File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/affa4a10f0af05afab6983ebc42065/.command.log
Size
14.6 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (tih_rna_sample_00596_B23MVV7LT4_1)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/734b293a0f3ad0045bdec9182798c8/tih_rna_sample_00596_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/8d/affa4a10f0af05afab6983ebc42065/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/affa4a10f0af05afab6983ebc42065/.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/9f/1e1ca9a9ce3dbd67b6bebd7f829038/tih_rna_sample_00596_B23MVV7LT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
CNOT2--TPH2
starfusion
arriba
JUP--P3H4
starfusion
arriba
ADAP1--C7orf50
starfusion
arriba
UNC13D--FBF1
starfusion
arriba
MARK4--BRSK1
starfusion
arriba
SPAG9--MBTD1
starfusion
arriba
TMED10--CENPT
starfusion
arriba
AKAP8L--BRD4
starfusion
CLIP2--LAT2
starfusion
arriba
RCOR1--TRAF3
starfusion
arriba
FBXW7--SLC39A8
starfusion
arriba
RBM4B--PDPK1
starfusion
arriba
ADGRF1--TNFRSF21
starfusion
arriba
BPTF--LINC00674
starfusion
RBM4--PDPK1
starfusion
GRIP1--CPSF6
starfusion
ITGB6--RBMS1
starfusion
arriba
CCT2--FRS2
starfusion
CDC42--CELA3B
starfusion
AVL9--DPY19L1P2
starfusion
PRPF8--YWHAE
starfusion
CERS6--NOSTRIN
starfusion
TMEM163--CCNT2-AS1
starfusion
arriba
TLK2P1--AC110079.1
starfusion
GRIP1--NUP107
starfusion
SLC4A7--BSG
starfusion
DCUN1D2--GRTP1
starfusion
arriba
GTF2IRD1--POM121
starfusion
arriba
TLK2--FAM157A
starfusion
arriba
CPD--RIT1
starfusion
arriba
OGT--AC008397.1
starfusion
THADA--AC012409.2
starfusion
arriba
MIA2--AL049828.1
starfusion
LINC02408--GRIP1
starfusion
SLC9A2--IL18RAP
starfusion
arriba
NOTCH2--GNG12
starfusion
NBPF14--GNG12
starfusion
FRS2--LYZ
starfusion
ATXN10--TTC38
starfusion
arriba
COX19--C7orf50
arriba
CNOT2--IRAK3
arriba
TRA2B--VPS8
arriba
TRA2B--C3orf70
arriba
TVP23C--CDRT4
arriba
TMED10--THAP11
arriba
ASPH--TACC2
arriba
OGT--IQCN
arriba
ZNF587--ZSCAN5C
arriba
PAF1--PLEKHG2
arriba
AHCY--AHCY
arriba
AHCY--AL356299.1
arriba
FRS2--GRIP1
arriba
SKIL--PRKCI
arriba
ZNF552--RPS29P30
arriba
ZNF552--LGALS16
arriba
ADCY1--GCK
arriba
SH2D4A--AC100849.1
arriba
STON1--GTF2A1L
arriba
ATP7A--ATRX
arriba
ATP7A--MAGT1
arriba
CPNE3--AC060765.2
arriba
KANSL1--ARL17B
arriba
HELB--GRIP1
arriba
DIAPH3--RIOK3P1
arriba
DIAPH3--RNU6-38P
arriba
RPS6KB1--RNU6-450P
arriba
RPS6KB1--TUBD1
arriba
PLEKHA2--ADAM2
arriba
ANKRD45--ANKRD45
arriba
ANKRD45--KLHL20
arriba

  0%|          | 0/70 [00:00<?, ?it/s]
Processing CNOT2--TPH2:   0%|          | 0/70 [00:00<?, ?it/s]
Processing CNOT2--TPH2:   1%|▏         | 1/70 [00:00<00:07,  9.23it/s]
Processing JUP--P3H4:   1%|▏         | 1/70 [00:00<00:07,  9.23it/s]  
Processing JUP--P3H4:   3%|▎         | 2/70 [00:00<00:07,  9.47it/s]
Processing ADAP1--C7orf50:   3%|▎         | 2/70 [00:00<00:07,  9.47it/s]
Processing ADAP1--C7orf50:   4%|▍         | 3/70 [00:00<00:07,  9.54it/s]
Processing UNC13D--FBF1:   4%|▍         | 3/70 [00:00<00:07,  9.54it/s]  
Processing UNC13D--FBF1:   6%|▌         | 4/70 [00:00<00:06,  9.56it/s]
Processing MARK4--BRSK1:   6%|▌         | 4/70 [00:00<00:06,  9.56it/s]
Processing MARK4--BRSK1:   7%|▋         | 5/70 [00:00<00:06,  9.58it/s]
Processing SPAG9--MBTD1:   7%|▋         | 5/70 [00:00<00:06,  9.58it/s]
Processing SPAG9--MBTD1:   9%|▊         | 6/70 [00:00<00:06,  9.59it/s]
Processing TMED10--CENPT:   9%|▊         | 6/70 [00:00<00:06,  9.59it/s]
Processing TMED10--CENPT:  10%|█         | 7/70 [00:00<00:06,  9.59it/s]
Processing AKAP8L--BRD4:  10%|█         | 7/70 [00:00<00:06,  9.59it/s] 
Processing AKAP8L--BRD4:  11%|█▏        | 8/70 [00:00<00:06,  9.59it/s]
Processing CLIP2--LAT2:  11%|█▏        | 8/70 [00:00<00:06,  9.59it/s] 
Processing CLIP2--LAT2:  13%|█▎        | 9/70 [00:00<00:06,  9.61it/s]
Processing RCOR1--TRAF3:  13%|█▎        | 9/70 [00:00<00:06,  9.61it/s]
Processing RCOR1--TRAF3:  14%|█▍        | 10/70 [00:01<00:06,  9.62it/s]
Processing FBXW7--SLC39A8:  14%|█▍        | 10/70 [00:01<00:06,  9.62it/s]
Processing FBXW7--SLC39A8:  16%|█▌        | 11/70 [00:01<00:06,  9.63it/s]
Processing RBM4B--PDPK1:  16%|█▌        | 11/70 [00:01<00:06,  9.63it/s]  
Processing RBM4B--PDPK1:  17%|█▋        | 12/70 [00:01<00:06,  9.63it/s]
Processing ADGRF1--TNFRSF21:  17%|█▋        | 12/70 [00:01<00:06,  9.63it/s]
Processing ADGRF1--TNFRSF21:  19%|█▊        | 13/70 [00:01<00:05,  9.64it/s]
Processing BPTF--LINC00674:  19%|█▊        | 13/70 [00:01<00:05,  9.64it/s] 
Processing BPTF--LINC00674:  20%|██        | 14/70 [00:01<00:05,  9.64it/s]
Processing RBM4--PDPK1:  20%|██        | 14/70 [00:01<00:05,  9.64it/s]    
Processing RBM4--PDPK1:  21%|██▏       | 15/70 [00:01<00:05,  9.64it/s]
Processing GRIP1--CPSF6:  21%|██▏       | 15/70 [00:01<00:05,  9.64it/s]
Processing GRIP1--CPSF6:  23%|██▎       | 16/70 [00:01<00:05,  9.64it/s]
Processing ITGB6--RBMS1:  23%|██▎       | 16/70 [00:01<00:05,  9.64it/s]
Processing ITGB6--RBMS1:  24%|██▍       | 17/70 [00:01<00:05,  9.64it/s]
Processing CCT2--FRS2:  24%|██▍       | 17/70 [00:01<00:05,  9.64it/s]  
Processing CCT2--FRS2:  26%|██▌       | 18/70 [00:01<00:05,  9.64it/s]
Processing CDC42--CELA3B:  26%|██▌       | 18/70 [00:01<00:05,  9.64it/s]
Processing CDC42--CELA3B:  27%|██▋       | 19/70 [00:01<00:05,  9.64it/s]
Processing AVL9--DPY19L1P2:  27%|██▋       | 19/70 [00:01<00:05,  9.64it/s]
Processing AVL9--DPY19L1P2:  29%|██▊       | 20/70 [00:02<00:05,  9.64it/s]
Processing PRPF8--YWHAE:  29%|██▊       | 20/70 [00:02<00:05,  9.64it/s]   
Processing PRPF8--YWHAE:  30%|███       | 21/70 [00:02<00:05,  9.64it/s]
Processing CERS6--NOSTRIN:  30%|███       | 21/70 [00:02<00:05,  9.64it/s]
Processing CERS6--NOSTRIN:  31%|███▏      | 22/70 [00:02<00:04,  9.64it/s]
Processing TMEM163--CCNT2-AS1:  31%|███▏      | 22/70 [00:02<00:04,  9.64it/s]
Processing TMEM163--CCNT2-AS1:  33%|███▎      | 23/70 [00:02<00:04,  9.63it/s]
Processing TLK2P1--AC110079.1:  33%|███▎      | 23/70 [00:02<00:04,  9.63it/s]
Processing TLK2P1--AC110079.1:  34%|███▍      | 24/70 [00:02<00:04,  9.61it/s]
Processing GRIP1--NUP107:  34%|███▍      | 24/70 [00:02<00:04,  9.61it/s]     
Processing GRIP1--NUP107:  36%|███▌      | 25/70 [00:02<00:04,  9.61it/s]
Processing SLC4A7--BSG:  36%|███▌      | 25/70 [00:02<00:04,  9.61it/s]  
Processing SLC4A7--BSG:  37%|███▋      | 26/70 [00:02<00:04,  9.61it/s]
Processing DCUN1D2--GRTP1:  37%|███▋      | 26/70 [00:02<00:04,  9.61it/s]
Processing DCUN1D2--GRTP1:  39%|███▊      | 27/70 [00:02<00:04,  9.60it/s]
Processing GTF2IRD1--POM121:  39%|███▊      | 27/70 [00:02<00:04,  9.60it/s]
Processing GTF2IRD1--POM121:  40%|████      | 28/70 [00:02<00:04,  9.60it/s]
Processing TLK2--FAM157A:  40%|████      | 28/70 [00:02<00:04,  9.60it/s]   
Processing TLK2--FAM157A:  41%|████▏     | 29/70 [00:03<00:04,  9.59it/s]
Processing CPD--RIT1:  41%|████▏     | 29/70 [00:03<00:04,  9.59it/s]    
Processing CPD--RIT1:  43%|████▎     | 30/70 [00:03<00:04,  9.59it/s]
Processing OGT--AC008397.1:  43%|████▎     | 30/70 [00:03<00:04,  9.59it/s]
Processing OGT--AC008397.1:  44%|████▍     | 31/70 [00:03<00:04,  9.59it/s]
Processing THADA--AC012409.2:  44%|████▍     | 31/70 [00:03<00:04,  9.59it/s]
Processing THADA--AC012409.2:  46%|████▌     | 32/70 [00:03<00:03,  9.59it/s]
Processing MIA2--AL049828.1:  46%|████▌     | 32/70 [00:03<00:03,  9.59it/s] 
Processing MIA2--AL049828.1:  47%|████▋     | 33/70 [00:03<00:03,  9.59it/s]
Processing LINC02408--GRIP1:  47%|████▋     | 33/70 [00:03<00:03,  9.59it/s]
Processing LINC02408--GRIP1:  49%|████▊     | 34/70 [00:03<00:03,  9.59it/s]
Processing SLC9A2--IL18RAP:  49%|████▊     | 34/70 [00:03<00:03,  9.59it/s] 
Processing SLC9A2--IL18RAP:  50%|█████     | 35/70 [00:03<00:03,  9.59it/s]
Processing NOTCH2--GNG12:  50%|█████     | 35/70 [00:03<00:03,  9.59it/s]  
Processing NOTCH2--GNG12:  51%|█████▏    | 36/70 [00:03<00:03,  9.59it/s]
Processing NBPF14--GNG12:  51%|█████▏    | 36/70 [00:03<00:03,  9.59it/s]
Processing NBPF14--GNG12:  53%|█████▎    | 37/70 [00:03<00:03,  9.60it/s]
Processing FRS2--LYZ:  53%|█████▎    | 37/70 [00:03<00:03,  9.60it/s]    
Processing FRS2--LYZ:  54%|█████▍    | 38/70 [00:03<00:03,  9.60it/s]
Processing ATXN10--TTC38:  54%|█████▍    | 38/70 [00:03<00:03,  9.60it/s]
Processing ATXN10--TTC38:  56%|█████▌    | 39/70 [00:04<00:03,  9.59it/s]
Processing COX19--C7orf50:  56%|█████▌    | 39/70 [00:04<00:03,  9.59it/s]
Processing COX19--C7orf50:  57%|█████▋    | 40/70 [00:04<00:03,  9.60it/s]
Processing CNOT2--IRAK3:  57%|█████▋    | 40/70 [00:04<00:03,  9.60it/s]  
Processing CNOT2--IRAK3:  59%|█████▊    | 41/70 [00:04<00:03,  9.59it/s]
Processing TRA2B--VPS8:  59%|█████▊    | 41/70 [00:04<00:03,  9.59it/s] 
Processing TRA2B--VPS8:  60%|██████    | 42/70 [00:04<00:02,  9.59it/s]
Processing TRA2B--C3orf70:  60%|██████    | 42/70 [00:04<00:02,  9.59it/s]
Processing TRA2B--C3orf70:  61%|██████▏   | 43/70 [00:04<00:02,  9.59it/s]
Processing TVP23C--CDRT4:  61%|██████▏   | 43/70 [00:04<00:02,  9.59it/s] 
Processing TVP23C--CDRT4:  63%|██████▎   | 44/70 [00:04<00:02,  9.60it/s]
Processing TMED10--THAP11:  63%|██████▎   | 44/70 [00:04<00:02,  9.60it/s]
Processing TMED10--THAP11:  64%|██████▍   | 45/70 [00:04<00:02,  9.60it/s]
Processing ASPH--TACC2:  64%|██████▍   | 45/70 [00:04<00:02,  9.60it/s]   
Processing ASPH--TACC2:  66%|██████▌   | 46/70 [00:04<00:02,  9.61it/s]
Processing OGT--IQCN:  66%|██████▌   | 46/70 [00:04<00:02,  9.61it/s]  
Processing OGT--IQCN:  67%|██████▋   | 47/70 [00:04<00:02,  9.62it/s]
Processing ZNF587--ZSCAN5C:  67%|██████▋   | 47/70 [00:04<00:02,  9.62it/s]
Processing ZNF587--ZSCAN5C:  69%|██████▊   | 48/70 [00:04<00:02,  9.63it/s]
Processing PAF1--PLEKHG2:  69%|██████▊   | 48/70 [00:05<00:02,  9.63it/s]  
Processing PAF1--PLEKHG2:  70%|███████   | 49/70 [00:05<00:02,  9.64it/s]
Processing AHCY--AHCY:  70%|███████   | 49/70 [00:05<00:02,  9.64it/s]   
Processing AHCY--AHCY:  71%|███████▏  | 50/70 [00:05<00:02,  9.64it/s]
Processing AHCY--AL356299.1:  71%|███████▏  | 50/70 [00:05<00:02,  9.64it/s]
Processing AHCY--AL356299.1:  73%|███████▎  | 51/70 [00:05<00:01,  9.64it/s]
Processing FRS2--GRIP1:  73%|███████▎  | 51/70 [00:05<00:01,  9.64it/s]     
Processing FRS2--GRIP1:  74%|███████▍  | 52/70 [00:05<00:01,  9.64it/s]
Processing SKIL--PRKCI:  74%|███████▍  | 52/70 [00:05<00:01,  9.64it/s]
Processing SKIL--PRKCI:  76%|███████▌  | 53/70 [00:05<00:01,  9.64it/s]
Processing ZNF552--RPS29P30:  76%|███████▌  | 53/70 [00:05<00:01,  9.64it/s]
Processing ZNF552--RPS29P30:  77%|███████▋  | 54/70 [00:05<00:01,  9.64it/s]
Processing ZNF552--LGALS16:  77%|███████▋  | 54/70 [00:05<00:01,  9.64it/s] 
Processing ZNF552--LGALS16:  79%|███████▊  | 55/70 [00:05<00:01,  9.65it/s]
Processing ADCY1--GCK:  79%|███████▊  | 55/70 [00:05<00:01,  9.65it/s]     
Processing ADCY1--GCK:  80%|████████  | 56/70 [00:05<00:01,  9.65it/s]
Processing SH2D4A--AC100849.1:  80%|████████  | 56/70 [00:05<00:01,  9.65it/s]
Processing SH2D4A--AC100849.1:  81%|████████▏ | 57/70 [00:05<00:01,  9.65it/s]
Processing STON1--GTF2A1L:  81%|████████▏ | 57/70 [00:05<00:01,  9.65it/s]    
Processing STON1--GTF2A1L:  83%|████████▎ | 58/70 [00:06<00:01,  9.65it/s]
Processing ATP7A--ATRX:  83%|████████▎ | 58/70 [00:06<00:01,  9.65it/s]   
Processing ATP7A--ATRX:  84%|████████▍ | 59/70 [00:06<00:01,  9.65it/s]
Processing ATP7A--MAGT1:  84%|████████▍ | 59/70 [00:06<00:01,  9.65it/s]
Processing ATP7A--MAGT1:  86%|████████▌ | 60/70 [00:06<00:01,  9.65it/s]
Processing CPNE3--AC060765.2:  86%|████████▌ | 60/70 [00:06<00:01,  9.65it/s]
Processing CPNE3--AC060765.2:  87%|████████▋ | 61/70 [00:06<00:00,  9.65it/s]
Processing KANSL1--ARL17B:  87%|████████▋ | 61/70 [00:06<00:00,  9.65it/s]   
Processing KANSL1--ARL17B:  89%|████████▊ | 62/70 [00:06<00:00,  9.65it/s]
Processing HELB--GRIP1:  89%|████████▊ | 62/70 [00:06<00:00,  9.65it/s]   
Processing HELB--GRIP1:  90%|█████████ | 63/70 [00:06<00:00,  9.65it/s]
Processing DIAPH3--RIOK3P1:  90%|█████████ | 63/70 [00:06<00:00,  9.65it/s]
Processing DIAPH3--RIOK3P1:  91%|█████████▏| 64/70 [00:06<00:00,  9.65it/s]
Processing DIAPH3--RNU6-38P:  91%|█████████▏| 64/70 [00:06<00:00,  9.65it/s]
Processing DIAPH3--RNU6-38P:  93%|█████████▎| 65/70 [00:06<00:00,  9.64it/s]
Processing RPS6KB1--RNU6-450P:  93%|█████████▎| 65/70 [00:06<00:00,  9.64it/s]
Processing RPS6KB1--RNU6-450P:  94%|█████████▍| 66/70 [00:06<00:00,  9.64it/s]
Processing RPS6KB1--TUBD1:  94%|█████████▍| 66/70 [00:06<00:00,  9.64it/s]    
Processing RPS6KB1--TUBD1:  96%|█████████▌| 67/70 [00:06<00:00,  9.64it/s]
Processing PLEKHA2--ADAM2:  96%|█████████▌| 67/70 [00:06<00:00,  9.64it/s]
Processing PLEKHA2--ADAM2:  97%|█████████▋| 68/70 [00:07<00:00,  9.63it/s]
Processing ANKRD45--ANKRD45:  97%|█████████▋| 68/70 [00:07<00:00,  9.63it/s]
Processing ANKRD45--ANKRD45:  99%|█████████▊| 69/70 [00:07<00:00,  9.63it/s]
Processing ANKRD45--KLHL20:  99%|█████████▊| 69/70 [00:07<00:00,  9.63it/s] 
Processing ANKRD45--KLHL20: 100%|██████████| 70/70 [00:07<00:00,  9.62it/s]
Processing ANKRD45--KLHL20: 100%|██████████| 70/70 [00:07<00:00,  9.62it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory