File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/04b56338536e2062cf300941658a93/.command.log
Size
14.9 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (FFPE_HD789_01_RNA_13_B23MVV7LT4_1)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/ed14acaa0910d7e1f72c8559a253dc/FFPE_HD789_01_RNA_13_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-7324c8a8-f474-426a-a5c9-715912777f94/c4/140ab148cdcf1ed9bdffe91f534e47/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/04b56338536e2062cf300941658a93/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/04b56338536e2062cf300941658a93/.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/26/ad46a0e5017071c7aa450f6b8d6c97/FFPE_HD789_01_RNA_13_B23MVV7LT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
SLC34A2--ROS1
starfusion
arriba
MYO5C--SHC4
starfusion
arriba
CCDC6--RET
starfusion
arriba
ANTXR1--AC011897.1
starfusion
arriba
PANK2--MAVS
starfusion
arriba
WAC--SFMBT2
starfusion
arriba
TCF7L2--AL158212.1
starfusion
arriba
PPL--SEC14L5
starfusion
arriba
CENPM--PACSIN2
starfusion
arriba
B9D1--CD82
starfusion
arriba
PEX3--AIG1
starfusion
arriba
DDX1--AC068286.1
starfusion
arriba
C18orf25--GREB1L
starfusion
arriba
CHMP1A--FANCA
starfusion
ZNF227--GAB2
starfusion
arriba
FANCA--CDK10
starfusion
arriba
THAP12--ACO1
starfusion
arriba
EFNA5--IKBKB
starfusion
arriba
BCL2L13--EP300
starfusion
arriba
ZDHHC9--AL034405.1
starfusion
AC004980.3--UPK3BL1
starfusion
TLK2--FAM157A
starfusion
MGA--GABRB3
starfusion
arriba
ANTXR2--TNFSF10
starfusion
RPSAP52--HMGA2
starfusion
ATG16L2--C11orf80
starfusion
arriba
MRPS14--TNR
starfusion
MIPOL1--TTC6
starfusion
TLK2P1--AC110079.1
starfusion
SMYD3--AHCTF1
starfusion
KDM4B--CYP4F22
starfusion
arriba
SPAG9--MBTD1
starfusion
MDK--CREB3L1
starfusion
FN1--AC012462.2
starfusion
NUMBL--ZNF814
starfusion
ANTXR1--Metazoa_SRP
arriba
TVP23C--CDRT4
arriba
ANTXR1--RN7SKP168
arriba
ANTXR1--ZFYVE9P2
arriba
CCNJL--FABP6
arriba
HERC2--AC018362.1
arriba
HERC2--SNAP23
arriba
SYNCRIP--SNX14
arriba
RBM14--RBM4
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGA12
arriba
PCDHGB2--PCDHGA11
arriba
PCDHGB2--PCDHGA9
arriba
PCDHGB2--PCDHGB7
arriba
RPTOR--RPTOR
arriba
CMIP--AP001970.1
arriba
CMIP--U8
arriba
PPIP5K1--OTUD7A
arriba
IKBKB--CHRNA6
arriba
IKBKB--THAP1
arriba
PCDHA4--PCDHAC1
arriba
PCDHA4--PCDHAC2
arriba
PCDHA4--PCDHA13
arriba
SOGA3--KIAA0408
arriba
COMMD10--AP3S1
arriba
CCDC169--SOHLH2
arriba
KLRC4--KLRK1
arriba
TRIP10--KDM4B
arriba
ZNF419--ZNF772
arriba
TMEM241--GREB1L
arriba
AGAP4--MSRB3
arriba

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Processing SLC34A2--ROS1:   0%|          | 0/71 [00:00<?, ?it/s]
Processing SLC34A2--ROS1:   1%|▏         | 1/71 [00:00<00:07,  9.25it/s]
Processing MYO5C--SHC4:   1%|▏         | 1/71 [00:00<00:07,  9.25it/s]  
Processing MYO5C--SHC4:   3%|▎         | 2/71 [00:00<00:07,  9.47it/s]
Processing CCDC6--RET:   3%|▎         | 2/71 [00:00<00:07,  9.47it/s] 
Processing CCDC6--RET:   4%|▍         | 3/71 [00:00<00:07,  9.55it/s]
Processing ANTXR1--AC011897.1:   4%|▍         | 3/71 [00:00<00:07,  9.55it/s]
Processing ANTXR1--AC011897.1:   6%|▌         | 4/71 [00:00<00:06,  9.58it/s]
Processing PANK2--MAVS:   6%|▌         | 4/71 [00:00<00:06,  9.58it/s]       
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Processing WAC--SFMBT2:   7%|▋         | 5/71 [00:00<00:06,  9.61it/s]
Processing WAC--SFMBT2:   8%|▊         | 6/71 [00:00<00:06,  9.62it/s]
Processing TCF7L2--AL158212.1:   8%|▊         | 6/71 [00:00<00:06,  9.62it/s]
Processing TCF7L2--AL158212.1:  10%|▉         | 7/71 [00:00<00:06,  9.63it/s]
Processing PPL--SEC14L5:  10%|▉         | 7/71 [00:00<00:06,  9.63it/s]      
Processing PPL--SEC14L5:  11%|█▏        | 8/71 [00:00<00:06,  9.63it/s]
Processing CENPM--PACSIN2:  11%|█▏        | 8/71 [00:00<00:06,  9.63it/s]
Processing CENPM--PACSIN2:  13%|█▎        | 9/71 [00:00<00:06,  9.63it/s]
Processing B9D1--CD82:  13%|█▎        | 9/71 [00:00<00:06,  9.63it/s]    
Processing B9D1--CD82:  14%|█▍        | 10/71 [00:01<00:06,  9.64it/s]
Processing PEX3--AIG1:  14%|█▍        | 10/71 [00:01<00:06,  9.64it/s]
Processing PEX3--AIG1:  15%|█▌        | 11/71 [00:01<00:06,  9.64it/s]
Processing DDX1--AC068286.1:  15%|█▌        | 11/71 [00:01<00:06,  9.64it/s]
Processing DDX1--AC068286.1:  17%|█▋        | 12/71 [00:01<00:06,  9.64it/s]
Processing C18orf25--GREB1L:  17%|█▋        | 12/71 [00:01<00:06,  9.64it/s]
Processing C18orf25--GREB1L:  18%|█▊        | 13/71 [00:01<00:06,  9.64it/s]
Processing CHMP1A--FANCA:  18%|█▊        | 13/71 [00:01<00:06,  9.64it/s]   
Processing CHMP1A--FANCA:  20%|█▉        | 14/71 [00:01<00:05,  9.64it/s]
Processing ZNF227--GAB2:  20%|█▉        | 14/71 [00:01<00:05,  9.64it/s] 
Processing ZNF227--GAB2:  21%|██        | 15/71 [00:01<00:05,  9.64it/s]
Processing FANCA--CDK10:  21%|██        | 15/71 [00:01<00:05,  9.64it/s]
Processing FANCA--CDK10:  23%|██▎       | 16/71 [00:01<00:05,  9.64it/s]
Processing THAP12--ACO1:  23%|██▎       | 16/71 [00:01<00:05,  9.64it/s]
Processing THAP12--ACO1:  24%|██▍       | 17/71 [00:01<00:05,  9.64it/s]
Processing EFNA5--IKBKB:  24%|██▍       | 17/71 [00:01<00:05,  9.64it/s]
Processing EFNA5--IKBKB:  25%|██▌       | 18/71 [00:01<00:05,  9.64it/s]
Processing BCL2L13--EP300:  25%|██▌       | 18/71 [00:01<00:05,  9.64it/s]
Processing BCL2L13--EP300:  27%|██▋       | 19/71 [00:01<00:05,  9.64it/s]
Processing ZDHHC9--AL034405.1:  27%|██▋       | 19/71 [00:01<00:05,  9.64it/s]
Processing ZDHHC9--AL034405.1:  28%|██▊       | 20/71 [00:02<00:05,  9.64it/s]
Processing AC004980.3--UPK3BL1:  28%|██▊       | 20/71 [00:02<00:05,  9.64it/s]
Processing AC004980.3--UPK3BL1:  30%|██▉       | 21/71 [00:02<00:05,  9.64it/s]
Processing TLK2--FAM157A:  30%|██▉       | 21/71 [00:02<00:05,  9.64it/s]      
Processing TLK2--FAM157A:  31%|███       | 22/71 [00:02<00:05,  9.64it/s]
Processing MGA--GABRB3:  31%|███       | 22/71 [00:02<00:05,  9.64it/s]  
Processing MGA--GABRB3:  32%|███▏      | 23/71 [00:02<00:04,  9.64it/s]
Processing ANTXR2--TNFSF10:  32%|███▏      | 23/71 [00:02<00:04,  9.64it/s]
Processing ANTXR2--TNFSF10:  34%|███▍      | 24/71 [00:02<00:04,  9.65it/s]
Processing RPSAP52--HMGA2:  34%|███▍      | 24/71 [00:02<00:04,  9.65it/s] 
Processing RPSAP52--HMGA2:  35%|███▌      | 25/71 [00:02<00:04,  9.64it/s]
Processing ATG16L2--C11orf80:  35%|███▌      | 25/71 [00:02<00:04,  9.64it/s]
Processing ATG16L2--C11orf80:  37%|███▋      | 26/71 [00:02<00:04,  9.64it/s]
Processing MRPS14--TNR:  37%|███▋      | 26/71 [00:02<00:04,  9.64it/s]      
Processing MRPS14--TNR:  38%|███▊      | 27/71 [00:02<00:04,  9.64it/s]
Processing MIPOL1--TTC6:  38%|███▊      | 27/71 [00:02<00:04,  9.64it/s]
Processing MIPOL1--TTC6:  39%|███▉      | 28/71 [00:02<00:04,  9.64it/s]
Processing TLK2P1--AC110079.1:  39%|███▉      | 28/71 [00:02<00:04,  9.64it/s]
Processing TLK2P1--AC110079.1:  41%|████      | 29/71 [00:03<00:04,  9.65it/s]
Processing SMYD3--AHCTF1:  41%|████      | 29/71 [00:03<00:04,  9.65it/s]     
Processing SMYD3--AHCTF1:  42%|████▏     | 30/71 [00:03<00:04,  9.65it/s]
Processing KDM4B--CYP4F22:  42%|████▏     | 30/71 [00:03<00:04,  9.65it/s]
Processing KDM4B--CYP4F22:  44%|████▎     | 31/71 [00:03<00:04,  9.64it/s]
Processing SPAG9--MBTD1:  44%|████▎     | 31/71 [00:03<00:04,  9.64it/s]  
Processing SPAG9--MBTD1:  45%|████▌     | 32/71 [00:03<00:04,  9.64it/s]
Processing MDK--CREB3L1:  45%|████▌     | 32/71 [00:03<00:04,  9.64it/s]
Processing MDK--CREB3L1:  46%|████▋     | 33/71 [00:03<00:03,  9.64it/s]
Processing FN1--AC012462.2:  46%|████▋     | 33/71 [00:03<00:03,  9.64it/s]
Processing FN1--AC012462.2:  48%|████▊     | 34/71 [00:03<00:03,  9.64it/s]
Processing NUMBL--ZNF814:  48%|████▊     | 34/71 [00:03<00:03,  9.64it/s]  
Processing NUMBL--ZNF814:  49%|████▉     | 35/71 [00:03<00:03,  9.64it/s]
Processing ANTXR1--Metazoa_SRP:  49%|████▉     | 35/71 [00:03<00:03,  9.64it/s]
Processing ANTXR1--Metazoa_SRP:  51%|█████     | 36/71 [00:03<00:03,  9.65it/s]
Processing TVP23C--CDRT4:  51%|█████     | 36/71 [00:03<00:03,  9.65it/s]      
Processing TVP23C--CDRT4:  52%|█████▏    | 37/71 [00:03<00:03,  9.65it/s]
Processing ANTXR1--RN7SKP168:  52%|█████▏    | 37/71 [00:03<00:03,  9.65it/s]
Processing ANTXR1--RN7SKP168:  54%|█████▎    | 38/71 [00:03<00:03,  9.65it/s]
Processing ANTXR1--ZFYVE9P2:  54%|█████▎    | 38/71 [00:03<00:03,  9.65it/s] 
Processing ANTXR1--ZFYVE9P2:  55%|█████▍    | 39/71 [00:04<00:03,  9.65it/s]
Processing CCNJL--FABP6:  55%|█████▍    | 39/71 [00:04<00:03,  9.65it/s]    
Processing CCNJL--FABP6:  56%|█████▋    | 40/71 [00:04<00:03,  9.65it/s]
Processing HERC2--AC018362.1:  56%|█████▋    | 40/71 [00:04<00:03,  9.65it/s]
Processing HERC2--AC018362.1:  58%|█████▊    | 41/71 [00:04<00:03,  9.65it/s]
Processing HERC2--SNAP23:  58%|█████▊    | 41/71 [00:04<00:03,  9.65it/s]    
Processing HERC2--SNAP23:  59%|█████▉    | 42/71 [00:04<00:03,  9.64it/s]
Processing SYNCRIP--SNX14:  59%|█████▉    | 42/71 [00:04<00:03,  9.64it/s]
Processing SYNCRIP--SNX14:  61%|██████    | 43/71 [00:04<00:02,  9.65it/s]
Processing RBM14--RBM4:  61%|██████    | 43/71 [00:04<00:02,  9.65it/s]   
Processing RBM14--RBM4:  62%|██████▏   | 44/71 [00:04<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA8:  62%|██████▏   | 44/71 [00:04<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA8:  63%|██████▎   | 45/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  63%|██████▎   | 45/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  65%|██████▍   | 46/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  65%|██████▍   | 46/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  66%|██████▌   | 47/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC3:  66%|██████▌   | 47/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC3:  68%|██████▊   | 48/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  68%|██████▊   | 48/71 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  69%|██████▉   | 49/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA10:  69%|██████▉   | 49/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA10:  70%|███████   | 50/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA12:  70%|███████   | 50/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA12:  72%|███████▏  | 51/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA11:  72%|███████▏  | 51/71 [00:05<00:02,  9.65it/s]
Processing PCDHGB2--PCDHGA11:  73%|███████▎  | 52/71 [00:05<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGA9:  73%|███████▎  | 52/71 [00:05<00:01,  9.65it/s] 
Processing PCDHGB2--PCDHGA9:  75%|███████▍  | 53/71 [00:05<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGB7:  75%|███████▍  | 53/71 [00:05<00:01,  9.65it/s]
Processing PCDHGB2--PCDHGB7:  76%|███████▌  | 54/71 [00:05<00:01,  9.65it/s]
Processing RPTOR--RPTOR:  76%|███████▌  | 54/71 [00:05<00:01,  9.65it/s]    
Processing RPTOR--RPTOR:  77%|███████▋  | 55/71 [00:05<00:01,  9.65it/s]
Processing CMIP--AP001970.1:  77%|███████▋  | 55/71 [00:05<00:01,  9.65it/s]
Processing CMIP--AP001970.1:  79%|███████▉  | 56/71 [00:05<00:01,  9.65it/s]
Processing CMIP--U8:  79%|███████▉  | 56/71 [00:05<00:01,  9.65it/s]        
Processing CMIP--U8:  80%|████████  | 57/71 [00:05<00:01,  9.65it/s]
Processing PPIP5K1--OTUD7A:  80%|████████  | 57/71 [00:05<00:01,  9.65it/s]
Processing PPIP5K1--OTUD7A:  82%|████████▏ | 58/71 [00:06<00:01,  9.65it/s]
Processing IKBKB--CHRNA6:  82%|████████▏ | 58/71 [00:06<00:01,  9.65it/s]  
Processing IKBKB--CHRNA6:  83%|████████▎ | 59/71 [00:06<00:01,  9.64it/s]
Processing IKBKB--THAP1:  83%|████████▎ | 59/71 [00:06<00:01,  9.64it/s] 
Processing IKBKB--THAP1:  85%|████████▍ | 60/71 [00:06<00:01,  9.65it/s]
Processing PCDHA4--PCDHAC1:  85%|████████▍ | 60/71 [00:06<00:01,  9.65it/s]
Processing PCDHA4--PCDHAC1:  86%|████████▌ | 61/71 [00:06<00:01,  9.64it/s]
Processing PCDHA4--PCDHAC2:  86%|████████▌ | 61/71 [00:06<00:01,  9.64it/s]
Processing PCDHA4--PCDHAC2:  87%|████████▋ | 62/71 [00:06<00:00,  9.65it/s]
Processing PCDHA4--PCDHA13:  87%|████████▋ | 62/71 [00:06<00:00,  9.65it/s]
Processing PCDHA4--PCDHA13:  89%|████████▊ | 63/71 [00:06<00:00,  9.65it/s]
Processing SOGA3--KIAA0408:  89%|████████▊ | 63/71 [00:06<00:00,  9.65it/s]
Processing SOGA3--KIAA0408:  90%|█████████ | 64/71 [00:06<00:00,  9.65it/s]
Processing COMMD10--AP3S1:  90%|█████████ | 64/71 [00:06<00:00,  9.65it/s] 
Processing COMMD10--AP3S1:  92%|█████████▏| 65/71 [00:06<00:00,  9.65it/s]
Processing CCDC169--SOHLH2:  92%|█████████▏| 65/71 [00:06<00:00,  9.65it/s]
Processing CCDC169--SOHLH2:  93%|█████████▎| 66/71 [00:06<00:00,  9.65it/s]
Processing KLRC4--KLRK1:  93%|█████████▎| 66/71 [00:06<00:00,  9.65it/s]   
Processing KLRC4--KLRK1:  94%|█████████▍| 67/71 [00:06<00:00,  9.65it/s]
Processing TRIP10--KDM4B:  94%|█████████▍| 67/71 [00:06<00:00,  9.65it/s]
Processing TRIP10--KDM4B:  96%|█████████▌| 68/71 [00:07<00:00,  9.65it/s]
Processing ZNF419--ZNF772:  96%|█████████▌| 68/71 [00:07<00:00,  9.65it/s]
Processing ZNF419--ZNF772:  97%|█████████▋| 69/71 [00:07<00:00,  9.65it/s]
Processing TMEM241--GREB1L:  97%|█████████▋| 69/71 [00:07<00:00,  9.65it/s]
Processing TMEM241--GREB1L:  99%|█████████▊| 70/71 [00:07<00:00,  9.65it/s]
Processing AGAP4--MSRB3:  99%|█████████▊| 70/71 [00:07<00:00,  9.65it/s]   
Processing AGAP4--MSRB3: 100%|██████████| 71/71 [00:07<00:00,  9.65it/s]
Processing AGAP4--MSRB3: 100%|██████████| 71/71 [00:07<00:00,  9.64it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory