Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-e543dae6-5fea-4720-bfb6-150bf1ff20d4/82/1bfcba5045fc10a52ca200a4890a9a/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/1d392152b87f9b946fb603a6a9ea00/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/1d392152b87f9b946fb603a6a9ea00/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/b868a1212167abd12131f67bc27f00/aih-tih-sc-6d9e6f-R1_A23YTGFLT4_1.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/fusion_report_db
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/b8e416a56ede5b4145d759f89bf9d5/aih-tih-sc-6d9e6f-R1_A23YTGFLT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
PGAP3--MED1
starfusion
arriba
PHF12--LINC02693
starfusion
arriba
RPL23A--GOSR1
starfusion
FSIP1--AC013652.1
starfusion
arriba
NF1--IKZF3
starfusion
arriba
LINC02693--AATF
starfusion
arriba
PTPRK--TRDN
starfusion
arriba
STK4--ARHGEF3
starfusion
arriba
RANBP9--AKAP7
starfusion
arriba
RERE--SHANK2
starfusion
arriba
TLK2--AC240565.1
starfusion
ERBB4--AL020994.1
starfusion
arriba
RAPGEF5--UNC5D
starfusion
arriba
TRPS1--LINC00824
starfusion
TMTC2--ACSS3
starfusion
arriba
PAPSS1--HADH
starfusion
SMG7--CACNA1E
starfusion
RAPGEF5--EGFR
starfusion
AMOTL2--ME1
starfusion
PHF12--RPL21P120
arriba
LRRC37A--LRRC37A
arriba
STX16--NPEPL1
arriba
PCDHA10--PCDHAC1
arriba
PCDHA10--PCDHAC2
arriba
PCDHA10--PCDHA13
arriba
CACNB1--ADAP2
arriba
TVP23C--CDRT4
arriba
TRDN--TRDN
arriba
NSD3--5_8S_rRNA
arriba
NSD3--CR383658.1
arriba
PCDHA4--PCDHAC1
arriba
PCDHA4--PCDHAC2
arriba
PCDHA4--PCDHA13
arriba
NPEPPSP1--AC003101.1
arriba
AATF--AC243830.2
arriba
AATF--AC243830.3
arriba
NPEPPSP1--MIR4725
arriba
KLRC4--KLRK1
arriba
C1QTNF3--AMACR
arriba
RNU4-66P--TRDN
arriba
RIMS1--TRDN
arriba
ATXN8OS--KLHL1
arriba
RNU6-54P--KLHL1
arriba
TRAK1--ULK4
arriba
STON1--GTF2A1L
arriba
NFKB2--DENND10
arriba
AC092807.3--DDAH1
arriba
EXT1--AC084114.1
arriba
EXT1--MED30
arriba
AKAP7--PTPRK
arriba
FLACC1--FLACC1
arriba
FLACC1--TRAK2
arriba
CILK1--AL033504.1
arriba
TLK2--FAM157A
arriba

  0%|          | 0/54 [00:00<?, ?it/s]
Processing PGAP3--MED1:   0%|          | 0/54 [00:00<?, ?it/s]
Processing PGAP3--MED1:   2%|▏         | 1/54 [00:00<00:06,  8.77it/s]
Processing PHF12--LINC02693:   2%|▏         | 1/54 [00:00<00:06,  8.77it/s]
Processing PHF12--LINC02693:   4%|▎         | 2/54 [00:00<00:05,  9.15it/s]
Processing RPL23A--GOSR1:   4%|▎         | 2/54 [00:00<00:05,  9.15it/s]   
Processing RPL23A--GOSR1:   6%|▌         | 3/54 [00:00<00:05,  9.29it/s]
Processing FSIP1--AC013652.1:   6%|▌         | 3/54 [00:00<00:05,  9.29it/s]
Processing FSIP1--AC013652.1:   7%|▋         | 4/54 [00:00<00:05,  9.35it/s]
Processing NF1--IKZF3:   7%|▋         | 4/54 [00:00<00:05,  9.35it/s]       
Processing NF1--IKZF3:   9%|▉         | 5/54 [00:00<00:05,  9.39it/s]
Processing LINC02693--AATF:   9%|▉         | 5/54 [00:00<00:05,  9.39it/s]
Processing LINC02693--AATF:  11%|█         | 6/54 [00:00<00:05,  9.40it/s]
Processing PTPRK--TRDN:  11%|█         | 6/54 [00:00<00:05,  9.40it/s]    
Processing PTPRK--TRDN:  13%|█▎        | 7/54 [00:00<00:04,  9.41it/s]
Processing STK4--ARHGEF3:  13%|█▎        | 7/54 [00:00<00:04,  9.41it/s]
Processing STK4--ARHGEF3:  15%|█▍        | 8/54 [00:00<00:04,  9.43it/s]
Processing RANBP9--AKAP7:  15%|█▍        | 8/54 [00:00<00:04,  9.43it/s]
Processing RANBP9--AKAP7:  17%|█▋        | 9/54 [00:00<00:04,  9.44it/s]
Processing RERE--SHANK2:  17%|█▋        | 9/54 [00:00<00:04,  9.44it/s] 
Processing RERE--SHANK2:  19%|█▊        | 10/54 [00:01<00:04,  9.44it/s]
Processing TLK2--AC240565.1:  19%|█▊        | 10/54 [00:01<00:04,  9.44it/s]
Processing TLK2--AC240565.1:  20%|██        | 11/54 [00:01<00:04,  9.43it/s]
Processing ERBB4--AL020994.1:  20%|██        | 11/54 [00:01<00:04,  9.43it/s]
Processing ERBB4--AL020994.1:  22%|██▏       | 12/54 [00:01<00:04,  9.43it/s]
Processing RAPGEF5--UNC5D:  22%|██▏       | 12/54 [00:01<00:04,  9.43it/s]   
Processing RAPGEF5--UNC5D:  24%|██▍       | 13/54 [00:01<00:04,  9.44it/s]
Processing TRPS1--LINC00824:  24%|██▍       | 13/54 [00:01<00:04,  9.44it/s]
Processing TRPS1--LINC00824:  26%|██▌       | 14/54 [00:01<00:04,  9.45it/s]
Processing TMTC2--ACSS3:  26%|██▌       | 14/54 [00:01<00:04,  9.45it/s]    
Processing TMTC2--ACSS3:  28%|██▊       | 15/54 [00:01<00:04,  9.45it/s]
Processing PAPSS1--HADH:  28%|██▊       | 15/54 [00:01<00:04,  9.45it/s]
Processing PAPSS1--HADH:  30%|██▉       | 16/54 [00:01<00:04,  9.43it/s]
Processing SMG7--CACNA1E:  30%|██▉       | 16/54 [00:01<00:04,  9.43it/s]
Processing SMG7--CACNA1E:  31%|███▏      | 17/54 [00:01<00:03,  9.41it/s]
Processing RAPGEF5--EGFR:  31%|███▏      | 17/54 [00:01<00:03,  9.41it/s]
Processing RAPGEF5--EGFR:  33%|███▎      | 18/54 [00:01<00:03,  9.40it/s]
Processing AMOTL2--ME1:  33%|███▎      | 18/54 [00:01<00:03,  9.40it/s]  
Processing AMOTL2--ME1:  35%|███▌      | 19/54 [00:02<00:03,  9.39it/s]
Processing PHF12--RPL21P120:  35%|███▌      | 19/54 [00:02<00:03,  9.39it/s]
Processing PHF12--RPL21P120:  37%|███▋      | 20/54 [00:02<00:03,  9.39it/s]
Processing LRRC37A--LRRC37A:  37%|███▋      | 20/54 [00:02<00:03,  9.39it/s]
Processing LRRC37A--LRRC37A:  39%|███▉      | 21/54 [00:02<00:03,  9.39it/s]
Processing STX16--NPEPL1:  39%|███▉      | 21/54 [00:02<00:03,  9.39it/s]   
Processing STX16--NPEPL1:  41%|████      | 22/54 [00:02<00:03,  9.41it/s]
Processing PCDHA10--PCDHAC1:  41%|████      | 22/54 [00:02<00:03,  9.41it/s]
Processing PCDHA10--PCDHAC1:  43%|████▎     | 23/54 [00:02<00:03,  9.42it/s]
Processing PCDHA10--PCDHAC2:  43%|████▎     | 23/54 [00:02<00:03,  9.42it/s]
Processing PCDHA10--PCDHAC2:  44%|████▍     | 24/54 [00:02<00:03,  9.43it/s]
Processing PCDHA10--PCDHA13:  44%|████▍     | 24/54 [00:02<00:03,  9.43it/s]
Processing PCDHA10--PCDHA13:  46%|████▋     | 25/54 [00:02<00:03,  9.43it/s]
Processing CACNB1--ADAP2:  46%|████▋     | 25/54 [00:02<00:03,  9.43it/s]   
Processing CACNB1--ADAP2:  48%|████▊     | 26/54 [00:02<00:02,  9.44it/s]
Processing TVP23C--CDRT4:  48%|████▊     | 26/54 [00:02<00:02,  9.44it/s]
Processing TVP23C--CDRT4:  50%|█████     | 27/54 [00:02<00:02,  9.44it/s]
Processing TRDN--TRDN:  50%|█████     | 27/54 [00:02<00:02,  9.44it/s]   
Processing TRDN--TRDN:  52%|█████▏    | 28/54 [00:02<00:02,  9.45it/s]
Processing NSD3--5_8S_rRNA:  52%|█████▏    | 28/54 [00:02<00:02,  9.45it/s]
Processing NSD3--5_8S_rRNA:  54%|█████▎    | 29/54 [00:03<00:02,  9.45it/s]
Processing NSD3--CR383658.1:  54%|█████▎    | 29/54 [00:03<00:02,  9.45it/s]
Processing NSD3--CR383658.1:  56%|█████▌    | 30/54 [00:03<00:02,  9.44it/s]
Processing PCDHA4--PCDHAC1:  56%|█████▌    | 30/54 [00:03<00:02,  9.44it/s] 
Processing PCDHA4--PCDHAC1:  57%|█████▋    | 31/54 [00:03<00:02,  9.44it/s]
Processing PCDHA4--PCDHAC2:  57%|█████▋    | 31/54 [00:03<00:02,  9.44it/s]
Processing PCDHA4--PCDHAC2:  59%|█████▉    | 32/54 [00:03<00:02,  9.44it/s]
Processing PCDHA4--PCDHA13:  59%|█████▉    | 32/54 [00:03<00:02,  9.44it/s]
Processing PCDHA4--PCDHA13:  61%|██████    | 33/54 [00:03<00:02,  9.43it/s]
Processing NPEPPSP1--AC003101.1:  61%|██████    | 33/54 [00:03<00:02,  9.43it/s]
Processing NPEPPSP1--AC003101.1:  63%|██████▎   | 34/54 [00:03<00:02,  9.44it/s]
Processing AATF--AC243830.2:  63%|██████▎   | 34/54 [00:03<00:02,  9.44it/s]    
Processing AATF--AC243830.2:  65%|██████▍   | 35/54 [00:03<00:02,  9.43it/s]
Processing AATF--AC243830.3:  65%|██████▍   | 35/54 [00:03<00:02,  9.43it/s]
Processing AATF--AC243830.3:  67%|██████▋   | 36/54 [00:03<00:01,  9.43it/s]
Processing NPEPPSP1--MIR4725:  67%|██████▋   | 36/54 [00:03<00:01,  9.43it/s]
Processing NPEPPSP1--MIR4725:  69%|██████▊   | 37/54 [00:03<00:01,  9.44it/s]
Processing KLRC4--KLRK1:  69%|██████▊   | 37/54 [00:03<00:01,  9.44it/s]     
Processing KLRC4--KLRK1:  70%|███████   | 38/54 [00:04<00:01,  9.44it/s]
Processing C1QTNF3--AMACR:  70%|███████   | 38/54 [00:04<00:01,  9.44it/s]
Processing C1QTNF3--AMACR:  72%|███████▏  | 39/54 [00:04<00:01,  9.44it/s]
Processing RNU4-66P--TRDN:  72%|███████▏  | 39/54 [00:04<00:01,  9.44it/s]
Processing RNU4-66P--TRDN:  74%|███████▍  | 40/54 [00:04<00:01,  9.42it/s]
Processing RIMS1--TRDN:  74%|███████▍  | 40/54 [00:04<00:01,  9.42it/s]   
Processing RIMS1--TRDN:  76%|███████▌  | 41/54 [00:04<00:01,  9.43it/s]
Processing ATXN8OS--KLHL1:  76%|███████▌  | 41/54 [00:04<00:01,  9.43it/s]
Processing ATXN8OS--KLHL1:  78%|███████▊  | 42/54 [00:04<00:01,  9.44it/s]
Processing RNU6-54P--KLHL1:  78%|███████▊  | 42/54 [00:04<00:01,  9.44it/s]
Processing RNU6-54P--KLHL1:  80%|███████▉  | 43/54 [00:04<00:01,  9.44it/s]
Processing TRAK1--ULK4:  80%|███████▉  | 43/54 [00:04<00:01,  9.44it/s]    
Processing TRAK1--ULK4:  81%|████████▏ | 44/54 [00:04<00:01,  9.44it/s]
Processing STON1--GTF2A1L:  81%|████████▏ | 44/54 [00:04<00:01,  9.44it/s]
Processing STON1--GTF2A1L:  83%|████████▎ | 45/54 [00:04<00:00,  9.45it/s]
Processing NFKB2--DENND10:  83%|████████▎ | 45/54 [00:04<00:00,  9.45it/s]
Processing NFKB2--DENND10:  85%|████████▌ | 46/54 [00:04<00:00,  9.45it/s]
Processing AC092807.3--DDAH1:  85%|████████▌ | 46/54 [00:04<00:00,  9.45it/s]
Processing AC092807.3--DDAH1:  87%|████████▋ | 47/54 [00:04<00:00,  9.45it/s]
Processing EXT1--AC084114.1:  87%|████████▋ | 47/54 [00:04<00:00,  9.45it/s] 
Processing EXT1--AC084114.1:  89%|████████▉ | 48/54 [00:05<00:00,  9.46it/s]
Processing EXT1--MED30:  89%|████████▉ | 48/54 [00:05<00:00,  9.46it/s]     
Processing EXT1--MED30:  91%|█████████ | 49/54 [00:05<00:00,  9.45it/s]
Processing AKAP7--PTPRK:  91%|█████████ | 49/54 [00:05<00:00,  9.45it/s]
Processing AKAP7--PTPRK:  93%|█████████▎| 50/54 [00:05<00:00,  9.43it/s]
Processing FLACC1--FLACC1:  93%|█████████▎| 50/54 [00:05<00:00,  9.43it/s]
Processing FLACC1--FLACC1:  94%|█████████▍| 51/54 [00:05<00:00,  9.43it/s]
Processing FLACC1--TRAK2:  94%|█████████▍| 51/54 [00:05<00:00,  9.43it/s] 
Processing FLACC1--TRAK2:  96%|█████████▋| 52/54 [00:05<00:00,  9.44it/s]
Processing CILK1--AL033504.1:  96%|█████████▋| 52/54 [00:05<00:00,  9.44it/s]
Processing CILK1--AL033504.1:  98%|█████████▊| 53/54 [00:05<00:00,  9.44it/s]
Processing TLK2--FAM157A:  98%|█████████▊| 53/54 [00:05<00:00,  9.44it/s]    
Processing TLK2--FAM157A: 100%|██████████| 54/54 [00:05<00:00,  9.45it/s]
Processing TLK2--FAM157A: 100%|██████████| 54/54 [00:05<00:00,  9.42it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory