GDAC_clinicalDataPickerPipeline Execution Log 1:47 PM Tue Mar 12, '13

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/HNSC/2711479/0.GDAC_clinicalDataMerger.Finished/HNSC.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_hnsc.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix HNSC
Execution Times:
Submitted: 13:47:42 12-03-13
Completed:
Elapsed: 01 hrs 13 mins 34 secs

step 1. GDAC_clinicalDataPicker [id: 344726] 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/HNSC/2711479/0.GDAC_clinicalDataMerger.Finished/HNSC.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_hnsc.tsv
nodeColumn 1
outPrefix HNSC
Output Files:
 HNSC.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 13:47:47 12-03-13
Completed: 14:22:55 12-03-13
Elapsed: 00 hrs 35 mins 08 secs

step 2. GDAC_clinicalDataPickerReport [id: 344728] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked HNSC.clin.merged.picked.txt
Output Files:
 diagram_clinic.png
 paramStats.txt
 tier1_clinical_variables.txt
 nozzle.html
 tier1Data.txt
 report_tcga.html.RData
 report_private.html.RData
 report_private.html.html
 report_public.html.html
 report_tcga.html.html
 .lsf.out
 nozzle.RData
 report_public.html.RData
 stdout.txt
Execution Times:
Submitted: 13:47:47 12-03-13
Completed: 15:01:15 12-03-13
Elapsed: 01 hrs 13 mins 27 secs