GDAC_clinicalDataPickerPipeline Execution Log 1:31 PM Fri Sep 14, '12

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/BLCA/1708425/0.GDAC_clinicalDataMerger.Finished/BLCA.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2012_08_22/stage3_params_clin_blca.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix BLCA
Execution Times:
Submitted: 13:31:53 14-09-12
Completed:
Elapsed: 00 hrs 11 mins 15 secs

step 1. GDAC_clinicalDataPicker [id: 165395] 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/BLCA/1708425/0.GDAC_clinicalDataMerger.Finished/BLCA.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2012_08_22/stage3_params_clin_blca.tsv
nodeColumn 1
outPrefix BLCA
Output Files:
 .lsf.out
 BLCA.clin.merged.picked.txt
 stdout.txt
Execution Times:
Submitted: 13:32:10 14-09-12
Completed: 13:35:40 14-09-12
Elapsed: 00 hrs 03 mins 29 secs

step 2. GDAC_clinicalDataPickerReport [id: 165396] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked BLCA.clin.merged.picked.txt
Output Files:
 paramStats.txt
 nozzle.html
 diagram_clinic.png
 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
 tier1_clinical_variables.txt
 stdout.txt
Execution Times:
Submitted: 13:32:10 14-09-12
Completed: 13:43:06 14-09-12
Elapsed: 00 hrs 10 mins 56 secs