File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/087704318695fe2e7a07675c815021/.command.log
Size
15.4 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (659_buD-T1-TRNA-1_A23MVY2LT4_1)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-bba2394f-ea06-4038-829e-f0bb41c45b0f/67/1d6e211d8f66f1c89f8ec9083ff96d/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/087704318695fe2e7a07675c815021/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/1946abc06372d1ce2c71ede905c1c9/659_buD-T1-TRNA-1_A23MVY2LT4_1.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/087704318695fe2e7a07675c815021/.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/7a/ad4e9cc80efca989276b1c5c22d11e/659_buD-T1-TRNA-1_A23MVY2LT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
ETV6--ATF7IP
starfusion
arriba
MGA--GOLGA8UP
starfusion
arriba
ZNF721--CPLX1
starfusion
arriba
ZNF670--SMYD3
starfusion
arriba
ARID4B--LINC01348
starfusion
MCCC1--ABCC5
starfusion
arriba
PAWR--MSRB3
starfusion
arriba
NFIB--CLCN3P1
starfusion
USP32--KRT34
starfusion
arriba
TLK2--LINC01347
starfusion
TOMM6--AC233266.1
starfusion
ATP8A1--APBB2
starfusion
arriba
TLK2P1--AC110079.1
starfusion
MSRB3--PAWR
starfusion
arriba
ERC1--CCND2
starfusion
MEGF9--GOPC
starfusion
arriba
SLC30A9--APBB2
starfusion
arriba
DMD--AC136489.1
starfusion
arriba
DIP2C--AC069544.1
starfusion
arriba
ATG10--ZCCHC9
starfusion
arriba
HOOK3--MYCL-AS1
starfusion
arriba
CBX1--PRR15L
starfusion
APBB2--LIMCH1
starfusion
SCG5--BAHD1
starfusion
arriba
FBXO25--AC240565.1
starfusion
CYB5R4--SUMF1
starfusion
arriba
KANTR--AC244258.1
starfusion
TGDS--KDM6A
starfusion
ETV6--GNAI2P1
arriba
ETV6--RPL30P11
arriba
PDXDC2P--AF186190.1
arriba
PDXDC2P--ST13P6
arriba
TANC1--TANC1
arriba
KDM4B--MUC16
arriba
KDM4B--BOLA3P2
arriba
NRG1--NRG1
arriba
PDXDC2P--RPL32P20
arriba
SKI--PRKCZ
arriba
MEGF9--NEPNP
arriba
TRIT1--HOOK3
arriba
AC015911.9--SLFN12L
arriba
CHAC1--ISCA1P4
arriba
CHAC1--CHAC1
arriba
STX16--NPEPL1
arriba
DEK--DEK
arriba
DEK--Y_RNA
arriba
PCDHGB2--PCDHGC5
arriba
PCDHGB2--PCDHGA8
arriba
PCDHGB2--PCDHGC4
arriba
PCDHGB2--PCDHGA10
arriba
PCDHGB2--PCDHGB6
arriba
PCDHGB2--PCDHGA11
arriba
PCDHGB2--PCDHGC3
arriba
PCDHGB2--PCDHGB7
arriba
PCDHGB2--PCDHGA9
arriba
PCDHGB2--PCDHGA12
arriba
GALK2--AC023355.1
arriba
FAT2--GLRA1
arriba
AC011374.3--GLRA1
arriba
TVP23C--CDRT4
arriba
ERC1--AC007207.1
arriba
ERC1--CCND2-AS1
arriba
LTBP1--ZNF512
arriba
LIMCH1--GRXCR1
arriba
LIMCH1--AC111198.1
arriba
AC092807.3--DDAH1
arriba
DTL--RGPD5
arriba
SCARA5--AC017053.1
arriba
KLRC4--KLRK1
arriba
DIP2C--HSPA14
arriba
RBM47--AL096861.1
arriba
RBM47--AL009048.1
arriba
RGS4--AL357080.1
arriba
RGS4--AL355596.2
arriba

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Processing ETV6--ATF7IP:   0%|          | 0/74 [00:00<?, ?it/s]
Processing ETV6--ATF7IP:   1%|▏         | 1/74 [00:00<00:07,  9.24it/s]
Processing MGA--GOLGA8UP:   1%|▏         | 1/74 [00:00<00:07,  9.24it/s]
Processing MGA--GOLGA8UP:   3%|▎         | 2/74 [00:00<00:07,  9.47it/s]
Processing ZNF721--CPLX1:   3%|▎         | 2/74 [00:00<00:07,  9.47it/s]
Processing ZNF721--CPLX1:   4%|▍         | 3/74 [00:00<00:07,  9.55it/s]
Processing ZNF670--SMYD3:   4%|▍         | 3/74 [00:00<00:07,  9.55it/s]
Processing ZNF670--SMYD3:   5%|▌         | 4/74 [00:00<00:07,  9.58it/s]
Processing ARID4B--LINC01348:   5%|▌         | 4/74 [00:00<00:07,  9.58it/s]
Processing ARID4B--LINC01348:   7%|▋         | 5/74 [00:00<00:07,  9.60it/s]
Processing MCCC1--ABCC5:   7%|▋         | 5/74 [00:00<00:07,  9.60it/s]     
Processing MCCC1--ABCC5:   8%|▊         | 6/74 [00:00<00:07,  9.61it/s]
Processing PAWR--MSRB3:   8%|▊         | 6/74 [00:00<00:07,  9.61it/s] 
Processing PAWR--MSRB3:   9%|▉         | 7/74 [00:00<00:06,  9.62it/s]
Processing NFIB--CLCN3P1:   9%|▉         | 7/74 [00:00<00:06,  9.62it/s]
Processing NFIB--CLCN3P1:  11%|█         | 8/74 [00:00<00:06,  9.62it/s]
Processing USP32--KRT34:  11%|█         | 8/74 [00:00<00:06,  9.62it/s] 
Processing USP32--KRT34:  12%|█▏        | 9/74 [00:00<00:06,  9.63it/s]
Processing TLK2--LINC01347:  12%|█▏        | 9/74 [00:00<00:06,  9.63it/s]
Processing TLK2--LINC01347:  14%|█▎        | 10/74 [00:01<00:06,  9.63it/s]
Processing TOMM6--AC233266.1:  14%|█▎        | 10/74 [00:01<00:06,  9.63it/s]
Processing TOMM6--AC233266.1:  15%|█▍        | 11/74 [00:01<00:06,  9.63it/s]
Processing ATP8A1--APBB2:  15%|█▍        | 11/74 [00:01<00:06,  9.63it/s]    
Processing ATP8A1--APBB2:  16%|█▌        | 12/74 [00:01<00:06,  9.63it/s]
Processing TLK2P1--AC110079.1:  16%|█▌        | 12/74 [00:01<00:06,  9.63it/s]
Processing TLK2P1--AC110079.1:  18%|█▊        | 13/74 [00:01<00:06,  9.63it/s]
Processing MSRB3--PAWR:  18%|█▊        | 13/74 [00:01<00:06,  9.63it/s]       
Processing MSRB3--PAWR:  19%|█▉        | 14/74 [00:01<00:06,  9.64it/s]
Processing ERC1--CCND2:  19%|█▉        | 14/74 [00:01<00:06,  9.64it/s]
Processing ERC1--CCND2:  20%|██        | 15/74 [00:01<00:06,  9.64it/s]
Processing MEGF9--GOPC:  20%|██        | 15/74 [00:01<00:06,  9.64it/s]
Processing MEGF9--GOPC:  22%|██▏       | 16/74 [00:01<00:06,  9.64it/s]
Processing SLC30A9--APBB2:  22%|██▏       | 16/74 [00:01<00:06,  9.64it/s]
Processing SLC30A9--APBB2:  23%|██▎       | 17/74 [00:01<00:05,  9.64it/s]
Processing DMD--AC136489.1:  23%|██▎       | 17/74 [00:01<00:05,  9.64it/s]
Processing DMD--AC136489.1:  24%|██▍       | 18/74 [00:01<00:05,  9.64it/s]
Processing DIP2C--AC069544.1:  24%|██▍       | 18/74 [00:01<00:05,  9.64it/s]
Processing DIP2C--AC069544.1:  26%|██▌       | 19/74 [00:01<00:05,  9.64it/s]
Processing ATG10--ZCCHC9:  26%|██▌       | 19/74 [00:01<00:05,  9.64it/s]    
Processing ATG10--ZCCHC9:  27%|██▋       | 20/74 [00:02<00:05,  9.64it/s]
Processing HOOK3--MYCL-AS1:  27%|██▋       | 20/74 [00:02<00:05,  9.64it/s]
Processing HOOK3--MYCL-AS1:  28%|██▊       | 21/74 [00:02<00:05,  9.64it/s]
Processing CBX1--PRR15L:  28%|██▊       | 21/74 [00:02<00:05,  9.64it/s]   
Processing CBX1--PRR15L:  30%|██▉       | 22/74 [00:02<00:05,  9.64it/s]
Processing APBB2--LIMCH1:  30%|██▉       | 22/74 [00:02<00:05,  9.64it/s]
Processing APBB2--LIMCH1:  31%|███       | 23/74 [00:02<00:05,  9.64it/s]
Processing SCG5--BAHD1:  31%|███       | 23/74 [00:02<00:05,  9.64it/s]  
Processing SCG5--BAHD1:  32%|███▏      | 24/74 [00:02<00:05,  9.64it/s]
Processing FBXO25--AC240565.1:  32%|███▏      | 24/74 [00:02<00:05,  9.64it/s]
Processing FBXO25--AC240565.1:  34%|███▍      | 25/74 [00:02<00:05,  9.64it/s]
Processing CYB5R4--SUMF1:  34%|███▍      | 25/74 [00:02<00:05,  9.64it/s]     
Processing CYB5R4--SUMF1:  35%|███▌      | 26/74 [00:02<00:04,  9.64it/s]
Processing KANTR--AC244258.1:  35%|███▌      | 26/74 [00:02<00:04,  9.64it/s]
Processing KANTR--AC244258.1:  36%|███▋      | 27/74 [00:02<00:04,  9.64it/s]
Processing TGDS--KDM6A:  36%|███▋      | 27/74 [00:02<00:04,  9.64it/s]      
Processing TGDS--KDM6A:  38%|███▊      | 28/74 [00:02<00:04,  9.64it/s]
Processing ETV6--GNAI2P1:  38%|███▊      | 28/74 [00:02<00:04,  9.64it/s]
Processing ETV6--GNAI2P1:  39%|███▉      | 29/74 [00:03<00:04,  9.64it/s]
Processing ETV6--RPL30P11:  39%|███▉      | 29/74 [00:03<00:04,  9.64it/s]
Processing ETV6--RPL30P11:  41%|████      | 30/74 [00:03<00:04,  9.64it/s]
Processing PDXDC2P--AF186190.1:  41%|████      | 30/74 [00:03<00:04,  9.64it/s]
Processing PDXDC2P--AF186190.1:  42%|████▏     | 31/74 [00:03<00:04,  9.64it/s]
Processing PDXDC2P--ST13P6:  42%|████▏     | 31/74 [00:03<00:04,  9.64it/s]    
Processing PDXDC2P--ST13P6:  43%|████▎     | 32/74 [00:03<00:04,  9.64it/s]
Processing TANC1--TANC1:  43%|████▎     | 32/74 [00:03<00:04,  9.64it/s]   
Processing TANC1--TANC1:  45%|████▍     | 33/74 [00:03<00:04,  9.64it/s]
Processing KDM4B--MUC16:  45%|████▍     | 33/74 [00:03<00:04,  9.64it/s]
Processing KDM4B--MUC16:  46%|████▌     | 34/74 [00:03<00:04,  9.64it/s]
Processing KDM4B--BOLA3P2:  46%|████▌     | 34/74 [00:03<00:04,  9.64it/s]
Processing KDM4B--BOLA3P2:  47%|████▋     | 35/74 [00:03<00:04,  9.64it/s]
Processing NRG1--NRG1:  47%|████▋     | 35/74 [00:03<00:04,  9.64it/s]    
Processing NRG1--NRG1:  49%|████▊     | 36/74 [00:03<00:03,  9.64it/s]
Processing PDXDC2P--RPL32P20:  49%|████▊     | 36/74 [00:03<00:03,  9.64it/s]
Processing PDXDC2P--RPL32P20:  50%|█████     | 37/74 [00:03<00:03,  9.64it/s]
Processing SKI--PRKCZ:  50%|█████     | 37/74 [00:03<00:03,  9.64it/s]       
Processing SKI--PRKCZ:  51%|█████▏    | 38/74 [00:03<00:03,  9.64it/s]
Processing MEGF9--NEPNP:  51%|█████▏    | 38/74 [00:03<00:03,  9.64it/s]
Processing MEGF9--NEPNP:  53%|█████▎    | 39/74 [00:04<00:03,  9.64it/s]
Processing TRIT1--HOOK3:  53%|█████▎    | 39/74 [00:04<00:03,  9.64it/s]
Processing TRIT1--HOOK3:  54%|█████▍    | 40/74 [00:04<00:03,  9.64it/s]
Processing AC015911.9--SLFN12L:  54%|█████▍    | 40/74 [00:04<00:03,  9.64it/s]
Processing AC015911.9--SLFN12L:  55%|█████▌    | 41/74 [00:04<00:03,  9.64it/s]
Processing CHAC1--ISCA1P4:  55%|█████▌    | 41/74 [00:04<00:03,  9.64it/s]     
Processing CHAC1--ISCA1P4:  57%|█████▋    | 42/74 [00:04<00:03,  9.64it/s]
Processing CHAC1--CHAC1:  57%|█████▋    | 42/74 [00:04<00:03,  9.64it/s]  
Processing CHAC1--CHAC1:  58%|█████▊    | 43/74 [00:04<00:03,  9.64it/s]
Processing STX16--NPEPL1:  58%|█████▊    | 43/74 [00:04<00:03,  9.64it/s]
Processing STX16--NPEPL1:  59%|█████▉    | 44/74 [00:04<00:03,  9.64it/s]
Processing DEK--DEK:  59%|█████▉    | 44/74 [00:04<00:03,  9.64it/s]     
Processing DEK--DEK:  61%|██████    | 45/74 [00:04<00:03,  9.64it/s]
Processing DEK--Y_RNA:  61%|██████    | 45/74 [00:04<00:03,  9.64it/s]
Processing DEK--Y_RNA:  62%|██████▏   | 46/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  62%|██████▏   | 46/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC5:  64%|██████▎   | 47/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  64%|██████▎   | 47/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA8:  65%|██████▍   | 48/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  65%|██████▍   | 48/74 [00:04<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC4:  66%|██████▌   | 49/74 [00:05<00:02,  9.63it/s]
Processing PCDHGB2--PCDHGA10:  66%|██████▌   | 49/74 [00:05<00:02,  9.63it/s]
Processing PCDHGB2--PCDHGA10:  68%|██████▊   | 50/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB6:  68%|██████▊   | 50/74 [00:05<00:02,  9.64it/s] 
Processing PCDHGB2--PCDHGB6:  69%|██████▉   | 51/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  69%|██████▉   | 51/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA11:  70%|███████   | 52/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGC3:  70%|███████   | 52/74 [00:05<00:02,  9.64it/s] 
Processing PCDHGB2--PCDHGC3:  72%|███████▏  | 53/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  72%|███████▏  | 53/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGB7:  73%|███████▎  | 54/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA9:  73%|███████▎  | 54/74 [00:05<00:02,  9.64it/s]
Processing PCDHGB2--PCDHGA9:  74%|███████▍  | 55/74 [00:05<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  74%|███████▍  | 55/74 [00:05<00:01,  9.64it/s]
Processing PCDHGB2--PCDHGA12:  76%|███████▌  | 56/74 [00:05<00:01,  9.64it/s]
Processing GALK2--AC023355.1:  76%|███████▌  | 56/74 [00:05<00:01,  9.64it/s]
Processing GALK2--AC023355.1:  77%|███████▋  | 57/74 [00:05<00:01,  9.64it/s]
Processing FAT2--GLRA1:  77%|███████▋  | 57/74 [00:05<00:01,  9.64it/s]      
Processing FAT2--GLRA1:  78%|███████▊  | 58/74 [00:06<00:01,  9.64it/s]
Processing AC011374.3--GLRA1:  78%|███████▊  | 58/74 [00:06<00:01,  9.64it/s]
Processing AC011374.3--GLRA1:  80%|███████▉  | 59/74 [00:06<00:01,  9.64it/s]
Processing TVP23C--CDRT4:  80%|███████▉  | 59/74 [00:06<00:01,  9.64it/s]    
Processing TVP23C--CDRT4:  81%|████████  | 60/74 [00:06<00:01,  9.64it/s]
Processing ERC1--AC007207.1:  81%|████████  | 60/74 [00:06<00:01,  9.64it/s]
Processing ERC1--AC007207.1:  82%|████████▏ | 61/74 [00:06<00:01,  9.64it/s]
Processing ERC1--CCND2-AS1:  82%|████████▏ | 61/74 [00:06<00:01,  9.64it/s] 
Processing ERC1--CCND2-AS1:  84%|████████▍ | 62/74 [00:06<00:01,  9.64it/s]
Processing LTBP1--ZNF512:  84%|████████▍ | 62/74 [00:06<00:01,  9.64it/s]  
Processing LTBP1--ZNF512:  85%|████████▌ | 63/74 [00:06<00:01,  9.64it/s]
Processing LIMCH1--GRXCR1:  85%|████████▌ | 63/74 [00:06<00:01,  9.64it/s]
Processing LIMCH1--GRXCR1:  86%|████████▋ | 64/74 [00:06<00:01,  9.64it/s]
Processing LIMCH1--AC111198.1:  86%|████████▋ | 64/74 [00:06<00:01,  9.64it/s]
Processing LIMCH1--AC111198.1:  88%|████████▊ | 65/74 [00:06<00:00,  9.64it/s]
Processing AC092807.3--DDAH1:  88%|████████▊ | 65/74 [00:06<00:00,  9.64it/s] 
Processing AC092807.3--DDAH1:  89%|████████▉ | 66/74 [00:06<00:00,  9.64it/s]
Processing DTL--RGPD5:  89%|████████▉ | 66/74 [00:06<00:00,  9.64it/s]       
Processing DTL--RGPD5:  91%|█████████ | 67/74 [00:06<00:00,  9.64it/s]
Processing SCARA5--AC017053.1:  91%|█████████ | 67/74 [00:06<00:00,  9.64it/s]
Processing SCARA5--AC017053.1:  92%|█████████▏| 68/74 [00:07<00:00,  9.64it/s]
Processing KLRC4--KLRK1:  92%|█████████▏| 68/74 [00:07<00:00,  9.64it/s]      
Processing KLRC4--KLRK1:  93%|█████████▎| 69/74 [00:07<00:00,  9.64it/s]
Processing DIP2C--HSPA14:  93%|█████████▎| 69/74 [00:07<00:00,  9.64it/s]
Processing DIP2C--HSPA14:  95%|█████████▍| 70/74 [00:07<00:00,  9.64it/s]
Processing RBM47--AL096861.1:  95%|█████████▍| 70/74 [00:07<00:00,  9.64it/s]
Processing RBM47--AL096861.1:  96%|█████████▌| 71/74 [00:07<00:00,  9.64it/s]
Processing RBM47--AL009048.1:  96%|█████████▌| 71/74 [00:07<00:00,  9.64it/s]
Processing RBM47--AL009048.1:  97%|█████████▋| 72/74 [00:07<00:00,  9.64it/s]
Processing RGS4--AL357080.1:  97%|█████████▋| 72/74 [00:07<00:00,  9.64it/s] 
Processing RGS4--AL357080.1:  99%|█████████▊| 73/74 [00:07<00:00,  9.64it/s]
Processing RGS4--AL355596.2:  99%|█████████▊| 73/74 [00:07<00:00,  9.64it/s]
Processing RGS4--AL355596.2: 100%|██████████| 74/74 [00:07<00:00,  9.64it/s]
Processing RGS4--AL355596.2: 100%|██████████| 74/74 [00:07<00:00,  9.63it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory