File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/1aefd3b3f956d69c2b6dc48da48593/.command.log
Size
10.5 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/e3/093dba3ab9bce8d7ba182baed851e6/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-6ef41cd9-2e18-4687-842c-3f6f49c5643f/e6/b0f48d6d7a697674824d761d17ce05/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/1aefd3b3f956d69c2b6dc48da48593/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/1aefd3b3f956d69c2b6dc48da48593/.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/54/773afeab2c42db221419cace5f22dc/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
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
IGH-@-ext--SPG7
arriba
HIVEP3--AL158828.1
arriba
HIVEP3--AL353613.1
arriba

  0%|          | 0/48 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   0%|          | 0/48 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   2%|▏         | 1/48 [00:00<00:05,  9.24it/s]
Processing SMURF2P1--SP2:   2%|▏         | 1/48 [00:00<00:05,  9.24it/s]
Processing SMURF2P1--SP2:   4%|▍         | 2/48 [00:00<00:04,  9.47it/s]
Processing SUPT20H--CHRDL2:   4%|▍         | 2/48 [00:00<00:04,  9.47it/s]
Processing SUPT20H--CHRDL2:   6%|▋         | 3/48 [00:00<00:04,  9.55it/s]
Processing CYP7B1--LINC01414:   6%|▋         | 3/48 [00:00<00:04,  9.55it/s]
Processing CYP7B1--LINC01414:   8%|▊         | 4/48 [00:00<00:04,  9.58it/s]
Processing RCN3--FCGRT:   8%|▊         | 4/48 [00:00<00:04,  9.58it/s]      
Processing RCN3--FCGRT:  10%|█         | 5/48 [00:00<00:04,  9.60it/s]
Processing FBXO25--AC240565.1:  10%|█         | 5/48 [00:00<00:04,  9.60it/s]
Processing FBXO25--AC240565.1:  12%|█▎        | 6/48 [00:00<00:04,  9.61it/s]
Processing CPSF6--HOOK1:  12%|█▎        | 6/48 [00:00<00:04,  9.61it/s]      
Processing CPSF6--HOOK1:  15%|█▍        | 7/48 [00:00<00:04,  9.62it/s]
Processing PCDHGA6--PCDHGA8:  15%|█▍        | 7/48 [00:00<00:04,  9.62it/s]
Processing PCDHGA6--PCDHGA8:  17%|█▋        | 8/48 [00:00<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC4:  17%|█▋        | 8/48 [00:00<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC4:  19%|█▉        | 9/48 [00:00<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC5:  19%|█▉        | 9/48 [00:00<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC5:  21%|██        | 10/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGB6:  21%|██        | 10/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGB6:  23%|██▎       | 11/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGA10:  23%|██▎       | 11/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGA10:  25%|██▌       | 12/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGC3:  25%|██▌       | 12/48 [00:01<00:03,  9.63it/s] 
Processing PCDHGA6--PCDHGC3:  27%|██▋       | 13/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGB7:  27%|██▋       | 13/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGB7:  29%|██▉       | 14/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGA12:  29%|██▉       | 14/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGA12:  31%|███▏      | 15/48 [00:01<00:03,  9.63it/s]
Processing PCDHGA6--PCDHGA9:  31%|███▏      | 15/48 [00:01<00:03,  9.63it/s] 
Processing PCDHGA6--PCDHGA9:  33%|███▎      | 16/48 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA11:  33%|███▎      | 16/48 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA11:  35%|███▌      | 17/48 [00:01<00:03,  9.64it/s]
Processing PCDHA11--PCDHA13:  35%|███▌      | 17/48 [00:01<00:03,  9.64it/s] 
Processing PCDHA11--PCDHA13:  38%|███▊      | 18/48 [00:01<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC1:  38%|███▊      | 18/48 [00:01<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC1:  40%|███▉      | 19/48 [00:01<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC2:  40%|███▉      | 19/48 [00:01<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC2:  42%|████▏     | 20/48 [00:02<00:02,  9.64it/s]
Processing PCDHA6--PCDHA13:  42%|████▏     | 20/48 [00:02<00:02,  9.64it/s] 
Processing PCDHA6--PCDHA13:  44%|████▍     | 21/48 [00:02<00:02,  9.63it/s]
Processing PCDHA6--PCDHAC1:  44%|████▍     | 21/48 [00:02<00:02,  9.63it/s]
Processing PCDHA6--PCDHAC1:  46%|████▌     | 22/48 [00:02<00:02,  9.64it/s]
Processing PCDHA6--PCDHAC2:  46%|████▌     | 22/48 [00:02<00:02,  9.64it/s]
Processing PCDHA6--PCDHAC2:  48%|████▊     | 23/48 [00:02<00:02,  9.64it/s]
Processing SPG7--PLSCR5:  48%|████▊     | 23/48 [00:02<00:02,  9.64it/s]   
Processing SPG7--PLSCR5:  50%|█████     | 24/48 [00:02<00:02,  9.64it/s]
Processing SPG7--AC092957.1:  50%|█████     | 24/48 [00:02<00:02,  9.64it/s]
Processing SPG7--AC092957.1:  52%|█████▏    | 25/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  52%|█████▏    | 25/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  54%|█████▍    | 26/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  54%|█████▍    | 26/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  56%|█████▋    | 27/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  56%|█████▋    | 27/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  58%|█████▊    | 28/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  58%|█████▊    | 28/48 [00:02<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  60%|██████    | 29/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA10:  60%|██████    | 29/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA10:  62%|██████▎   | 30/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGC3:  62%|██████▎   | 30/48 [00:03<00:01,  9.64it/s] 
Processing PCDHGB2--PCDHGC3:  65%|██████▍   | 31/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  65%|██████▍   | 31/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  67%|██████▋   | 32/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  67%|██████▋   | 32/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  69%|██████▉   | 33/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA9:  69%|██████▉   | 33/48 [00:03<00:01,  9.64it/s] 
Processing PCDHGB2--PCDHGA9:  71%|███████   | 34/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  71%|███████   | 34/48 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  73%|███████▎  | 35/48 [00:03<00:01,  9.64it/s]
Processing PCDHA8--PCDHA10:  73%|███████▎  | 35/48 [00:03<00:01,  9.64it/s]  
Processing PCDHA8--PCDHA10:  75%|███████▌  | 36/48 [00:03<00:01,  9.63it/s]
Processing PCDHA10--PCDHAC2:  75%|███████▌  | 36/48 [00:03<00:01,  9.63it/s]
Processing PCDHA10--PCDHAC2:  77%|███████▋  | 37/48 [00:03<00:01,  9.64it/s]
Processing PCDHA10--PCDHAC1:  77%|███████▋  | 37/48 [00:03<00:01,  9.64it/s]
Processing PCDHA10--PCDHAC1:  79%|███████▉  | 38/48 [00:03<00:01,  9.64it/s]
Processing PCDHA10--PCDHA13:  79%|███████▉  | 38/48 [00:03<00:01,  9.64it/s]
Processing PCDHA10--PCDHA13:  81%|████████▏ | 39/48 [00:04<00:00,  9.64it/s]
Processing CCDC169--SOHLH2:  81%|████████▏ | 39/48 [00:04<00:00,  9.64it/s] 
Processing CCDC169--SOHLH2:  83%|████████▎ | 40/48 [00:04<00:00,  9.64it/s]
Processing SUCLA2--AL158828.1:  83%|████████▎ | 40/48 [00:04<00:00,  9.64it/s]
Processing SUCLA2--AL158828.1:  85%|████████▌ | 41/48 [00:04<00:00,  9.64it/s]
Processing SUCLA2--AL353613.1:  85%|████████▌ | 41/48 [00:04<00:00,  9.64it/s]
Processing SUCLA2--AL353613.1:  88%|████████▊ | 42/48 [00:04<00:00,  9.64it/s]
Processing SOGA3--KIAA0408:  88%|████████▊ | 42/48 [00:04<00:00,  9.64it/s]   
Processing SOGA3--KIAA0408:  90%|████████▉ | 43/48 [00:04<00:00,  9.64it/s]
Processing TMEM132B--TDG:  90%|████████▉ | 43/48 [00:04<00:00,  9.64it/s]  
Processing TMEM132B--TDG:  92%|█████████▏| 44/48 [00:04<00:00,  9.64it/s]
Processing IGH@-ext--SPG7:  92%|█████████▏| 44/48 [00:04<00:00,  9.64it/s]
Processing IGH@-ext--SPG7:  94%|█████████▍| 45/48 [00:04<00:00,  9.64it/s]
Processing IGH-@-ext--SPG7:  94%|█████████▍| 45/48 [00:04<00:00,  9.64it/s]
Processing IGH-@-ext--SPG7:  96%|█████████▌| 46/48 [00:04<00:00,  9.64it/s]
Processing HIVEP3--AL158828.1:  96%|█████████▌| 46/48 [00:04<00:00,  9.64it/s]
Processing HIVEP3--AL158828.1:  98%|█████████▊| 47/48 [00:04<00:00,  9.64it/s]
Processing HIVEP3--AL353613.1:  98%|█████████▊| 47/48 [00:04<00:00,  9.64it/s]
Processing HIVEP3--AL353613.1: 100%|██████████| 48/48 [00:04<00:00,  9.64it/s]
Processing HIVEP3--AL353613.1: 100%|██████████| 48/48 [00:04<00:00,  9.63it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory