GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.COAD.2013_03_09__11_03_12.samplestamp.txt |
GDAC_CreateMergeDataFilesSDRF1 annotationids | methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data |
GDAC_CreateMergeDataFilesSDRF1 datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/COAD/2711156/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
GDAC_MergeDataFiles2 inputfilelist filename | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/COAD/2711156/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
GDAC_MergeDataFiles2 output filename | COAD |
GDAC_MergeDataFiles2 row_column | column |
GDAC_MergeDataFiles2 num_headers | 1 |
GDAC_MergeDataFiles2 filetype | methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data |
Execution Times: | |
Submitted: | 12:01:07 12-03-13 |
Completed: | |
Elapsed: | 00 hrs 44 mins 29 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 339762] 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:00467:12
samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.COAD.2013_03_09__11_03_12.samplestamp.txt |
annotationids | methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data |
sdrfName | |
doNotCreateManifest | |
datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/COAD/2711156/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
Output Files: | |
dcc_archive.properties | |
COAD.merger.sdrf.txt | |
.lsf.out | |
dcc_archive_manifest.tsv | |
stdout.txt |
Execution Times: | |
Submitted: | 12:02:10 12-03-13 |
Completed: | 12:17:46 12-03-13 |
Elapsed: | 00 hrs 15 mins 36 secs |
step 2. GDAC_MergeDataFiles [id: 339763] Merges row or column oriented text datatable files, validating that the headers match.
urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
inputfilelist filename | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/COAD/2711156/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
output filename | COAD |
row_column | column |
num_headers | 1 |
filetype | methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data |
Output Files: | |
COAD.methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data.txt | |
.lsf.out | |
stdout.txt |
Execution Times: | |
Submitted: | 12:02:10 12-03-13 |
Completed: | 12:45:32 12-03-13 |
Elapsed: | 00 hrs 43 mins 22 secs |