.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/c0adca38d71c8d017b352fd95dcdb8/.command.log
Size: 50.8 KB
Task: NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/f920751a7da4650fec29e6af8f8ab4/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1_2.fastp.fastq.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/c0adca38d71c8d017b352fd95dcdb8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6d/8afd0d8dfe2b6b868432a2d17299f2/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1.Chimeric.out.junction
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/c0adca38d71c8d017b352fd95dcdb8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/f920751a7da4650fec29e6af8f8ab4/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1_1.fastp.fastq.gz
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.wVNPoFOMCG/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary
-sample contains 104792775 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir  -J /tmp/nxf.wVNPoFOMCG/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1.Chimeric.out.junction  -O /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.wVNPoFOMCG/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1.Chimeric.out.junction
-building interval tree based on /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

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[1900000], rate=87222.65/min -building interval tree based on /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

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[1880000], rate=84494.38/min -building interval tree based on /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

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[1860000], rate=79092.84/min 
[1870000], rate=78902.95/min 
[1880000], rate=78770.95/min -building interval tree based on /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

[10000], rate=60000.00/min 
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[1870000], rate=68372.94/min 
[1880000], rate=68322.23/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads  -J /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt  --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir  --filt_file /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail  -M 50  > /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass 
-parsing /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt, organizing read mapping info.

 0.00 reads per min processed...  
 12000000.00 reads per min processed...  
 18000000.00 reads per min processed...  
 12000000.00 reads per min processed...  
 15000000.00 reads per min processed...  
 18000000.00 reads per min processed...  
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 16000000.00 reads per min processed...  
 13500000.00 reads per min processed...  
 12000000.00 reads per min processed...  
 11000000.00 reads per min processed...  
 10285714.29 reads per min processed...  
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 9333333.33 reads per min processed...  
 9000000.00 reads per min processed...  
 8727272.73 reads per min processed...  
 8500000.00 reads per min processed...  
 8307692.31 reads per min processed...  
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 8000000.00 reads per min processed...  
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 7666666.67 reads per min processed...  
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 7500000.00 reads per min processed...  
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 6827586.21 reads per min processed...  
 6800000.00 reads per min processed...  
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 7090909.09 reads per min processed...  
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 7000000.00 reads per min processed...  
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 6807692.31 reads per min processed...  
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 6750000.00 reads per min processed...  
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 6724137.93 reads per min processed...  
 6827586.21 reads per min processed...  
done.

* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict  -J /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass  -O /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion 
-parsing fusion evidence: /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter  --fusion_preds /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary  -J /tmp/nxf.wVNPoFOMCG/EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1.Chimeric.out.junction  --tmpdir /tmp  --min_junction_reads 0  --min_sum_frags 1  --require_LDAS 0  --max_promiscuity 10  --min_pct_dom_promiscuity 20  --min_novel_junction_support 1  --min_alt_pct_junction 10  --aggregate_novel_junction_dist 5  --min_spanning_frags_only 1  --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir  --out_prefix /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -98408.023865
EM: Round [1] log likelihood: -98171.725557
EM: Round [2] log likelihood: -98077.328480
EM: Round [3] log likelihood: -98032.107885
EM: Round [4] log likelihood: -98008.329429
EM: Round [5] log likelihood: -97995.063661
EM: Round [6] log likelihood: -97987.306590
EM: Round [7] log likelihood: -97982.572310
EM: Round [8] log likelihood: -97979.564193
EM: Round [9] log likelihood: -97977.580400
EM: Round [10] log likelihood: -97976.227400
EM: Round [11] log likelihood: -97975.276589
EM: Round [12] log likelihood: -97974.590511
EM: Round [13] log likelihood: -97974.083779
EM: Round [14] log likelihood: -97973.701726
EM: Round [15] log likelihood: -97973.408376
EM: Round [16] log likelihood: -97973.179449
EM: Round [17] log likelihood: -97972.998184
EM: Round [18] log likelihood: -97972.852770
EM: Round [19] log likelihood: -97972.734731
EM: Round [20] log likelihood: -97972.637882
EM: Round [21] log likelihood: -97972.557640
EM: Round [22] log likelihood: -97972.490561
EM: Round [23] log likelihood: -97972.434028
EM: Round [24] log likelihood: -97972.386026
EM: Round [25] log likelihood: -97972.344987
EM: Round [26] log likelihood: -97972.309680
EM: Round [27] log likelihood: -97972.279129
EM: Round [28] log likelihood: -97972.252551
EM: Round [29] log likelihood: -97972.229318
EM: Round [30] log likelihood: -97972.208915
EM: Round [31] log likelihood: -97972.190924
EM: Round [32] log likelihood: -97972.174997
EM: Round [33] log likelihood: -97972.160849
EM: Round [34] log likelihood: -97972.148237
EM: Round [35] log likelihood: -97972.136962
EM: Round [36] log likelihood: -97972.126851
EM: Round [37] log likelihood: -97972.117761
EM: Round [38] log likelihood: -97972.109568
EM: Round [39] log likelihood: -97972.102166
EM: Round [40] log likelihood: -97972.095464
EM: Round [41] log likelihood: -97972.089382
EM: Round [42] log likelihood: -97972.083853
EM: Round [43] log likelihood: -97972.078817
EM: Round [44] log likelihood: -97972.074221
EM: Round [45] log likelihood: -97972.070021
EM: Round [46] log likelihood: -97972.066175
EM: Round [47] log likelihood: -97972.062648
EM: Round [48] log likelihood: -97972.059409
EM: Round [49] log likelihood: -97972.056430
EM: Round [50] log likelihood: -97972.053686
EM: Round [51] log likelihood: -97972.051156
EM: Round [52] log likelihood: -97972.048819
EM: Round [53] log likelihood: -97972.046658
EM: Round [54] log likelihood: -97972.044657
EM: Round [55] log likelihood: -97972.042803
EM: Round [56] log likelihood: -97972.041082
EM: Round [57] log likelihood: -97972.039482
EM: Round [58] log likelihood: -97972.037995
EM: Round [59] log likelihood: -97972.036610
EM: Round [60] log likelihood: -97972.035318
EM: Round [61] log likelihood: -97972.034113
EM: Round [62] log likelihood: -97972.032987
EM: Round [63] log likelihood: -97972.031934
EM: Round [64] log likelihood: -97972.030948
EM: Round [65] log likelihood: -97972.030024
EM: Round [66] log likelihood: -97972.029157
EM: Round [67] log likelihood: -97972.028344
EM: Round [68] log likelihood: -97972.027579
EM: Round [69] log likelihood: -97972.026860
EM: Round [70] log likelihood: -97972.026183
EM: Round [71] log likelihood: -97972.025544
EM: Round [72] log likelihood: -97972.024942
EM: Round [73] log likelihood: -97972.024374
EM: Round [74] log likelihood: -97972.023837
EM: Round [75] log likelihood: -97972.023330
EM: Round [76] log likelihood: -97972.022849
EM: Round [77] log likelihood: -97972.022394
EM: Round [78] log likelihood: -97972.021963
EM: Round [79] log likelihood: -97972.021554
EM: Round [80] log likelihood: -97972.021166
EM: Round [81] log likelihood: -97972.020797
EM: Round [82] log likelihood: -97972.020446
EM: Round [83] log likelihood: -97972.020113
EM: Round [84] log likelihood: -97972.019795
EM: Round [85] log likelihood: -97972.019493
EM: Round [86] log likelihood: -97972.019205
EM: Round [87] log likelihood: -97972.018930
EM: Round [88] log likelihood: -97972.018667
EM: Round [89] log likelihood: -97972.018417
EM: Round [90] log likelihood: -97972.018177
EM: Round [91] log likelihood: -97972.017948
EM: Round [92] log likelihood: -97972.017729
EM: Round [93] log likelihood: -97972.017520
EM: Round [94] log likelihood: -97972.017319
EM: Round [95] log likelihood: -97972.017126
EM: Round [96] log likelihood: -97972.016942
EM: Round [97] log likelihood: -97972.016765
EM: Round [98] log likelihood: -97972.016595
EM: Round [99] log likelihood: -97972.016432
EM: Round [100] log likelihood: -97972.016276
EM: Round [101] log likelihood: -97972.016125
EM: Round [102] log likelihood: -97972.015981
EM: Round [103] log likelihood: -97972.015842
EM: Round [104] log likelihood: -97972.015708
EM: Round [105] log likelihood: -97972.015579
EM: Round [106] log likelihood: -97972.015455
EM: Round [107] log likelihood: -97972.015335
EM: Round [108] log likelihood: -97972.015220
EM: Round [109] log likelihood: -97972.015109
EM: Round [110] log likelihood: -97972.015001
EM: Round [111] log likelihood: -97972.014898
EM: Round [112] log likelihood: -97972.014798
EM: Stopping iterations at round 112 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -98326.667764
EM: Round [1] log likelihood: -98121.381012
EM: Round [2] log likelihood: -98043.532115
EM: Round [3] log likelihood: -98007.445353
EM: Round [4] log likelihood: -97988.883209
EM: Round [5] log likelihood: -97978.698187
EM: Round [6] log likelihood: -97972.828717
EM: Round [7] log likelihood: -97969.295393
EM: Round [8] log likelihood: -97967.079114
EM: Round [9] log likelihood: -97965.634484
EM: Round [10] log likelihood: -97964.659214
EM: Round [11] log likelihood: -97963.979796
EM: Round [12] log likelihood: -97963.493137
EM: Round [13] log likelihood: -97963.135915
EM: Round [14] log likelihood: -97962.867997
EM: Round [15] log likelihood: -97962.663209
EM: Round [16] log likelihood: -97962.504023
EM: Round [17] log likelihood: -97962.378418
EM: Round [18] log likelihood: -97962.277973
EM: Round [19] log likelihood: -97962.196672
EM: Round [20] log likelihood: -97962.130144
EM: Round [21] log likelihood: -97962.075164
EM: Round [22] log likelihood: -97962.029316
EM: Round [23] log likelihood: -97961.990766
EM: Round [24] log likelihood: -97961.958110
EM: Round [25] log likelihood: -97961.930255
EM: Round [26] log likelihood: -97961.906345
EM: Round [27] log likelihood: -97961.885702
EM: Round [28] log likelihood: -97961.867785
EM: Round [29] log likelihood: -97961.852158
EM: Round [30] log likelihood: -97961.838465
EM: Round [31] log likelihood: -97961.826418
EM: Round [32] log likelihood: -97961.815777
EM: Round [33] log likelihood: -97961.806345
EM: Round [34] log likelihood: -97961.797955
EM: Round [35] log likelihood: -97961.790470
EM: Round [36] log likelihood: -97961.783773
EM: Round [37] log likelihood: -97961.777763
EM: Round [38] log likelihood: -97961.772357
EM: Round [39] log likelihood: -97961.767481
EM: Round [40] log likelihood: -97961.763074
EM: Round [41] log likelihood: -97961.759082
EM: Round [42] log likelihood: -97961.755458
EM: Round [43] log likelihood: -97961.752162
EM: Round [44] log likelihood: -97961.749158
EM: Round [45] log likelihood: -97961.746415
EM: Round [46] log likelihood: -97961.743906
EM: Round [47] log likelihood: -97961.741607
EM: Round [48] log likelihood: -97961.739497
EM: Round [49] log likelihood: -97961.737557
EM: Round [50] log likelihood: -97961.735771
EM: Round [51] log likelihood: -97961.734123
EM: Round [52] log likelihood: -97961.732602
EM: Round [53] log likelihood: -97961.731194
EM: Round [54] log likelihood: -97961.729891
EM: Round [55] log likelihood: -97961.728681
EM: Round [56] log likelihood: -97961.727558
EM: Round [57] log likelihood: -97961.726513
EM: Round [58] log likelihood: -97961.725540
EM: Round [59] log likelihood: -97961.724632
EM: Round [60] log likelihood: -97961.723784
EM: Round [61] log likelihood: -97961.722991
EM: Round [62] log likelihood: -97961.722248
EM: Round [63] log likelihood: -97961.721552
EM: Round [64] log likelihood: -97961.720899
EM: Round [65] log likelihood: -97961.720285
EM: Round [66] log likelihood: -97961.719707
EM: Round [67] log likelihood: -97961.719164
EM: Round [68] log likelihood: -97961.718651
EM: Round [69] log likelihood: -97961.718167
EM: Round [70] log likelihood: -97961.717709
EM: Round [71] log likelihood: -97961.717277
EM: Round [72] log likelihood: -97961.716867
EM: Round [73] log likelihood: -97961.716479
EM: Round [74] log likelihood: -97961.716111
EM: Round [75] log likelihood: -97961.715761
EM: Round [76] log likelihood: -97961.715428
EM: Round [77] log likelihood: -97961.715112
EM: Round [78] log likelihood: -97961.714811
EM: Round [79] log likelihood: -97961.714525
EM: Round [80] log likelihood: -97961.714251
EM: Round [81] log likelihood: -97961.713990
EM: Round [82] log likelihood: -97961.713741
EM: Round [83] log likelihood: -97961.713503
EM: Round [84] log likelihood: -97961.713275
EM: Round [85] log likelihood: -97961.713057
EM: Round [86] log likelihood: -97961.712848
EM: Round [87] log likelihood: -97961.712648
EM: Round [88] log likelihood: -97961.712456
EM: Round [89] log likelihood: -97961.712272
EM: Round [90] log likelihood: -97961.712095
EM: Round [91] log likelihood: -97961.711926
EM: Round [92] log likelihood: -97961.711763
EM: Round [93] log likelihood: -97961.711606
EM: Round [94] log likelihood: -97961.711455
EM: Round [95] log likelihood: -97961.711310
EM: Round [96] log likelihood: -97961.711170
EM: Round [97] log likelihood: -97961.711035
EM: Round [98] log likelihood: -97961.710905
EM: Round [99] log likelihood: -97961.710780
EM: Round [100] log likelihood: -97961.710659
EM: Round [101] log likelihood: -97961.710542
EM: Round [102] log likelihood: -97961.710430
EM: Round [103] log likelihood: -97961.710321
EM: Round [104] log likelihood: -97961.710216
EM: Round [105] log likelihood: -97961.710115
EM: Round [106] log likelihood: -97961.710016
EM: Stopping iterations at round 106 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20  --fusion_preds /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir 
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter  --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir  --max_promiscuity 10  --min_pct_dom_promiscuity 20 
CMD: cp /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter
CMD: /usr/local/src/STAR-Fusion/util/column_exclusions.pl /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered
* Running CMD: /usr/local/src/STAR-Fusion/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 104792775 > /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM
* Running CMD: /usr/local/src/STAR-Fusion/util/append_breakpoint_junction_info.pl /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir > /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir --annotate /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot
* Running CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/filter_by_annotation_rules.pl --fusions /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir
-done, see /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_likely_RT_artifacts.pl --fusions /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 434, filtered: 4933)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.wVNPoFOMCG/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass.minFFPM.0.00001.pass star-fusion.fusion_predictions.tsv
* Running CMD: /usr/local/src/STAR-Fusion/util/column_exclusions.pl star-fusion.fusion_predictions.tsv JunctionReads,SpanningFrags > star-fusion.fusion_predictions.abridged.tsv
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/util/fusion_to_coding_region_effect.pl  --fusions star-fusion.fusion_predictions.abridged.tsv --genome_lib_dir /tmp/nxf.wVNPoFOMCG/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
WARNING, no entry stored in dbm for [ENSG00000234715.2]
WARNING, no entry stored in dbm for [ENSG00000225265.2]
WARNING, no entry stored in dbm for [ENSG00000240350.3]
WARNING, no entry stored in dbm for [ENSG00000214765.8]
WARNING, no entry stored in dbm for [ENSG00000284130.1]
WARNING, no entry stored in dbm for [ENSG00000237296.9]
WARNING, no entry stored in dbm for [ENSG00000088340.17]
WARNING, no entry stored in dbm for [ENSG00000230510.7]
WARNING, no entry stored in dbm for [ENSG00000237004.4]
WARNING, no entry stored in dbm for [ENSG00000231952.3]
WARNING, no entry stored in dbm for [ENSG00000205231.1]
WARNING, no entry stored in dbm for [ENSG00000279217.1]
WARNING, no entry stored in dbm for [ENSG00000283907.1]
WARNING, no entry stored in dbm for [ENSG00000231875.1]
WARNING, no entry stored in dbm for [ENSG00000255136.3]
WARNING, no entry stored in dbm for [ENSG00000228889.7]
WARNING, no entry stored in dbm for [ENSG00000267226.2]
WARNING, no entry stored in dbm for [ENSG00000200434.1]
WARNING, no entry stored in dbm for [ENSG00000283291.1]
WARNING, no entry stored in dbm for [ENSG00000226049.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000231367.6]
WARNING, no entry stored in dbm for [ENSG00000205634.7]
WARNING, no entry stored in dbm for [ENSG00000277558.1]
WARNING, no entry stored in dbm for [ENSG00000273599.1]
WARNING, no entry stored in dbm for [ENSG00000286953.1]
WARNING, no entry stored in dbm for [ENSG00000255438.2]
WARNING, no entry stored in dbm for [ENSG00000226419.8]
WARNING, no entry stored in dbm for [ENSG00000260034.1]
WARNING, no entry stored in dbm for [ENSG00000227195.11]
WARNING, no entry stored in dbm for [ENSG00000244313.3]
WARNING, no entry stored in dbm for [ENSG00000224861.1]
WARNING, no entry stored in dbm for [ENSG00000235804.2]
WARNING, no entry stored in dbm for [ENSG00000248755.1]
WARNING, no entry stored in dbm for [ENSG00000218300.1]
WARNING, no entry stored in dbm for [ENSG00000213178.3]
WARNING, no entry stored in dbm for [ENSG00000218716.1]
WARNING, no entry stored in dbm for [ENSG00000206888.1]
WARNING, no entry stored in dbm for [ENSG00000231841.1]
WARNING, no entry stored in dbm for [ENSG00000207357.1]
WARNING, no entry stored in dbm for [ENSG00000231841.1]
WARNING, no entry stored in dbm for [ENSG00000206975.1]
WARNING, no entry stored in dbm for [ENSG00000252965.1]
WARNING, no entry stored in dbm for [ENSG00000244392.3]
WARNING, no entry stored in dbm for [ENSG00000276047.1]
WARNING, no entry stored in dbm for [ENSG00000240869.3]
WARNING, no entry stored in dbm for [ENSG00000202058.1]
WARNING, no entry stored in dbm for [ENSG00000202406.1]
WARNING, no entry stored in dbm for [ENSG00000223341.1]
WARNING, no entry stored in dbm for [ENSG00000248100.2]
WARNING, no entry stored in dbm for [ENSG00000284391.1]
WARNING, no entry stored in dbm for [ENSG00000254842.6]
WARNING, no entry stored in dbm for [ENSG00000254842.6]
WARNING, no entry stored in dbm for [ENSG00000257336.1]
WARNING, no entry stored in dbm for [ENSG00000272655.2]
WARNING, no entry stored in dbm for [ENSG00000273792.1]
WARNING, no entry stored in dbm for [ENSG00000261713.6]
WARNING, no entry stored in dbm for [ENSG00000215417.13]
WARNING, no entry stored in dbm for [ENSG00000254400.1]
WARNING, no entry stored in dbm for [ENSG00000247774.7]
WARNING, no entry stored in dbm for [ENSG00000249996.1]
WARNING, no entry stored in dbm for [ENSG00000189223.15]
WARNING, no entry stored in dbm for [ENSG00000255875.2]
WARNING, no entry stored in dbm for [ENSG00000223482.8]
WARNING, no entry stored in dbm for [ENSG00000286907.1]
WARNING, no entry stored in dbm for [ENSG00000241743.4]
WARNING, no entry stored in dbm for [ENSG00000237296.9]
WARNING, no entry stored in dbm for [ENSG00000186301.8]
WARNING, no entry stored in dbm for [ENSG00000214955.5]
WARNING, no entry stored in dbm for [ENSG00000228109.1]
WARNING, no entry stored in dbm for [ENSG00000271013.1]
WARNING, no entry stored in dbm for [ENSG00000254109.6]
WARNING, no entry stored in dbm for [ENSG00000235519.3]
WARNING, no entry stored in dbm for [ENSG00000276131.1]
WARNING, no entry stored in dbm for [ENSG00000231437.3]
WARNING, no entry stored in dbm for [ENSG00000239921.6]
WARNING, no entry stored in dbm for [ENSG00000266979.1]
WARNING, no entry stored in dbm for [ENSG00000228794.10]
WARNING, no entry stored in dbm for [ENSG00000269821.1]
WARNING, no entry stored in dbm for [ENSG00000269821.1]
WARNING, no entry stored in dbm for [ENSG00000250155.2]
WARNING, no entry stored in dbm for [ENSG00000267233.1]
WARNING, no entry stored in dbm for [ENSG00000260689.2]
WARNING, no entry stored in dbm for [ENSG00000267729.1]
WARNING, no entry stored in dbm for [ENSG00000225851.1]
WARNING, no entry stored in dbm for [ENSG00000198237.8]
WARNING, no entry stored in dbm for [ENSG00000234945.8]
WARNING, no entry stored in dbm for [ENSG00000247011.2]
WARNING, no entry stored in dbm for [ENSG00000205333.5]
WARNING, no entry stored in dbm for [ENSG00000249375.8]
WARNING, no entry stored in dbm for [ENSG00000213338.3]
WARNING, no entry stored in dbm for [ENSG00000279647.1]
WARNING, no entry stored in dbm for [ENSG00000257167.2]
WARNING, no entry stored in dbm for [ENSG00000246339.6]
WARNING, no entry stored in dbm for [ENSG00000234152.1]
WARNING, no entry stored in dbm for [ENSG00000229140.11]
WARNING, no entry stored in dbm for [ENSG00000231615.2]
WARNING, no entry stored in dbm for [ENSG00000273297.2]
WARNING, no entry stored in dbm for [ENSG00000275110.1]
WARNING, no entry stored in dbm for [ENSG00000226026.6]
WARNING, no entry stored in dbm for [ENSG00000286551.1]
WARNING, no entry stored in dbm for [ENSG00000230666.5]
WARNING, no entry stored in dbm for [ENSG00000251264.1]
WARNING, no entry stored in dbm for [ENSG00000273599.1]
WARNING, no entry stored in dbm for [ENSG00000198590.12]
WARNING, no entry stored in dbm for [ENSG00000285756.2]
WARNING, no entry stored in dbm for [ENSG00000279021.1]
WARNING, no entry stored in dbm for [ENSG00000229405.1]
WARNING, no entry stored in dbm for [ENSG00000251143.1]
WARNING, no entry stored in dbm for [ENSG00000286643.1]
WARNING, no entry stored in dbm for [ENSG00000285799.1]
WARNING, no entry stored in dbm for [ENSG00000254741.1]
WARNING, no entry stored in dbm for [ENSG00000271931.1]
WARNING, no entry stored in dbm for [ENSG00000230912.1]
WARNING, no entry stored in dbm for [ENSG00000230417.12]
WARNING, no entry stored in dbm for [ENSG00000285062.1]
WARNING, no entry stored in dbm for [ENSG00000275140.1]
WARNING, no entry stored in dbm for [ENSG00000276850.5]
WARNING, no entry stored in dbm for [ENSG00000273598.1]
WARNING, no entry stored in dbm for [ENSG00000286830.1]
WARNING, no entry stored in dbm for [ENSG00000215154.6]
WARNING, no entry stored in dbm for [ENSG00000248447.2]
WARNING, no entry stored in dbm for [ENSG00000279147.1]
WARNING, no entry stored in dbm for [ENSG00000287129.1]
WARNING, no entry stored in dbm for [ENSG00000237877.7]
WARNING, no entry stored in dbm for [ENSG00000273472.1]
WARNING, no entry stored in dbm for [ENSG00000287101.1]
WARNING, no entry stored in dbm for [ENSG00000239268.3]
WARNING, no entry stored in dbm for [ENSG00000265936.1]
WARNING, no entry stored in dbm for [ENSG00000214259.3]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000285592.1]
WARNING, no entry stored in dbm for [ENSG00000259354.5]
WARNING, no entry stored in dbm for [ENSG00000253859.2]
WARNING, no entry stored in dbm for [ENSG00000278797.1]
WARNING, no entry stored in dbm for [ENSG00000283897.2]
WARNING, no entry stored in dbm for [ENSG00000247199.5]
WARNING, no entry stored in dbm for [ENSG00000247199.5]
WARNING, no entry stored in dbm for [ENSG00000225840.2]
WARNING, no entry stored in dbm for [ENSG00000267727.1]
WARNING, no entry stored in dbm for [ENSG00000267727.1]
WARNING, no entry stored in dbm for [ENSG00000267727.1]
WARNING, no entry stored in dbm for [ENSG00000248560.1]
WARNING, no entry stored in dbm for [ENSG00000262202.4]
WARNING, no entry stored in dbm for [ENSG00000273218.1]
WARNING, no entry stored in dbm for [ENSG00000247853.2]
WARNING, no entry stored in dbm for [ENSG00000267243.6]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000284825.1]


	* STAR-Fusion complete.  See output: /tmp/nxf.wVNPoFOMCG/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)