GDAC_MergeDataFilesPipeline Execution Log 10:35 AM Sun May 20, '12

Running as user: cgaadm_deadline

GDAC_CreateMergeDataFilesSDRF1 samplestamp file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.HNSC.2012_05_15__00_00_15.samplestamp.txt
GDAC_CreateMergeDataFilesSDRF1 annotationid mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data
GDAC_CreateMergeDataFilesSDRF1 datapathsfile dependentsValues5733413793460991688.tsv
GDAC_MergeDataFiles2 inputfilelist filename dependentsValues5476079449162564371.tsv
GDAC_MergeDataFiles2 output filename HNSC
GDAC_MergeDataFiles2 row_column row
GDAC_MergeDataFiles2 num_headers 1
GDAC_MergeDataFiles2 filetype mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data.data
Execution Times:
Submitted: 10:35:11 20-05-12
Completed:
Elapsed: 00 hrs 00 mins 31 secs

step 1. GDAC_CreateMergeDataFilesSDRF [id: 96383] This module parses a samplestamp based on an input annotation id and creates an SDRF file as output.

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00467:9
samplestamp file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.HNSC.2012_05_15__00_00_15.samplestamp.txt
annotationid mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data
sdrffilename
datapathsfile dependentsValues5733413793460991688.tsv
Output Files:
 HNSC.merger.sdrf.txt
 dcc_archive.properties
 .lsf.out
 dcc_archive_manifest.tsv
 stdout.txt
Execution Times:
Submitted: 10:35:11 20-05-12
Completed: 10:35:25 20-05-12
Elapsed: 00 hrs 00 mins 14 secs

step 2. GDAC_MergeDataFiles [id: 96384] Merges row or column oriented text datatable files, validating that the headers match.

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
inputfilelist filename dependentsValues5476079449162564371.tsv
output filename HNSC
row_column row
num_headers 1
filetype mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data.data
Output Files:
 HNSC.mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data.data.txt
 stdout.txt
Execution Times:
Submitted: 10:35:11 20-05-12
Completed: 10:35:41 20-05-12
Elapsed: 00 hrs 00 mins 29 secs