GDAC_MergeDataFilesPipeline Execution Log 11:19 AM Sun May 20, '12

Running as user: cgaadm_deadline

GDAC_CreateMergeDataFilesSDRF1 samplestamp file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.UCEC.2012_05_15__00_00_15.samplestamp.txt
GDAC_CreateMergeDataFilesSDRF1 annotationid rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data
GDAC_CreateMergeDataFilesSDRF1 datapathsfile dependentsValues5135618069511591537.tsv
GDAC_MergeDataFiles2 inputfilelist filename dependentsValues4569107603890174782.tsv
GDAC_MergeDataFiles2 output filename UCEC
GDAC_MergeDataFiles2 row_column column
GDAC_MergeDataFiles2 num_headers 1
GDAC_MergeDataFiles2 filetype rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data
Execution Times:
Submitted: 11:19:38 20-05-12
Completed:
Elapsed: 00 hrs 01 mins 32 secs

step 1. GDAC_CreateMergeDataFilesSDRF [id: 96671] 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.UCEC.2012_05_15__00_00_15.samplestamp.txt
annotationid rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data
sdrffilename
datapathsfile dependentsValues5135618069511591537.tsv
Output Files:
 UCEC.merger.sdrf.txt
 dcc_archive.properties
 .lsf.out
 dcc_archive_manifest.tsv
 stdout.txt
Execution Times:
Submitted: 11:19:39 20-05-12
Completed: 11:20:09 20-05-12
Elapsed: 00 hrs 00 mins 30 secs

step 2. GDAC_MergeDataFiles [id: 96672] Merges row or column oriented text datatable files, validating that the headers match.

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
inputfilelist filename dependentsValues4569107603890174782.tsv
output filename UCEC
row_column column
num_headers 1
filetype rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data
Output Files:
 UCEC.rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data.txt
 stdout.txt
Execution Times:
Submitted: 11:19:39 20-05-12
Completed: 11:21:08 20-05-12
Elapsed: 00 hrs 01 mins 28 secs