GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.GBM.2012_10_24__11_21_08.samplestamp.txt |
GDAC_CreateMergeDataFilesSDRF1 annotationids | methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data |
GDAC_CreateMergeDataFilesSDRF1 datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/GBM/1971132/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
GDAC_MergeDataFiles2 inputfilelist filename | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/GBM/1971132/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
GDAC_MergeDataFiles2 output filename | GBM |
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: | 08:21:01 04-11-12 |
Completed: | |
Elapsed: | 01 hrs 00 mins 58 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 218742] 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:00467:11
samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.GBM.2012_10_24__11_21_08.samplestamp.txt |
annotationids | methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data |
sdrfName | |
doNotCreateManifest | |
datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/GBM/1971132/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
Output Files: | |
GBM.merger.sdrf.txt | |
dcc_archive.properties | |
.lsf.out | |
dcc_archive_manifest.tsv | |
stdout.txt |
Execution Times: | |
Submitted: | 08:23:16 04-11-12 |
Completed: | 08:31:14 04-11-12 |
Elapsed: | 00 hrs 07 mins 57 secs |
step 2. GDAC_MergeDataFiles [id: 218743] 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/GBM/1971132/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
output filename | GBM |
row_column | column |
num_headers | 1 |
filetype | methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data |
Output Files: | |
GBM.methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.data.txt | |
.lsf.out | |
stdout.txt |
Execution Times: | |
Submitted: | 08:23:16 04-11-12 |
Completed: | 09:21:52 04-11-12 |
Elapsed: | 00 hrs 58 mins 35 secs |