GDAC_clinicalDataPickerPipeline Execution Log 2:15 PM Tue Mar 12, '13

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/STAD/2712904/0.GDAC_clinicalDataMerger.Finished/STAD.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_stad.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix STAD
Execution Times:
Submitted: 14:15:40 12-03-13
Completed:
Elapsed: 01 hrs 03 mins 04 secs

step 1. GDAC_clinicalDataPicker [id: 345147] 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/2712904/0.GDAC_clinicalDataMerger.Finished/STAD.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_stad.tsv
nodeColumn 1
outPrefix STAD
Output Files:
 STAD.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 14:15:41 12-03-13
Completed: 14:52:09 12-03-13
Elapsed: 00 hrs 36 mins 28 secs

step 2. GDAC_clinicalDataPickerReport [id: 345148] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked STAD.clin.merged.picked.txt
Output Files:
 paramStats.txt
 diagram_clinic.png
 tier1_clinical_variables.txt
 tier1Data.txt
 nozzle.html
 nozzle.RData
 report_public.html.RData
 report_tcga.html.RData
 report_public.html.html
 report_tcga.html.html
 report_private.html.RData
 report_private.html.html
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 14:15:41 12-03-13
Completed: 15:18:43 12-03-13
Elapsed: 01 hrs 03 mins 02 secs