Done.
-parsing GTF file: /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.gtf
* Running CMD: /usr/local/bin/STAR  --runThreadN 8  --genomeDir /tmp/nxf.76Zc6cDWGV/ctat_genome_lib_build_dir/ref_genome.fa.star.idx  --outSAMtype BAM SortedByCoordinate  --twopassMode None  --alignSJDBoverhangMin 10  --genomeSuffixLengthMax 10000 --limitBAMsortRAM 47271261705  --alignInsertionFlush Right   --alignMatesGapMax 100000  --alignIntronMax 100000  --outSAMattributes All  --readFilesIn /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_1.fastp.fastq.gz /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_2.fastp.fastq.gz  --genomeFastaFiles /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.fa  --outSAMfilter KeepAllAddedReferences  --sjdbGTFfile /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.gtf  --alignSJstitchMismatchNmax 5 -1 5 5  --scoreGapNoncan -6  --readFilesCommand 'gunzip -c' 
* Running CMD: mv Aligned.sortedByCoord.out.bam 1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.star.sortedByCoord.out.bam
* Running CMD: samtools index 1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.star.sortedByCoord.out.bam
12:22:04 : INFO : Done.
-parsing GTF file: /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.gtf
-parsing /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam

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[2420000]   -done parsing /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam.  Extracting junction info.
junction read elimination tally: $VAR1 = {
          'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 32,
          'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 39,
          'num genes matched < 2' => 19,
          'exons hit < 2' => 10,
          'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 1,
          'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 6,
          'num_hits: 6 != num_counted_on_fusion_contigs 3 ' => 6,
          'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 581,
          'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 18,
          'low complexity anchor region' => 31,
          'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 10,
          'excessive soft clipping' => 19595,
          'seq-similar region overlap' => 417,
          'num_hits: 6 != num_counted_on_fusion_contigs 2 ' => 8,
          'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 74,
          'small anchor length' => 143,
          ' ** passed ** ' => 11419,
          'per_id < 96' => 19089
        };
-writing fusion junction support info.
-outputting the spanning read info: /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam.fusion_spanning_info.
 - counting read alignments among fusion contigs.

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[29000]   -fusion SPANNING read extraction for scaff: AC091132.4--AC103810.6

[1000]   -fusion SPANNING read extraction for scaff: AC092807.3--DDAH1

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[202000]   -fusion SPANNING read extraction for scaff: AC134878.2--FDFT1

[1000]   -fusion SPANNING read extraction for scaff: CCDC169--SOHLH2

[1000]   
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[6000]   -fusion SPANNING read extraction for scaff: CROT--DEFB123

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[51000]   -fusion SPANNING read extraction for scaff: DHX40--SKA2

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[104000]   -fusion SPANNING read extraction for scaff: GUSBP13--NAIP

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[96000]   -fusion SPANNING read extraction for scaff: NBAS--EFEMP1

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[53000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC2

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[62000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC1

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[70000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHA13

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[106000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHA13

[1000]   
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[97000]   
[98000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC1

[1000]   
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[88000]   
[89000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC2

[1000]   
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[24000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC4

[1000]   
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[25000]   
[26000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC5

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[110000]   
[111000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA8

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[53000]   
[54000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB6

[1000]   
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[54000]   
[55000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA10

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[70000]   
[71000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC3

[1000]   
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[70000]   
[71000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA11

[1000]   
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[6000]   
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[40000]   
[41000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB7

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[57000]   
[58000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA12

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[59000]   
[60000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA9

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[189000]   
[190000]   -fusion SPANNING read extraction for scaff: POLR2F--HMGB1

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[187000]   -fusion SPANNING read extraction for scaff: POLR2F--MXI1

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[174000]   -fusion SPANNING read extraction for scaff: POLR2F--CSNK1E

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[12000]   -fusion SPANNING read extraction for scaff: PPM1H--TRHDE

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[12000]   -fusion SPANNING read extraction for scaff: SKA2--RNFT1-DT

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[92000]   -fusion SPANNING read extraction for scaff: STX16--NPEPL1

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[48000]   -fusion SPANNING read extraction for scaff: TLK2--AC240565.1

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[12000]   -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1

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[86000]   -fusion SPANNING read extraction for scaff: TTC26--HIPK2

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[60000]   -fusion SPANNING read extraction for scaff: WDR91--AC008163.1
-filtered reads reasons: $VAR1 = {
          'lacks exon overlap' => 24512,
          'seq similar region alignment' => 107023
        };
EM: Starting log likelihood: -5233.629471
EM: Round [1] log likelihood: -5232.736912
EM: Round [2] log likelihood: -5232.130519
EM: Round [3] log likelihood: -5231.609657
EM: Round [4] log likelihood: -5231.157468
EM: Round [5] log likelihood: -5230.763276
EM: Round [6] log likelihood: -5230.418475
EM: Round [7] log likelihood: -5230.115998
EM: Round [8] log likelihood: -5229.849983
EM: Round [9] log likelihood: -5229.615526
EM: Round [10] log likelihood: -5229.408488
EM: Round [11] log likelihood: -5229.225358
EM: Round [12] log likelihood: -5229.063137
EM: Round [13] log likelihood: -5228.919248
EM: Round [14] log likelihood: -5228.791473
EM: Round [15] log likelihood: -5228.677886
EM: Round [16] log likelihood: -5228.576818
EM: Round [17] log likelihood: -5228.486811
EM: Round [18] log likelihood: -5228.406591
EM: Round [19] log likelihood: -5228.335042
EM: Round [20] log likelihood: -5228.271183
EM: Round [21] log likelihood: -5228.214150
EM: Round [22] log likelihood: -5228.163184
EM: Round [23] log likelihood: -5228.117612
EM: Round [24] log likelihood: -5228.076839
EM: Round [25] log likelihood: -5228.040339
EM: Round [26] log likelihood: -5228.007646
EM: Round [27] log likelihood: -5227.978346
EM: Round [28] log likelihood: -5227.952071
EM: Round [29] log likelihood: -5227.928495
EM: Round [30] log likelihood: -5227.907327
EM: Round [31] log likelihood: -5227.888308
EM: Round [32] log likelihood: -5227.871208
EM: Round [33] log likelihood: -5227.855823
EM: Round [34] log likelihood: -5227.841968
EM: Round [35] log likelihood: -5227.829482
EM: Round [36] log likelihood: -5227.818218
EM: Round [37] log likelihood: -5227.808047
EM: Round [38] log likelihood: -5227.798853
EM: Round [39] log likelihood: -5227.790532
EM: Round [40] log likelihood: -5227.782993
EM: Round [41] log likelihood: -5227.776152
EM: Round [42] log likelihood: -5227.769936
EM: Round [43] log likelihood: -5227.764279
EM: Round [44] log likelihood: -5227.759123
EM: Round [45] log likelihood: -5227.754414
EM: Round [46] log likelihood: -5227.750105
EM: Round [47] log likelihood: -5227.746156
EM: Round [48] log likelihood: -5227.742527
EM: Round [49] log likelihood: -5227.739186
EM: Round [50] log likelihood: -5227.736102
EM: Round [51] log likelihood: -5227.733249
EM: Round [52] log likelihood: -5227.730602
EM: Round [53] log likelihood: -5227.728140
EM: Round [54] log likelihood: -5227.725844
EM: Round [55] log likelihood: -5227.723697
EM: Round [56] log likelihood: -5227.721682
EM: Round [57] log likelihood: -5227.719788
EM: Round [58] log likelihood: -5227.718000
EM: Round [59] log likelihood: -5227.716308
EM: Round [60] log likelihood: -5227.714703
EM: Round [61] log likelihood: -5227.713176
EM: Round [62] log likelihood: -5227.711718
EM: Round [63] log likelihood: -5227.710322
EM: Round [64] log likelihood: -5227.708983
EM: Round [65] log likelihood: -5227.707694
EM: Round [66] log likelihood: -5227.706451
EM: Round [67] log likelihood: -5227.705249
EM: Round [68] log likelihood: -5227.704083
EM: Round [69] log likelihood: -5227.702952
EM: Round [70] log likelihood: -5227.701850
EM: Round [71] log likelihood: -5227.700775
EM: Round [72] log likelihood: -5227.699725
EM: Round [73] log likelihood: -5227.698698
EM: Round [74] log likelihood: -5227.697690
EM: Round [75] log likelihood: -5227.696701
EM: Round [76] log likelihood: -5227.695728
EM: Round [77] log likelihood: -5227.694771
EM: Round [78] log likelihood: -5227.693828
EM: Round [79] log likelihood: -5227.692897
EM: Round [80] log likelihood: -5227.691977
EM: Round [81] log likelihood: -5227.691069
EM: Round [82] log likelihood: -5227.690170
EM: Round [83] log likelihood: -5227.689280
EM: Round [84] log likelihood: -5227.688398
EM: Round [85] log likelihood: -5227.687524
EM: Round [86] log likelihood: -5227.686657
EM: Round [87] log likelihood: -5227.685797
EM: Round [88] log likelihood: -5227.684943
EM: Round [89] log likelihood: -5227.684094
EM: Round [90] log likelihood: -5227.683252
EM: Round [91] log likelihood: -5227.682414
EM: Round [92] log likelihood: -5227.681581
EM: Round [93] log likelihood: -5227.680752
EM: Round [94] log likelihood: -5227.679928
EM: Round [95] log likelihood: -5227.679108
EM: Round [96] log likelihood: -5227.678292
EM: Round [97] log likelihood: -5227.677479
EM: Round [98] log likelihood: -5227.676671
EM: Round [99] log likelihood: -5227.675865
EM: Round [100] log likelihood: -5227.675063
EM: Round [101] log likelihood: -5227.674264
EM: Round [102] log likelihood: -5227.673469
EM: Round [103] log likelihood: -5227.672676
EM: Round [104] log likelihood: -5227.671886
EM: Round [105] log likelihood: -5227.671099
EM: Round [106] log likelihood: -5227.670315
EM: Round [107] log likelihood: -5227.669534
EM: Round [108] log likelihood: -5227.668755
EM: Round [109] log likelihood: -5227.667979
EM: Round [110] log likelihood: -5227.667206
EM: Round [111] log likelihood: -5227.666435
EM: Round [112] log likelihood: -5227.665667
EM: Round [113] log likelihood: -5227.664901
EM: Round [114] log likelihood: -5227.664137
EM: Round [115] log likelihood: -5227.663376
EM: Round [116] log likelihood: -5227.662618
EM: Round [117] log likelihood: -5227.661861
EM: Round [118] log likelihood: -5227.661107
EM: Round [119] log likelihood: -5227.660356
EM: Round [120] log likelihood: -5227.659606
EM: Round [121] log likelihood: -5227.658859
EM: Round [122] log likelihood: -5227.658115
EM: Round [123] log likelihood: -5227.657372
EM: Round [124] log likelihood: -5227.656632
EM: Round [125] log likelihood: -5227.655893
EM: Round [126] log likelihood: -5227.655157
EM: Round [127] log likelihood: -5227.654424
EM: Round [128] log likelihood: -5227.653692
EM: Round [129] log likelihood: -5227.652963
EM: Round [130] log likelihood: -5227.652235
EM: Round [131] log likelihood: -5227.651510
EM: Round [132] log likelihood: -5227.650787
EM: Round [133] log likelihood: -5227.650066
EM: Round [134] log likelihood: -5227.649347
EM: Round [135] log likelihood: -5227.648630
EM: Round [136] log likelihood: -5227.647916
EM: Round [137] log likelihood: -5227.647203
EM: Round [138] log likelihood: -5227.646493
EM: Round [139] log likelihood: -5227.645784
EM: Round [140] log likelihood: -5227.645078
EM: Round [141] log likelihood: -5227.644373
EM: Round [142] log likelihood: -5227.643671
EM: Round [143] log likelihood: -5227.642970
EM: Round [144] log likelihood: -5227.642272
EM: Round [145] log likelihood: -5227.641576
EM: Round [146] log likelihood: -5227.640881
EM: Round [147] log likelihood: -5227.640189
EM: Round [148] log likelihood: -5227.639498
EM: Round [149] log likelihood: -5227.638810
EM: Round [150] log likelihood: -5227.638124
EM: Round [151] log likelihood: -5227.637439
EM: Round [152] log likelihood: -5227.636757
EM: Round [153] log likelihood: -5227.636076
EM: Round [154] log likelihood: -5227.635397
EM: Round [155] log likelihood: -5227.634721
EM: Round [156] log likelihood: -5227.634046
EM: Round [157] log likelihood: -5227.633373
EM: Round [158] log likelihood: -5227.632702
EM: Round [159] log likelihood: -5227.632033
EM: Round [160] log likelihood: -5227.631366
EM: Round [161] log likelihood: -5227.630700
EM: Round [162] log likelihood: -5227.630037
EM: Round [163] log likelihood: -5227.629375
EM: Round [164] log likelihood: -5227.628716
EM: Round [165] log likelihood: -5227.628058
EM: Round [166] log likelihood: -5227.627402
EM: Round [167] log likelihood: -5227.626748
EM: Round [168] log likelihood: -5227.626095
EM: Round [169] log likelihood: -5227.625445
EM: Round [170] log likelihood: -5227.624796
EM: Round [171] log likelihood: -5227.624150
EM: Round [172] log likelihood: -5227.623505
EM: Round [173] log likelihood: -5227.622862
EM: Round [174] log likelihood: -5227.622220
EM: Round [175] log likelihood: -5227.621581
EM: Round [176] log likelihood: -5227.620943
EM: Round [177] log likelihood: -5227.620307
EM: Round [178] log likelihood: -5227.619673
EM: Round [179] log likelihood: -5227.619040
EM: Round [180] log likelihood: -5227.618410
EM: Round [181] log likelihood: -5227.617781
EM: Round [182] log likelihood: -5227.617154
EM: Round [183] log likelihood: -5227.616528
EM: Round [184] log likelihood: -5227.615905
EM: Round [185] log likelihood: -5227.615283
EM: Round [186] log likelihood: -5227.614662
EM: Round [187] log likelihood: -5227.614044
EM: Round [188] log likelihood: -5227.613427
EM: Round [189] log likelihood: -5227.612812
EM: Round [190] log likelihood: -5227.612199
EM: Round [191] log likelihood: -5227.611587
EM: Round [192] log likelihood: -5227.610977
EM: Round [193] log likelihood: -5227.610369
EM: Round [194] log likelihood: -5227.609763
EM: Round [195] log likelihood: -5227.609158
EM: Round [196] log likelihood: -5227.608555
EM: Round [197] log likelihood: -5227.607953
EM: Round [198] log likelihood: -5227.607353
EM: Round [199] log likelihood: -5227.606755
EM: Round [200] log likelihood: -5227.606159
EM: Round [201] log likelihood: -5227.605564
EM: Round [202] log likelihood: -5227.604970
EM: Round [203] log likelihood: -5227.604379
EM: Round [204] log likelihood: -5227.603789
EM: Round [205] log likelihood: -5227.603200
EM: Round [206] log likelihood: -5227.602614
EM: Round [207] log likelihood: -5227.602029
EM: Round [208] log likelihood: -5227.601445
EM: Round [209] log likelihood: -5227.600863
EM: Round [210] log likelihood: -5227.600283
EM: Round [211] log likelihood: -5227.599704
EM: Round [212] log likelihood: -5227.599127
EM: Round [213] log likelihood: -5227.598551
EM: Round [214] log likelihood: -5227.597977
EM: Round [215] log likelihood: -5227.597405
EM: Round [216] log likelihood: -5227.596834
EM: Round [217] log likelihood: -5227.596265
EM: Round [218] log likelihood: -5227.595697
EM: Round [219] log likelihood: -5227.595131
EM: Round [220] log likelihood: -5227.594566
EM: Round [221] log likelihood: -5227.594003
EM: Round [222] log likelihood: -5227.593441
EM: Round [223] log likelihood: -5227.592881
EM: Round [224] log likelihood: -5227.592323
EM: Round [225] log likelihood: -5227.591766
EM: Round [226] log likelihood: -5227.591210
EM: Round [227] log likelihood: -5227.590656
EM: Round [228] log likelihood: -5227.590104
EM: Round [229] log likelihood: -5227.589553
EM: Round [230] log likelihood: -5227.589004
EM: Round [231] log likelihood: -5227.588456
EM: Round [232] log likelihood: -5227.587909
EM: Round [233] log likelihood: -5227.587364
EM: Round [234] log likelihood: -5227.586820
EM: Round [235] log likelihood: -5227.586278
EM: Round [236] log likelihood: -5227.585738
EM: Round [237] log likelihood: -5227.585199
EM: Round [238] log likelihood: -5227.584661
