GDAC_clinicalDataPickerPipeline Execution Log 6:50 PM Fri Dec 21, '12

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/BLCA/2168857/0.GDAC_clinicalDataMerger.Finished/BLCA.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2012_11_14/stage3_params_clin_blca.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix BLCA
Execution Times:
Submitted: 18:50:30 21-12-12
Completed:
Elapsed: 01 hrs 20 mins 34 secs

step 1. GDAC_clinicalDataPicker [id: 269291] 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/2168857/0.GDAC_clinicalDataMerger.Finished/BLCA.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2012_11_14/stage3_params_clin_blca.tsv
nodeColumn 1
outPrefix BLCA
Output Files:
 .lsf.out
 BLCA.clin.merged.picked.txt
 stdout.txt
Execution Times:
Submitted: 18:52:59 21-12-12
Completed: 19:25:26 21-12-12
Elapsed: 00 hrs 32 mins 27 secs

step 2. GDAC_clinicalDataPickerReport [id: 269292] 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: 18:52:59 21-12-12
Completed: 20:11:04 21-12-12
Elapsed: 01 hrs 18 mins 05 secs