-ctat genome lib [/tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.2KRvRuK8kC/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary
-sample contains 172931109 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir -J /tmp/nxf.2KRvRuK8kC/BVT_FFPE_TRNA_stm_08_A23WKFTLT4_3.Chimeric.out.junction -O /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4
-parsing fusion evidence: /tmp/nxf.2KRvRuK8kC/BVT_FFPE_TRNA_stm_08_A23WKFTLT4_3.Chimeric.out.junction
-building interval tree based on /tmp/nxf.2KRvRuK8kC/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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[1730000], rate=84116.69/min -building interval tree based on /tmp/nxf.2KRvRuK8kC/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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[1740000], rate=79938.74/min -building interval tree based on /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.07 min).
-mapping reads to genes
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[1720000], rate=70108.70/min -building interval tree based on /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
[10000], rate=120000.00/min
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[360000], rate=106930.69/min
[370000], rate=100000.00/min
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[440000], rate=71544.72/min
[450000], rate=69053.71/min
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[1720000], rate=66153.85/min
[1730000], rate=66198.98/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads -J /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir --filt_file /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail -M 50 > /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-parsing /tmp/nxf.2KRvRuK8kC/./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...
9000000.00 reads per min processed...
6000000.00 reads per min processed...
4285714.29 reads per min processed...
4000000.00 reads per min processed...
3818181.82 reads per min processed...
3692307.69 reads per min processed...
3600000.00 reads per min processed...
3529411.76 reads per min processed...
3473684.21 reads per min processed...
3428571.43 reads per min processed...
3391304.35 reads per min processed...
3360000.00 reads per min processed...
3214285.71 reads per min processed...
3200000.00 reads per min processed...
3090909.09 reads per min processed...
3085714.29 reads per min processed...
3000000.00 reads per min processed...
3000000.00 reads per min processed...
3000000.00 reads per min processed...
3069767.44 reads per min processed...
3000000.00 reads per min processed...
3000000.00 reads per min processed...
3061224.49 reads per min processed...
3058823.53 reads per min processed...
3056603.77 reads per min processed...
3054545.45 reads per min processed...
3107142.86 reads per min processed...
3050847.46 reads per min processed...
3049180.33 reads per min processed...
3047619.05 reads per min processed...
3046153.85 reads per min processed...
3044776.12 reads per min processed...
3043478.26 reads per min processed...
3085714.29 reads per min processed...
3126760.56 reads per min processed...
3166666.67 reads per min processed...
3120000.00 reads per min processed...
3116883.12 reads per min processed...
3113924.05 reads per min processed...
3073170.73 reads per min processed...
3071428.57 reads per min processed...
3069767.44 reads per min processed...
3033707.87 reads per min processed...
3032967.03 reads per min processed...
3032258.06 reads per min processed...
3031578.95 reads per min processed...
3000000.00 reads per min processed...
3000000.00 reads per min processed...
3000000.00 reads per min processed...
2971428.57 reads per min processed...
2971962.62 reads per min processed...
2945454.55 reads per min processed...
2946428.57 reads per min processed...
2947368.42 reads per min processed...
done.
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict -J /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -O /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion
-parsing fusion evidence: /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter --fusion_preds /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary -J /tmp/nxf.2KRvRuK8kC/BVT_FFPE_TRNA_stm_08_A23WKFTLT4_3.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.2KRvRuK8kC/ctat_genome_lib_build_dir --out_prefix /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -143220.459054
EM: Round [1] log likelihood: -143107.892212
EM: Round [2] log likelihood: -143065.770515
EM: Round [3] log likelihood: -143045.888824
EM: Round [4] log likelihood: -143035.535729
EM: Round [5] log likelihood: -143029.850675
EM: Round [6] log likelihood: -143026.590219
EM: Round [7] log likelihood: -143024.635798
EM: Round [8] log likelihood: -143023.409518
EM: Round [9] log likelihood: -143022.604617
EM: Round [10] log likelihood: -143022.053476
EM: Round [11] log likelihood: -143021.661506
EM: Round [12] log likelihood: -143021.373441
EM: Round [13] log likelihood: -143021.155808
EM: Round [14] log likelihood: -143020.987589
EM: Round [15] log likelihood: -143020.855113
EM: Round [16] log likelihood: -143020.749186
EM: Round [17] log likelihood: -143020.663430
EM: Round [18] log likelihood: -143020.593295
EM: Round [19] log likelihood: -143020.535453
EM: Round [20] log likelihood: -143020.487411
EM: Round [21] log likelihood: -143020.447272
EM: Round [22] log likelihood: -143020.413562
EM: Round [23] log likelihood: -143020.385122
EM: Round [24] log likelihood: -143020.361031
EM: Round [25] log likelihood: -143020.340544
EM: Round [26] log likelihood: -143020.323061
EM: Round [27] log likelihood: -143020.308087
EM: Round [28] log likelihood: -143020.295219
EM: Round [29] log likelihood: -143020.284122
EM: Round [30] log likelihood: -143020.274517
EM: Round [31] log likelihood: -143020.266173
EM: Round [32] log likelihood: -143020.258898
EM: Round [33] log likelihood: -143020.252529
EM: Round [34] log likelihood: -143020.246931
EM: Round [35] log likelihood: -143020.241990
EM: Round [36] log likelihood: -143020.237609
EM: Round [37] log likelihood: -143020.233709
EM: Round [38] log likelihood: -143020.230220
EM: Round [39] log likelihood: -143020.227085
EM: Round [40] log likelihood: -143020.224254
EM: Round [41] log likelihood: -143020.221687
EM: Round [42] log likelihood: -143020.219347
EM: Round [43] log likelihood: -143020.217206
EM: Round [44] log likelihood: -143020.215237
EM: Round [45] log likelihood: -143020.213418
EM: Round [46] log likelihood: -143020.211732
EM: Round [47] log likelihood: -143020.210161
EM: Round [48] log likelihood: -143020.208692
EM: Round [49] log likelihood: -143020.207314
EM: Round [50] log likelihood: -143020.206016
EM: Round [51] log likelihood: -143020.204791
EM: Round [52] log likelihood: -143020.203629
EM: Round [53] log likelihood: -143020.202526
EM: Round [54] log likelihood: -143020.201474
EM: Round [55] log likelihood: -143020.200470
EM: Round [56] log likelihood: -143020.199510
EM: Round [57] log likelihood: -143020.198589
EM: Round [58] log likelihood: -143020.197704
EM: Round [59] log likelihood: -143020.196853
EM: Round [60] log likelihood: -143020.196033
EM: Round [61] log likelihood: -143020.195242
EM: Round [62] log likelihood: -143020.194479
EM: Round [63] log likelihood: -143020.193741
EM: Round [64] log likelihood: -143020.193027
EM: Round [65] log likelihood: -143020.192336
EM: Round [66] log likelihood: -143020.191666
EM: Round [67] log likelihood: -143020.191017
EM: Round [68] log likelihood: -143020.190388
EM: Round [69] log likelihood: -143020.189777
EM: Round [70] log likelihood: -143020.189185
EM: Round [71] log likelihood: -143020.188609
EM: Round [72] log likelihood: -143020.188050
EM: Round [73] log likelihood: -143020.187508
EM: Round [74] log likelihood: -143020.186981
EM: Round [75] log likelihood: -143020.186469
EM: Round [76] log likelihood: -143020.185971
EM: Round [77] log likelihood: -143020.185487
EM: Round [78] log likelihood: -143020.185018
EM: Round [79] log likelihood: -143020.184561
EM: Round [80] log likelihood: -143020.184117
EM: Round [81] log likelihood: -143020.183686
EM: Round [82] log likelihood: -143020.183267
EM: Round [83] log likelihood: -143020.182860
EM: Round [84] log likelihood: -143020.182465
EM: Round [85] log likelihood: -143020.182080
EM: Round [86] log likelihood: -143020.181707
EM: Round [87] log likelihood: -143020.181344
EM: Round [88] log likelihood: -143020.180992
EM: Round [89] log likelihood: -143020.180650
EM: Round [90] log likelihood: -143020.180317
EM: Round [91] log likelihood: -143020.179995
EM: Round [92] log likelihood: -143020.179681
EM: Round [93] log likelihood: -143020.179377
EM: Round [94] log likelihood: -143020.179081
EM: Round [95] log likelihood: -143020.178794
EM: Round [96] log likelihood: -143020.178516
EM: Round [97] log likelihood: -143020.178245
EM: Round [98] log likelihood: -143020.177983
EM: Round [99] log likelihood: -143020.177728
EM: Round [100] log likelihood: -143020.177481
EM: Round [101] log likelihood: -143020.177241
EM: Round [102] log likelihood: -143020.177008
EM: Round [103] log likelihood: -143020.176782
EM: Round [104] log likelihood: -143020.176563
EM: Round [105] log likelihood: -143020.176351
EM: Round [106] log likelihood: -143020.176144
EM: Round [107] log likelihood: -143020.175944
EM: Round [108] log likelihood: -143020.175750
EM: Round [109] log likelihood: -143020.175562
EM: Round [110] log likelihood: -143020.175380
EM: Round [111] log likelihood: -143020.175203
EM: Round [112] log likelihood: -143020.175031
EM: Round [113] log likelihood: -143020.174864
EM: Round [114] log likelihood: -143020.174703
EM: Round [115] log likelihood: -143020.174546
EM: Round [116] log likelihood: -143020.174395
EM: Round [117] log likelihood: -143020.174248
EM: Round [118] log likelihood: -143020.174105
EM: Round [119] log likelihood: -143020.173967
EM: Round [120] log likelihood: -143020.173832
EM: Round [121] log likelihood: -143020.173702
EM: Round [122] log likelihood: -143020.173576
EM: Round [123] log likelihood: -143020.173454
EM: Round [124] log likelihood: -143020.173336
EM: Round [125] log likelihood: -143020.173221
EM: Round [126] log likelihood: -143020.173110
EM: Round [127] log likelihood: -143020.173002
EM: Round [128] log likelihood: -143020.172897
EM: Round [129] log likelihood: -143020.172796
EM: Round [130] log likelihood: -143020.172698
EM: Stopping iterations at round 130 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -143136.290389
EM: Round [1] log likelihood: -143040.255434
EM: Round [2] log likelihood: -143005.085242
EM: Round [3] log likelihood: -142988.941019
EM: Round [4] log likelihood: -142980.705320
EM: Round [5] log likelihood: -142976.237358
EM: Round [6] log likelihood: -142973.689072
EM: Round [7] log likelihood: -142972.162670
EM: Round [8] log likelihood: -142971.202233
EM: Round [9] log likelihood: -142970.568371
EM: Round [10] log likelihood: -142970.131178
EM: Round [11] log likelihood: -142969.817650
EM: Round [12] log likelihood: -142969.585221
EM: Round [13] log likelihood: -142969.408112
EM: Round [14] log likelihood: -142969.270109
EM: Round [15] log likelihood: -142969.160625
EM: Round [16] log likelihood: -142969.072504
EM: Round [17] log likelihood: -142969.000750
EM: Round [18] log likelihood: -142968.941773
EM: Round [19] log likelihood: -142968.892922
EM: Round [20] log likelihood: -142968.852200
EM: Round [21] log likelihood: -142968.818072
EM: Round [22] log likelihood: -142968.789336
EM: Round [23] log likelihood: -142968.765043
EM: Round [24] log likelihood: -142968.744428
EM: Round [25] log likelihood: -142968.726875
EM: Round [26] log likelihood: -142968.711880
EM: Round [27] log likelihood: -142968.699028
EM: Round [28] log likelihood: -142968.687978
EM: Round [29] log likelihood: -142968.678446
EM: Round [30] log likelihood: -142968.670197
EM: Round [31] log likelihood: -142968.663032
EM: Round [32] log likelihood: -142968.656787
EM: Round [33] log likelihood: -142968.651324
EM: Round [34] log likelihood: -142968.646526
EM: Round [35] log likelihood: -142968.642294
EM: Round [36] log likelihood: -142968.638547
EM: Round [37] log likelihood: -142968.635215
EM: Round [38] log likelihood: -142968.632238
EM: Round [39] log likelihood: -142968.629567
EM: Round [40] log likelihood: -142968.627159
EM: Round [41] log likelihood: -142968.624978
EM: Round [42] log likelihood: -142968.622995
EM: Round [43] log likelihood: -142968.621182
EM: Round [44] log likelihood: -142968.619518
EM: Round [45] log likelihood: -142968.617984
EM: Round [46] log likelihood: -142968.616563
EM: Round [47] log likelihood: -142968.615243
EM: Round [48] log likelihood: -142968.614010
EM: Round [49] log likelihood: -142968.612856
EM: Round [50] log likelihood: -142968.611771
EM: Round [51] log likelihood: -142968.610747
EM: Round [52] log likelihood: -142968.609779
EM: Round [53] log likelihood: -142968.608860
EM: Round [54] log likelihood: -142968.607986
EM: Round [55] log likelihood: -142968.607153
EM: Round [56] log likelihood: -142968.606357
EM: Round [57] log likelihood: -142968.605594
EM: Round [58] log likelihood: -142968.604863
EM: Round [59] log likelihood: -142968.604161
EM: Round [60] log likelihood: -142968.603485
EM: Round [61] log likelihood: -142968.602834
EM: Round [62] log likelihood: -142968.602205
EM: Round [63] log likelihood: -142968.601599
EM: Round [64] log likelihood: -142968.601013
EM: Round [65] log likelihood: -142968.600446
EM: Round [66] log likelihood: -142968.599897
EM: Round [67] log likelihood: -142968.599366
EM: Round [68] log likelihood: -142968.598851
EM: Round [69] log likelihood: -142968.598352
EM: Round [70] log likelihood: -142968.597868
EM: Round [71] log likelihood: -142968.597398
EM: Round [72] log likelihood: -142968.596942
EM: Round [73] log likelihood: -142968.596500
EM: Round [74] log likelihood: -142968.596070
EM: Round [75] log likelihood: -142968.595653
EM: Round [76] log likelihood: -142968.595247
EM: Round [77] log likelihood: -142968.594854
EM: Round [78] log likelihood: -142968.594471
EM: Round [79] log likelihood: -142968.594100
EM: Round [80] log likelihood: -142968.593739
EM: Round [81] log likelihood: -142968.593388
EM: Round [82] log likelihood: -142968.593047
EM: Round [83] log likelihood: -142968.592716
EM: Round [84] log likelihood: -142968.592395
EM: Round [85] log likelihood: -142968.592082
EM: Round [86] log likelihood: -142968.591778
EM: Round [87] log likelihood: -142968.591483
EM: Round [88] log likelihood: -142968.591197
EM: Round [89] log likelihood: -142968.590918
EM: Round [90] log likelihood: -142968.590648
EM: Round [91] log likelihood: -142968.590385
EM: Round [92] log likelihood: -142968.590130
EM: Round [93] log likelihood: -142968.589882
EM: Round [94] log likelihood: -142968.589641
EM: Round [95] log likelihood: -142968.589407
EM: Round [96] log likelihood: -142968.589180
EM: Round [97] log likelihood: -142968.588959
EM: Round [98] log likelihood: -142968.588745
EM: Round [99] log likelihood: -142968.588537
EM: Round [100] log likelihood: -142968.588335
EM: Round [101] log likelihood: -142968.588139
EM: Round [102] log likelihood: -142968.587949
EM: Round [103] log likelihood: -142968.587764
EM: Round [104] log likelihood: -142968.587585
EM: Round [105] log likelihood: -142968.587411
EM: Round [106] log likelihood: -142968.587242
EM: Round [107] log likelihood: -142968.587079
EM: Round [108] log likelihood: -142968.586920
EM: Round [109] log likelihood: -142968.586765
EM: Round [110] log likelihood: -142968.586615
EM: Round [111] log likelihood: -142968.586470
EM: Round [112] log likelihood: -142968.586329
EM: Round [113] log likelihood: -142968.586192
EM: Round [114] log likelihood: -142968.586060
EM: Round [115] log likelihood: -142968.585931
EM: Round [116] log likelihood: -142968.585806
EM: Round [117] log likelihood: -142968.585685
EM: Round [118] log likelihood: -142968.585568
EM: Round [119] log likelihood: -142968.585454
EM: Round [120] log likelihood: -142968.585343
EM: Round [121] log likelihood: -142968.585236
EM: Round [122] log likelihood: -142968.585132
EM: Round [123] log likelihood: -142968.585031
EM: Round [124] log likelihood: -142968.584933
EM: Stopping iterations at round 124 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20 --fusion_preds /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 20
CMD: cp /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 172931109 > /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir > /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir --annotate /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir
-done, see /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.2KRvRuK8kC/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 1145, filtered: 7827)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.2KRvRuK8kC/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.2KRvRuK8kC/./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.2KRvRuK8kC/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
WARNING, no entry stored in dbm for [IGH.g@-ext]
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WARNING, no entry stored in dbm for [IGL-.g@-ext]
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WARNING, no entry stored in dbm for [ENSG00000246203.2]
WARNING, no entry stored in dbm for [ENSG00000230074.3]
WARNING, no entry stored in dbm for [ENSG00000226842.1]
WARNING, no entry stored in dbm for [ENSG00000236777.1]
WARNING, no entry stored in dbm for [ENSG00000224858.5]
WARNING, no entry stored in dbm for [ENSG00000283773.1]
WARNING, no entry stored in dbm for [ENSG00000287449.1]
WARNING, no entry stored in dbm for [ENSG00000283078.1]
WARNING, no entry stored in dbm for [ENSG00000227220.1]
WARNING, no entry stored in dbm for [ENSG00000236166.1]
WARNING, no entry stored in dbm for [ENSG00000224271.7]
WARNING, no entry stored in dbm for [ENSG00000227486.2]
WARNING, no entry stored in dbm for [ENSG00000288543.1]
WARNING, no entry stored in dbm for [ENSG00000260702.3]
WARNING, no entry stored in dbm for [ENSG00000188681.11]
WARNING, no entry stored in dbm for [ENSG00000232600.3]
WARNING, no entry stored in dbm for [ENSG00000230869.1]
WARNING, no entry stored in dbm for [ENSG00000272140.2]
WARNING, no entry stored in dbm for [ENSG00000224016.2]
WARNING, no entry stored in dbm for [ENSG00000259591.2]
WARNING, no entry stored in dbm for [ENSG00000287979.1]
WARNING, no entry stored in dbm for [ENSG00000279047.4]
WARNING, no entry stored in dbm for [ENSG00000277089.4]
WARNING, no entry stored in dbm for [ENSG00000284964.1]
WARNING, no entry stored in dbm for [ENSG00000284964.1]
WARNING, no entry stored in dbm for [ENSG00000261499.2]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000246465.1]
WARNING, no entry stored in dbm for [ENSG00000257322.6]
WARNING, no entry stored in dbm for [ENSG00000256663.1]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000242479.1]
WARNING, no entry stored in dbm for [ENSG00000224479.6]
WARNING, no entry stored in dbm for [ENSG00000286436.1]
WARNING, no entry stored in dbm for [ENSG00000241860.7]
WARNING, no entry stored in dbm for [ENSG00000272202.1]
WARNING, no entry stored in dbm for [ENSG00000279749.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000285331.2]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000204745.4]
WARNING, no entry stored in dbm for [ENSG00000227061.2]
WARNING, no entry stored in dbm for [ENSG00000242299.1]
WARNING, no entry stored in dbm for [ENSG00000249072.1]
WARNING, no entry stored in dbm for [ENSG00000248738.6]
WARNING, no entry stored in dbm for [ENSG00000238018.2]
WARNING, no entry stored in dbm for [ENSG00000259945.1]
WARNING, no entry stored in dbm for [ENSG00000254728.1]
WARNING, no entry stored in dbm for [ENSG00000257817.2]
WARNING, no entry stored in dbm for [ENSG00000188002.10]
WARNING, no entry stored in dbm for [ENSG00000287677.2]
WARNING, no entry stored in dbm for [ENSG00000255621.1]
WARNING, no entry stored in dbm for [ENSG00000285600.1]
WARNING, no entry stored in dbm for [ENSG00000268047.1]
WARNING, no entry stored in dbm for [ENSG00000267383.7]
WARNING, no entry stored in dbm for [ENSG00000267589.1]
WARNING, no entry stored in dbm for [ENSG00000238045.9]
WARNING, no entry stored in dbm for [ENSG00000279583.1]
WARNING, no entry stored in dbm for [ENSG00000258186.2]
WARNING, no entry stored in dbm for [ENSG00000214331.8]
WARNING, no entry stored in dbm for [ENSG00000260905.1]
WARNING, no entry stored in dbm for [ENSG00000280257.1]
WARNING, no entry stored in dbm for [ENSG00000236531.2]
WARNING, no entry stored in dbm for [ENSG00000241057.2]
WARNING, no entry stored in dbm for [ENSG00000254610.3]
WARNING, no entry stored in dbm for [ENSG00000253796.2]
WARNING, no entry stored in dbm for [ENSG00000277283.1]
WARNING, no entry stored in dbm for [ENSG00000237974.1]
WARNING, no entry stored in dbm for [ENSG00000251474.6]
WARNING, no entry stored in dbm for [ENSG00000251595.7]
WARNING, no entry stored in dbm for [ENSG00000173077.16]
* STAR-Fusion complete. See output: /tmp/nxf.2KRvRuK8kC/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)