Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-eb5d3959-7137-45a9-9f26-41f9201dcf7f/9d/27ef28c083f97facc14cc8364be994/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dc/5db91b3d4a43ce08dfa75dad8c44c5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dc/5db91b3d4a43ce08dfa75dad8c44c5/.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/03/a27cee0e8d2dbfed78de0e052e7e7a/aih-tih-sc-b6fd19-R1_A23YTGFLT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f2847e58619648c2f6419dcb15a3f2/aih-tih-sc-b6fd19-R1_A23YTGFLT4_1.arriba.fusions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...

  0%|          | 0/123 [00:00<?, ?it/s]ACACA--MMP28
starfusion
arriba
THEM4--KCNT2
starfusion
arriba
REV1--TSGA10
starfusion
arriba
RPRD2--AL589986.2
starfusion
arriba
RSBN1L--PHTF2
starfusion
arriba
PRPF18--ALCAM
starfusion
arriba
RIC1--KDM4C
starfusion
arriba
ASAP1--CYRIB
starfusion
arriba
VTI1A--TCF7L2
starfusion
arriba
LMNA--CRP
starfusion
arriba
CCDC6--SLC16A9
starfusion
arriba
CREBBP--TRAP1
starfusion
arriba
CRTC3--BLM
starfusion
arriba
BRAP--ATXN2
starfusion
arriba
EED--CCDC83
starfusion
arriba
ADGRF1--TNFRSF21
starfusion
arriba
PEMT--RAI1
starfusion
arriba
ACACA--SLFN12
starfusion
arriba
MINDY1--PRUNE1
starfusion
arriba
VEGFB--PLXNB2
starfusion
arriba
ZNF708--TMEM91
starfusion
arriba
ERMP1--KIAA2026
starfusion
arriba
DISC1FP1--TOM1L2
starfusion
arriba
GTF2IP4--AC211476.4
starfusion
KDM2A--AC104534.1
starfusion
arriba
MYO18A--AL513321.2
starfusion
arriba
NEMF--SOS2
starfusion
arriba
TRIM33--AL356277.3
starfusion
arriba
SLFN11--HNF1B
starfusion
arriba
PANK2--AP000866.1
starfusion
arriba
LRMDA--TMEM254
starfusion
arriba
UBE2G1--ANKFY1
starfusion
PLXNB2--VEGFB
starfusion
PPP3CB-AS1--TMEM254
starfusion
ERN2--TULP2
starfusion
arriba
IKZF2--AC093865.1
starfusion
arriba
TOR1AIP1--CEP350
starfusion
RABEP1--ITGAE
starfusion
arriba
EIF3K--VEPH1
starfusion
USP54--TMEM254
starfusion
SCNN1B--PLK1
starfusion
PARVA--USP47
starfusion
SIPA1L3--TSPAN13
starfusion
NOL12--LGALS1
starfusion
ZNRF2--GARS1
starfusion
TLK2--AC240565.1
starfusion
ERBB4--AC093865.1
starfusion
arriba
LRMDA--PPP3CB-AS1
starfusion
AC084756.2--NF1P1
starfusion
AC060780.1--ANKS1A
starfusion
MTREX--STK3
starfusion
arriba
TLK2P1--AC110079.1
starfusion
MB21D2--FGF12
starfusion
arriba
TRIM8--WBP1L
starfusion
EPS15--TTC39A
starfusion
VSIG10--SRRM4
starfusion
arriba
IGL-@-ext--WNT6
starfusion
CAMKK2--KDM2B
starfusion
RFX5--RFX5-AS1
starfusion
MACF1--GUSBP1
starfusion
AC011487.2--ANKRD27
starfusion
IKZF2--SGO1-AS1
starfusion
TRIM33--AL356473.1
arriba
AKAP8--BRD4
arriba
STX16--NPEPL1
arriba
PEBP1--UTP20
arriba
PPP3R1--NEUROD2
arriba
PPP3R1--AC087491.1
arriba
AC015911.9--AP2B1
arriba
AC015911.2--AP2B1
arriba
RPRD2--HRNR
arriba
TVP23C--CDRT4
arriba
SLC14A1--SLC14A1
arriba
MARCHF6--FAM53A
arriba
ERN2--NUCB1
arriba
ZNF420--ZNF420
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGA11
