File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/31989bd74734f6834cd6fa31a4afd4/.command.log
Size
11.6 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (A673_FFPE_RNA_0001_B23LG7FLT4_3)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/1e4b5aba306ecc6c809e608f44cd67/A673_FFPE_RNA_0001_B23LG7FLT4_3.arriba.fusions.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/2c/31989bd74734f6834cd6fa31a4afd4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/31989bd74734f6834cd6fa31a4afd4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/88c566688d444aec5f142964762e45/A673_FFPE_RNA_0001_B23LG7FLT4_3.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/fusion_report_db
==> 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
ZNF875--PCSK2
starfusion
ACKR2--PCSK2
starfusion
AC096555.1--PCSK2
starfusion
TLK2--AC240565.1
starfusion
IGH-@-ext--SPG7
starfusion
arriba
PCDHGA6--PCDHGA8
arriba
PCDHGA6--PCDHGA10
arriba
PCDHGA6--PCDHGC5
arriba
PCDHGA6--PCDHGC4
arriba
PCDHGA6--PCDHGB6
arriba
PCDHGA6--PCDHGB7
arriba
PCDHGA6--PCDHGA12
arriba
PCDHGA6--PCDHGC3
arriba
PCDHGA6--PCDHGA9
arriba
PCDHGA6--PCDHGA11
arriba
PCDHA11--PCDHAC1
arriba
PCDHA11--PCDHAC2
arriba
PCDHA11--PCDHA13
arriba
PCDHA6--PCDHA13
arriba
PCDHA6--PCDHAC1
arriba
PCDHA6--PCDHAC2
arriba
SPG7--PLSCR5
arriba
SPG7--AC092957.1
arriba
PCDHA8--PCDHA10
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGB7
arriba
PCDHGB2--PCDHGA12
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGA9
arriba
PCDHGB2--PCDHGA11
arriba
PCDHA10--PCDHAC2
arriba
PCDHA10--PCDHAC1
arriba
PCDHA10--PCDHA13
arriba
CCDC169--SOHLH2
arriba
SUCLA2--AL158828.1
arriba
SUCLA2--AL353613.1
arriba
TMEM132B--TDG
arriba
AP005597.1--OR4A16
arriba
OR4A11P--OR4A16
arriba
IGH@-ext--SPG7
arriba
SOGA3--KIAA0408
arriba
ITGA9--AC108752.1
arriba
ITGA9--MRPS17P3
arriba
FRG1DP--MLLT10P1
arriba
FRG1DP--5_8S_rRNA
arriba

  0%|          | 0/54 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   0%|          | 0/54 [00:00<?, ?it/s]
Processing EWSR1--FLI1:   2%|▏         | 1/54 [00:00<00:05,  9.24it/s]
Processing SMURF2P1--SP2:   2%|▏         | 1/54 [00:00<00:05,  9.24it/s]
Processing SMURF2P1--SP2:   4%|▎         | 2/54 [00:00<00:05,  9.46it/s]
Processing SUPT20H--CHRDL2:   4%|▎         | 2/54 [00:00<00:05,  9.46it/s]
Processing SUPT20H--CHRDL2:   6%|▌         | 3/54 [00:00<00:05,  9.55it/s]
Processing CYP7B1--LINC01414:   6%|▌         | 3/54 [00:00<00:05,  9.55it/s]
Processing CYP7B1--LINC01414:   7%|▋         | 4/54 [00:00<00:05,  9.57it/s]
Processing NPM1--MT-RNR2:   7%|▋         | 4/54 [00:00<00:05,  9.57it/s]    
Processing NPM1--MT-RNR2:   9%|▉         | 5/54 [00:00<00:05,  9.59it/s]
Processing ZNF875--PCSK2:   9%|▉         | 5/54 [00:00<00:05,  9.59it/s]
Processing ZNF875--PCSK2:  11%|█         | 6/54 [00:00<00:04,  9.61it/s]
Processing ACKR2--PCSK2:  11%|█         | 6/54 [00:00<00:04,  9.61it/s] 
Processing ACKR2--PCSK2:  13%|█▎        | 7/54 [00:00<00:04,  9.62it/s]
Processing AC096555.1--PCSK2:  13%|█▎        | 7/54 [00:00<00:04,  9.62it/s]
Processing AC096555.1--PCSK2:  15%|█▍        | 8/54 [00:00<00:04,  9.63it/s]
Processing TLK2--AC240565.1:  15%|█▍        | 8/54 [00:00<00:04,  9.63it/s] 
Processing TLK2--AC240565.1:  17%|█▋        | 9/54 [00:00<00:04,  9.63it/s]
Processing IGH-@-ext--SPG7:  17%|█▋        | 9/54 [00:00<00:04,  9.63it/s] 
Processing IGH-@-ext--SPG7:  19%|█▊        | 10/54 [00:01<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGA8:  19%|█▊        | 10/54 [00:01<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGA8:  20%|██        | 11/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGA10:  20%|██        | 11/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGA10:  22%|██▏       | 12/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGC5:  22%|██▏       | 12/54 [00:01<00:04,  9.64it/s] 
Processing PCDHGA6--PCDHGC5:  24%|██▍       | 13/54 [00:01<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC4:  24%|██▍       | 13/54 [00:01<00:04,  9.63it/s]
Processing PCDHGA6--PCDHGC4:  26%|██▌       | 14/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGB6:  26%|██▌       | 14/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGB6:  28%|██▊       | 15/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGB7:  28%|██▊       | 15/54 [00:01<00:04,  9.64it/s]
Processing PCDHGA6--PCDHGB7:  30%|██▉       | 16/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA12:  30%|██▉       | 16/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA12:  31%|███▏      | 17/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGC3:  31%|███▏      | 17/54 [00:01<00:03,  9.64it/s] 
Processing PCDHGA6--PCDHGC3:  33%|███▎      | 18/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA9:  33%|███▎      | 18/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA9:  35%|███▌      | 19/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA11:  35%|███▌      | 19/54 [00:01<00:03,  9.64it/s]
Processing PCDHGA6--PCDHGA11:  37%|███▋      | 20/54 [00:02<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC1:  37%|███▋      | 20/54 [00:02<00:03,  9.64it/s] 
Processing PCDHA11--PCDHAC1:  39%|███▉      | 21/54 [00:02<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC2:  39%|███▉      | 21/54 [00:02<00:03,  9.64it/s]
Processing PCDHA11--PCDHAC2:  41%|████      | 22/54 [00:02<00:03,  9.64it/s]
Processing PCDHA11--PCDHA13:  41%|████      | 22/54 [00:02<00:03,  9.64it/s]
Processing PCDHA11--PCDHA13:  43%|████▎     | 23/54 [00:02<00:03,  9.64it/s]
Processing PCDHA6--PCDHA13:  43%|████▎     | 23/54 [00:02<00:03,  9.64it/s] 
Processing PCDHA6--PCDHA13:  44%|████▍     | 24/54 [00:02<00:03,  9.64it/s]
Processing PCDHA6--PCDHAC1:  44%|████▍     | 24/54 [00:02<00:03,  9.64it/s]
Processing PCDHA6--PCDHAC1:  46%|████▋     | 25/54 [00:02<00:03,  9.64it/s]
Processing PCDHA6--PCDHAC2:  46%|████▋     | 25/54 [00:02<00:03,  9.64it/s]
Processing PCDHA6--PCDHAC2:  48%|████▊     | 26/54 [00:02<00:02,  9.64it/s]
Processing SPG7--PLSCR5:  48%|████▊     | 26/54 [00:02<00:02,  9.64it/s]   
Processing SPG7--PLSCR5:  50%|█████     | 27/54 [00:02<00:02,  9.64it/s]
Processing SPG7--AC092957.1:  50%|█████     | 27/54 [00:02<00:02,  9.64it/s]
Processing SPG7--AC092957.1:  52%|█████▏    | 28/54 [00:02<00:02,  9.64it/s]
Processing PCDHA8--PCDHA10:  52%|█████▏    | 28/54 [00:02<00:02,  9.64it/s] 
Processing PCDHA8--PCDHA10:  54%|█████▎    | 29/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  54%|█████▎    | 29/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  56%|█████▌    | 30/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA10:  56%|█████▌    | 30/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA10:  57%|█████▋    | 31/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  57%|█████▋    | 31/54 [00:03<00:02,  9.64it/s] 
Processing PCDHGB2--PCDHGC5:  59%|█████▉    | 32/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  59%|█████▉    | 32/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  61%|██████    | 33/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  61%|██████    | 33/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  63%|██████▎   | 34/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  63%|██████▎   | 34/54 [00:03<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  65%|██████▍   | 35/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  65%|██████▍   | 35/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  67%|██████▋   | 36/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGC3:  67%|██████▋   | 36/54 [00:03<00:01,  9.64it/s] 
Processing PCDHGB2--PCDHGC3:  69%|██████▊   | 37/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA9:  69%|██████▊   | 37/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA9:  70%|███████   | 38/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  70%|███████   | 38/54 [00:03<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  72%|███████▏  | 39/54 [00:04<00:01,  9.64it/s]
Processing PCDHA10--PCDHAC2:  72%|███████▏  | 39/54 [00:04<00:01,  9.64it/s] 
Processing PCDHA10--PCDHAC2:  74%|███████▍  | 40/54 [00:04<00:01,  9.64it/s]
Processing PCDHA10--PCDHAC1:  74%|███████▍  | 40/54 [00:04<00:01,  9.64it/s]
Processing PCDHA10--PCDHAC1:  76%|███████▌  | 41/54 [00:04<00:01,  9.64it/s]
Processing PCDHA10--PCDHA13:  76%|███████▌  | 41/54 [00:04<00:01,  9.64it/s]
Processing PCDHA10--PCDHA13:  78%|███████▊  | 42/54 [00:04<00:01,  9.64it/s]
Processing CCDC169--SOHLH2:  78%|███████▊  | 42/54 [00:04<00:01,  9.64it/s] 
Processing CCDC169--SOHLH2:  80%|███████▉  | 43/54 [00:04<00:01,  9.64it/s]
Processing SUCLA2--AL158828.1:  80%|███████▉  | 43/54 [00:04<00:01,  9.64it/s]
Processing SUCLA2--AL158828.1:  81%|████████▏ | 44/54 [00:04<00:01,  9.64it/s]
Processing SUCLA2--AL353613.1:  81%|████████▏ | 44/54 [00:04<00:01,  9.64it/s]
Processing SUCLA2--AL353613.1:  83%|████████▎ | 45/54 [00:04<00:00,  9.64it/s]
Processing TMEM132B--TDG:  83%|████████▎ | 45/54 [00:04<00:00,  9.64it/s]     
Processing TMEM132B--TDG:  85%|████████▌ | 46/54 [00:04<00:00,  9.64it/s]
Processing AP005597.1--OR4A16:  85%|████████▌ | 46/54 [00:04<00:00,  9.64it/s]
Processing AP005597.1--OR4A16:  87%|████████▋ | 47/54 [00:04<00:00,  9.64it/s]
Processing OR4A11P--OR4A16:  87%|████████▋ | 47/54 [00:04<00:00,  9.64it/s]   
Processing OR4A11P--OR4A16:  89%|████████▉ | 48/54 [00:04<00:00,  9.64it/s]
Processing IGH@-ext--SPG7:  89%|████████▉ | 48/54 [00:04<00:00,  9.64it/s] 
Processing IGH@-ext--SPG7:  91%|█████████ | 49/54 [00:05<00:00,  9.64it/s]
Processing SOGA3--KIAA0408:  91%|█████████ | 49/54 [00:05<00:00,  9.64it/s]
Processing SOGA3--KIAA0408:  93%|█████████▎| 50/54 [00:05<00:00,  9.64it/s]
Processing ITGA9--AC108752.1:  93%|█████████▎| 50/54 [00:05<00:00,  9.64it/s]
Processing ITGA9--AC108752.1:  94%|█████████▍| 51/54 [00:05<00:00,  9.64it/s]
Processing ITGA9--MRPS17P3:  94%|█████████▍| 51/54 [00:05<00:00,  9.64it/s]  
Processing ITGA9--MRPS17P3:  96%|█████████▋| 52/54 [00:05<00:00,  9.64it/s]
Processing FRG1DP--MLLT10P1:  96%|█████████▋| 52/54 [00:05<00:00,  9.64it/s]
Processing FRG1DP--MLLT10P1:  98%|█████████▊| 53/54 [00:05<00:00,  9.64it/s]
Processing FRG1DP--5_8S_rRNA:  98%|█████████▊| 53/54 [00:05<00:00,  9.64it/s]
Processing FRG1DP--5_8S_rRNA: 100%|██████████| 54/54 [00:05<00:00,  9.64it/s]
Processing FRG1DP--5_8S_rRNA: 100%|██████████| 54/54 [00:05<00:00,  9.63it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory