Done.
-parsing GTF file: /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.gtf
* Running CMD: /usr/local/bin/STAR --runThreadN 8 --genomeDir /tmp/nxf.tlK9bTyVIh/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.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17_1.fastp.fastq.gz /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17_2.fastp.fastq.gz --genomeFastaFiles /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.fa --outSAMfilter KeepAllAddedReferences --sjdbGTFfile /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.gtf --alignSJstitchMismatchNmax 5 -1 5 5 --scoreGapNoncan -6 --readFilesCommand 'gunzip -c'
* Running CMD: mv Aligned.sortedByCoord.out.bam tih_rna_sample_00087_23H5VFLT4_s17.star.sortedByCoord.out.bam
* Running CMD: samtools index tih_rna_sample_00087_23H5VFLT4_s17.star.sortedByCoord.out.bam
11:02:28 : INFO : Done.
-parsing GTF file: /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.gtf
-parsing /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.star.cSorted.dupsMarked.bam
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[4100000] -done parsing /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.star.cSorted.dupsMarked.bam. Extracting junction info.
junction read elimination tally: $VAR1 = {
'exons hit < 2' => 15,
'num genes matched < 2' => 103,
'excessive soft clipping' => 40607,
'num_hits: 6 != num_counted_on_fusion_contigs 5 ' => 15,
'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 118,
'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 48,
'per_id < 96' => 21779,
'small anchor length' => 217,
'low complexity anchor region' => 8,
'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 522,
'num_hits: 5 != num_counted_on_fusion_contigs 1 ' => 1,
' ** passed ** ' => 33677,
'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 1149,
'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 2,
'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 3,
'seq-similar region overlap' => 4,
'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 54,
'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 36
};
-writing fusion junction support info.
-outputting the spanning read info: /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.star.cSorted.dupsMarked.bam.fusion_spanning_info.
- counting read alignments among fusion contigs.
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[2907000] -fusion SPANNING read extraction for scaff: COL1A1--SLC45A4
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[15000] -fusion SPANNING read extraction for scaff: GOLGA6L10--GOLGA2P6
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[12000] -fusion SPANNING read extraction for scaff: MARVELD2--OCLN
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[7000] -fusion SPANNING read extraction for scaff: PCDHA4--PCDHAC1
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[8000] -fusion SPANNING read extraction for scaff: PCDHA4--PCDHA13
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[7000] -fusion SPANNING read extraction for scaff: PCDHA6--PCDHA13
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[7000] -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC1
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[7000] -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC2
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[23000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA8
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[13000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB6
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[20000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA11
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[34000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC3
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[13000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC4
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[11000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC5
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[14000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA9
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[17000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA12
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[14000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB7
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[40000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA10
[1000]
[2000] -fusion SPANNING read extraction for scaff: RPS27P14--OCLN
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[177000] -fusion SPANNING read extraction for scaff: SFRP4--EPDR1
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[43000] -fusion SPANNING read extraction for scaff: STON1--GTF2A1L
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[92000] -fusion SPANNING read extraction for scaff: STX16--NPEPL1
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[139000] -fusion SPANNING read extraction for scaff: THRAP3P2--SLCO3A1
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[39000] -fusion SPANNING read extraction for scaff: TLK2--AC240565.1
[1000]
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[8000] -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1
[1000]
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[44000] -fusion SPANNING read extraction for scaff: TVP23C--CDRT4
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[58000] -fusion SPANNING read extraction for scaff: UPK1B--IGSF11
-filtered reads reasons: $VAR1 = {
'lacks exon overlap' => 34739,
'seq similar region alignment' => 14253
};
EM: Starting log likelihood: -12928.963378
EM: Round [1] log likelihood: -12926.062386
EM: Round [2] log likelihood: -12925.976261
EM: Round [3] log likelihood: -12925.937083
EM: Round [4] log likelihood: -12925.915402
EM: Round [5] log likelihood: -12925.901927
EM: Round [6] log likelihood: -12925.892470
EM: Round [7] log likelihood: -12925.885019
EM: Round [8] log likelihood: -12925.878582
EM: Round [9] log likelihood: -12925.872668
EM: Round [10] log likelihood: -12925.867031
EM: Round [11] log likelihood: -12925.861548
EM: Round [12] log likelihood: -12925.856158
EM: Round [13] log likelihood: -12925.850831
EM: Round [14] log likelihood: -12925.845550
EM: Round [15] log likelihood: -12925.840307
EM: Round [16] log likelihood: -12925.835099
EM: Round [17] log likelihood: -12925.829923
EM: Round [18] log likelihood: -12925.824778
EM: Round [19] log likelihood: -12925.819663
EM: Round [20] log likelihood: -12925.814578
EM: Round [21] log likelihood: -12925.809521
EM: Round [22] log likelihood: -12925.804494
EM: Round [23] log likelihood: -12925.799494
EM: Round [24] log likelihood: -12925.794523
EM: Round [25] log likelihood: -12925.789580
EM: Round [26] log likelihood: -12925.784664
EM: Round [27] log likelihood: -12925.779775
EM: Round [28] log likelihood: -12925.774913
EM: Round [29] log likelihood: -12925.770077
EM: Round [30] log likelihood: -12925.765268
EM: Round [31] log likelihood: -12925.760485
EM: Round [32] log likelihood: -12925.755728
EM: Round [33] log likelihood: -12925.750997
EM: Round [34] log likelihood: -12925.746290
EM: Round [35] log likelihood: -12925.741609
EM: Round [36] log likelihood: -12925.736952
EM: Round [37] log likelihood: -12925.732320
EM: Round [38] log likelihood: -12925.727713
EM: Round [39] log likelihood: -12925.723129
EM: Round [40] log likelihood: -12925.718569
EM: Round [41] log likelihood: -12925.714033
EM: Round [42] log likelihood: -12925.709520
EM: Round [43] log likelihood: -12925.705031
EM: Round [44] log likelihood: -12925.700564
EM: Round [45] log likelihood: -12925.696120
EM: Round [46] log likelihood: -12925.691698
EM: Round [47] log likelihood: -12925.687299
EM: Round [48] log likelihood: -12925.682922
EM: Round [49] log likelihood: -12925.678566
EM: Round [50] log likelihood: -12925.674233
EM: Round [51] log likelihood: -12925.669920
EM: Round [52] log likelihood: -12925.665629
EM: Round [53] log likelihood: -12925.661359
EM: Round [54] log likelihood: -12925.657110
EM: Round [55] log likelihood: -12925.652882
EM: Round [56] log likelihood: -12925.648674
EM: Round [57] log likelihood: -12925.644486
EM: Round [58] log likelihood: -12925.640319
EM: Round [59] log likelihood: -12925.636171
EM: Round [60] log likelihood: -12925.632043
EM: Round [61] log likelihood: -12925.627935
EM: Round [62] log likelihood: -12925.623846
EM: Round [63] log likelihood: -12925.619777
EM: Round [64] log likelihood: -12925.615726
EM: Round [65] log likelihood: -12925.611695
EM: Round [66] log likelihood: -12925.607682
EM: Round [67] log likelihood: -12925.603688
EM: Round [68] log likelihood: -12925.599712
EM: Round [69] log likelihood: -12925.595755
EM: Round [70] log likelihood: -12925.591815
EM: Round [71] log likelihood: -12925.587894
EM: Round [72] log likelihood: -12925.583990
EM: Round [73] log likelihood: -12925.580104
EM: Round [74] log likelihood: -12925.576236
EM: Round [75] log likelihood: -12925.572385
EM: Round [76] log likelihood: -12925.568551
EM: Round [77] log likelihood: -12925.564734
EM: Round [78] log likelihood: -12925.560934
EM: Round [79] log likelihood: -12925.557151
EM: Round [80] log likelihood: -12925.553385
EM: Round [81] log likelihood: -12925.549635
EM: Round [82] log likelihood: -12925.545902
EM: Round [83] log likelihood: -12925.542184
EM: Round [84] log likelihood: -12925.538483
EM: Round [85] log likelihood: -12925.534798
EM: Round [86] log likelihood: -12925.531129
EM: Round [87] log likelihood: -12925.527476
EM: Round [88] log likelihood: -12925.523838
EM: Round [89] log likelihood: -12925.520216
EM: Round [90] log likelihood: -12925.516609
EM: Round [91] log likelihood: -12925.513017
EM: Round [92] log likelihood: -12925.509440
EM: Round [93] log likelihood: -12925.505879
EM: Round [94] log likelihood: -12925.502332
EM: Round [95] log likelihood: -12925.498800
EM: Round [96] log likelihood: -12925.495283
EM: Round [97] log likelihood: -12925.491781
EM: Round [98] log likelihood: -12925.488293
EM: Round [99] log likelihood: -12925.484819
EM: Round [100] log likelihood: -12925.481359
EM: Round [101] log likelihood: -12925.477914
EM: Round [102] log likelihood: -12925.474482
EM: Round [103] log likelihood: -12925.471065
EM: Round [104] log likelihood: -12925.467661
EM: Round [105] log likelihood: -12925.464271
EM: Round [106] log likelihood: -12925.460895
EM: Round [107] log likelihood: -12925.457532
EM: Round [108] log likelihood: -12925.454183
EM: Round [109] log likelihood: -12925.450847
EM: Round [110] log likelihood: -12925.447524
EM: Round [111] log likelihood: -12925.444214
EM: Round [112] log likelihood: -12925.440917
EM: Round [113] log likelihood: -12925.437633
EM: Round [114] log likelihood: -12925.434362
EM: Round [115] log likelihood: -12925.431104
EM: Round [116] log likelihood: -12925.427858
EM: Round [117] log likelihood: -12925.424625
EM: Round [118] log likelihood: -12925.421405
EM: Round [119] log likelihood: -12925.418197
EM: Round [120] log likelihood: -12925.415001
EM: Round [121] log likelihood: -12925.411817
EM: Round [122] log likelihood: -12925.408646
EM: Round [123] log likelihood: -12925.405486
EM: Round [124] log likelihood: -12925.402339
EM: Round [125] log likelihood: -12925.399203
EM: Round [126] log likelihood: -12925.396079
EM: Round [127] log likelihood: -12925.392967
EM: Round [128] log likelihood: -12925.389867
EM: Round [129] log likelihood: -12925.386778
EM: Round [130] log likelihood: -12925.383700
EM: Round [131] log likelihood: -12925.380634
EM: Round [132] log likelihood: -12925.377579
EM: Round [133] log likelihood: -12925.374536
EM: Round [134] log likelihood: -12925.371504
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EM: Round [596] log likelihood: -12924.578201
EM: Round [597] log likelihood: -12924.577183
EM: Round [598] log likelihood: -12924.576167
EM: Round [599] log likelihood: -12924.575152
EM: Round [600] log likelihood: -12924.574139
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EM: Round [603] log likelihood: -12924.571110
EM: Round [604] log likelihood: -12924.570104
EM: Round [605] log likelihood: -12924.569099
EM: Round [606] log likelihood: -12924.568096
EM: Round [607] log likelihood: -12924.567095
EM: Round [608] log likelihood: -12924.566095
EM: Round [609] log likelihood: -12924.565097
EM: Round [610] log likelihood: -12924.564101
EM: Round [611] log likelihood: -12924.563106
EM: Round [612] log likelihood: -12924.562113
EM: Round [613] log likelihood: -12924.561121
EM: Round [614] log likelihood: -12924.560131
EM: Round [615] log likelihood: -12924.559143
EM: Round [616] log likelihood: -12924.558156
EM: Round [617] log likelihood: -12924.557171
EM: Round [618] log likelihood: -12924.556187
EM: Round [619] log likelihood: -12924.555205
EM: Round [620] log likelihood: -12924.554225
EM: Round [621] log likelihood: -12924.553246
EM: Round [622] log likelihood: -12924.552269
EM: Round [623] log likelihood: -12924.551293
EM: Round [624] log likelihood: -12924.550319
EM: Round [625] log likelihood: -12924.549347
EM: Round [626] log likelihood: -12924.548376
EM: Round [627] log likelihood: -12924.547407
EM: Round [628] log likelihood: -12924.546439
EM: Round [629] log likelihood: -12924.545473
EM: Round [630] log likelihood: -12924.544508
EM: Round [631] log likelihood: -12924.543545
EM: Round [632] log likelihood: -12924.542583
EM: Round [633] log likelihood: -12924.541623
EM: Round [634] log likelihood: -12924.540664
EM: Round [635] log likelihood: -12924.539707
EM: Round [636] log likelihood: -12924.538752
EM: Round [637] log likelihood: -12924.537798
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EM: Round [640] log likelihood: -12924.534945
EM: Round [641] log likelihood: -12924.533997
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[bam_sort_core] merging from 0 files and 8 in-memory blocks...
-extracting read coordinates from /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam into /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.read_coords
CMD: touch /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.read_coords > /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.frag_coords > /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.consolidated.bam.frag_coords.coord_sorted
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.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.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.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.tlK9bTyVIh/fi_workdir/tih_rna_sample_00087_23H5VFLT4_s17.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.post_blast_and_promiscuity_filter
-done, see /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.post_blast_and_promiscuity_filter.annot_filter.pass
EM: Starting log likelihood: -10828.190079
EM: Round [1] log likelihood: -10826.997934
EM: Round [2] log likelihood: -10826.983271
EM: Round [3] log likelihood: -10826.978116
EM: Round [4] log likelihood: -10826.973654
EM: Round [5] log likelihood: -10826.969290
EM: Round [6] log likelihood: -10826.964956
EM: Round [7] log likelihood: -10826.960644
EM: Round [8] log likelihood: -10826.956354
EM: Round [9] log likelihood: -10826.952085
EM: Round [10] log likelihood: -10826.947837
EM: Round [11] log likelihood: -10826.943610
EM: Round [12] log likelihood: -10826.939403
EM: Round [13] log likelihood: -10826.935216
EM: Round [14] log likelihood: -10826.931049
EM: Round [15] log likelihood: -10826.926903
EM: Round [16] log likelihood: -10826.922776
EM: Round [17] log likelihood: -10826.918668
EM: Round [18] log likelihood: -10826.914581
EM: Round [19] log likelihood: -10826.910512
EM: Round [20] log likelihood: -10826.906462
EM: Round [21] log likelihood: -10826.902432
EM: Round [22] log likelihood: -10826.898420
EM: Round [23] log likelihood: -10826.894426
EM: Round [24] log likelihood: -10826.890451
EM: Round [25] log likelihood: -10826.886495
EM: Round [26] log likelihood: -10826.882556
EM: Round [27] log likelihood: -10826.878636
EM: Round [28] log likelihood: -10826.874733
EM: Round [29] log likelihood: -10826.870848
EM: Round [30] log likelihood: -10826.866980
EM: Round [31] log likelihood: -10826.863130
EM: Round [32] log likelihood: -10826.859297
EM: Round [33] log likelihood: -10826.855481
EM: Round [34] log likelihood: -10826.851682
EM: Round [35] log likelihood: -10826.847899
EM: Round [36] log likelihood: -10826.844134
EM: Round [37] log likelihood: -10826.840385
EM: Round [38] log likelihood: -10826.836652
EM: Round [39] log likelihood: -10826.832936
EM: Round [40] log likelihood: -10826.829235
EM: Round [41] log likelihood: -10826.825551
EM: Round [42] log likelihood: -10826.821883
EM: Round [43] log likelihood: -10826.818230
EM: Round [44] log likelihood: -10826.814593
EM: Round [45] log likelihood: -10826.810971
EM: Round [46] log likelihood: -10826.807365
EM: Round [47] log likelihood: -10826.803774
EM: Round [48] log likelihood: -10826.800198
EM: Round [49] log likelihood: -10826.796637
EM: Round [50] log likelihood: -10826.793091
EM: Round [51] log likelihood: -10826.789560
EM: Round [52] log likelihood: -10826.786044
EM: Round [53] log likelihood: -10826.782542
EM: Round [54] log likelihood: -10826.779054
EM: Round [55] log likelihood: -10826.775581
EM: Round [56] log likelihood: -10826.772122
EM: Round [57] log likelihood: -10826.768678
EM: Round [58] log likelihood: -10826.765247
EM: Round [59] log likelihood: -10826.761830
EM: Round [60] log likelihood: -10826.758427
EM: Round [61] log likelihood: -10826.755038
EM: Round [62] log likelihood: -10826.751662
EM: Round [63] log likelihood: -10826.748300
EM: Round [64] log likelihood: -10826.744951
EM: Round [65] log likelihood: -10826.741615
EM: Round [66] log likelihood: -10826.738293
EM: Round [67] log likelihood: -10826.734984
EM: Round [68] log likelihood: -10826.731688
EM: Round [69] log likelihood: -10826.728404
EM: Round [70] log likelihood: -10826.725134
EM: Round [71] log likelihood: -10826.721876
EM: Round [72] log likelihood: -10826.718631
EM: Round [73] log likelihood: -10826.715399
EM: Round [74] log likelihood: -10826.712179
EM: Round [75] log likelihood: -10826.708971
EM: Round [76] log likelihood: -10826.705776
EM: Round [77] log likelihood: -10826.702593
EM: Round [78] log likelihood: -10826.699422
EM: Round [79] log likelihood: -10826.696263
EM: Round [80] log likelihood: -10826.693116
EM: Round [81] log likelihood: -10826.689981
EM: Round [82] log likelihood: -10826.686858
EM: Round [83] log likelihood: -10826.683746
EM: Round [84] log likelihood: -10826.680646
EM: Round [85] log likelihood: -10826.677558
EM: Round [86] log likelihood: -10826.674481
EM: Round [87] log likelihood: -10826.671415
EM: Round [88] log likelihood: -10826.668361
EM: Round [89] log likelihood: -10826.665318
EM: Round [90] log likelihood: -10826.662286
EM: Round [91] log likelihood: -10826.659266
EM: Round [92] log likelihood: -10826.656256
EM: Round [93] log likelihood: -10826.653257
EM: Round [94] log likelihood: -10826.650269
EM: Round [95] log likelihood: -10826.647292
EM: Round [96] log likelihood: -10826.644326
EM: Round [97] log likelihood: -10826.641370
EM: Round [98] log likelihood: -10826.638425
EM: Round [99] log likelihood: -10826.635491
EM: Round [100] log likelihood: -10826.632566
EM: Round [101] log likelihood: -10826.629653
EM: Round [102] log likelihood: -10826.626749
EM: Round [103] log likelihood: -10826.623856
EM: Round [104] log likelihood: -10826.620973
EM: Round [105] log likelihood: -10826.618100
EM: Round [106] log likelihood: -10826.615238
EM: Round [107] log likelihood: -10826.612385
EM: Round [108] log likelihood: -10826.609542
EM: Round [109] log likelihood: -10826.606709
EM: Round [110] log likelihood: -10826.603886
EM: Round [111] log likelihood: -10826.601072
EM: Round [112] log likelihood: -10826.598269
EM: Round [113] log likelihood: -10826.595475
EM: Round [114] log likelihood: -10826.592690
EM: Round [115] log likelihood: -10826.589915
EM: Round [116] log likelihood: -10826.587149
EM: Round [117] log likelihood: -10826.584393
EM: Round [118] log likelihood: -10826.581646
EM: Round [119] log likelihood: -10826.578909
EM: Round [120] log likelihood: -10826.576180
EM: Round [121] log likelihood: -10826.573461
EM: Round [122] log likelihood: -10826.570751
EM: Round [123] log likelihood: -10826.568050
EM: Round [124] log likelihood: -10826.565358
EM: Round [125] log likelihood: -10826.562675
EM: Round [126] log likelihood: -10826.560001
EM: Round [127] log likelihood: -10826.557335
EM: Round [128] log likelihood: -10826.554678
EM: Round [129] log likelihood: -10826.552031
EM: Round [130] log likelihood: -10826.549391
EM: Round [131] log likelihood: -10826.546761
EM: Round [132] log likelihood: -10826.544139
EM: Round [133] log likelihood: -10826.541525
EM: Round [134] log likelihood: -10826.538920
EM: Round [135] log likelihood: -10826.536324
EM: Round [136] log likelihood: -10826.533736
EM: Round [137] log likelihood: -10826.531156
EM: Round [138] log likelihood: -10826.528584
EM: Round [139] log likelihood: -10826.526021
EM: Round [140] log likelihood: -10826.523466
EM: Round [141] log likelihood: -10826.520919
EM: Round [142] log likelihood: -10826.518380
EM: Round [143] log likelihood: -10826.515849
EM: Round [144] log likelihood: -10826.513326
EM: Round [145] log likelihood: -10826.510811
EM: Round [146] log likelihood: -10826.508304
EM: Round [147] log likelihood: -10826.505805
EM: Round [148] log likelihood: -10826.503313
EM: Round [149] log likelihood: -10826.500830
EM: Round [150] log likelihood: -10826.498354
EM: Round [151] log likelihood: -10826.495886
EM: Round [152] log likelihood: -10826.493425
EM: Round [153] log likelihood: -10826.490973
EM: Round [154] log likelihood: -10826.488527
EM: Round [155] log likelihood: -10826.486089
EM: Round [156] log likelihood: -10826.483659
EM: Round [157] log likelihood: -10826.481236
EM: Round [158] log likelihood: -10826.478821
EM: Round [159] log likelihood: -10826.476413
EM: Round [160] log likelihood: -10826.474012
EM: Round [161] log likelihood: -10826.471618
EM: Round [162] log likelihood: -10826.469232
EM: Round [163] log likelihood: -10826.466853
EM: Round [164] log likelihood: -10826.464481
EM: Round [165] log likelihood: -10826.462116
EM: Round [166] log likelihood: -10826.459759
EM: Round [167] log likelihood: -10826.457408
EM: Round [168] log likelihood: -10826.455064
EM: Round [169] log likelihood: -10826.452728
EM: Round [170] log likelihood: -10826.450398
EM: Round [171] log likelihood: -10826.448075
EM: Round [172] log likelihood: -10826.445759
EM: Round [173] log likelihood: -10826.443450
EM: Round [174] log likelihood: -10826.441148
EM: Round [175] log likelihood: -10826.438852
EM: Round [176] log likelihood: -10826.436563
EM: Round [177] log likelihood: -10826.434281
EM: Round [178] log likelihood: -10826.432006
EM: Round [179] log likelihood: -10826.429737
EM: Round [180] log likelihood: -10826.427474
EM: Round [181] log likelihood: -10826.425219
EM: Round [182] log likelihood: -10826.422969
EM: Round [183] log likelihood: -10826.420727
EM: Round [184] log likelihood: -10826.418490
EM: Round [185] log likelihood: -10826.416260
EM: Round [186] log likelihood: -10826.414037
EM: Round [187] log likelihood: -10826.411820
EM: Round [188] log likelihood: -10826.409609
EM: Round [189] log likelihood: -10826.407404
EM: Round [190] log likelihood: -10826.405206
EM: Round [191] log likelihood: -10826.403014
EM: Round [192] log likelihood: -10826.400828
EM: Round [193] log likelihood: -10826.398648
EM: Round [194] log likelihood: -10826.396474
EM: Round [195] log likelihood: -10826.394307
EM: Round [196] log likelihood: -10826.392145
EM: Round [197] log likelihood: -10826.389990
EM: Round [198] log likelihood: -10826.387841
EM: Round [199] log likelihood: -10826.385697
EM: Round [200] log likelihood: -10826.383560
EM: Round [201] log likelihood: -10826.381428
EM: Round [202] log likelihood: -10826.379302
EM: Round [203] log likelihood: -10826.377183
EM: Round [204] log likelihood: -10826.375069
EM: Round [205] log likelihood: -10826.372961
EM: Round [206] log likelihood: -10826.370858
EM: Round [207] log likelihood: -10826.368761
EM: Round [208] log likelihood: -10826.366671
EM: Round [209] log likelihood: -10826.364585
EM: Round [210] log likelihood: -10826.362506
EM: Round [211] log likelihood: -10826.360432
EM: Round [212] log likelihood: -10826.358364
EM: Round [213] log likelihood: -10826.356301
EM: Round [214] log likelihood: -10826.354244
EM: Round [215] log likelihood: -10826.352192
EM: Round [216] log likelihood: -10826.350146
EM: Round [217] log likelihood: -10826.348105
EM: Round [218] log likelihood: -10826.346070
EM: Round [219] log likelihood: -10826.344041
EM: Round [220] log likelihood: -10826.342016
EM: Round [221] log likelihood: -10826.339997
EM: Round [222] log likelihood: -10826.337984
EM: Round [223] log likelihood: -10826.335975
EM: Round [224] log likelihood: -10826.333973
EM: Round [225] log likelihood: -10826.331975
EM: Round [226] log likelihood: -10826.329982
EM: Round [227] log likelihood: -10826.327995
EM: Round [228] log likelihood: -10826.326013
EM: Round [229] log likelihood: -10826.324036
EM: Round [230] log likelihood: -10826.322065
EM: Round [231] log likelihood: -10826.320098
EM: Round [232] log likelihood: -10826.318137
EM: Round [233] log likelihood: -10826.316181
EM: Round [234] log likelihood: -10826.314229
EM: Round [235] log likelihood: -10826.312283
EM: Round [236] log likelihood: -10826.310342
EM: Round [237] log likelihood: -10826.308406
EM: Round [238] log likelihood: -10826.306475
EM: Round [239] log likelihood: -10826.304549
EM: Round [240] log likelihood: -10826.302627
EM: Round [241] log likelihood: -10826.300711
EM: Round [242] log likelihood: -10826.298799
EM: Round [243] log likelihood: -10826.296893
EM: Round [244] log likelihood: -10826.294991
EM: Round [245] log likelihood: -10826.293094
EM: Round [246] log likelihood: -10826.291202
EM: Round [247] log likelihood: -10826.289314
EM: Round [248] log likelihood: -10826.287432
EM: Round [249] log likelihood: -10826.285554
EM: Round [250] log likelihood: -10826.283681
EM: Round [251] log likelihood: -10826.281812
EM: Round [252] log likelihood: -10826.279948
EM: Round [253] log likelihood: -10826.278089
EM: Round [254] log likelihood: -10826.276235
EM: Round [255] log likelihood: -10826.274385
EM: Round [256] log likelihood: -10826.272539
EM: Round [257] log likelihood: -10826.270699
EM: Round [258] log likelihood: -10826.268863
EM: Round [259] log likelihood: -10826.267031
EM: Round [260] log likelihood: -10826.265204
EM: Round [261] log likelihood: -10826.263381
EM: Round [262] log likelihood: -10826.261563
EM: Round [263] log likelihood: -10826.259749
EM: Round [264] log likelihood: -10826.257940
EM: Round [265] log likelihood: -10826.256135
EM: Round [266] log likelihood: -10826.254335
EM: Round [267] log likelihood: -10826.252539
EM: Round [268] log likelihood: -10826.250747
EM: Round [269] log likelihood: -10826.248960
EM: Round [270] log likelihood: -10826.247177
EM: Round [271] log likelihood: -10826.245398
EM: Round [272] log likelihood: -10826.243624
EM: Round [273] log likelihood: -10826.241854
EM: Round [274] log likelihood: -10826.240088
EM: Round [275] log likelihood: -10826.238326
EM: Round [276] log likelihood: -10826.236569
EM: Round [277] log likelihood: -10826.234816
EM: Round [278] log likelihood: -10826.233067
EM: Round [279] log likelihood: -10826.231322
EM: Round [280] log likelihood: -10826.229581
EM: Round [281] log likelihood: -10826.227844
EM: Round [282] log likelihood: -10826.226112
EM: Round [283] log likelihood: -10826.224384
EM: Round [284] log likelihood: -10826.222659
EM: Round [285] log likelihood: -10826.220939
EM: Round [286] log likelihood: -10826.219223
EM: Round [287] log likelihood: -10826.217511
EM: Round [288] log likelihood: -10826.215803
EM: Round [289] log likelihood: -10826.214099
EM: Round [290] log likelihood: -10826.212399
EM: Round [291] log likelihood: -10826.210703
EM: Round [292] log likelihood: -10826.209010
EM: Round [293] log likelihood: -10826.207322
EM: Round [294] log likelihood: -10826.205638
EM: Round [295] log likelihood: -10826.203957
EM: Round [296] log likelihood: -10826.202281
EM: Round [297] log likelihood: -10826.200608
EM: Round [298] log likelihood: -10826.198940
EM: Round [299] log likelihood: -10826.197275
EM: Round [300] log likelihood: -10826.195614
EM: Round [301] log likelihood: -10826.193956
EM: Round [302] log likelihood: -10826.192303
EM: Round [303] log likelihood: -10826.190653
EM: Round [304] log likelihood: -10826.189007
EM: Round [305] log likelihood: -10826.187365
EM: Round [306] log likelihood: -10826.185726
EM: Round [307] log likelihood: -10826.184092
EM: Round [308] log likelihood: -10826.182461
EM: Round [309] log likelihood: -10826.180833
EM: Round [310] log likelihood: -10826.179210
EM: Round [311] log likelihood: -10826.177590
EM: Round [312] log likelihood: -10826.175974
EM: Round [313] log likelihood: -10826.174361
EM: Round [314] log likelihood: -10826.172752
EM: Round [315] log likelihood: -10826.171146
EM: Round [316] log likelihood: -10826.169545
EM: Round [317] log likelihood: -10826.167946
EM: Round [318] log likelihood: -10826.166352
EM: Round [319] log likelihood: -10826.164760
EM: Round [320] log likelihood: -10826.163173
EM: Round [321] log likelihood: -10826.161589
EM: Round [322] log likelihood: -10826.160008
EM: Round [323] log likelihood: -10826.158431
EM: Round [324] log likelihood: -10826.156858
EM: Round [325] log likelihood: -10826.155288
EM: Round [326] log likelihood: -10826.153721
EM: Round [327] log likelihood: -10826.152158
EM: Round [328] log likelihood: -10826.150598
EM: Round [329] log likelihood: -10826.149042
EM: Round [330] log likelihood: -10826.147489
EM: Round [331] log likelihood: -10826.145939
EM: Round [332] log likelihood: -10826.144393
EM: Round [333] log likelihood: -10826.142851
EM: Round [334] log likelihood: -10826.141311
EM: Round [335] log likelihood: -10826.139775
EM: Round [336] log likelihood: -10826.138242
EM: Round [337] log likelihood: -10826.136713
EM: Round [338] log likelihood: -10826.135187
EM: Round [339] log likelihood: -10826.133664
EM: Round [340] log likelihood: -10826.132145
EM: Round [341] log likelihood: -10826.130629
EM: Round [342] log likelihood: -10826.129116
EM: Round [343] log likelihood: -10826.127606
EM: Round [344] log likelihood: -10826.126100
EM: Round [345] log likelihood: -10826.124596
EM: Round [346] log likelihood: -10826.123096
EM: Round [347] log likelihood: -10826.121600
EM: Round [348] log likelihood: -10826.120106
EM: Round [349] log likelihood: -10826.118616
EM: Round [350] log likelihood: -10826.117128
EM: Round [351] log likelihood: -10826.115644
EM: Round [352] log likelihood: -10826.114163
EM: Round [353] log likelihood: -10826.112685
EM: Round [354] log likelihood: -10826.111211
EM: Round [355] log likelihood: -10826.109739
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EM: Round [357] log likelihood: -10826.106805
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EM: Round [360] log likelihood: -10826.102428
EM: Round [361] log likelihood: -10826.100974
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EM: Round [364] log likelihood: -10826.096633
EM: Round [365] log likelihood: -10826.095192
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EM: Round [368] log likelihood: -10826.090887
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EM: Round [453] log likelihood: -10825.979026
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EM: Round [909] log likelihood: -10825.587532
EM: Round [910] log likelihood: -10825.586920
EM: Round [911] log likelihood: -10825.586309
EM: Round [912] log likelihood: -10825.585700
EM: Round [913] log likelihood: -10825.585090
EM: Round [914] log likelihood: -10825.584482
EM: Round [915] log likelihood: -10825.583874
EM: Round [916] log likelihood: -10825.583267
EM: Round [917] log likelihood: -10825.582661
EM: Round [918] log likelihood: -10825.582056
EM: Round [919] log likelihood: -10825.581451
EM: Round [920] log likelihood: -10825.580847
EM: Round [921] log likelihood: -10825.580244
EM: Round [922] log likelihood: -10825.579642
EM: Round [923] log likelihood: -10825.579040
EM: Round [924] log likelihood: -10825.578439
EM: Round [925] log likelihood: -10825.577839
EM: Round [926] log likelihood: -10825.577240
EM: Round [927] log likelihood: -10825.576641
EM: Round [928] log likelihood: -10825.576043
EM: Round [929] log likelihood: -10825.575446
EM: Round [930] log likelihood: -10825.574849
EM: Round [931] log likelihood: -10825.574254
EM: Round [932] log likelihood: -10825.573659
EM: Round [933] log likelihood: -10825.573064
EM: Round [934] log likelihood: -10825.572471
EM: Round [935] log likelihood: -10825.571878
EM: Round [936] log likelihood: -10825.571286
EM: Round [937] log likelihood: -10825.570695
EM: Round [938] log likelihood: -10825.570104
EM: Round [939] log likelihood: -10825.569514
EM: Round [940] log likelihood: -10825.568925
EM: Round [941] log likelihood: -10825.568337
EM: Round [942] log likelihood: -10825.567749
EM: Round [943] log likelihood: -10825.567162
EM: Round [944] log likelihood: -10825.566576
EM: Round [945] log likelihood: -10825.565990
EM: Round [946] log likelihood: -10825.565405
EM: Round [947] log likelihood: -10825.564821
EM: Round [948] log likelihood: -10825.564238
EM: Round [949] log likelihood: -10825.563655
EM: Round [950] log likelihood: -10825.563073
EM: Round [951] log likelihood: -10825.562492
EM: Round [952] log likelihood: -10825.561911
EM: Round [953] log likelihood: -10825.561332
EM: Round [954] log likelihood: -10825.560752
EM: Round [955] log likelihood: -10825.560174
EM: Round [956] log likelihood: -10825.559596
EM: Round [957] log likelihood: -10825.559019
EM: Round [958] log likelihood: -10825.558443
EM: Round [959] log likelihood: -10825.557867
EM: Round [960] log likelihood: -10825.557292
EM: Round [961] log likelihood: -10825.556718
EM: Round [962] log likelihood: -10825.556145
EM: Round [963] log likelihood: -10825.555572
EM: Round [964] log likelihood: -10825.555000
EM: Round [965] log likelihood: -10825.554428
EM: Round [966] log likelihood: -10825.553857
EM: Round [967] log likelihood: -10825.553287
EM: Round [968] log likelihood: -10825.552718
EM: Round [969] log likelihood: -10825.552149
EM: Round [970] log likelihood: -10825.551581
EM: Round [971] log likelihood: -10825.551014
EM: Round [972] log likelihood: -10825.550447
EM: Round [973] log likelihood: -10825.549881
EM: Round [974] log likelihood: -10825.549316
EM: Round [975] log likelihood: -10825.548751
EM: Round [976] log likelihood: -10825.548187
EM: Round [977] log likelihood: -10825.547624
EM: Round [978] log likelihood: -10825.547062
EM: Round [979] log likelihood: -10825.546500
EM: Round [980] log likelihood: -10825.545939
EM: Round [981] log likelihood: -10825.545378
EM: Round [982] log likelihood: -10825.544818
EM: Round [983] log likelihood: -10825.544259
EM: Round [984] log likelihood: -10825.543700
EM: Round [985] log likelihood: -10825.543143
EM: Round [986] log likelihood: -10825.542585
EM: Round [987] log likelihood: -10825.542029
EM: Round [988] log likelihood: -10825.541473
EM: Round [989] log likelihood: -10825.540918
EM: Round [990] log likelihood: -10825.540363
EM: Round [991] log likelihood: -10825.539809
EM: Round [992] log likelihood: -10825.539256
EM: Round [993] log likelihood: -10825.538704
EM: Round [994] log likelihood: -10825.538152
EM: Round [995] log likelihood: -10825.537601
EM: Round [996] log likelihood: -10825.537050
EM: Round [997] log likelihood: -10825.536500
EM: Round [998] log likelihood: -10825.535951
EM: Round [999] log likelihood: -10825.535402
EM: Round [1000] log likelihood: -10825.534854
EM: Round [1001] log likelihood: -10825.534307
-total frags in /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17_1.fastp.fastq.gz: 297460868
Warning - not locating file: /tmp/nxf.tlK9bTyVIh/tih_rna_sample_00087_23H5VFLT4_s17.gmap_trinity_GG.fusions.gff3.bed
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 [ENSG00000282057.1]
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 [ENSG00000284627.1]
WARNING, no entry stored in dbm for [ENSG00000284627.1]
WARNING, no entry stored in dbm for [ENSG00000284627.1]
WARNING, no entry stored in dbm for [ENSG00000254610.3]
WARNING, no entry stored in dbm for [ENSG00000255367.3]
WARNING, no entry stored in dbm for [ENSG00000254610.3]
WARNING, no entry stored in dbm for [ENSG00000255367.3]
WARNING, no entry stored in dbm for [ENSG00000215158.9]
WARNING, no entry stored in dbm for [ENSG00000215158.9]
WARNING, no entry stored in dbm for [ENSG00000280136.2]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000253778.1]
WARNING, no entry stored in dbm for [ENSG00000284639.1]
WARNING, no entry stored in dbm for [ENSG00000248618.1]
WARNING, no entry stored in dbm for [ENSG00000226049.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000068781.21]
WARNING, no entry stored in dbm for [ENSG00000254633.2]
WARNING, no entry stored in dbm for [ENSG00000254633.2]
WARNING, no entry stored in dbm for [ENSG00000254633.2]
WARNING, no entry stored in dbm for [ENSG00000254633.2]
WARNING, no entry stored in dbm for [ENSG00000242880.2]
WARNING, no entry stored in dbm for [ENSG00000242880.2]
WARNING, no entry stored in dbm for [ENSG00000249252.5]
WARNING, no entry stored in dbm for [ENSG00000248360.7]
WARNING, no entry stored in dbm for [ENSG00000249252.5]
WARNING, no entry stored in dbm for [ENSG00000248360.7]
WARNING, no entry stored in dbm for [ENSG00000241621.1]
WARNING, no entry stored in dbm for [ENSG00000284639.1]
WARNING, no entry stored in dbm for [ENSG00000232677.9]
ls: cannot access 'IGV_inputs': No such file or directory