| GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.HNSC.2012_10_24__11_21_08.samplestamp.txt |
| GDAC_CreateMergeDataFilesSDRF1 annotationids | rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data |
| GDAC_CreateMergeDataFilesSDRF1 datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/HNSC/1971187/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| GDAC_MergeDataFiles2 inputfilelist filename | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/HNSC/1971187/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
| GDAC_MergeDataFiles2 output filename | HNSC |
| GDAC_MergeDataFiles2 row_column | column |
| GDAC_MergeDataFiles2 num_headers | 1 |
| GDAC_MergeDataFiles2 filetype | rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data.data |
| Execution Times: | |
| Submitted: | 08:21:40 04-11-12 |
| Completed: | |
| Elapsed: | 01 hrs 06 mins 44 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 218896] 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.HNSC.2012_10_24__11_21_08.samplestamp.txt |
| annotationids | rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data |
| sdrfName | |
| doNotCreateManifest | |
| datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergeDataFilesPipeline/HNSC/1971187/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| Output Files: | |
| HNSC.merger.sdrf.txt | |
| dcc_archive.properties | |
| .lsf.out | |
| dcc_archive_manifest.tsv | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 08:24:02 04-11-12 |
| Completed: | 08:34:09 04-11-12 |
| Elapsed: | 00 hrs 10 mins 06 secs |
step 2. GDAC_MergeDataFiles [id: 218898] 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/HNSC/1971187/GDAC_MergeDataFiles2.inputfilelist.filename.input.tsv |
| output filename | HNSC |
| row_column | column |
| num_headers | 1 |
| filetype | rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data.data |
| Output Files: | |
| HNSC.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data.data.txt | |
| .lsf.out | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 08:24:02 04-11-12 |
| Completed: | 09:28:23 04-11-12 |
| Elapsed: | 01 hrs 04 mins 20 secs |