EM: Round [239] log likelihood: -5227.584125
EM: Round [240] log likelihood: -5227.583590
EM: Round [241] log likelihood: -5227.583057
EM: Round [242] log likelihood: -5227.582525
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EM: Round [703] log likelihood: -5227.438542
EM: Round [704] log likelihood: -5227.438373
EM: Round [705] log likelihood: -5227.438204
EM: Round [706] log likelihood: -5227.438036
EM: Round [707] log likelihood: -5227.437868
EM: Round [708] log likelihood: -5227.437700
EM: Round [709] log likelihood: -5227.437533
EM: Round [710] log likelihood: -5227.437366
EM: Round [711] log likelihood: -5227.437200
EM: Round [712] log likelihood: -5227.437034
EM: Round [713] log likelihood: -5227.436868
EM: Round [714] log likelihood: -5227.436703
EM: Round [715] log likelihood: -5227.436538
EM: Round [716] log likelihood: -5227.436373
EM: Round [717] log likelihood: -5227.436209
EM: Round [718] log likelihood: -5227.436045
EM: Round [719] log likelihood: -5227.435882
EM: Round [720] log likelihood: -5227.435719
EM: Round [721] log likelihood: -5227.435556
EM: Round [722] log likelihood: -5227.435394
EM: Round [723] log likelihood: -5227.435232
EM: Round [724] log likelihood: -5227.435071
EM: Round [725] log likelihood: -5227.434910
EM: Round [726] log likelihood: -5227.434749
EM: Round [727] log likelihood: -5227.434589
EM: Round [728] log likelihood: -5227.434429
EM: Round [729] log likelihood: -5227.434269
EM: Round [730] log likelihood: -5227.434110
EM: Round [731] log likelihood: -5227.433951
EM: Round [732] log likelihood: -5227.433792
EM: Round [733] log likelihood: -5227.433634
EM: Round [734] log likelihood: -5227.433477
EM: Round [735] log likelihood: -5227.433319
EM: Round [736] log likelihood: -5227.433162
EM: Round [737] log likelihood: -5227.433005
EM: Round [738] log likelihood: -5227.432849
EM: Round [739] log likelihood: -5227.432693
EM: Round [740] log likelihood: -5227.432538
EM: Round [741] log likelihood: -5227.432382
EM: Round [742] log likelihood: -5227.432227
EM: Round [743] log likelihood: -5227.432073
EM: Round [744] log likelihood: -5227.431919
EM: Round [745] log likelihood: -5227.431765
EM: Round [746] log likelihood: -5227.431612
EM: Round [747] log likelihood: -5227.431458
EM: Round [748] log likelihood: -5227.431306
EM: Round [749] log likelihood: -5227.431153
EM: Round [750] log likelihood: -5227.431001
EM: Round [751] log likelihood: -5227.430850
EM: Round [752] log likelihood: -5227.430698
EM: Round [753] log likelihood: -5227.430547
EM: Round [754] log likelihood: -5227.430397
EM: Round [755] log likelihood: -5227.430247
EM: Round [756] log likelihood: -5227.430097
EM: Round [757] log likelihood: -5227.429947
EM: Round [758] log likelihood: -5227.429798
EM: Round [759] log likelihood: -5227.429649
EM: Round [760] log likelihood: -5227.429500
EM: Round [761] log likelihood: -5227.429352
EM: Round [762] log likelihood: -5227.429204
EM: Round [763] log likelihood: -5227.429057
EM: Round [764] log likelihood: -5227.428910
EM: Round [765] log likelihood: -5227.428763
EM: Round [766] log likelihood: -5227.428616
EM: Round [767] log likelihood: -5227.428470
EM: Round [768] log likelihood: -5227.428324
EM: Round [769] log likelihood: -5227.428179
EM: Round [770] log likelihood: -5227.428034
EM: Round [771] log likelihood: -5227.427889
EM: Round [772] log likelihood: -5227.427745
EM: Round [773] log likelihood: -5227.427600
EM: Round [774] log likelihood: -5227.427457
EM: Round [775] log likelihood: -5227.427313
EM: Round [776] log likelihood: -5227.427170
EM: Round [777] log likelihood: -5227.427027
EM: Round [778] log likelihood: -5227.426885
EM: Round [779] log likelihood: -5227.426743
EM: Round [780] log likelihood: -5227.426601
EM: Round [781] log likelihood: -5227.426459
EM: Round [782] log likelihood: -5227.426318
EM: Round [783] log likelihood: -5227.426177
EM: Round [784] log likelihood: -5227.426037
EM: Round [785] log likelihood: -5227.425896
EM: Round [786] log likelihood: -5227.425757
EM: Round [787] log likelihood: -5227.425617
EM: Round [788] log likelihood: -5227.425478
EM: Round [789] log likelihood: -5227.425339
EM: Round [790] log likelihood: -5227.425200
EM: Round [791] log likelihood: -5227.425062
EM: Round [792] log likelihood: -5227.424924
EM: Round [793] log likelihood: -5227.424786
EM: Round [794] log likelihood: -5227.424649
EM: Round [795] log likelihood: -5227.424512
EM: Round [796] log likelihood: -5227.424375
EM: Round [797] log likelihood: -5227.424239
EM: Round [798] log likelihood: -5227.424103
EM: Round [799] log likelihood: -5227.423967
EM: Round [800] log likelihood: -5227.423832
EM: Round [801] log likelihood: -5227.423697
EM: Round [802] log likelihood: -5227.423562
EM: Round [803] log likelihood: -5227.423427
EM: Round [804] log likelihood: -5227.423293
EM: Round [805] log likelihood: -5227.423159
EM: Round [806] log likelihood: -5227.423026
EM: Round [807] log likelihood: -5227.422892
EM: Round [808] log likelihood: -5227.422760
EM: Round [809] log likelihood: -5227.422627
EM: Round [810] log likelihood: -5227.422495
EM: Round [811] log likelihood: -5227.422362
EM: Round [812] log likelihood: -5227.422231
EM: Round [813] log likelihood: -5227.422099
EM: Round [814] log likelihood: -5227.421968
EM: Round [815] log likelihood: -5227.421837
EM: Round [816] log likelihood: -5227.421707
EM: Round [817] log likelihood: -5227.421577
EM: Round [818] log likelihood: -5227.421447
EM: Round [819] log likelihood: -5227.421317
EM: Round [820] log likelihood: -5227.421188
EM: Round [821] log likelihood: -5227.421059
EM: Round [822] log likelihood: -5227.420930
EM: Round [823] log likelihood: -5227.420801
EM: Round [824] log likelihood: -5227.420673
EM: Round [825] log likelihood: -5227.420545
EM: Round [826] log likelihood: -5227.420418
EM: Round [827] log likelihood: -5227.420290
EM: Round [828] log likelihood: -5227.420163
EM: Round [829] log likelihood: -5227.420037
EM: Round [830] log likelihood: -5227.419910
EM: Round [831] log likelihood: -5227.419784
EM: Round [832] log likelihood: -5227.419658
EM: Round [833] log likelihood: -5227.419533
EM: Round [834] log likelihood: -5227.419408
EM: Round [835] log likelihood: -5227.419283
EM: Round [836] log likelihood: -5227.419158
EM: Round [837] log likelihood: -5227.419033
EM: Round [838] log likelihood: -5227.418909
EM: Round [839] log likelihood: -5227.418786
EM: Round [840] log likelihood: -5227.418662
EM: Round [841] log likelihood: -5227.418539
EM: Round [842] log likelihood: -5227.418416
EM: Round [843] log likelihood: -5227.418293
EM: Round [844] log likelihood: -5227.418171
EM: Round [845] log likelihood: -5227.418048
EM: Round [846] log likelihood: -5227.417927
EM: Round [847] log likelihood: -5227.417805
EM: Round [848] log likelihood: -5227.417684
EM: Round [849] log likelihood: -5227.417563
EM: Round [850] log likelihood: -5227.417442
EM: Round [851] log likelihood: -5227.417321
EM: Round [852] log likelihood: -5227.417201
EM: Round [853] log likelihood: -5227.417081
EM: Round [854] log likelihood: -5227.416962
EM: Round [855] log likelihood: -5227.416842
EM: Round [856] log likelihood: -5227.416723
EM: Round [857] log likelihood: -5227.416604
EM: Round [858] log likelihood: -5227.416486
EM: Round [859] log likelihood: -5227.416368
EM: Round [860] log likelihood: -5227.416249
EM: Round [861] log likelihood: -5227.416132
EM: Round [862] log likelihood: -5227.416014
EM: Round [863] log likelihood: -5227.415897
EM: Round [864] log likelihood: -5227.415780
EM: Round [865] log likelihood: -5227.415663
EM: Round [866] log likelihood: -5227.415547
EM: Round [867] log likelihood: -5227.415431
EM: Round [868] log likelihood: -5227.415315
EM: Round [869] log likelihood: -5227.415199
EM: Round [870] log likelihood: -5227.415084
EM: Round [871] log likelihood: -5227.414969
EM: Round [872] log likelihood: -5227.414854
EM: Round [873] log likelihood: -5227.414739
EM: Round [874] log likelihood: -5227.414625
EM: Round [875] log likelihood: -5227.414511
EM: Round [876] log likelihood: -5227.414397
EM: Round [877] log likelihood: -5227.414284
EM: Round [878] log likelihood: -5227.414171
EM: Round [879] log likelihood: -5227.414057
EM: Round [880] log likelihood: -5227.413945
EM: Round [881] log likelihood: -5227.413832
EM: Round [882] log likelihood: -5227.413720
EM: Round [883] log likelihood: -5227.413608
EM: Round [884] log likelihood: -5227.413496
EM: Round [885] log likelihood: -5227.413385
EM: Round [886] log likelihood: -5227.413274
EM: Round [887] log likelihood: -5227.413163
EM: Round [888] log likelihood: -5227.413052
EM: Round [889] log likelihood: -5227.412941
EM: Round [890] log likelihood: -5227.412831
EM: Round [891] log likelihood: -5227.412721
EM: Round [892] log likelihood: -5227.412611
EM: Round [893] log likelihood: -5227.412502
EM: Round [894] log likelihood: -5227.412393
EM: Round [895] log likelihood: -5227.412284
EM: Round [896] log likelihood: -5227.412175
EM: Round [897] log likelihood: -5227.412067
EM: Round [898] log likelihood: -5227.411958
EM: Round [899] log likelihood: -5227.411850
EM: Round [900] log likelihood: -5227.411743
EM: Round [901] log likelihood: -5227.411635
EM: Round [902] log likelihood: -5227.411528
EM: Round [903] log likelihood: -5227.411421
EM: Round [904] log likelihood: -5227.411314
EM: Round [905] log likelihood: -5227.411208
EM: Round [906] log likelihood: -5227.411101
EM: Round [907] log likelihood: -5227.410995
EM: Round [908] log likelihood: -5227.410890
EM: Round [909] log likelihood: -5227.410784
EM: Round [910] log likelihood: -5227.410679
EM: Round [911] log likelihood: -5227.410574
EM: Round [912] log likelihood: -5227.410469
EM: Round [913] log likelihood: -5227.410364
EM: Round [914] log likelihood: -5227.410260
EM: Round [915] log likelihood: -5227.410156
EM: Round [916] log likelihood: -5227.410052
EM: Round [917] log likelihood: -5227.409948
EM: Round [918] log likelihood: -5227.409845
EM: Round [919] log likelihood: -5227.409742
EM: Round [920] log likelihood: -5227.409639
EM: Round [921] log likelihood: -5227.409536
EM: Round [922] log likelihood: -5227.409433
EM: Round [923] log likelihood: -5227.409331
EM: Round [924] log likelihood: -5227.409229
EM: Round [925] log likelihood: -5227.409127
EM: Round [926] log likelihood: -5227.409026
EM: Round [927] log likelihood: -5227.408924
EM: Round [928] log likelihood: -5227.408823
EM: Round [929] log likelihood: -5227.408722
EM: Round [930] log likelihood: -5227.408622
EM: Round [931] log likelihood: -5227.408521
EM: Round [932] log likelihood: -5227.408421
EM: Round [933] log likelihood: -5227.408321
EM: Stopping iterations at round 933 due to insufficient improvement in likelihood.
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
-extracting read coordinates from /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam into /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords

CMD: touch /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords > /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.frag_coords > /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.frag_coords.coord_sorted
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --genome_lib_dir ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter  --genome_lib_dir ctat_genome_lib_build_dir  --max_promiscuity 10  --min_pct_dom_promiscuity 50 
CMD: cp /tmp/nxf.76Zc6cDWGV/fi_workdir/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.post_blast_and_promiscuity_filter
-done, see /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.post_blast_and_promiscuity_filter.annot_filter.pass
EM: Starting log likelihood: -3912.167319
EM: Round [1] log likelihood: -3911.973926
EM: Round [2] log likelihood: -3911.968030
EM: Round [3] log likelihood: -3911.965824
EM: Round [4] log likelihood: -3911.963697
EM: Round [5] log likelihood: -3911.961581
EM: Round [6] log likelihood: -3911.959474
EM: Round [7] log likelihood: -3911.957376
EM: Round [8] log likelihood: -3911.955287
EM: Round [9] log likelihood: -3911.953206
EM: Round [10] log likelihood: -3911.951135
EM: Round [11] log likelihood: -3911.949072
EM: Round [12] log likelihood: -3911.947018
EM: Round [13] log likelihood: -3911.944972
EM: Round [14] log likelihood: -3911.942936
EM: Round [15] log likelihood: -3911.940907
EM: Round [16] log likelihood: -3911.938888
EM: Round [17] log likelihood: -3911.936876
EM: Round [18] log likelihood: -3911.934873
EM: Round [19] log likelihood: -3911.932879
EM: Round [20] log likelihood: -3911.930892
EM: Round [21] log likelihood: -3911.928914
EM: Round [22] log likelihood: -3911.926944
EM: Round [23] log likelihood: -3911.924982
EM: Round [24] log likelihood: -3911.923028
EM: Round [25] log likelihood: -3911.921082
EM: Round [26] log likelihood: -3911.919145
EM: Round [27] log likelihood: -3911.917215
EM: Round [28] log likelihood: -3911.915293
EM: Round [29] log likelihood: -3911.913379
EM: Round [30] log likelihood: -3911.911472
EM: Round [31] log likelihood: -3911.909574
EM: Round [32] log likelihood: -3911.907683
EM: Round [33] log likelihood: -3911.905800
EM: Round [34] log likelihood: -3911.903924
EM: Round [35] log likelihood: -3911.902056
EM: Round [36] log likelihood: -3911.900195
EM: Round [37] log likelihood: -3911.898342
EM: Round [38] log likelihood: -3911.896496
EM: Round [39] log likelihood: -3911.894658
EM: Round [40] log likelihood: -3911.892827
EM: Round [41] log likelihood: -3911.891003
EM: Round [42] log likelihood: -3911.889187
EM: Round [43] log likelihood: -3911.887378
EM: Round [44] log likelihood: -3911.885576
EM: Round [45] log likelihood: -3911.883781
EM: Round [46] log likelihood: -3911.881993
EM: Round [47] log likelihood: -3911.880212
EM: Round [48] log likelihood: -3911.878439
EM: Round [49] log likelihood: -3911.876672
EM: Round [50] log likelihood: -3911.874912
EM: Round [51] log likelihood: -3911.873159
EM: Round [52] log likelihood: -3911.871413
EM: Round [53] log likelihood: -3911.869674
EM: Round [54] log likelihood: -3911.867941
EM: Round [55] log likelihood: -3911.866215
EM: Round [56] log likelihood: -3911.864496
EM: Round [57] log likelihood: -3911.862784
EM: Round [58] log likelihood: -3911.861078
EM: Round [59] log likelihood: -3911.859379
EM: Round [60] log likelihood: -3911.857686
EM: Round [61] log likelihood: -3911.856000
EM: Round [62] log likelihood: -3911.854320
EM: Round [63] log likelihood: -3911.852647
EM: Round [64] log likelihood: -3911.850980
EM: Round [65] log likelihood: -3911.849320
EM: Round [66] log likelihood: -3911.847666
EM: Round [67] log likelihood: -3911.846018
EM: Round [68] log likelihood: -3911.844377
EM: Round [69] log likelihood: -3911.842741
EM: Round [70] log likelihood: -3911.841112
EM: Round [71] log likelihood: -3911.839489
EM: Round [72] log likelihood: -3911.837872
EM: Round [73] log likelihood: -3911.836262
EM: Round [74] log likelihood: -3911.834657
EM: Round [75] log likelihood: -3911.833059
EM: Round [76] log likelihood: -3911.831466
EM: Round [77] log likelihood: -3911.829879
EM: Round [78] log likelihood: -3911.828299
EM: Round [79] log likelihood: -3911.826724
EM: Round [80] log likelihood: -3911.825155
EM: Round [81] log likelihood: -3911.823592
EM: Round [82] log likelihood: -3911.822035
EM: Round [83] log likelihood: -3911.820483
EM: Round [84] log likelihood: -3911.818938
EM: Round [85] log likelihood: -3911.817398
EM: Round [86] log likelihood: -3911.815863
EM: Round [87] log likelihood: -3911.814335
EM: Round [88] log likelihood: -3911.812812
EM: Round [89] log likelihood: -3911.811294
EM: Round [90] log likelihood: -3911.809783
EM: Round [91] log likelihood: -3911.808276
EM: Round [92] log likelihood: -3911.806776
EM: Round [93] log likelihood: -3911.805280
EM: Round [94] log likelihood: -3911.803791
EM: Round [95] log likelihood: -3911.802306
EM: Round [96] log likelihood: -3911.800827
EM: Round [97] log likelihood: -3911.799354
EM: Round [98] log likelihood: -3911.797886
EM: Round [99] log likelihood: -3911.796423
EM: Round [100] log likelihood: -3911.794965
EM: Round [101] log likelihood: -3911.793513
EM: Round [102] log likelihood: -3911.792066
EM: Round [103] log likelihood: -3911.790624
EM: Round [104] log likelihood: -3911.789187
EM: Round [105] log likelihood: -3911.787756
EM: Round [106] log likelihood: -3911.786329
EM: Round [107] log likelihood: -3911.784908
EM: Round [108] log likelihood: -3911.783492
EM: Round [109] log likelihood: -3911.782081
EM: Round [110] log likelihood: -3911.780675
EM: Round [111] log likelihood: -3911.779274
EM: Round [112] log likelihood: -3911.777878
EM: Round [113] log likelihood: -3911.776486
EM: Round [114] log likelihood: -3911.775100
EM: Round [115] log likelihood: -3911.773719
EM: Round [116] log likelihood: -3911.772343
EM: Round [117] log likelihood: -3911.770971
EM: Round [118] log likelihood: -3911.769604
EM: Round [119] log likelihood: -3911.768243
EM: Round [120] log likelihood: -3911.766886
EM: Round [121] log likelihood: -3911.765533
EM: Round [122] log likelihood: -3911.764186
EM: Round [123] log likelihood: -3911.762843
EM: Round [124] log likelihood: -3911.761505
EM: Round [125] log likelihood: -3911.760171
EM: Round [126] log likelihood: -3911.758843
EM: Round [127] log likelihood: -3911.757518
EM: Round [128] log likelihood: -3911.756199
EM: Round [129] log likelihood: -3911.754884
EM: Round [130] log likelihood: -3911.753574
EM: Round [131] log likelihood: -3911.752268
EM: Round [132] log likelihood: -3911.750966
EM: Round [133] log likelihood: -3911.749670
EM: Round [134] log likelihood: -3911.748377
EM: Round [135] log likelihood: -3911.747089
EM: Round [136] log likelihood: -3911.745806
EM: Round [137] log likelihood: -3911.744527
EM: Round [138] log likelihood: -3911.743252
EM: Round [139] log likelihood: -3911.741982
EM: Round [140] log likelihood: -3911.740716
EM: Round [141] log likelihood: -3911.739455
EM: Round [142] log likelihood: -3911.738198
EM: Round [143] log likelihood: -3911.736945
EM: Round [144] log likelihood: -3911.735696
EM: Round [145] log likelihood: -3911.734452
EM: Round [146] log likelihood: -3911.733211
EM: Round [147] log likelihood: -3911.731975
