| GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.LUAD.2012_05_25__00_00_08.samplestamp.txt |
| GDAC_CreateMergeDataFilesSDRF1 annotationid | snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg |
| GDAC_CreateMergeDataFilesSDRF1 datapathsfile | dependentsValues3553334451027502467.tsv |
| GDAC_MergeDataFiles2 inputfilelist filename | dependentsValues5639052993948509963.tsv |
| GDAC_MergeDataFiles2 output filename | LUAD |
| GDAC_MergeDataFiles2 row_column | row |
| GDAC_MergeDataFiles2 num_headers | 1 |
| GDAC_MergeDataFiles2 filetype | snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg.seg |
| Execution Times: | |
| Submitted: | 07:39:17 27-05-12 |
| Completed: | |
| Elapsed: | 00 hrs 01 mins 14 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 102777] 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.LUAD.2012_05_25__00_00_08.samplestamp.txt |
| annotationid | snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg |
| sdrffilename | |
| datapathsfile | dependentsValues3553334451027502467.tsv |
| Output Files: | |
| LUAD.merger.sdrf.txt | |
| dcc_archive.properties | |
| dcc_archive_manifest.tsv | |
| .lsf.out | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 07:39:18 27-05-12 |
| Completed: | 07:40:01 27-05-12 |
| Elapsed: | 00 hrs 00 mins 43 secs |
step 2. GDAC_MergeDataFiles [id: 102778] Merges row or column oriented text datatable files, validating that the headers match.
urn:lsid:broadinstitute.org:cancer.genome.analysis:00140:3
| inputfilelist filename | dependentsValues5639052993948509963.tsv |
| output filename | LUAD |
| row_column | row |
| num_headers | 1 |
| filetype | snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg.seg |
| Output Files: | |
| LUAD.snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg.seg.txt | |
| .lsf.err | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 07:39:18 27-05-12 |
| Completed: | 07:40:28 27-05-12 |
| Elapsed: | 00 hrs 01 mins 10 secs |