Elapsed: 00 hrs 06 mins 54 secs

step 1. GDAC_clinicalDataPicker [id: 119287] 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/STAD/1445458/0.GDAC_clinicalDataMerger.Finished/STAD.clin.merged.txt
selectFile file:/xchip/cga/reference/clinical/2012_05_14/stage3_params_clin_stad.tsv
nodeColumn 1
outPrefix STAD
Output Files:
 STAD.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 19:44:18 02-07-12
Completed: 19:49:36 02-07-12
Elapsed: 00 hrs 05 mins 17 secs

step 2. GDAC_clinicalDataPickerReport [id: 119288] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked STAD.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
 .nfs000000024b2903b4000011c0
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 19:44:18 02-07-12
Completed: 19:51:12 02-07-12
Elapsed: 00 hrs 06 mins 53 secs