File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/4e55c975c4f67c67e9251f60e02557/.command.log
Size
2.4 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (rna_s1200_S21)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6d/7304006ac4b7f97a340de9b575706a/rna_s1200_S21.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-88a46cd3-cc39-4219-b5c0-c7b98f70c344/05/ee9ba9f22f29467931afada9810b4d/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/4e55c975c4f67c67e9251f60e02557/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/4e55c975c4f67c67e9251f60e02557/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/fusion_report_db
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/bf8b4978a97a1702ba506ae70e9cb8/rna_s1200_S21.arriba.fusions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
FGFR3--TACC3
starfusion
arriba
LMNA--NTRK1
starfusion
arriba
FGFR3--BAIAP2L1
starfusion
arriba
ETV6--NTRK3
starfusion
arriba
KIF5B--RET
starfusion
arriba
CD74--ROS1
starfusion
PAX8--PPARG
starfusion
arriba

  0%|          | 0/7 [00:00<?, ?it/s]
Processing FGFR3--TACC3:   0%|          | 0/7 [00:00<?, ?it/s]
Processing FGFR3--TACC3:  14%|█▍        | 1/7 [00:00<00:00,  9.10it/s]
Processing LMNA--NTRK1:  14%|█▍        | 1/7 [00:00<00:00,  9.10it/s] 
Processing LMNA--NTRK1:  29%|██▊       | 2/7 [00:00<00:00,  9.30it/s]
Processing FGFR3--BAIAP2L1:  29%|██▊       | 2/7 [00:00<00:00,  9.30it/s]
Processing FGFR3--BAIAP2L1:  43%|████▎     | 3/7 [00:00<00:00,  9.36it/s]
Processing ETV6--NTRK3:  43%|████▎     | 3/7 [00:00<00:00,  9.36it/s]    
Processing ETV6--NTRK3:  57%|█████▋    | 4/7 [00:00<00:00,  9.38it/s]
Processing KIF5B--RET:  57%|█████▋    | 4/7 [00:00<00:00,  9.38it/s] 
Processing KIF5B--RET:  71%|███████▏  | 5/7 [00:00<00:00,  9.42it/s]
Processing CD74--ROS1:  71%|███████▏  | 5/7 [00:00<00:00,  9.42it/s]
Processing CD74--ROS1:  86%|████████▌ | 6/7 [00:00<00:00,  9.42it/s]
Processing PAX8--PPARG:  86%|████████▌ | 6/7 [00:00<00:00,  9.42it/s]
Processing PAX8--PPARG: 100%|██████████| 7/7 [00:00<00:00,  9.42it/s]
Processing PAX8--PPARG: 100%|██████████| 7/7 [00:00<00:00,  9.39it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory