| GDAC_CreateMergeDataFilesSDRF1 samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.COAD.2012_12_21__11_18_10.samplestamp.txt |
| GDAC_CreateMergeDataFilesSDRF1 annotationids | protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data |
| GDAC_CreateMergeDataFilesSDRF1 datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_DataMergerPipeline/COAD/2169199/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| GDAC_DataMerger2 output | COAD.protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data.data.txt |
| GDAC_DataMerger2 dataPaths | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_DataMergerPipeline/COAD/2169199/GDAC_DataMerger2.dataPaths.input.tsv |
| Execution Times: | |
| Submitted: | 18:42:37 21-12-12 |
| Completed: | |
| Elapsed: | 00 hrs 59 mins 22 secs |
step 1. GDAC_CreateMergeDataFilesSDRF [id: 268554] 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:00467:12
| samplestamp | file:/xchip/gdac_data/normalized/loadfiles/normalized/normalized.COAD.2012_12_21__11_18_10.samplestamp.txt |
| annotationids | protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data |
| sdrfName | |
| doNotCreateManifest | |
| datapathsfile | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_DataMergerPipeline/COAD/2169199/GDAC_CreateMergeDataFilesSDRF1.datapathsfile.input.tsv |
| Output Files: | |
| COAD.merger.sdrf.txt | |
| dcc_archive.properties | |
| dcc_archive_manifest.tsv | |
| .lsf.out | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 18:45:03 21-12-12 |
| Completed: | 19:07:29 21-12-12 |
| Elapsed: | 00 hrs 22 mins 26 secs |
step 2. GDAC_DataMerger [id: 268555] Merge a list of files into a single file. Validate that all the files have the same columns and row names.
urn:lsid:broadinstitute.org:cancer.genome.analysis:00481:4
| output | COAD.protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data.data.txt |
| dataPaths | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_DataMergerPipeline/COAD/2169199/GDAC_DataMerger2.dataPaths.input.tsv |
| Output Files: | |
| COAD.protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data.data.txt | |
| .lsf.out | |
| Execution Times: | |
| Submitted: | 18:45:03 21-12-12 |
| Completed: | 19:41:59 21-12-12 |
| Elapsed: | 00 hrs 56 mins 56 secs |