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGB7
arriba
PCDHGB2--PCDHGA12
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGA9
arriba
AC015911.9--SLFN12L
arriba
SPOPL--AC092620.1
arriba
SPOPL--AC092620.2
arriba
DLG5--LRMDA
arriba
WDR20--MOK
arriba
TAF5--NT5C2
arriba
CCS--NADSYN1
arriba
STRN3--AL158058.2
arriba
NR1I3--TOMM40L
arriba
TULP2--LIPC
arriba
CASC22--TOX3
arriba
TOX3--TOX3
arriba
KLRC4--KLRK1
arriba
EFL1--GOLGA6L11P
arriba
ACSF3--BOC
arriba
LINC02835--RYR3
arriba
EPHA5--RYR3
arriba
NPHP3--ACAD11
arriba
MEP1A--ADGRF1
arriba
MEP1A--TNFRSF21
arriba
ATG16L2--DLG2
arriba
PCDHA10--PCDHAC1
arriba
PCDHA10--PCDHAC2
arriba
PCDHA10--PCDHA13
arriba
ZNF268--ZNF10
arriba
PDE4D--PDE4D
arriba
PCDHA4--PCDHAC1
arriba
PCDHA4--PCDHAC2
arriba
PCDHA4--PCDHA13
arriba
ERBB4--ERBB4
arriba
SVEP1--MYLK
arriba
RPRD2--FLG-AS1
arriba
LRP2--TDRD5
arriba
GRAP--OR9G2P
arriba
GRAP--OR5G1P
arriba
SCG5--SCG5
arriba
TLK2--FAM157A
arriba

Processing ACACA--MMP28:   0%|          | 0/123 [00:00<?, ?it/s]
Processing ACACA--MMP28:   1%|          | 1/123 [00:00<00:13,  9.23it/s]
Processing THEM4--KCNT2:   1%|          | 1/123 [00:00<00:13,  9.23it/s]
Processing THEM4--KCNT2:   2%|▏         | 2/123 [00:00<00:12,  9.47it/s]
Processing REV1--TSGA10:   2%|▏         | 2/123 [00:00<00:12,  9.47it/s]
Processing REV1--TSGA10:   2%|▏         | 3/123 [00:00<00:12,  9.55it/s]
Processing RPRD2--AL589986.2:   2%|▏         | 3/123 [00:00<00:12,  9.55it/s]
Processing RPRD2--AL589986.2:   3%|▎         | 4/123 [00:00<00:12,  9.59it/s]
Processing RSBN1L--PHTF2:   3%|▎         | 4/123 [00:00<00:12,  9.59it/s]    
Processing RSBN1L--PHTF2:   4%|▍         | 5/123 [00:00<00:12,  9.61it/s]
Processing PRPF18--ALCAM:   4%|▍         | 5/123 [00:00<00:12,  9.61it/s]
Processing PRPF18--ALCAM:   5%|▍         | 6/123 [00:00<00:12,  9.62it/s]
Processing RIC1--KDM4C:   5%|▍         | 6/123 [00:00<00:12,  9.62it/s]  
Processing RIC1--KDM4C:   6%|▌         | 7/123 [00:00<00:12,  9.63it/s]
Processing ASAP1--CYRIB:   6%|▌         | 7/123 [00:00<00:12,  9.63it/s]
Processing ASAP1--CYRIB:   7%|▋         | 8/123 [00:00<00:11,  9.63it/s]
Processing VTI1A--TCF7L2:   7%|▋         | 8/123 [00:00<00:11,  9.63it/s]
Processing VTI1A--TCF7L2:   7%|▋         | 9/123 [00:00<00:11,  9.64it/s]
Processing LMNA--CRP:   7%|▋         | 9/123 [00:00<00:11,  9.64it/s]    
Processing LMNA--CRP:   8%|▊         | 10/123 [00:01<00:11,  9.64it/s]
Processing CCDC6--SLC16A9:   8%|▊         | 10/123 [00:01<00:11,  9.64it/s]
Processing CCDC6--SLC16A9:   9%|▉         | 11/123 [00:01<00:11,  9.64it/s]
Processing CREBBP--TRAP1:   9%|▉         | 11/123 [00:01<00:11,  9.64it/s] 
Processing CREBBP--TRAP1:  10%|▉         | 12/123 [00:01<00:11,  9.64it/s]
Processing CRTC3--BLM:  10%|▉         | 12/123 [00:01<00:11,  9.64it/s]   
Processing CRTC3--BLM:  11%|█         | 13/123 [00:01<00:11,  9.65it/s]
Processing BRAP--ATXN2:  11%|█         | 13/123 [00:01<00:11,  9.65it/s]
Processing BRAP--ATXN2:  11%|█▏        | 14/123 [00:01<00:11,  9.64it/s]
Processing EED--CCDC83:  11%|█▏        | 14/123 [00:01<00:11,  9.64it/s]
Processing EED--CCDC83:  12%|█▏        | 15/123 [00:01<00:11,  9.64it/s]
Processing ADGRF1--TNFRSF21:  12%|█▏        | 15/123 [00:01<00:11,  9.64it/s]
Processing ADGRF1--TNFRSF21:  13%|█▎        | 16/123 [00:01<00:11,  9.65it/s]
Processing PEMT--RAI1:  13%|█▎        | 16/123 [00:01<00:11,  9.65it/s]      
Processing PEMT--RAI1:  14%|█▍        | 17/123 [00:01<00:10,  9.64it/s]
Processing ACACA--SLFN12:  14%|█▍        | 17/123 [00:01<00:10,  9.64it/s]
Processing ACACA--SLFN12:  15%|█▍        | 18/123 [00:01<00:10,  9.64it/s]
Processing MINDY1--PRUNE1:  15%|█▍        | 18/123 [00:01<00:10,  9.64it/s]
Processing MINDY1--PRUNE1:  15%|█▌        | 19/123 [00:01<00:10,  9.65it/s]
Processing VEGFB--PLXNB2:  15%|█▌        | 19/123 [00:01<00:10,  9.65it/s] 
Processing VEGFB--PLXNB2:  16%|█▋        | 20/123 [00:02<00:10,  9.65it/s]
Processing ZNF708--TMEM91:  16%|█▋        | 20/123 [00:02<00:10,  9.65it/s]
Processing ZNF708--TMEM91:  17%|█▋        | 21/123 [00:02<00:10,  9.64it/s]
Processing ERMP1--KIAA2026:  17%|█▋        | 21/123 [00:02<00:10,  9.64it/s]
Processing ERMP1--KIAA2026:  18%|█▊        | 22/123 [00:02<00:10,  9.64it/s]
Processing DISC1FP1--TOM1L2:  18%|█▊        | 22/123 [00:02<00:10,  9.64it/s]
Processing DISC1FP1--TOM1L2:  19%|█▊        | 23/123 [00:02<00:10,  9.65it/s]
Processing GTF2IP4--AC211476.4:  19%|█▊        | 23/123 [00:02<00:10,  9.65it/s]
Processing GTF2IP4--AC211476.4:  20%|█▉        | 24/123 [00:02<00:10,  9.65it/s]
Processing KDM2A--AC104534.1:  20%|█▉        | 24/123 [00:02<00:10,  9.65it/s]  
Processing KDM2A--AC104534.1:  20%|██        | 25/123 [00:02<00:10,  9.64it/s]
Processing MYO18A--AL513321.2:  20%|██        | 25/123 [00:02<00:10,  9.64it/s]
Processing MYO18A--AL513321.2:  21%|██        | 26/123 [00:02<00:10,  9.64it/s]
Processing NEMF--SOS2:  21%|██        | 26/123 [00:02<00:10,  9.64it/s]        
Processing NEMF--SOS2:  22%|██▏       | 27/123 [00:02<00:09,  9.64it/s]
Processing TRIM33--AL356277.3:  22%|██▏       | 27/123 [00:02<00:09,  9.64it/s]
Processing TRIM33--AL356277.3:  23%|██▎       | 28/123 [00:02<00:09,  9.65it/s]
Processing SLFN11--HNF1B:  23%|██▎       | 28/123 [00:02<00:09,  9.65it/s]     
Processing SLFN11--HNF1B:  24%|██▎       | 29/123 [00:03<00:09,  9.65it/s]
Processing PANK2--AP000866.1:  24%|██▎       | 29/123 [00:03<00:09,  9.65it/s]
Processing PANK2--AP000866.1:  24%|██▍       | 30/123 [00:03<00:09,  9.65it/s]
Processing LRMDA--TMEM254:  24%|██▍       | 30/123 [00:03<00:09,  9.65it/s]   
Processing LRMDA--TMEM254:  25%|██▌       | 31/123 [00:03<00:09,  9.65it/s]
Processing UBE2G1--ANKFY1:  25%|██▌       | 31/123 [00:03<00:09,  9.65it/s]
Processing UBE2G1--ANKFY1:  26%|██▌       | 32/123 [00:03<00:09,  9.65it/s]
Processing PLXNB2--VEGFB:  26%|██▌       | 32/123 [00:03<00:09,  9.65it/s] 
Processing PLXNB2--VEGFB:  27%|██▋       | 33/123 [00:03<00:09,  9.65it/s]
Processing PPP3CB-AS1--TMEM254:  27%|██▋       | 33/123 [00:03<00:09,  9.65it/s]
Processing PPP3CB-AS1--TMEM254:  28%|██▊       | 34/123 [00:03<00:09,  9.64it/s]
Processing ERN2--TULP2:  28%|██▊       | 34/123 [00:03<00:09,  9.64it/s]        
Processing ERN2--TULP2:  28%|██▊       | 35/123 [00:03<00:09,  9.64it/s]
Processing IKZF2--AC093865.1:  28%|██▊       | 35/123 [00:03<00:09,  9.64it/s]
Processing IKZF2--AC093865.1:  29%|██▉       | 36/123 [00:03<00:09,  9.64it/s]
Processing TOR1AIP1--CEP350:  29%|██▉       | 36/123 [00:03<00:09,  9.64it/s] 
Processing TOR1AIP1--CEP350:  30%|███       | 37/123 [00:03<00:08,  9.65it/s]
Processing RABEP1--ITGAE:  30%|███       | 37/123 [00:03<00:08,  9.65it/s]   
Processing RABEP1--ITGAE:  31%|███       | 38/123 [00:03<00:08,  9.65it/s]
Processing EIF3K--VEPH1:  31%|███       | 38/123 [00:03<00:08,  9.65it/s] 
Processing EIF3K--VEPH1:  32%|███▏      | 39/123 [00:04<00:08,  9.65it/s]
Processing USP54--TMEM254:  32%|███▏      | 39/123 [00:04<00:08,  9.65it/s]
Processing USP54--TMEM254:  33%|███▎      | 40/123 [00:04<00:08,  9.65it/s]
Processing SCNN1B--PLK1:  33%|███▎      | 40/123 [00:04<00:08,  9.65it/s]  
Processing SCNN1B--PLK1:  33%|███▎      | 41/123 [00:04<00:08,  9.65it/s]
Processing PARVA--USP47:  33%|███▎      | 41/123 [00:04<00:08,  9.65it/s]
Processing PARVA--USP47:  34%|███▍      | 42/123 [00:04<00:08,  9.65it/s]
Processing SIPA1L3--TSPAN13:  34%|███▍      | 42/123 [00:04<00:08,  9.65it/s]
Processing SIPA1L3--TSPAN13:  35%|███▍      | 43/123 [00:04<00:08,  9.65it/s]
Processing NOL12--LGALS1:  35%|███▍      | 43/123 [00:04<00:08,  9.65it/s]   
Processing NOL12--LGALS1:  36%|███▌      | 44/123 [00:04<00:08,  9.65it/s]
Processing ZNRF2--GARS1:  36%|███▌      | 44/123 [00:04<00:08,  9.65it/s] 
Processing ZNRF2--GARS1:  37%|███▋      | 45/123 [00:04<00:08,  9.65it/s]
Processing TLK2--AC240565.1:  37%|███▋      | 45/123 [00:04<00:08,  9.65it/s]
Processing TLK2--AC240565.1:  37%|███▋      | 46/123 [00:04<00:07,  9.65it/s]
Processing ERBB4--AC093865.1:  37%|███▋      | 46/123 [00:04<00:07,  9.65it/s]
Processing ERBB4--AC093865.1:  38%|███▊      | 47/123 [00:04<00:07,  9.65it/s]
Processing LRMDA--PPP3CB-AS1:  38%|███▊      | 47/123 [00:04<00:07,  9.65it/s]
Processing LRMDA--PPP3CB-AS1:  39%|███▉      | 48/123 [00:04<00:07,  9.65it/s]
Processing AC084756.2--NF1P1:  39%|███▉      | 48/123 [00:04<00:07,  9.65it/s]
Processing AC084756.2--NF1P1:  40%|███▉      | 49/123 [00:05<00:07,  9.65it/s]
Processing AC060780.1--ANKS1A:  40%|███▉      | 49/123 [00:05<00:07,  9.65it/s]
Processing AC060780.1--ANKS1A:  41%|████      | 50/123 [00:05<00:07,  9.65it/s]
Processing MTREX--STK3:  41%|████      | 50/123 [00:05<00:07,  9.65it/s]       
Processing MTREX--STK3:  41%|████▏     | 51/123 [00:05<00:07,  9.65it/s]
Processing TLK2P1--AC110079.1:  41%|████▏     | 51/123 [00:05<00:07,  9.65it/s]
Processing TLK2P1--AC110079.1:  42%|████▏     | 52/123 [00:05<00:07,  9.65it/s]
Processing MB21D2--FGF12:  42%|████▏     | 52/123 [00:05<00:07,  9.65it/s]     
Processing MB21D2--FGF12:  43%|████▎     | 53/123 [00:05<00:07,  9.65it/s]
Processing TRIM8--WBP1L:  43%|████▎     | 53/123 [00:05<00:07,  9.65it/s] 
Processing TRIM8--WBP1L:  44%|████▍     | 54/123 [00:05<00:07,  9.65it/s]
Processing EPS15--TTC39A:  44%|████▍     | 54/123 [00:05<00:07,  9.65it/s]
Processing EPS15--TTC39A:  45%|████▍     | 55/123 [00:05<00:07,  9.65it/s]
Processing VSIG10--SRRM4:  45%|████▍     | 55/123 [00:05<00:07,  9.65it/s]
Processing VSIG10--SRRM4:  46%|████▌     | 56/123 [00:05<00:06,  9.65it/s]
Processing IGL-@-ext--WNT6:  46%|████▌     | 56/123 [00:05<00:06,  9.65it/s]
Processing IGL-@-ext--WNT6:  46%|████▋     | 57/123 [00:05<00:06,  9.65it/s]
Processing CAMKK2--KDM2B:  46%|████▋     | 57/123 [00:05<00:06,  9.65it/s]  
Processing CAMKK2--KDM2B:  47%|████▋     | 58/123 [00:06<00:06,  9.65it/s]
Processing RFX5--RFX5-AS1:  47%|████▋     | 58/123 [00:06<00:06,  9.65it/s]
Processing RFX5--RFX5-AS1:  48%|████▊     | 59/123 [00:06<00:06,  9.65it/s]
Processing MACF1--GUSBP1:  48%|████▊     | 59/123 [00:06<00:06,  9.65it/s] 
Processing MACF1--GUSBP1:  49%|████▉     | 60/123 [00:06<00:06,  9.65it/s]
Processing AC011487.2--ANKRD27:  49%|████▉     | 60/123 [00:06<00:06,  9.65it/s]
Processing AC011487.2--ANKRD27:  50%|████▉     | 61/123 [00:06<00:06,  9.65it/s]
Processing IKZF2--SGO1-AS1:  50%|████▉     | 61/123 [00:06<00:06,  9.65it/s]    
Processing IKZF2--SGO1-AS1:  50%|█████     | 62/123 [00:06<00:06,  9.65it/s]
Processing TRIM33--AL356473.1:  50%|█████     | 62/123 [00:06<00:06,  9.65it/s]
Processing TRIM33--AL356473.1:  51%|█████     | 63/123 [00:06<00:06,  9.65it/s]
Processing AKAP8--BRD4:  51%|█████     | 63/123 [00:06<00:06,  9.65it/s]       
Processing AKAP8--BRD4:  52%|█████▏    | 64/123 [00:06<00:06,  9.65it/s]
Processing STX16--NPEPL1:  52%|█████▏    | 64/123 [00:06<00:06,  9.65it/s]
Processing STX16--NPEPL1:  53%|█████▎    | 65/123 [00:06<00:06,  9.65it/s]
Processing PEBP1--UTP20:  53%|█████▎    | 65/123 [00:06<00:06,  9.65it/s] 
Processing PEBP1--UTP20:  54%|█████▎    | 66/123 [00:06<00:05,  9.65it/s]
Processing PPP3R1--NEUROD2:  54%|█████▎    | 66/123 [00:06<00:05,  9.65it/s]
Processing PPP3R1--NEUROD2:  54%|█████▍    | 67/123 [00:06<00:05,  9.65it/s]
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Processing PPP3R1--AC087491.1:  55%|█████▌    | 68/123 [00:07<00:05,  9.65it/s]
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cat: fusion_report_db/DB-timestamp.txt: No such file or directory