EM: Round [148] log likelihood: -3911.730744
EM: Round [149] log likelihood: -3911.729516
EM: Round [150] log likelihood: -3911.728293
EM: Round [151] log likelihood: -3911.727073
EM: Round [152] log likelihood: -3911.725858
EM: Round [153] log likelihood: -3911.724647
EM: Round [154] log likelihood: -3911.723440
EM: Round [155] log likelihood: -3911.722237
EM: Round [156] log likelihood: -3911.721038
EM: Round [157] log likelihood: -3911.719844
EM: Round [158] log likelihood: -3911.718653
EM: Round [159] log likelihood: -3911.717466
EM: Round [160] log likelihood: -3911.716283
EM: Round [161] log likelihood: -3911.715104
EM: Round [162] log likelihood: -3911.713929
EM: Round [163] log likelihood: -3911.712758
EM: Round [164] log likelihood: -3911.711591
EM: Round [165] log likelihood: -3911.710428
EM: Round [166] log likelihood: -3911.709268
EM: Round [167] log likelihood: -3911.708112
EM: Round [168] log likelihood: -3911.706961
EM: Round [169] log likelihood: -3911.705813
EM: Round [170] log likelihood: -3911.704669
EM: Round [171] log likelihood: -3911.703528
EM: Round [172] log likelihood: -3911.702392
EM: Round [173] log likelihood: -3911.701259
EM: Round [174] log likelihood: -3911.700130
EM: Round [175] log likelihood: -3911.699004
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EM: Round [639] log likelihood: -3911.414730
EM: Round [640] log likelihood: -3911.414421
EM: Round [641] log likelihood: -3911.414112
EM: Round [642] log likelihood: -3911.413805
EM: Round [643] log likelihood: -3911.413498
EM: Round [644] log likelihood: -3911.413192
EM: Round [645] log likelihood: -3911.412887
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EM: Round [648] log likelihood: -3911.411976
EM: Round [649] log likelihood: -3911.411674
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EM: Round [652] log likelihood: -3911.410772
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EM: Round [654] log likelihood: -3911.410174
EM: Round [655] log likelihood: -3911.409876
EM: Round [656] log likelihood: -3911.409579
EM: Round [657] log likelihood: -3911.409283
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EM: Round [659] log likelihood: -3911.408692
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EM: Round [661] log likelihood: -3911.408105
EM: Round [662] log likelihood: -3911.407812
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EM: Round [664] log likelihood: -3911.407229
EM: Round [665] log likelihood: -3911.406939
EM: Round [666] log likelihood: -3911.406649
EM: Round [667] log likelihood: -3911.406360
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EM: Round [670] log likelihood: -3911.405497
EM: Round [671] log likelihood: -3911.405210
EM: Round [672] log likelihood: -3911.404925
EM: Round [673] log likelihood: -3911.404640
EM: Round [674] log likelihood: -3911.404356
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EM: Round [679] log likelihood: -3911.402945
EM: Round [680] log likelihood: -3911.402665
EM: Round [681] log likelihood: -3911.402386
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EM: Round [684] log likelihood: -3911.401552
EM: Round [685] log likelihood: -3911.401275
EM: Round [686] log likelihood: -3911.400999
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EM: Round [689] log likelihood: -3911.400176
EM: Round [690] log likelihood: -3911.399902
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EM: Round [692] log likelihood: -3911.399358
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EM: Round [694] log likelihood: -3911.398816
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EM: Round [696] log likelihood: -3911.398277
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EM: Round [699] log likelihood: -3911.397473
EM: Round [700] log likelihood: -3911.397206
EM: Round [701] log likelihood: -3911.396940
EM: Round [702] log likelihood: -3911.396675
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EM: Round [704] log likelihood: -3911.396146
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EM: Round [710] log likelihood: -3911.394575
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EM: Round [712] log likelihood: -3911.394056
EM: Round [713] log likelihood: -3911.393797
EM: Round [714] log likelihood: -3911.393540
EM: Round [715] log likelihood: -3911.393283
EM: Round [716] log likelihood: -3911.393026
EM: Round [717] log likelihood: -3911.392770
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EM: Round [721] log likelihood: -3911.391753
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EM: Round [723] log likelihood: -3911.391248
EM: Round [724] log likelihood: -3911.390996
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EM: Round [730] log likelihood: -3911.389499
EM: Round [731] log likelihood: -3911.389252
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EM: Round [733] log likelihood: -3911.388759
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EM: Round [735] log likelihood: -3911.388268
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EM: Round [737] log likelihood: -3911.387780
EM: Round [738] log likelihood: -3911.387537
EM: Round [739] log likelihood: -3911.387294
EM: Round [740] log likelihood: -3911.387052
EM: Round [741] log likelihood: -3911.386810
EM: Round [742] log likelihood: -3911.386570
EM: Round [743] log likelihood: -3911.386329
EM: Round [744] log likelihood: -3911.386089
EM: Round [745] log likelihood: -3911.385850
EM: Round [746] log likelihood: -3911.385612
EM: Round [747] log likelihood: -3911.385374
EM: Round [748] log likelihood: -3911.385136
EM: Round [749] log likelihood: -3911.384899
EM: Round [750] log likelihood: -3911.384663
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EM: Round [754] log likelihood: -3911.383723
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EM: Round [758] log likelihood: -3911.382793
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EM: Round [760] log likelihood: -3911.382331
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EM: Round [762] log likelihood: -3911.381871
EM: Round [763] log likelihood: -3911.381642
EM: Round [764] log likelihood: -3911.381413
EM: Round [765] log likelihood: -3911.381186
EM: Round [766] log likelihood: -3911.380958
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EM: Round [768] log likelihood: -3911.380505
EM: Round [769] log likelihood: -3911.380279
EM: Round [770] log likelihood: -3911.380054
EM: Round [771] log likelihood: -3911.379829
EM: Round [772] log likelihood: -3911.379605
EM: Round [773] log likelihood: -3911.379381
EM: Round [774] log likelihood: -3911.379158
EM: Round [775] log likelihood: -3911.378936
EM: Round [776] log likelihood: -3911.378714
EM: Round [777] log likelihood: -3911.378492
EM: Round [778] log likelihood: -3911.378271
EM: Round [779] log likelihood: -3911.378051
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EM: Round [784] log likelihood: -3911.376956
EM: Round [785] log likelihood: -3911.376739
EM: Round [786] log likelihood: -3911.376522
EM: Round [787] log likelihood: -3911.376306
EM: Round [788] log likelihood: -3911.376090
EM: Round [789] log likelihood: -3911.375875
EM: Round [790] log likelihood: -3911.375660
EM: Round [791] log likelihood: -3911.375446
EM: Round [792] log likelihood: -3911.375232
EM: Round [793] log likelihood: -3911.375019
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EM: Round [795] log likelihood: -3911.374594
EM: Round [796] log likelihood: -3911.374382
EM: Round [797] log likelihood: -3911.374171
EM: Round [798] log likelihood: -3911.373960
EM: Round [799] log likelihood: -3911.373750
EM: Round [800] log likelihood: -3911.373540
EM: Round [801] log likelihood: -3911.373331
EM: Round [802] log likelihood: -3911.373122
EM: Round [803] log likelihood: -3911.372914
EM: Round [804] log likelihood: -3911.372706
EM: Round [805] log likelihood: -3911.372499
EM: Round [806] log likelihood: -3911.372292
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EM: Round [811] log likelihood: -3911.371266
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EM: Round [814] log likelihood: -3911.370656
EM: Round [815] log likelihood: -3911.370454
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EM: Round [818] log likelihood: -3911.369849
EM: Round [819] log likelihood: -3911.369649
EM: Round [820] log likelihood: -3911.369449
EM: Round [821] log likelihood: -3911.369250
EM: Round [822] log likelihood: -3911.369050
EM: Round [823] log likelihood: -3911.368852
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EM: Round [825] log likelihood: -3911.368456
EM: Round [826] log likelihood: -3911.368259
EM: Round [827] log likelihood: -3911.368062
EM: Round [828] log likelihood: -3911.367866
EM: Round [829] log likelihood: -3911.367670
EM: Round [830] log likelihood: -3911.367475
EM: Round [831] log likelihood: -3911.367280
EM: Round [832] log likelihood: -3911.367086
EM: Round [833] log likelihood: -3911.366892
EM: Round [834] log likelihood: -3911.366698
EM: Round [835] log likelihood: -3911.366505
EM: Round [836] log likelihood: -3911.366313
EM: Round [837] log likelihood: -3911.366121
EM: Round [838] log likelihood: -3911.365929
EM: Round [839] log likelihood: -3911.365738
EM: Round [840] log likelihood: -3911.365547
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EM: Round [860] log likelihood: -3911.361825
EM: Round [861] log likelihood: -3911.361643
EM: Round [862] log likelihood: -3911.361462
EM: Round [863] log likelihood: -3911.361281
EM: Round [864] log likelihood: -3911.361101
EM: Round [865] log likelihood: -3911.360921
EM: Round [866] log likelihood: -3911.360742
EM: Round [867] log likelihood: -3911.360562
EM: Round [868] log likelihood: -3911.360384
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EM: Round [891] log likelihood: -3911.356389
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EM: Round [895] log likelihood: -3911.355716
EM: Round [896] log likelihood: -3911.355549
EM: Round [897] log likelihood: -3911.355382
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EM: Round [903] log likelihood: -3911.354389
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EM: Round [905] log likelihood: -3911.354061
EM: Round [906] log likelihood: -3911.353898
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EM: Round [909] log likelihood: -3911.353410
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EM: Round [911] log likelihood: -3911.353086
EM: Round [912] log likelihood: -3911.352925
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EM: Round [914] log likelihood: -3911.352604
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EM: Round [918] log likelihood: -3911.351966
EM: Round [919] log likelihood: -3911.351807
EM: Round [920] log likelihood: -3911.351649
EM: Round [921] log likelihood: -3911.351491
EM: Round [922] log likelihood: -3911.351334
EM: Round [923] log likelihood: -3911.351177
EM: Round [924] log likelihood: -3911.351020
EM: Round [925] log likelihood: -3911.350864
EM: Round [926] log likelihood: -3911.350708
EM: Round [927] log likelihood: -3911.350552
EM: Round [928] log likelihood: -3911.350397
EM: Round [929] log likelihood: -3911.350242
EM: Round [930] log likelihood: -3911.350087
EM: Round [931] log likelihood: -3911.349933
EM: Round [932] log likelihood: -3911.349779
EM: Round [933] log likelihood: -3911.349626
EM: Round [934] log likelihood: -3911.349473
EM: Round [935] log likelihood: -3911.349320
EM: Round [936] log likelihood: -3911.349167
EM: Round [937] log likelihood: -3911.349015
EM: Round [938] log likelihood: -3911.348864
EM: Round [939] log likelihood: -3911.348712
EM: Round [940] log likelihood: -3911.348561
EM: Round [941] log likelihood: -3911.348411
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EM: Round [947] log likelihood: -3911.347514
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EM: Round [949] log likelihood: -3911.347218
EM: Round [950] log likelihood: -3911.347070
EM: Round [951] log likelihood: -3911.346923
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EM: Round [964] log likelihood: -3911.345040
EM: Round [965] log likelihood: -3911.344898
EM: Round [966] log likelihood: -3911.344755
EM: Round [967] log likelihood: -3911.344614
EM: Round [968] log likelihood: -3911.344472
EM: Round [969] log likelihood: -3911.344331
EM: Round [970] log likelihood: -3911.344190
EM: Round [971] log likelihood: -3911.344049
EM: Round [972] log likelihood: -3911.343909
EM: Round [973] log likelihood: -3911.343769
EM: Round [974] log likelihood: -3911.343630
EM: Round [975] log likelihood: -3911.343490
EM: Round [976] log likelihood: -3911.343351
EM: Round [977] log likelihood: -3911.343213
EM: Round [978] log likelihood: -3911.343074
EM: Round [979] log likelihood: -3911.342936
EM: Round [980] log likelihood: -3911.342799
EM: Round [981] log likelihood: -3911.342661
EM: Round [982] log likelihood: -3911.342524
EM: Round [983] log likelihood: -3911.342388
EM: Round [984] log likelihood: -3911.342251
EM: Round [985] log likelihood: -3911.342115
EM: Round [986] log likelihood: -3911.341979
EM: Round [987] log likelihood: -3911.341844
EM: Round [988] log likelihood: -3911.341709
EM: Round [989] log likelihood: -3911.341574
EM: Round [990] log likelihood: -3911.341439
EM: Round [991] log likelihood: -3911.341305
EM: Round [992] log likelihood: -3911.341171
EM: Round [993] log likelihood: -3911.341038
EM: Round [994] log likelihood: -3911.340904
EM: Round [995] log likelihood: -3911.340771
EM: Round [996] log likelihood: -3911.340639
EM: Round [997] log likelihood: -3911.340506
EM: Round [998] log likelihood: -3911.340374
EM: Round [999] log likelihood: -3911.340242
EM: Round [1000] log likelihood: -3911.340111
EM: Round [1001] log likelihood: -3911.339980
-total frags in /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_1.fastp.fastq.gz: 294921407
Warning - not locating file: /tmp/nxf.76Zc6cDWGV/1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2.gmap_trinity_GG.fusions.gff3.bed
WARNING, no entry stored in dbm for [ENSG00000198237.8]
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 [ENSG00000280136.2]
WARNING, no entry stored in dbm for [ENSG00000267302.5]
WARNING, no entry stored in dbm for [ENSG00000267302.5]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000267198.1]
WARNING, no entry stored in dbm for [ENSG00000272134.1]
WARNING, no entry stored in dbm for [ENSG00000278212.2]
ls: cannot access 'IGV_inputs': No such file or directory