| GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.PANCANCER.2012_07_25__00_00_09.samplestamp.txt |
| GDAC_CreateMergeDataFilesSDRF1 annotationid | cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg |
| GDAC_CreateMergeDataFilesSDRF1 datapathsfile | dependentsValues1776192174969140662.tsv |
| GDAC_MergeDataFiles2 inputfilelist filename | dependentsValues417418325381476401.tsv |
| GDAC_MergeDataFiles2 output filename | PANCANCER |
| GDAC_MergeDataFiles2 row_column | row |
| GDAC_MergeDataFiles2 num_headers | 1 |
| GDAC_MergeDataFiles2 filetype | cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg.seg |
| Execution Times: | |
| Submitted: | 17:03:54 25-07-12 |
| Completed: | |
| Elapsed: | 00 hrs 00 mins 58 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 136900] 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.PANCANCER.2012_07_25__00_00_09.samplestamp.txt |
| annotationid | cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg |
| sdrffilename | |
| datapathsfile | dependentsValues1776192174969140662.tsv |
| Output Files: | |
| missingFirehoseIds.txt | |
| PANCANCER.merger.sdrf.txt | |
| dcc_archive.properties | |
| dcc_archive_manifest.tsv | |
| .lsf.out | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 17:03:54 25-07-12 |
| Completed: | 17:04:39 25-07-12 |
| Elapsed: | 00 hrs 00 mins 44 secs |
step 2. GDAC_MergeDataFiles [id: 136901] Merges row or column oriented text datatable files, validating that the headers match.
urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
| inputfilelist filename | dependentsValues417418325381476401.tsv |
| output filename | PANCANCER |
| row_column | row |
| num_headers | 1 |
| filetype | cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg.seg |
| Output Files: | |
| PANCANCER.cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg.seg.txt | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 17:03:54 25-07-12 |
| Completed: | 17:04:51 25-07-12 |
| Elapsed: | 00 hrs 00 mins 56 secs |