File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/a6f3b4dbb6d600569e509a2ae06412/.command.log
Size
11.1 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (A673_FFPE_RNA_0001_B23LG7FLT4_1)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/5c3225c35155972709cca4e7ef60cb/A673_FFPE_RNA_0001_B23LG7FLT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-f79a17a0-988d-46c3-a0fc-cc7f26b06d9c/db/27263bb39e3cbdc9558e9c4c8a77db/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/a6f3b4dbb6d600569e509a2ae06412/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/a6f3b4dbb6d600569e509a2ae06412/.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/9c/d9d17cbc05f0f46bd3e444e95d1653/A673_FFPE_RNA_0001_B23LG7FLT4_1.arriba.fusions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
EWSR1--FLI1
starfusion
arriba
SMURF2P1--SP2
starfusion
arriba
SUPT20H--CHRDL2
starfusion
arriba
CYP7B1--LINC01414
starfusion
arriba
NPM1--MT-RNR2
starfusion
IGH-@-ext--SPG7
starfusion
arriba
TLK2P1--AC110079.1
starfusion
GOLGA6L10--GOLGA2P6
starfusion
RCN3--FCGRT
starfusion
FBXO25--AC240565.1
starfusion
CPSF6--HOOK1
starfusion
PCDHGA6--PCDHGA8
arriba
PCDHGA6--PCDHGC4
arriba
PCDHGA6--PCDHGC5
arriba
PCDHGA6--PCDHGB6
arriba
PCDHGA6--PCDHGA10
arriba
PCDHGA6--PCDHGC3
arriba
PCDHGA6--PCDHGB7
arriba
PCDHGA6--PCDHGA12
arriba
PCDHGA6--PCDHGA9
arriba
PCDHGA6--PCDHGA11
arriba
PCDHA11--PCDHA13
arriba
PCDHA11--PCDHAC1
arriba
PCDHA11--PCDHAC2
arriba
PCDHA6--PCDHA13
arriba
PCDHA6--PCDHAC1
arriba
PCDHA6--PCDHAC2
arriba
SPG7--PLSCR5
arriba
SPG7--AC092957.1
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGB7
arriba
PCDHGB2--PCDHGA12
arriba
PCDHGB2--PCDHGA9
arriba
PCDHGB2--PCDHGA11
arriba
PCDHA8--PCDHA10
arriba
PCDHA10--PCDHAC2
arriba
PCDHA10--PCDHAC1
arriba
PCDHA10--PCDHA13
arriba
CCDC169--SOHLH2
arriba
SUCLA2--AL158828.1
arriba
SUCLA2--AL353613.1
arriba
SOGA3--KIAA0408
arriba
TMEM132B--TDG
arriba
IGH@-ext--SPG7
arriba
HIVEP3--AL158828.1
arriba
HIVEP3--AL353613.1
arriba

  0%|          | 0/51 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   0%|          | 0/51 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   2%|▏         | 1/51 [00:00<00:05,  9.26it/s]
Processing SMURF2P1--SP2:   2%|▏         | 1/51 [00:00<00:05,  9.26it/s]
Processing SMURF2P1--SP2:   4%|▍         | 2/51 [00:00<00:05,  9.48it/s]
Processing SUPT20H--CHRDL2:   4%|▍         | 2/51 [00:00<00:05,  9.48it/s]
Processing SUPT20H--CHRDL2:   6%|▌         | 3/51 [00:00<00:05,  9.56it/s]
Processing CYP7B1--LINC01414:   6%|▌         | 3/51 [00:00<00:05,  9.56it/s]
Processing CYP7B1--LINC01414:   8%|▊         | 4/51 [00:00<00:04,  9.59it/s]
Processing NPM1--MT-RNR2:   8%|▊         | 4/51 [00:00<00:04,  9.59it/s]    
Processing NPM1--MT-RNR2:  10%|▉         | 5/51 [00:00<00:04,  9.60it/s]
Processing IGH-@-ext--SPG7:  10%|▉         | 5/51 [00:00<00:04,  9.60it/s]
Processing IGH-@-ext--SPG7:  12%|█▏        | 6/51 [00:00<00:04,  9.61it/s]
Processing TLK2P1--AC110079.1:  12%|█▏        | 6/51 [00:00<00:04,  9.61it/s]
Processing TLK2P1--AC110079.1:  14%|█▎        | 7/51 [00:00<00:04,  9.63it/s]
Processing GOLGA6L10--GOLGA2P6:  14%|█▎        | 7/51 [00:00<00:04,  9.63it/s]
Processing GOLGA6L10--GOLGA2P6:  16%|█▌        | 8/51 [00:00<00:04,  9.63it/s]
Processing RCN3--FCGRT:  16%|█▌        | 8/51 [00:00<00:04,  9.63it/s]        
Processing RCN3--FCGRT:  18%|█▊        | 9/51 [00:00<00:04,  9.64it/s]
Processing FBXO25--AC240565.1:  18%|█▊        | 9/51 [00:00<00:04,  9.64it/s]
Processing FBXO25--AC240565.1:  20%|█▉        | 10/51 [00:01<00:04,  9.64it/s]
Processing CPSF6--HOOK1:  20%|█▉        | 10/51 [00:01<00:04,  9.64it/s]      
Processing CPSF6--HOOK1:  22%|██▏       | 11/51 [00:01<00:04,  9.65it/s]
Processing PCDHGA6--PCDHGA8:  22%|██▏       | 11/51 [00:01<00:04,  9.65it/s]
Processing PCDHGA6--PCDHGA8:  24%|██▎       | 12/51 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGC4:  24%|██▎       | 12/51 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGC4:  25%|██▌       | 13/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGC5:  25%|██▌       | 13/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGC5:  27%|██▋       | 14/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGB6:  27%|██▋       | 14/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGB6:  29%|██▉       | 15/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGA10:  29%|██▉       | 15/51 [00:01<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGA10:  31%|███▏      | 16/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGC3:  31%|███▏      | 16/51 [00:01<00:03,  9.64it/s] 
Processing PCDHGA6--PCDHGC3:  33%|███▎      | 17/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGB7:  33%|███▎      | 17/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGB7:  35%|███▌      | 18/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA12:  35%|███▌      | 18/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA12:  37%|███▋      | 19/51 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA9:  37%|███▋      | 19/51 [00:01<00:03,  9.64it/s] 
Processing PCDHGA6--PCDHGA9:  39%|███▉      | 20/51 [00:02<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGA11:  39%|███▉      | 20/51 [00:02<00:03,  9.65it/s]
Processing PCDHGA6--PCDHGA11:  41%|████      | 21/51 [00:02<00:03,  9.65it/s]
Processing PCDHA11--PCDHA13:  41%|████      | 21/51 [00:02<00:03,  9.65it/s] 
Processing PCDHA11--PCDHA13:  43%|████▎     | 22/51 [00:02<00:03,  9.65it/s]
Processing PCDHA11--PCDHAC1:  43%|████▎     | 22/51 [00:02<00:03,  9.65it/s]
Processing PCDHA11--PCDHAC1:  45%|████▌     | 23/51 [00:02<00:02,  9.65it/s]
Processing PCDHA11--PCDHAC2:  45%|████▌     | 23/51 [00:02<00:02,  9.65it/s]
Processing PCDHA11--PCDHAC2:  47%|████▋     | 24/51 [00:02<00:02,  9.65it/s]
Processing PCDHA6--PCDHA13:  47%|████▋     | 24/51 [00:02<00:02,  9.65it/s] 
Processing PCDHA6--PCDHA13:  49%|████▉     | 25/51 [00:02<00:02,  9.65it/s]
Processing PCDHA6--PCDHAC1:  49%|████▉     | 25/51 [00:02<00:02,  9.65it/s]
Processing PCDHA6--PCDHAC1:  51%|█████     | 26/51 [00:02<00:02,  9.65it/s]
Processing PCDHA6--PCDHAC2:  51%|█████     | 26/51 [00:02<00:02,  9.65it/s]
Processing PCDHA6--PCDHAC2:  53%|█████▎    | 27/51 [00:02<00:02,  9.65it/s]
Processing SPG7--PLSCR5:  53%|█████▎    | 27/51 [00:02<00:02,  9.65it/s]   
Processing SPG7--PLSCR5:  55%|█████▍    | 28/51 [00:02<00:02,  9.65it/s]
Processing SPG7--AC092957.1:  55%|█████▍    | 28/51 [00:02<00:02,  9.65it/s]
Processing SPG7--AC092957.1:  57%|█████▋    | 29/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA8:  57%|█████▋    | 29/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA8:  59%|█████▉    | 30/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGC4:  59%|█████▉    | 30/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGC4:  61%|██████    | 31/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGC5:  61%|██████    | 31/51 [00:03<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGC5:  63%|██████▎   | 32/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGB6:  63%|██████▎   | 32/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGB6:  65%|██████▍   | 33/51 [00:03<00:01,  9.66it/s]
Processing PCDHGB2--PCDHGA10:  65%|██████▍   | 33/51 [00:03<00:01,  9.66it/s]
Processing PCDHGB2--PCDHGA10:  67%|██████▋   | 34/51 [00:03<00:01,  9.66it/s]
Processing PCDHGB2--PCDHGC3:  67%|██████▋   | 34/51 [00:03<00:01,  9.66it/s] 
Processing PCDHGB2--PCDHGC3:  69%|██████▊   | 35/51 [00:03<00:01,  9.66it/s]
Processing PCDHGB2--PCDHGB7:  69%|██████▊   | 35/51 [00:03<00:01,  9.66it/s]
Processing PCDHGB2--PCDHGB7:  71%|███████   | 36/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA12:  71%|███████   | 36/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA12:  73%|███████▎  | 37/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA9:  73%|███████▎  | 37/51 [00:03<00:01,  9.65it/s] 
Processing PCDHGB2--PCDHGA9:  75%|███████▍  | 38/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA11:  75%|███████▍  | 38/51 [00:03<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA11:  76%|███████▋  | 39/51 [00:04<00:01,  9.65it/s]
Processing PCDHA8--PCDHA10:  76%|███████▋  | 39/51 [00:04<00:01,  9.65it/s]  
Processing PCDHA8--PCDHA10:  78%|███████▊  | 40/51 [00:04<00:01,  9.65it/s]
Processing PCDHA10--PCDHAC2:  78%|███████▊  | 40/51 [00:04<00:01,  9.65it/s]
Processing PCDHA10--PCDHAC2:  80%|████████  | 41/51 [00:04<00:01,  9.65it/s]
Processing PCDHA10--PCDHAC1:  80%|████████  | 41/51 [00:04<00:01,  9.65it/s]
Processing PCDHA10--PCDHAC1:  82%|████████▏ | 42/51 [00:04<00:00,  9.65it/s]
Processing PCDHA10--PCDHA13:  82%|████████▏ | 42/51 [00:04<00:00,  9.65it/s]
Processing PCDHA10--PCDHA13:  84%|████████▍ | 43/51 [00:04<00:00,  9.65it/s]
Processing CCDC169--SOHLH2:  84%|████████▍ | 43/51 [00:04<00:00,  9.65it/s] 
Processing CCDC169--SOHLH2:  86%|████████▋ | 44/51 [00:04<00:00,  9.65it/s]
Processing SUCLA2--AL158828.1:  86%|████████▋ | 44/51 [00:04<00:00,  9.65it/s]
Processing SUCLA2--AL158828.1:  88%|████████▊ | 45/51 [00:04<00:00,  9.65it/s]
Processing SUCLA2--AL353613.1:  88%|████████▊ | 45/51 [00:04<00:00,  9.65it/s]
Processing SUCLA2--AL353613.1:  90%|█████████ | 46/51 [00:04<00:00,  9.65it/s]
Processing SOGA3--KIAA0408:  90%|█████████ | 46/51 [00:04<00:00,  9.65it/s]   
Processing SOGA3--KIAA0408:  92%|█████████▏| 47/51 [00:04<00:00,  9.65it/s]
Processing TMEM132B--TDG:  92%|█████████▏| 47/51 [00:04<00:00,  9.65it/s]  
Processing TMEM132B--TDG:  94%|█████████▍| 48/51 [00:04<00:00,  9.65it/s]
Processing IGH@-ext--SPG7:  94%|█████████▍| 48/51 [00:04<00:00,  9.65it/s]
Processing IGH@-ext--SPG7:  96%|█████████▌| 49/51 [00:05<00:00,  9.66it/s]
Processing HIVEP3--AL158828.1:  96%|█████████▌| 49/51 [00:05<00:00,  9.66it/s]
Processing HIVEP3--AL158828.1:  98%|█████████▊| 50/51 [00:05<00:00,  9.65it/s]
Processing HIVEP3--AL353613.1:  98%|█████████▊| 50/51 [00:05<00:00,  9.65it/s]
Processing HIVEP3--AL353613.1: 100%|██████████| 51/51 [00:05<00:00,  9.66it/s]
Processing HIVEP3--AL353613.1: 100%|██████████| 51/51 [00:05<00:00,  9.64it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory