File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/b3c234971ca62af229e74f1092992a/.command.log
Size
3.2 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (rna_s1221_S42)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-b770051b-a87c-42e4-a930-dadf721dd5e0/48/5eb45d78fe6c5396b493c2f4bda7b9/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/b3c234971ca62af229e74f1092992a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0e86606dc51b5b6d8852306301b86d/rna_s1221_S42.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/144d87716db062a383539aee16eba8/rna_s1221_S42.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/b3c234971ca62af229e74f1092992a/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/fusion_report_db
==> STAGING COMPLETE (6 inputs)

Running application...
FGFR3--TACC3
starfusion
arriba
LMNA--NTRK1
starfusion
arriba
PAX8--PPARG
starfusion
arriba
ETV6--NTRK3
starfusion
arriba
EGFR--SEPTIN14
starfusion
arriba
FGFR3--BAIAP2L1
starfusion
arriba
KIF5B--RET
starfusion
CD74--ROS1
starfusion
NCOA4--RET
starfusion
arriba
SLC45A3--BRAF
starfusion
arriba
AC015911.9--SLFN12L
arriba

  0%|          | 0/11 [00:00<?, ?it/s]
Processing FGFR3--TACC3:   0%|          | 0/11 [00:00<?, ?it/s]
Processing FGFR3--TACC3:   9%|▉         | 1/11 [00:00<00:01,  9.23it/s]
Processing LMNA--NTRK1:   9%|▉         | 1/11 [00:00<00:01,  9.23it/s] 
Processing LMNA--NTRK1:  18%|█▊        | 2/11 [00:00<00:00,  9.47it/s]
Processing PAX8--PPARG:  18%|█▊        | 2/11 [00:00<00:00,  9.47it/s]
Processing PAX8--PPARG:  27%|██▋       | 3/11 [00:00<00:00,  9.55it/s]
Processing ETV6--NTRK3:  27%|██▋       | 3/11 [00:00<00:00,  9.55it/s]
Processing ETV6--NTRK3:  36%|███▋      | 4/11 [00:00<00:00,  9.59it/s]
Processing EGFR--SEPTIN14:  36%|███▋      | 4/11 [00:00<00:00,  9.59it/s]
Processing EGFR--SEPTIN14:  45%|████▌     | 5/11 [00:00<00:00,  9.61it/s]
Processing FGFR3--BAIAP2L1:  45%|████▌     | 5/11 [00:00<00:00,  9.61it/s]
Processing FGFR3--BAIAP2L1:  55%|█████▍    | 6/11 [00:00<00:00,  9.62it/s]
Processing KIF5B--RET:  55%|█████▍    | 6/11 [00:00<00:00,  9.62it/s]     
Processing KIF5B--RET:  64%|██████▎   | 7/11 [00:00<00:00,  9.63it/s]
Processing CD74--ROS1:  64%|██████▎   | 7/11 [00:00<00:00,  9.63it/s]
Processing CD74--ROS1:  73%|███████▎  | 8/11 [00:00<00:00,  9.63it/s]
Processing NCOA4--RET:  73%|███████▎  | 8/11 [00:00<00:00,  9.63it/s]
Processing NCOA4--RET:  82%|████████▏ | 9/11 [00:00<00:00,  9.64it/s]
Processing SLC45A3--BRAF:  82%|████████▏ | 9/11 [00:00<00:00,  9.64it/s]
Processing SLC45A3--BRAF:  91%|█████████ | 10/11 [00:01<00:00,  9.64it/s]
Processing AC015911.9--SLFN12L:  91%|█████████ | 10/11 [00:01<00:00,  9.64it/s]
Processing AC015911.9--SLFN12L: 100%|██████████| 11/11 [00:01<00:00,  9.64it/s]
Processing AC015911.9--SLFN12L: 100%|██████████| 11/11 [00:01<00:00,  9.60it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory