File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/5215cab8fcb40c871e4e37fa7dd684/.command.log
Size
10.2 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (A673_FFPE_RNA_0001_B23LG7FLT4_2)
Attempt

Content

View in new tab 
  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/ba/5215cab8fcb40c871e4e37fa7dd684/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/5215cab8fcb40c871e4e37fa7dd684/.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/17/c48bec81de6afc9cdb45e7b5f6e83d/A673_FFPE_RNA_0001_B23LG7FLT4_2.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/dd9e230a0d00611c9d33278416c054/A673_FFPE_RNA_0001_B23LG7FLT4_2.starfusion.starfusion.fusion_predictions.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
TLK2--AC240565.1
starfusion
SELENOOLP--HOOK1
starfusion
LINC00221--SPG7
starfusion
PCDHGA6--PCDHGC5
arriba
PCDHGA6--PCDHGA8
arriba
PCDHGA6--PCDHGC4
arriba
PCDHGA6--PCDHGB6
arriba
PCDHGA6--PCDHGA10
arriba
PCDHGA6--PCDHGA12
arriba
PCDHGA6--PCDHGC3
arriba
PCDHGA6--PCDHGB7
arriba
PCDHGA6--PCDHGA11
arriba
PCDHGA6--PCDHGA9
arriba
PCDHA11--PCDHA13
arriba
PCDHA11--PCDHAC1
arriba
PCDHA11--PCDHAC2
arriba
PCDHA6--PCDHAC2
arriba
PCDHA6--PCDHA13
arriba
PCDHA6--PCDHAC1
arriba
SPG7--PLSCR5
arriba
SPG7--AC092957.1
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGA12
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGB7
arriba
PCDHGB2--PCDHGA11
arriba
PCDHGB2--PCDHGA9
arriba
PCDHA8--PCDHA10
arriba
PCDHA10--PCDHAC2
arriba
PCDHA10--PCDHAC1
arriba
PCDHA10--PCDHA13
arriba
RBM14--RBM4
arriba
SUCLA2--AL158828.1
arriba
SUCLA2--AL353613.1
arriba
CCDC169--SOHLH2
arriba
SOGA3--KIAA0408
arriba
TMEM132B--TDG
arriba
IGH@-ext--SPG7
arriba
IGH-@-ext--SPG7
arriba

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Processing EWSR1--FLI1:   0%|          | 0/47 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   2%|▏         | 1/47 [00:00<00:05,  9.03it/s]
Processing SMURF2P1--SP2:   2%|▏         | 1/47 [00:00<00:05,  9.03it/s]
Processing SMURF2P1--SP2:   4%|▍         | 2/47 [00:00<00:04,  9.29it/s]
Processing SUPT20H--CHRDL2:   4%|▍         | 2/47 [00:00<00:04,  9.29it/s]
Processing SUPT20H--CHRDL2:   6%|▋         | 3/47 [00:00<00:04,  9.38it/s]
Processing CYP7B1--LINC01414:   6%|▋         | 3/47 [00:00<00:04,  9.38it/s]
Processing CYP7B1--LINC01414:   9%|▊         | 4/47 [00:00<00:04,  9.43it/s]
Processing TLK2--AC240565.1:   9%|▊         | 4/47 [00:00<00:04,  9.43it/s] 
Processing TLK2--AC240565.1:  11%|█         | 5/47 [00:00<00:04,  9.46it/s]
Processing SELENOOLP--HOOK1:  11%|█         | 5/47 [00:00<00:04,  9.46it/s]
Processing SELENOOLP--HOOK1:  13%|█▎        | 6/47 [00:00<00:04,  9.47it/s]
Processing LINC00221--SPG7:  13%|█▎        | 6/47 [00:00<00:04,  9.47it/s] 
Processing LINC00221--SPG7:  15%|█▍        | 7/47 [00:00<00:04,  9.48it/s]
Processing PCDHGA6--PCDHGC5:  15%|█▍        | 7/47 [00:00<00:04,  9.48it/s]
Processing PCDHGA6--PCDHGC5:  17%|█▋        | 8/47 [00:00<00:04,  9.48it/s]
Processing PCDHGA6--PCDHGA8:  17%|█▋        | 8/47 [00:00<00:04,  9.48it/s]
Processing PCDHGA6--PCDHGA8:  19%|█▉        | 9/47 [00:00<00:04,  9.49it/s]
Processing PCDHGA6--PCDHGC4:  19%|█▉        | 9/47 [00:00<00:04,  9.49it/s]
Processing PCDHGA6--PCDHGC4:  21%|██▏       | 10/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGB6:  21%|██▏       | 10/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGB6:  23%|██▎       | 11/47 [00:01<00:03,  9.50it/s]
Processing PCDHGA6--PCDHGA10:  23%|██▎       | 11/47 [00:01<00:03,  9.50it/s]
Processing PCDHGA6--PCDHGA10:  26%|██▌       | 12/47 [00:01<00:03,  9.50it/s]
Processing PCDHGA6--PCDHGA12:  26%|██▌       | 12/47 [00:01<00:03,  9.50it/s]
Processing PCDHGA6--PCDHGA12:  28%|██▊       | 13/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGC3:  28%|██▊       | 13/47 [00:01<00:03,  9.49it/s] 
Processing PCDHGA6--PCDHGC3:  30%|██▉       | 14/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGB7:  30%|██▉       | 14/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGB7:  32%|███▏      | 15/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGA11:  32%|███▏      | 15/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGA11:  34%|███▍      | 16/47 [00:01<00:03,  9.49it/s]
Processing PCDHGA6--PCDHGA9:  34%|███▍      | 16/47 [00:01<00:03,  9.49it/s] 
Processing PCDHGA6--PCDHGA9:  36%|███▌      | 17/47 [00:01<00:03,  9.49it/s]
Processing PCDHA11--PCDHA13:  36%|███▌      | 17/47 [00:01<00:03,  9.49it/s]
Processing PCDHA11--PCDHA13:  38%|███▊      | 18/47 [00:01<00:03,  9.49it/s]
Processing PCDHA11--PCDHAC1:  38%|███▊      | 18/47 [00:01<00:03,  9.49it/s]
Processing PCDHA11--PCDHAC1:  40%|████      | 19/47 [00:02<00:02,  9.49it/s]
Processing PCDHA11--PCDHAC2:  40%|████      | 19/47 [00:02<00:02,  9.49it/s]
Processing PCDHA11--PCDHAC2:  43%|████▎     | 20/47 [00:02<00:02,  9.49it/s]
Processing PCDHA6--PCDHAC2:  43%|████▎     | 20/47 [00:02<00:02,  9.49it/s] 
Processing PCDHA6--PCDHAC2:  45%|████▍     | 21/47 [00:02<00:02,  9.50it/s]
Processing PCDHA6--PCDHA13:  45%|████▍     | 21/47 [00:02<00:02,  9.50it/s]
Processing PCDHA6--PCDHA13:  47%|████▋     | 22/47 [00:02<00:02,  9.50it/s]
Processing PCDHA6--PCDHAC1:  47%|████▋     | 22/47 [00:02<00:02,  9.50it/s]
Processing PCDHA6--PCDHAC1:  49%|████▉     | 23/47 [00:02<00:02,  9.49it/s]
Processing SPG7--PLSCR5:  49%|████▉     | 23/47 [00:02<00:02,  9.49it/s]   
Processing SPG7--PLSCR5:  51%|█████     | 24/47 [00:02<00:02,  9.49it/s]
Processing SPG7--AC092957.1:  51%|█████     | 24/47 [00:02<00:02,  9.49it/s]
Processing SPG7--AC092957.1:  53%|█████▎    | 25/47 [00:02<00:02,  9.49it/s]
Processing PCDHGB2--PCDHGC5:  53%|█████▎    | 25/47 [00:02<00:02,  9.49it/s]
Processing PCDHGB2--PCDHGC5:  55%|█████▌    | 26/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGA8:  55%|█████▌    | 26/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGA8:  57%|█████▋    | 27/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGC4:  57%|█████▋    | 27/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGC4:  60%|█████▉    | 28/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGB6:  60%|█████▉    | 28/47 [00:02<00:02,  9.50it/s]
Processing PCDHGB2--PCDHGB6:  62%|██████▏   | 29/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA10:  62%|██████▏   | 29/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA10:  64%|██████▍   | 30/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA12:  64%|██████▍   | 30/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA12:  66%|██████▌   | 31/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGC3:  66%|██████▌   | 31/47 [00:03<00:01,  9.50it/s] 
Processing PCDHGB2--PCDHGC3:  68%|██████▊   | 32/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGB7:  68%|██████▊   | 32/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGB7:  70%|███████   | 33/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA11:  70%|███████   | 33/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA11:  72%|███████▏  | 34/47 [00:03<00:01,  9.50it/s]
Processing PCDHGB2--PCDHGA9:  72%|███████▏  | 34/47 [00:03<00:01,  9.50it/s] 
Processing PCDHGB2--PCDHGA9:  74%|███████▍  | 35/47 [00:03<00:01,  9.51it/s]
Processing PCDHA8--PCDHA10:  74%|███████▍  | 35/47 [00:03<00:01,  9.51it/s] 
Processing PCDHA8--PCDHA10:  77%|███████▋  | 36/47 [00:03<00:01,  9.51it/s]
Processing PCDHA10--PCDHAC2:  77%|███████▋  | 36/47 [00:03<00:01,  9.51it/s]
Processing PCDHA10--PCDHAC2:  79%|███████▊  | 37/47 [00:03<00:01,  9.50it/s]
Processing PCDHA10--PCDHAC1:  79%|███████▊  | 37/47 [00:03<00:01,  9.50it/s]
Processing PCDHA10--PCDHAC1:  81%|████████  | 38/47 [00:04<00:00,  9.50it/s]
Processing PCDHA10--PCDHA13:  81%|████████  | 38/47 [00:04<00:00,  9.50it/s]
Processing PCDHA10--PCDHA13:  83%|████████▎ | 39/47 [00:04<00:00,  9.50it/s]
Processing RBM14--RBM4:  83%|████████▎ | 39/47 [00:04<00:00,  9.50it/s]     
Processing RBM14--RBM4:  85%|████████▌ | 40/47 [00:04<00:00,  9.50it/s]
Processing SUCLA2--AL158828.1:  85%|████████▌ | 40/47 [00:04<00:00,  9.50it/s]
Processing SUCLA2--AL158828.1:  87%|████████▋ | 41/47 [00:04<00:00,  9.50it/s]
Processing SUCLA2--AL353613.1:  87%|████████▋ | 41/47 [00:04<00:00,  9.50it/s]
Processing SUCLA2--AL353613.1:  89%|████████▉ | 42/47 [00:04<00:00,  9.50it/s]
Processing CCDC169--SOHLH2:  89%|████████▉ | 42/47 [00:04<00:00,  9.50it/s]   
Processing CCDC169--SOHLH2:  91%|█████████▏| 43/47 [00:04<00:00,  9.50it/s]
Processing SOGA3--KIAA0408:  91%|█████████▏| 43/47 [00:04<00:00,  9.50it/s]
Processing SOGA3--KIAA0408:  94%|█████████▎| 44/47 [00:04<00:00,  9.50it/s]
Processing TMEM132B--TDG:  94%|█████████▎| 44/47 [00:04<00:00,  9.50it/s]  
Processing TMEM132B--TDG:  96%|█████████▌| 45/47 [00:04<00:00,  9.50it/s]
Processing IGH@-ext--SPG7:  96%|█████████▌| 45/47 [00:04<00:00,  9.50it/s]
Processing IGH@-ext--SPG7:  98%|█████████▊| 46/47 [00:04<00:00,  9.51it/s]
Processing IGH-@-ext--SPG7:  98%|█████████▊| 46/47 [00:04<00:00,  9.51it/s]
Processing IGH-@-ext--SPG7: 100%|██████████| 47/47 [00:04<00:00,  9.50it/s]
Processing IGH-@-ext--SPG7: 100%|██████████| 47/47 [00:04<00:00,  9.49it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory