-ctat genome lib [/tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.8MPK6jhGFh/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary
-sample contains 123666762 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir -J /tmp/nxf.8MPK6jhGFh/HeadNeckN_FFPE_L01_RNA_01_B23LG7FLT4_1.Chimeric.out.junction -O /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4
-parsing fusion evidence: /tmp/nxf.8MPK6jhGFh/HeadNeckN_FFPE_L01_RNA_01_B23LG7FLT4_1.Chimeric.out.junction
-building interval tree based on /tmp/nxf.8MPK6jhGFh/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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[2660000], rate=116241.81/min -building interval tree based on /tmp/nxf.8MPK6jhGFh/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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[2630000], rate=85854.19/min -building interval tree based on /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.07 min).
-mapping reads to genes
[10000], rate=300000.00/min
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[2640000], rate=81064.48/min -building interval tree based on /tmp/nxf.8MPK6jhGFh/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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[2630000], rate=55917.79/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads -J /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir --filt_file /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail -M 50 > /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-parsing /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt, organizing read mapping info.
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5560975.61 reads per min processed...
5571428.57 reads per min processed...
5333333.33 reads per min processed...
5347826.09 reads per min processed...
5361702.13 reads per min processed...
5375000.00 reads per min processed...
5280000.00 reads per min processed...
5192307.69 reads per min processed...
5207547.17 reads per min processed...
5127272.73 reads per min processed...
5142857.14 reads per min processed...
5157894.74 reads per min processed...
5172413.79 reads per min processed...
5100000.00 reads per min processed...
5114754.10 reads per min processed...
5047619.05 reads per min processed...
5062500.00 reads per min processed...
5076923.08 reads per min processed...
5090909.09 reads per min processed...
5029411.76 reads per min processed...
5043478.26 reads per min processed...
5130434.78 reads per min processed...
5142857.14 reads per min processed...
5154929.58 reads per min processed...
5239436.62 reads per min processed...
5323943.66 reads per min processed...
5333333.33 reads per min processed...
5416666.67 reads per min processed...
5424657.53 reads per min processed...
5506849.32 reads per min processed...
5589041.10 reads per min processed...
5594594.59 reads per min processed...
5675675.68 reads per min processed...
5680000.00 reads per min processed...
5760000.00 reads per min processed...
5763157.89 reads per min processed...
5692307.69 reads per min processed...
5696202.53 reads per min processed...
5700000.00 reads per min processed...
5634146.34 reads per min processed...
5638554.22 reads per min processed...
5576470.59 reads per min processed...
5581395.35 reads per min processed...
5522727.27 reads per min processed...
5528089.89 reads per min processed...
5533333.33 reads per min processed...
5478260.87 reads per min processed...
5483870.97 reads per min processed...
5489361.70 reads per min processed...
5437500.00 reads per min processed...
5443298.97 reads per min processed...
5393939.39 reads per min processed...
5400000.00 reads per min processed...
5405940.59 reads per min processed...
5411764.71 reads per min processed...
5417475.73 reads per min processed...
5423076.92 reads per min processed...
done.
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict -J /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -O /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion
-parsing fusion evidence: /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter --fusion_preds /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary -J /tmp/nxf.8MPK6jhGFh/HeadNeckN_FFPE_L01_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.8MPK6jhGFh/ctat_genome_lib_build_dir --out_prefix /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -131616.670944
EM: Round [1] log likelihood: -131251.856026
EM: Round [2] log likelihood: -131108.875147
EM: Round [3] log likelihood: -131039.310613
EM: Round [4] log likelihood: -131001.991076
EM: Round [5] log likelihood: -130980.757649
EM: Round [6] log likelihood: -130968.069255
EM: Round [7] log likelihood: -130960.117195
EM: Round [8] log likelihood: -130954.899972
EM: Round [9] log likelihood: -130951.331563
EM: Round [10] log likelihood: -130948.801461
EM: Round [11] log likelihood: -130946.952676
EM: Round [12] log likelihood: -130945.567741
EM: Round [13] log likelihood: -130944.508790
EM: Round [14] log likelihood: -130943.685140
EM: Round [15] log likelihood: -130943.035150
EM: Round [16] log likelihood: -130942.515717
EM: Round [17] log likelihood: -130942.095972
EM: Round [18] log likelihood: -130941.753357
EM: Round [19] log likelihood: -130941.471105
EM: Round [20] log likelihood: -130941.236581
EM: Round [21] log likelihood: -130941.040140
EM: Round [22] log likelihood: -130940.874345
EM: Round [23] log likelihood: -130940.733406
EM: Round [24] log likelihood: -130940.612778
EM: Round [25] log likelihood: -130940.508863
EM: Round [26] log likelihood: -130940.418792
EM: Round [27] log likelihood: -130940.340265
EM: Round [28] log likelihood: -130940.271423
EM: Round [29] log likelihood: -130940.210752
EM: Round [30] log likelihood: -130940.157019
EM: Round [31] log likelihood: -130940.109206
EM: Round [32] log likelihood: -130940.066473
EM: Round [33] log likelihood: -130940.028121
EM: Round [34] log likelihood: -130939.993565
EM: Round [35] log likelihood: -130939.962316
EM: Round [36] log likelihood: -130939.933958
EM: Round [37] log likelihood: -130939.908140
EM: Round [38] log likelihood: -130939.884563
EM: Round [39] log likelihood: -130939.862971
EM: Round [40] log likelihood: -130939.843143
EM: Round [41] log likelihood: -130939.824890
EM: Round [42] log likelihood: -130939.808045
EM: Round [43] log likelihood: -130939.792466
EM: Round [44] log likelihood: -130939.778028
EM: Round [45] log likelihood: -130939.764620
EM: Round [46] log likelihood: -130939.752145
EM: Round [47] log likelihood: -130939.740519
EM: Round [48] log likelihood: -130939.729666
EM: Round [49] log likelihood: -130939.719518
EM: Round [50] log likelihood: -130939.710015
EM: Round [51] log likelihood: -130939.701105
EM: Round [52] log likelihood: -130939.692739
EM: Round [53] log likelihood: -130939.684874
EM: Round [54] log likelihood: -130939.677471
EM: Round [55] log likelihood: -130939.670495
EM: Round [56] log likelihood: -130939.663915
EM: Round [57] log likelihood: -130939.657701
EM: Round [58] log likelihood: -130939.651827
EM: Round [59] log likelihood: -130939.646271
EM: Round [60] log likelihood: -130939.641009
EM: Round [61] log likelihood: -130939.636021
EM: Round [62] log likelihood: -130939.631291
EM: Round [63] log likelihood: -130939.626801
EM: Round [64] log likelihood: -130939.622535
EM: Round [65] log likelihood: -130939.618480
EM: Round [66] log likelihood: -130939.614622
EM: Round [67] log likelihood: -130939.610950
EM: Round [68] log likelihood: -130939.607452
EM: Round [69] log likelihood: -130939.604118
EM: Round [70] log likelihood: -130939.600939
EM: Round [71] log likelihood: -130939.597905
EM: Round [72] log likelihood: -130939.595009
EM: Round [73] log likelihood: -130939.592242
EM: Round [74] log likelihood: -130939.589598
EM: Round [75] log likelihood: -130939.587069
EM: Round [76] log likelihood: -130939.584651
EM: Round [77] log likelihood: -130939.582336
EM: Round [78] log likelihood: -130939.580120
EM: Round [79] log likelihood: -130939.577997
EM: Round [80] log likelihood: -130939.575962
EM: Round [81] log likelihood: -130939.574012
EM: Round [82] log likelihood: -130939.572142
EM: Round [83] log likelihood: -130939.570347
EM: Round [84] log likelihood: -130939.568625
EM: Round [85] log likelihood: -130939.566972
EM: Round [86] log likelihood: -130939.565384
EM: Round [87] log likelihood: -130939.563858
EM: Round [88] log likelihood: -130939.562392
EM: Round [89] log likelihood: -130939.560982
EM: Round [90] log likelihood: -130939.559627
EM: Round [91] log likelihood: -130939.558323
EM: Round [92] log likelihood: -130939.557069
EM: Round [93] log likelihood: -130939.555861
EM: Round [94] log likelihood: -130939.554699
EM: Round [95] log likelihood: -130939.553579
EM: Round [96] log likelihood: -130939.552500
EM: Round [97] log likelihood: -130939.551461
EM: Round [98] log likelihood: -130939.550460
EM: Round [99] log likelihood: -130939.549494
EM: Round [100] log likelihood: -130939.548563
EM: Round [101] log likelihood: -130939.547665
EM: Round [102] log likelihood: -130939.546798
EM: Round [103] log likelihood: -130939.545962
EM: Round [104] log likelihood: -130939.545155
EM: Round [105] log likelihood: -130939.544376
EM: Round [106] log likelihood: -130939.543623
EM: Round [107] log likelihood: -130939.542897
EM: Round [108] log likelihood: -130939.542194
EM: Round [109] log likelihood: -130939.541516
EM: Round [110] log likelihood: -130939.540860
EM: Round [111] log likelihood: -130939.540226
EM: Round [112] log likelihood: -130939.539613
EM: Round [113] log likelihood: -130939.539020
EM: Round [114] log likelihood: -130939.538447
EM: Round [115] log likelihood: -130939.537892
EM: Round [116] log likelihood: -130939.537355
EM: Round [117] log likelihood: -130939.536835
EM: Round [118] log likelihood: -130939.536331
EM: Round [119] log likelihood: -130939.535844
EM: Round [120] log likelihood: -130939.535372
EM: Round [121] log likelihood: -130939.534915
EM: Round [122] log likelihood: -130939.534472
EM: Round [123] log likelihood: -130939.534042
EM: Round [124] log likelihood: -130939.533626
EM: Round [125] log likelihood: -130939.533223
EM: Round [126] log likelihood: -130939.532831
EM: Round [127] log likelihood: -130939.532452
EM: Round [128] log likelihood: -130939.532084
EM: Round [129] log likelihood: -130939.531726
EM: Round [130] log likelihood: -130939.531380
EM: Round [131] log likelihood: -130939.531043
EM: Round [132] log likelihood: -130939.530717
EM: Round [133] log likelihood: -130939.530400
EM: Round [134] log likelihood: -130939.530092
EM: Round [135] log likelihood: -130939.529792
EM: Round [136] log likelihood: -130939.529502
EM: Round [137] log likelihood: -130939.529219
EM: Round [138] log likelihood: -130939.528945
EM: Round [139] log likelihood: -130939.528678
EM: Round [140] log likelihood: -130939.528419
EM: Round [141] log likelihood: -130939.528166
EM: Round [142] log likelihood: -130939.527921
EM: Round [143] log likelihood: -130939.527682
EM: Round [144] log likelihood: -130939.527450
EM: Round [145] log likelihood: -130939.527224
EM: Round [146] log likelihood: -130939.527004
EM: Round [147] log likelihood: -130939.526790
EM: Round [148] log likelihood: -130939.526582
EM: Round [149] log likelihood: -130939.526379
EM: Round [150] log likelihood: -130939.526181
EM: Round [151] log likelihood: -130939.525988
EM: Round [152] log likelihood: -130939.525800
EM: Round [153] log likelihood: -130939.525617
EM: Round [154] log likelihood: -130939.525439
EM: Round [155] log likelihood: -130939.525265
EM: Round [156] log likelihood: -130939.525096
EM: Round [157] log likelihood: -130939.524931
EM: Round [158] log likelihood: -130939.524769
EM: Round [159] log likelihood: -130939.524612
EM: Round [160] log likelihood: -130939.524459
EM: Round [161] log likelihood: -130939.524309
EM: Round [162] log likelihood: -130939.524163
EM: Round [163] log likelihood: -130939.524020
EM: Round [164] log likelihood: -130939.523881
EM: Round [165] log likelihood: -130939.523745
EM: Round [166] log likelihood: -130939.523612
EM: Round [167] log likelihood: -130939.523482
EM: Round [168] log likelihood: -130939.523355
EM: Round [169] log likelihood: -130939.523231
EM: Round [170] log likelihood: -130939.523110
EM: Round [171] log likelihood: -130939.522991
EM: Round [172] log likelihood: -130939.522876
EM: Round [173] log likelihood: -130939.522762
EM: Round [174] log likelihood: -130939.522652
EM: Round [175] log likelihood: -130939.522543
EM: Round [176] log likelihood: -130939.522437
EM: Round [177] log likelihood: -130939.522334
EM: Round [178] log likelihood: -130939.522232
EM: Round [179] log likelihood: -130939.522133
EM: Stopping iterations at round 179 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -130901.085529
EM: Round [1] log likelihood: -130594.537621
EM: Round [2] log likelihood: -130479.037994
EM: Round [3] log likelihood: -130424.152839
EM: Round [4] log likelihood: -130395.144612
EM: Round [5] log likelihood: -130378.847120
EM: Round [6] log likelihood: -130369.230270
EM: Round [7] log likelihood: -130363.278458
EM: Round [8] log likelihood: -130359.419319
EM: Round [9] log likelihood: -130356.807014
EM: Round [10] log likelihood: -130354.970810
EM: Round [11] log likelihood: -130353.638478
EM: Round [12] log likelihood: -130352.646031
EM: Round [13] log likelihood: -130351.890608
EM: Round [14] log likelihood: -130351.305186
EM: Round [15] log likelihood: -130350.844576
EM: Round [16] log likelihood: -130350.477392
EM: Round [17] log likelihood: -130350.181283
EM: Round [18] log likelihood: -130349.939991
EM: Round [19] log likelihood: -130349.741482
EM: Round [20] log likelihood: -130349.576713
EM: Round [21] log likelihood: -130349.438805
EM: Round [22] log likelihood: -130349.322467
EM: Round [23] log likelihood: -130349.223588
EM: Round [24] log likelihood: -130349.138949
EM: Round [25] log likelihood: -130349.066007
EM: Round [26] log likelihood: -130349.002740
EM: Round [27] log likelihood: -130348.947527
EM: Round [28] log likelihood: -130348.899063
EM: Round [29] log likelihood: -130348.856287
EM: Round [30] log likelihood: -130348.818335
EM: Round [31] log likelihood: -130348.784496
EM: Round [32] log likelihood: -130348.754185
EM: Round [33] log likelihood: -130348.726916
EM: Round [34] log likelihood: -130348.702281
EM: Round [35] log likelihood: -130348.679942
EM: Round [36] log likelihood: -130348.659611
EM: Round [37] log likelihood: -130348.641045
EM: Round [38] log likelihood: -130348.624038
EM: Round [39] log likelihood: -130348.608412
EM: Round [40] log likelihood: -130348.594017
EM: Round [41] log likelihood: -130348.580721
EM: Round [42] log likelihood: -130348.568411
EM: Round [43] log likelihood: -130348.556988
EM: Round [44] log likelihood: -130348.546367
EM: Round [45] log likelihood: -130348.536471
EM: Round [46] log likelihood: -130348.527234
EM: Round [47] log likelihood: -130348.518598
EM: Round [48] log likelihood: -130348.510510
EM: Round [49] log likelihood: -130348.502925
EM: Round [50] log likelihood: -130348.495801
EM: Round [51] log likelihood: -130348.489101
EM: Round [52] log likelihood: -130348.482793
EM: Round [53] log likelihood: -130348.476846
EM: Round [54] log likelihood: -130348.471233
EM: Round [55] log likelihood: -130348.465930
EM: Round [56] log likelihood: -130348.460916
EM: Round [57] log likelihood: -130348.456169
EM: Round [58] log likelihood: -130348.451673
EM: Round [59] log likelihood: -130348.447409
EM: Round [60] log likelihood: -130348.443362
EM: Round [61] log likelihood: -130348.439520
EM: Round [62] log likelihood: -130348.435868
EM: Round [63] log likelihood: -130348.432396
EM: Round [64] log likelihood: -130348.429091
EM: Round [65] log likelihood: -130348.425944
EM: Round [66] log likelihood: -130348.422946
EM: Round [67] log likelihood: -130348.420087
EM: Round [68] log likelihood: -130348.417361
EM: Round [69] log likelihood: -130348.414759
EM: Round [70] log likelihood: -130348.412275
EM: Round [71] log likelihood: -130348.409901
EM: Round [72] log likelihood: -130348.407633
EM: Round [73] log likelihood: -130348.405464
EM: Round [74] log likelihood: -130348.403389
EM: Round [75] log likelihood: -130348.401403
EM: Round [76] log likelihood: -130348.399502
EM: Round [77] log likelihood: -130348.397682
EM: Round [78] log likelihood: -130348.395937
EM: Round [79] log likelihood: -130348.394265
EM: Round [80] log likelihood: -130348.392662
EM: Round [81] log likelihood: -130348.391124
EM: Round [82] log likelihood: -130348.389649
EM: Round [83] log likelihood: -130348.388233
EM: Round [84] log likelihood: -130348.386873
EM: Round [85] log likelihood: -130348.385567
EM: Round [86] log likelihood: -130348.384312
EM: Round [87] log likelihood: -130348.383107
EM: Round [88] log likelihood: -130348.381948
EM: Round [89] log likelihood: -130348.380833
EM: Round [90] log likelihood: -130348.379761
EM: Round [91] log likelihood: -130348.378730
EM: Round [92] log likelihood: -130348.377738
EM: Round [93] log likelihood: -130348.376782
EM: Round [94] log likelihood: -130348.375862
EM: Round [95] log likelihood: -130348.374977
EM: Round [96] log likelihood: -130348.374123
EM: Round [97] log likelihood: -130348.373301
EM: Round [98] log likelihood: -130348.372508
EM: Round [99] log likelihood: -130348.371743
EM: Round [100] log likelihood: -130348.371006
EM: Round [101] log likelihood: -130348.370296
EM: Round [102] log likelihood: -130348.369610
EM: Round [103] log likelihood: -130348.368948
EM: Round [104] log likelihood: -130348.368309
EM: Round [105] log likelihood: -130348.367692
EM: Round [106] log likelihood: -130348.367097
EM: Round [107] log likelihood: -130348.366521
EM: Round [108] log likelihood: -130348.365965
EM: Round [109] log likelihood: -130348.365428
EM: Round [110] log likelihood: -130348.364909
EM: Round [111] log likelihood: -130348.364407
EM: Round [112] log likelihood: -130348.363922
EM: Round [113] log likelihood: -130348.363452
EM: Round [114] log likelihood: -130348.362998
EM: Round [115] log likelihood: -130348.362559
EM: Round [116] log likelihood: -130348.362133
EM: Round [117] log likelihood: -130348.361722
EM: Round [118] log likelihood: -130348.361323
EM: Round [119] log likelihood: -130348.360937
EM: Round [120] log likelihood: -130348.360563
EM: Round [121] log likelihood: -130348.360201
EM: Round [122] log likelihood: -130348.359850
EM: Round [123] log likelihood: -130348.359509
EM: Round [124] log likelihood: -130348.359179
EM: Round [125] log likelihood: -130348.358860
EM: Round [126] log likelihood: -130348.358549
EM: Round [127] log likelihood: -130348.358248
EM: Round [128] log likelihood: -130348.357956
EM: Round [129] log likelihood: -130348.357673
EM: Round [130] log likelihood: -130348.357398
EM: Round [131] log likelihood: -130348.357130
EM: Round [132] log likelihood: -130348.356871
EM: Round [133] log likelihood: -130348.356619
EM: Round [134] log likelihood: -130348.356374
EM: Round [135] log likelihood: -130348.356136
EM: Round [136] log likelihood: -130348.355905
EM: Round [137] log likelihood: -130348.355681
EM: Round [138] log likelihood: -130348.355462
EM: Round [139] log likelihood: -130348.355250
EM: Round [140] log likelihood: -130348.355043
EM: Round [141] log likelihood: -130348.354842
EM: Round [142] log likelihood: -130348.354646
EM: Round [143] log likelihood: -130348.354456
EM: Round [144] log likelihood: -130348.354270
EM: Round [145] log likelihood: -130348.354090
EM: Round [146] log likelihood: -130348.353914
EM: Round [147] log likelihood: -130348.353743
EM: Round [148] log likelihood: -130348.353576
EM: Round [149] log likelihood: -130348.353413
EM: Round [150] log likelihood: -130348.353255
EM: Round [151] log likelihood: -130348.353101
EM: Round [152] log likelihood: -130348.352950
EM: Round [153] log likelihood: -130348.352803
EM: Round [154] log likelihood: -130348.352660
EM: Round [155] log likelihood: -130348.352520
EM: Round [156] log likelihood: -130348.352384
EM: Round [157] log likelihood: -130348.352251
EM: Round [158] log likelihood: -130348.352121
EM: Round [159] log likelihood: -130348.351994
EM: Round [160] log likelihood: -130348.351870
EM: Round [161] log likelihood: -130348.351749
EM: Round [162] log likelihood: -130348.351631
EM: Round [163] log likelihood: -130348.351516
EM: Round [164] log likelihood: -130348.351403
EM: Round [165] log likelihood: -130348.351293
EM: Round [166] log likelihood: -130348.351185
EM: Round [167] log likelihood: -130348.351080
EM: Round [168] log likelihood: -130348.350976
EM: Round [169] log likelihood: -130348.350876
EM: Round [170] log likelihood: -130348.350777
EM: Stopping iterations at round 170 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20 --fusion_preds /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 20
CMD: cp /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 123666762 > /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir > /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir --annotate /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir
-done, see /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.8MPK6jhGFh/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 546, filtered: 5152)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.8MPK6jhGFh/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.8MPK6jhGFh/./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.8MPK6jhGFh/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
WARNING, no entry stored in dbm for [ENSG00000229739.4]
WARNING, no entry stored in dbm for [ENSG00000251314.2]
WARNING, no entry stored in dbm for [ENSG00000227632.2]
WARNING, no entry stored in dbm for [ENSG00000287243.2]
WARNING, no entry stored in dbm for [ENSG00000196758.3]
WARNING, no entry stored in dbm for [ENSG00000264920.2]
WARNING, no entry stored in dbm for [ENSG00000230559.1]
WARNING, no entry stored in dbm for [ENSG00000255401.1]
WARNING, no entry stored in dbm for [ENSG00000225851.1]
WARNING, no entry stored in dbm for [ENSG00000181126.13]
WARNING, no entry stored in dbm for [ENSG00000229608.1]
WARNING, no entry stored in dbm for [ENSG00000234715.2]
WARNING, no entry stored in dbm for [ENSG00000230490.3]
WARNING, no entry stored in dbm for [ENSG00000224366.1]
WARNING, no entry stored in dbm for [ENSG00000188002.10]
WARNING, no entry stored in dbm for [ENSG00000251661.3]
WARNING, no entry stored in dbm for [ENSG00000279217.1]
WARNING, no entry stored in dbm for [ENSG00000257890.1]
WARNING, no entry stored in dbm for [ENSG00000225292.2]
WARNING, no entry stored in dbm for [ENSG00000246422.2]
WARNING, no entry stored in dbm for [ENSG00000254369.6]
WARNING, no entry stored in dbm for [ENSG00000167920.10]
WARNING, no entry stored in dbm for [ENSG00000204188.7]
WARNING, no entry stored in dbm for [ENSG00000259905.7]
WARNING, no entry stored in dbm for [ENSG00000259905.7]
WARNING, no entry stored in dbm for [ENSG00000259905.7]
WARNING, no entry stored in dbm for [ENSG00000257663.1]
WARNING, no entry stored in dbm for [ENSG00000235640.1]
WARNING, no entry stored in dbm for [ENSG00000263327.6]
WARNING, no entry stored in dbm for [ENSG00000263327.6]
WARNING, no entry stored in dbm for [ENSG00000228002.2]
WARNING, no entry stored in dbm for [ENSG00000256616.3]
WARNING, no entry stored in dbm for [ENSG00000205853.12]
WARNING, no entry stored in dbm for [ENSG00000263934.5]
WARNING, no entry stored in dbm for [ENSG00000200318.2]
WARNING, no entry stored in dbm for [ENSG00000250980.1]
WARNING, no entry stored in dbm for [ENSG00000255136.3]
WARNING, no entry stored in dbm for [ENSG00000285575.1]
WARNING, no entry stored in dbm for [ENSG00000279232.2]
WARNING, no entry stored in dbm for [ENSG00000227681.5]
WARNING, no entry stored in dbm for [ENSG00000250308.2]
WARNING, no entry stored in dbm for [ENSG00000250308.2]
WARNING, no entry stored in dbm for [ENSG00000228568.1]
WARNING, no entry stored in dbm for [ENSG00000239572.3]
WARNING, no entry stored in dbm for [ENSG00000242123.1]
WARNING, no entry stored in dbm for [ENSG00000237745.1]
WARNING, no entry stored in dbm for [ENSG00000230171.1]
WARNING, no entry stored in dbm for [ENSG00000213935.3]
WARNING, no entry stored in dbm for [ENSG00000235266.1]
WARNING, no entry stored in dbm for [ENSG00000232463.1]
WARNING, no entry stored in dbm for [ENSG00000250608.2]
WARNING, no entry stored in dbm for [ENSG00000258628.1]
WARNING, no entry stored in dbm for [ENSG00000232104.3]
WARNING, no entry stored in dbm for [ENSG00000223418.1]
WARNING, no entry stored in dbm for [ENSG00000244627.5]
WARNING, no entry stored in dbm for [ENSG00000270938.1]
WARNING, no entry stored in dbm for [ENSG00000282840.1]
WARNING, no entry stored in dbm for [ENSG00000196756.13]
WARNING, no entry stored in dbm for [ENSG00000256963.1]
WARNING, no entry stored in dbm for [ENSG00000285367.1]
WARNING, no entry stored in dbm for [ENSG00000272655.2]
WARNING, no entry stored in dbm for [ENSG00000229400.1]
WARNING, no entry stored in dbm for [ENSG00000235390.4]
WARNING, no entry stored in dbm for [ENSG00000266187.2]
WARNING, no entry stored in dbm for [ENSG00000256616.3]
WARNING, no entry stored in dbm for [ENSG00000230683.1]
WARNING, no entry stored in dbm for [ENSG00000271714.1]
WARNING, no entry stored in dbm for [ENSG00000213104.3]
WARNING, no entry stored in dbm for [ENSG00000224443.1]
WARNING, no entry stored in dbm for [ENSG00000204241.8]
WARNING, no entry stored in dbm for [ENSG00000228630.5]
WARNING, no entry stored in dbm for [ENSG00000275691.2]
WARNING, no entry stored in dbm for [ENSG00000284122.1]
WARNING, no entry stored in dbm for [ENSG00000260192.3]
WARNING, no entry stored in dbm for [ENSG00000228526.7]
WARNING, no entry stored in dbm for [ENSG00000272690.6]
WARNING, no entry stored in dbm for [ENSG00000196312.15]
WARNING, no entry stored in dbm for [ENSG00000249921.2]
WARNING, no entry stored in dbm for [ENSG00000237350.1]
WARNING, no entry stored in dbm for [ENSG00000241288.8]
WARNING, no entry stored in dbm for [ENSG00000204283.4]
WARNING, no entry stored in dbm for [ENSG00000204283.4]
WARNING, no entry stored in dbm for [ENSG00000266179.2]
WARNING, no entry stored in dbm for [ENSG00000260868.1]
WARNING, no entry stored in dbm for [ENSG00000233806.7]
WARNING, no entry stored in dbm for [ENSG00000248441.7]
WARNING, no entry stored in dbm for [ENSG00000239589.7]
WARNING, no entry stored in dbm for [ENSG00000215190.9]
WARNING, no entry stored in dbm for [ENSG00000237296.9]
WARNING, no entry stored in dbm for [ENSG00000260807.7]
WARNING, no entry stored in dbm for [ENSG00000225988.1]
WARNING, no entry stored in dbm for [ENSG00000287678.1]
WARNING, no entry stored in dbm for [ENSG00000229391.7]
WARNING, no entry stored in dbm for [ENSG00000254294.1]
WARNING, no entry stored in dbm for [ENSG00000225465.10]
WARNING, no entry stored in dbm for [ENSG00000218690.2]
WARNING, no entry stored in dbm for [ENSG00000244300.3]
WARNING, no entry stored in dbm for [ENSG00000248690.8]
WARNING, no entry stored in dbm for [ENSG00000226137.5]
WARNING, no entry stored in dbm for [ENSG00000279217.1]
WARNING, no entry stored in dbm for [ENSG00000281103.2]
WARNING, no entry stored in dbm for [ENSG00000236289.4]
WARNING, no entry stored in dbm for [ENSG00000229256.1]
WARNING, no entry stored in dbm for [ENSG00000215483.11]
WARNING, no entry stored in dbm for [ENSG00000240541.3]
WARNING, no entry stored in dbm for [ENSG00000283255.1]
WARNING, no entry stored in dbm for [ENSG00000232121.1]
WARNING, no entry stored in dbm for [ENSG00000185684.15]
WARNING, no entry stored in dbm for [ENSG00000234152.1]
WARNING, no entry stored in dbm for [ENSG00000248406.1]
WARNING, no entry stored in dbm for [ENSG00000230239.1]
WARNING, no entry stored in dbm for [ENSG00000213480.3]
WARNING, no entry stored in dbm for [ENSG00000248079.3]
WARNING, no entry stored in dbm for [ENSG00000228980.4]
WARNING, no entry stored in dbm for [ENSG00000228274.4]
WARNING, no entry stored in dbm for [ENSG00000176124.15]
WARNING, no entry stored in dbm for [ENSG00000225138.8]
WARNING, no entry stored in dbm for [ENSG00000262966.2]
WARNING, no entry stored in dbm for [ENSG00000227398.4]
WARNING, no entry stored in dbm for [ENSG00000272888.7]
WARNING, no entry stored in dbm for [ENSG00000216639.1]
WARNING, no entry stored in dbm for [ENSG00000205853.12]
WARNING, no entry stored in dbm for [ENSG00000253616.5]
WARNING, no entry stored in dbm for [ENSG00000229256.1]
WARNING, no entry stored in dbm for [ENSG00000224750.6]
WARNING, no entry stored in dbm for [ENSG00000233230.1]
WARNING, no entry stored in dbm for [ENSG00000179428.2]
WARNING, no entry stored in dbm for [ENSG00000251079.6]
WARNING, no entry stored in dbm for [ENSG00000244247.2]
WARNING, no entry stored in dbm for [ENSG00000255136.3]
WARNING, no entry stored in dbm for [ENSG00000263369.6]
WARNING, no entry stored in dbm for [ENSG00000272948.2]
WARNING, no entry stored in dbm for [ENSG00000279342.2]
WARNING, no entry stored in dbm for [ENSG00000272578.5]
WARNING, no entry stored in dbm for [ENSG00000257817.2]
WARNING, no entry stored in dbm for [ENSG00000242894.3]
WARNING, no entry stored in dbm for [ENSG00000242757.1]
WARNING, no entry stored in dbm for [ENSG00000287356.1]
WARNING, no entry stored in dbm for [ENSG00000228685.1]
WARNING, no entry stored in dbm for [ENSG00000234851.4]
WARNING, no entry stored in dbm for [ENSG00000265194.1]
WARNING, no entry stored in dbm for [ENSG00000286518.1]
WARNING, no entry stored in dbm for [ENSG00000224842.2]
WARNING, no entry stored in dbm for [ENSG00000286116.1]
WARNING, no entry stored in dbm for [ENSG00000235371.1]
WARNING, no entry stored in dbm for [ENSG00000280434.1]
WARNING, no entry stored in dbm for [ENSG00000228274.4]
WARNING, no entry stored in dbm for [ENSG00000276216.1]
WARNING, no entry stored in dbm for [ENSG00000261499.2]
WARNING, no entry stored in dbm for [ENSG00000262187.2]
WARNING, no entry stored in dbm for [ENSG00000248994.2]
WARNING, no entry stored in dbm for [ENSG00000238387.1]
WARNING, no entry stored in dbm for [ENSG00000239096.1]
WARNING, no entry stored in dbm for [ENSG00000249926.2]
WARNING, no entry stored in dbm for [ENSG00000279569.1]
WARNING, no entry stored in dbm for [ENSG00000277332.1]
WARNING, no entry stored in dbm for [ENSG00000266208.1]
WARNING, no entry stored in dbm for [ENSG00000229256.1]
WARNING, no entry stored in dbm for [ENSG00000261501.1]
WARNING, no entry stored in dbm for [ENSG00000257337.7]
WARNING, no entry stored in dbm for [ENSG00000285606.1]
WARNING, no entry stored in dbm for [ENSG00000259433.2]
WARNING, no entry stored in dbm for [ENSG00000229212.8]
WARNING, no entry stored in dbm for [ENSG00000254951.7]
WARNING, no entry stored in dbm for [ENSG00000230572.5]
WARNING, no entry stored in dbm for [ENSG00000257764.2]
WARNING, no entry stored in dbm for [ENSG00000231409.3]
WARNING, no entry stored in dbm for [ENSG00000235619.1]
WARNING, no entry stored in dbm for [ENSG00000257453.1]
WARNING, no entry stored in dbm for [ENSG00000266978.1]
WARNING, no entry stored in dbm for [ENSG00000225840.2]
WARNING, no entry stored in dbm for [ENSG00000170919.16]
WARNING, no entry stored in dbm for [ENSG00000229689.3]
WARNING, no entry stored in dbm for [ENSG00000249494.6]
WARNING, no entry stored in dbm for [ENSG00000284513.1]
WARNING, no entry stored in dbm for [ENSG00000250132.6]
WARNING, no entry stored in dbm for [ENSG00000244230.3]
WARNING, no entry stored in dbm for [ENSG00000262001.1]
* STAR-Fusion complete. See output: /tmp/nxf.8MPK6jhGFh/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)