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

Running as user: cgaadm_deadline

GDAC_clinicalDataPicker1 stage2File file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataMerger/THCA/2712963/0.GDAC_clinicalDataMerger.Finished/THCA.clin.merged.txt
GDAC_clinicalDataPicker1 selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_thca.tsv
GDAC_clinicalDataPicker1 nodeColumn 1
GDAC_clinicalDataPicker1 outPrefix THCA
Execution Times:
Submitted: 14:13:01 12-03-13
Completed:
Elapsed: 01 hrs 03 mins 36 secs

step 1. GDAC_clinicalDataPicker [id: 345140] 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/THCA/2712963/0.GDAC_clinicalDataMerger.Finished/THCA.clin.merged.txt
selectFile file:/xchip/cga/reference/tcga/clinical/2013_02_21/stage3_params_clin_thca.tsv
nodeColumn 1
outPrefix THCA
Output Files:
 THCA.clin.merged.picked.txt
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 14:13:36 12-03-13
Completed: 14:51:10 12-03-13
Elapsed: 00 hrs 37 mins 33 secs

step 2. GDAC_clinicalDataPickerReport [id: 345141] Clinical data report

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00330:50
picked THCA.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
 nozzle.RData
 report_public.html.RData
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 14:13:36 12-03-13
Completed: 15:16:34 12-03-13
Elapsed: 01 hrs 02 mins 57 secs