| GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.LIHC.2012_09_13__00_00_04.samplestamp.txt |
| GDAC_CreateMergeDataFilesSDRF1 annotationids | rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data |
| GDAC_CreateMergeDataFilesSDRF1 datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/LIHC/1708656/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| GDAC_MergeDataFiles2 inputfilelist filename | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/LIHC/1708656/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
| GDAC_MergeDataFiles2 output filename | LIHC |
| GDAC_MergeDataFiles2 row_column | column |
| GDAC_MergeDataFiles2 num_headers | 1 |
| GDAC_MergeDataFiles2 filetype | rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data |
| Execution Times: | |
| Submitted: | 13:36:44 14-09-12 |
| Completed: | |
| Elapsed: | 00 hrs 12 mins 09 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 165763] 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.LIHC.2012_09_13__00_00_04.samplestamp.txt |
| annotationids | rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data |
| sdrfName | |
| doNotCreateManifest | |
| datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/LIHC/1708656/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| Output Files: | |
| LIHC.merger.sdrf.txt | |
| dcc_archive.properties | |
| .lsf.out | |
| dcc_archive_manifest.tsv | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 13:37:58 14-09-12 |
| Completed: | 13:48:36 14-09-12 |
| Elapsed: | 00 hrs 10 mins 37 secs |
step 2. GDAC_MergeDataFiles [id: 165764] 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/LIHC/1708656/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
| output filename | LIHC |
| row_column | column |
| num_headers | 1 |
| filetype | rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data |
| Output Files: | |
| LIHC.rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data.data.txt | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 13:37:58 14-09-12 |
| Completed: | 13:48:49 14-09-12 |
| Elapsed: | 00 hrs 10 mins 50 secs |