GDAC_MergeDataFilesPipeline Execution Log 6:26 PM Fri Jul 13, '12

Running as user: cgaadm_deadline

GDAC_CreateMergeDataFilesSDRF1 samplestamp file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.KIRP.2012_07_07__00_00_03.samplestamp.txt
GDAC_CreateMergeDataFilesSDRF1 annotationid methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data
GDAC_CreateMergeDataFilesSDRF1 datapathsfile dependentsValues4236759201763924723.tsv
GDAC_MergeDataFiles2 inputfilelist filename dependentsValues3602909922542492797.tsv
GDAC_MergeDataFiles2 output filename KIRP
GDAC_MergeDataFiles2 row_column column
GDAC_MergeDataFiles2 num_headers 1
GDAC_MergeDataFiles2 filetype methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data
Execution Times:
Submitted: 18:26:22 13-07-12
Completed:
Elapsed: 02 hrs 25 mins 30 secs

step 1. GDAC_CreateMergeDataFilesSDRF [id: 128052] 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.KIRP.2012_07_07__00_00_03.samplestamp.txt
annotationid methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data
sdrffilename
datapathsfile dependentsValues4236759201763924723.tsv
Output Files:
 dcc_archive.properties
 KIRP.merger.sdrf.txt
 dcc_archive_manifest.tsv
 .lsf.out
 stdout.txt
Execution Times:
Submitted: 18:26:22 13-07-12
Completed: 18:26:55 13-07-12
Elapsed: 00 hrs 00 mins 32 secs

step 2. GDAC_MergeDataFiles [id: 128053] Merges row or column oriented text datatable files, validating that the headers match.

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
inputfilelist filename dependentsValues3602909922542492797.tsv
output filename KIRP
row_column column
num_headers 1
filetype methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data
Output Files:
 KIRP.methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data.txt
 stdout.txt
Execution Times:
Submitted: 18:26:22 13-07-12
Completed: 20:51:51 13-07-12
Elapsed: 02 hrs 25 mins 28 secs