Done.
-parsing GTF file: /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.gtf
* Running CMD: /usr/local/bin/STAR --runThreadN 8 --genomeDir /tmp/nxf.uEBBjWs2L5/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.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_1.fastp.fastq.gz /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_2.fastp.fastq.gz --genomeFastaFiles /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.fa --outSAMfilter KeepAllAddedReferences --sjdbGTFfile /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_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_NMN_T1_RNA_SLD_01_A23T55JLT4_2.star.sortedByCoord.out.bam
* Running CMD: samtools index 1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.star.sortedByCoord.out.bam
11:14:05 : INFO : Done.
-parsing GTF file: /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.gtf
-parsing /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam
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[1650000] -done parsing /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam. Extracting junction info.
junction read elimination tally: $VAR1 = {
'per_id < 96' => 6427,
'small anchor length' => 28,
'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 21,
'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 36,
'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 77,
' ** passed ** ' => 8393,
'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 2464,
'num genes matched < 2' => 12,
'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 9,
'seq-similar region overlap' => 264,
'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 1,
'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 14,
'exons hit < 2' => 2,
'excessive soft clipping' => 9696,
'low complexity anchor region' => 10,
'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 8
};
-writing fusion junction support info.
-outputting the spanning read info: /tmp/nxf.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.star.cSorted.dupsMarked.bam.fusion_spanning_info.
- counting read alignments among fusion contigs.
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[62000] -fusion SPANNING read extraction for scaff: GOLGA6L10--GOLGA2P6
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[26000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA9
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[38000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGC3
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[34000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA12
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[138000] -fusion SPANNING read extraction for scaff: PPP5C--TSHZ2
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[38000] -fusion SPANNING read extraction for scaff: STON1--GTF2A1L
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[145000] -fusion SPANNING read extraction for scaff: STX16--NPEPL1
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[30000] -fusion SPANNING read extraction for scaff: TLK2--LINC01347
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[10000] -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1
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[120000] -fusion SPANNING read extraction for scaff: TSHZ2--HIF3A
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[27000] -fusion SPANNING read extraction for scaff: TVP23C--CDRT4
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[6000] -fusion SPANNING read extraction for scaff: USP2-AS1--MFRP
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[94000] -fusion SPANNING read extraction for scaff: VPS13A--PCSK5
-filtered reads reasons: $VAR1 = {
'lacks exon overlap' => 10424,
'seq similar region alignment' => 46864
};
EM: Starting log likelihood: -8307.068619
EM: Round [1] log likelihood: -8307.045433
EM: Round [2] log likelihood: -8307.024071
EM: Round [3] log likelihood: -8307.003425
EM: Round [4] log likelihood: -8306.983423
EM: Round [5] log likelihood: -8306.964034
EM: Round [6] log likelihood: -8306.945236
EM: Round [7] log likelihood: -8306.927004
EM: Round [8] log likelihood: -8306.909316
EM: Round [9] log likelihood: -8306.892152
EM: Round [10] log likelihood: -8306.875491
EM: Round [11] log likelihood: -8306.859315
EM: Round [12] log likelihood: -8306.843605
EM: Round [13] log likelihood: -8306.828344
EM: Round [14] log likelihood: -8306.813517
EM: Round [15] log likelihood: -8306.799107
EM: Round [16] log likelihood: -8306.785100
EM: Round [17] log likelihood: -8306.771482
EM: Round [18] log likelihood: -8306.758239
EM: Round [19] log likelihood: -8306.745358
EM: Round [20] log likelihood: -8306.732827
EM: Round [21] log likelihood: -8306.720635
EM: Round [22] log likelihood: -8306.708770
EM: Round [23] log likelihood: -8306.697222
EM: Round [24] log likelihood: -8306.685979
EM: Round [25] log likelihood: -8306.675032
EM: Round [26] log likelihood: -8306.664372
EM: Round [27] log likelihood: -8306.653990
EM: Round [28] log likelihood: -8306.643876
EM: Round [29] log likelihood: -8306.634023
EM: Round [30] log likelihood: -8306.624422
EM: Round [31] log likelihood: -8306.615066
EM: Round [32] log likelihood: -8306.605946
EM: Round [33] log likelihood: -8306.597057
EM: Round [34] log likelihood: -8306.588391
EM: Round [35] log likelihood: -8306.579941
EM: Round [36] log likelihood: -8306.571701
EM: Round [37] log likelihood: -8306.563664
EM: Round [38] log likelihood: -8306.555826
EM: Round [39] log likelihood: -8306.548180
EM: Round [40] log likelihood: -8306.540720
EM: Round [41] log likelihood: -8306.533441
EM: Round [42] log likelihood: -8306.526339
EM: Round [43] log likelihood: -8306.519407
EM: Round [44] log likelihood: -8306.512642
EM: Round [45] log likelihood: -8306.506039
EM: Round [46] log likelihood: -8306.499592
EM: Round [47] log likelihood: -8306.493299
EM: Round [48] log likelihood: -8306.487154
EM: Round [49] log likelihood: -8306.481153
EM: Round [50] log likelihood: -8306.475294
EM: Round [51] log likelihood: -8306.469570
EM: Round [52] log likelihood: -8306.463980
EM: Round [53] log likelihood: -8306.458520
EM: Round [54] log likelihood: -8306.453186
EM: Round [55] log likelihood: -8306.447974
EM: Round [56] log likelihood: -8306.442882
EM: Round [57] log likelihood: -8306.437906
EM: Round [58] log likelihood: -8306.433044
EM: Round [59] log likelihood: -8306.428292
EM: Round [60] log likelihood: -8306.423647
EM: Round [61] log likelihood: -8306.419108
EM: Round [62] log likelihood: -8306.414670
EM: Round [63] log likelihood: -8306.410332
EM: Round [64] log likelihood: -8306.406090
EM: Round [65] log likelihood: -8306.401943
EM: Round [66] log likelihood: -8306.397888
EM: Round [67] log likelihood: -8306.393923
EM: Round [68] log likelihood: -8306.390045
EM: Round [69] log likelihood: -8306.386253
EM: Round [70] log likelihood: -8306.382543
EM: Round [71] log likelihood: -8306.378915
EM: Round [72] log likelihood: -8306.375366
EM: Round [73] log likelihood: -8306.371894
EM: Round [74] log likelihood: -8306.368497
EM: Round [75] log likelihood: -8306.365173
EM: Round [76] log likelihood: -8306.361921
EM: Round [77] log likelihood: -8306.358739
EM: Round [78] log likelihood: -8306.355625
EM: Round [79] log likelihood: -8306.352577
EM: Round [80] log likelihood: -8306.349595
EM: Round [81] log likelihood: -8306.346675
EM: Round [82] log likelihood: -8306.343818
EM: Round [83] log likelihood: -8306.341020
EM: Round [84] log likelihood: -8306.338282
EM: Round [85] log likelihood: -8306.335601
EM: Round [86] log likelihood: -8306.332976
EM: Round [87] log likelihood: -8306.330406
EM: Round [88] log likelihood: -8306.327890
EM: Round [89] log likelihood: -8306.325425
EM: Round [90] log likelihood: -8306.323012
EM: Round [91] log likelihood: -8306.320648
EM: Round [92] log likelihood: -8306.318334
EM: Round [93] log likelihood: -8306.316066
EM: Round [94] log likelihood: -8306.313845
EM: Round [95] log likelihood: -8306.311669
EM: Round [96] log likelihood: -8306.309538
EM: Round [97] log likelihood: -8306.307450
EM: Round [98] log likelihood: -8306.305404
EM: Round [99] log likelihood: -8306.303399
EM: Round [100] log likelihood: -8306.301435
EM: Round [101] log likelihood: -8306.299510
EM: Round [102] log likelihood: -8306.297623
EM: Round [103] log likelihood: -8306.295775
EM: Round [104] log likelihood: -8306.293963
EM: Round [105] log likelihood: -8306.292186
EM: Round [106] log likelihood: -8306.290445
EM: Round [107] log likelihood: -8306.288739
EM: Round [108] log likelihood: -8306.287066
EM: Round [109] log likelihood: -8306.285425
EM: Round [110] log likelihood: -8306.283817
EM: Round [111] log likelihood: -8306.282240
EM: Round [112] log likelihood: -8306.280694
EM: Round [113] log likelihood: -8306.279177
EM: Round [114] log likelihood: -8306.277690
EM: Round [115] log likelihood: -8306.276232
EM: Round [116] log likelihood: -8306.274802
EM: Round [117] log likelihood: -8306.273398
EM: Round [118] log likelihood: -8306.272022
EM: Round [119] log likelihood: -8306.270672
EM: Round [120] log likelihood: -8306.269348
EM: Round [121] log likelihood: -8306.268048
EM: Round [122] log likelihood: -8306.266773
EM: Round [123] log likelihood: -8306.265522
EM: Round [124] log likelihood: -8306.264295
EM: Round [125] log likelihood: -8306.263090
EM: Round [126] log likelihood: -8306.261908
EM: Round [127] log likelihood: -8306.260747
EM: Round [128] log likelihood: -8306.259608
EM: Round [129] log likelihood: -8306.258490
EM: Round [130] log likelihood: -8306.257393
EM: Round [131] log likelihood: -8306.256316
EM: Round [132] log likelihood: -8306.255258
EM: Round [133] log likelihood: -8306.254220
EM: Round [134] log likelihood: -8306.253200
EM: Round [135] log likelihood: -8306.252199
EM: Round [136] log likelihood: -8306.251216
EM: Round [137] log likelihood: -8306.250250
EM: Round [138] log likelihood: -8306.249302
EM: Round [139] log likelihood: -8306.248371
EM: Round [140] log likelihood: -8306.247456
EM: Round [141] log likelihood: -8306.246557
EM: Round [142] log likelihood: -8306.245674
EM: Round [143] log likelihood: -8306.244807
EM: Round [144] log likelihood: -8306.243955
EM: Round [145] log likelihood: -8306.243118
EM: Round [146] log likelihood: -8306.242295
EM: Round [147] log likelihood: -8306.241487
EM: Round [148] log likelihood: -8306.240692
EM: Round [149] log likelihood: -8306.239911
EM: Round [150] log likelihood: -8306.239144
EM: Round [151] log likelihood: -8306.238389
EM: Round [152] log likelihood: -8306.237647
EM: Round [153] log likelihood: -8306.236918
EM: Round [154] log likelihood: -8306.236202
EM: Round [155] log likelihood: -8306.235497
EM: Round [156] log likelihood: -8306.234804
EM: Round [157] log likelihood: -8306.234122
EM: Round [158] log likelihood: -8306.233452
EM: Round [159] log likelihood: -8306.232793
EM: Round [160] log likelihood: -8306.232145
EM: Round [161] log likelihood: -8306.231507
EM: Round [162] log likelihood: -8306.230880
EM: Round [163] log likelihood: -8306.230263
EM: Round [164] log likelihood: -8306.229656
EM: Round [165] log likelihood: -8306.229059
EM: Round [166] log likelihood: -8306.228471
EM: Round [167] log likelihood: -8306.227893
EM: Round [168] log likelihood: -8306.227324
EM: Round [169] log likelihood: -8306.226764
EM: Round [170] log likelihood: -8306.226212
EM: Round [171] log likelihood: -8306.225670
EM: Round [172] log likelihood: -8306.225136
EM: Round [173] log likelihood: -8306.224610
EM: Round [174] log likelihood: -8306.224092
EM: Round [175] log likelihood: -8306.223583
EM: Round [176] log likelihood: -8306.223081
EM: Round [177] log likelihood: -8306.222587
EM: Round [178] log likelihood: -8306.222100
EM: Round [179] log likelihood: -8306.221621
EM: Round [180] log likelihood: -8306.221149
EM: Round [181] log likelihood: -8306.220684
EM: Round [182] log likelihood: -8306.220226
EM: Round [183] log likelihood: -8306.219775
EM: Round [184] log likelihood: -8306.219331
EM: Round [185] log likelihood: -8306.218893
EM: Round [186] log likelihood: -8306.218461
EM: Round [187] log likelihood: -8306.218036
EM: Round [188] log likelihood: -8306.217617
EM: Round [189] log likelihood: -8306.217204
EM: Round [190] log likelihood: -8306.216797
EM: Round [191] log likelihood: -8306.216396
EM: Round [192] log likelihood: -8306.216001
EM: Round [193] log likelihood: -8306.215611
EM: Round [194] log likelihood: -8306.215226
EM: Round [195] log likelihood: -8306.214847
EM: Round [196] log likelihood: -8306.214474
EM: Round [197] log likelihood: -8306.214105
EM: Round [198] log likelihood: -8306.213742
EM: Round [199] log likelihood: -8306.213383
EM: Round [200] log likelihood: -8306.213030
EM: Round [201] log likelihood: -8306.212681
EM: Round [202] log likelihood: -8306.212337
EM: Round [203] log likelihood: -8306.211998
EM: Round [204] log likelihood: -8306.211663
EM: Round [205] log likelihood: -8306.211333
EM: Round [206] log likelihood: -8306.211007
EM: Round [207] log likelihood: -8306.210686
EM: Round [208] log likelihood: -8306.210368
EM: Round [209] log likelihood: -8306.210055
EM: Round [210] log likelihood: -8306.209746
EM: Round [211] log likelihood: -8306.209441
EM: Round [212] log likelihood: -8306.209140
EM: Round [213] log likelihood: -8306.208842
EM: Round [214] log likelihood: -8306.208549
EM: Round [215] log likelihood: -8306.208259
EM: Round [216] log likelihood: -8306.207973
EM: Round [217] log likelihood: -8306.207690
EM: Round [218] log likelihood: -8306.207411
EM: Round [219] log likelihood: -8306.207136
EM: Round [220] log likelihood: -8306.206863
EM: Round [221] log likelihood: -8306.206595
EM: Round [222] log likelihood: -8306.206329
EM: Round [223] log likelihood: -8306.206067
EM: Round [224] log likelihood: -8306.205807
EM: Round [225] log likelihood: -8306.205551
EM: Round [226] log likelihood: -8306.205298
EM: Round [227] log likelihood: -8306.205048
EM: Round [228] log likelihood: -8306.204801
EM: Round [229] log likelihood: -8306.204557
EM: Round [230] log likelihood: -8306.204316
EM: Round [231] log likelihood: -8306.204077
EM: Round [232] log likelihood: -8306.203842
EM: Round [233] log likelihood: -8306.203609
EM: Round [234] log likelihood: -8306.203378
EM: Round [235] log likelihood: -8306.203151
EM: Round [236] log likelihood: -8306.202925
EM: Round [237] log likelihood: -8306.202703
EM: Round [238] log likelihood: -8306.202483
EM: Round [239] log likelihood: -8306.202265
EM: Round [240] log likelihood: -8306.202050
EM: Round [241] log likelihood: -8306.201837
EM: Round [242] log likelihood: -8306.201626
EM: Round [243] log likelihood: -8306.201418
EM: Round [244] log likelihood: -8306.201212
EM: Round [245] log likelihood: -8306.201008
EM: Round [246] log likelihood: -8306.200807
EM: Round [247] log likelihood: -8306.200607
EM: Round [248] log likelihood: -8306.200410
EM: Round [249] log likelihood: -8306.200215
EM: Round [250] log likelihood: -8306.200022
EM: Round [251] log likelihood: -8306.199830
EM: Round [252] log likelihood: -8306.199641
EM: Round [253] log likelihood: -8306.199454
EM: Round [254] log likelihood: -8306.199269
EM: Round [255] log likelihood: -8306.199085
EM: Round [256] log likelihood: -8306.198904
EM: Round [257] log likelihood: -8306.198724
EM: Round [258] log likelihood: -8306.198546
EM: Round [259] log likelihood: -8306.198370
EM: Round [260] log likelihood: -8306.198196
EM: Round [261] log likelihood: -8306.198023
EM: Round [262] log likelihood: -8306.197852
EM: Round [263] log likelihood: -8306.197683
EM: Round [264] log likelihood: -8306.197515
EM: Round [265] log likelihood: -8306.197349
EM: Round [266] log likelihood: -8306.197185
EM: Round [267] log likelihood: -8306.197022
EM: Round [268] log likelihood: -8306.196861
EM: Round [269] log likelihood: -8306.196701
EM: Round [270] log likelihood: -8306.196543
EM: Round [271] log likelihood: -8306.196386
EM: Round [272] log likelihood: -8306.196231
EM: Round [273] log likelihood: -8306.196077
EM: Round [274] log likelihood: -8306.195925
EM: Round [275] log likelihood: -8306.195774
EM: Round [276] log likelihood: -8306.195625
EM: Round [277] log likelihood: -8306.195476
EM: Round [278] log likelihood: -8306.195330
EM: Round [279] log likelihood: -8306.195184
EM: Round [280] log likelihood: -8306.195040
EM: Round [281] log likelihood: -8306.194897
EM: Round [282] log likelihood: -8306.194755
EM: Round [283] log likelihood: -8306.194615
EM: Round [284] log likelihood: -8306.194476
EM: Round [285] log likelihood: -8306.194338
EM: Round [286] log likelihood: -8306.194201
EM: Round [287] log likelihood: -8306.194066
EM: Round [288] log likelihood: -8306.193932
EM: Round [289] log likelihood: -8306.193798
EM: Round [290] log likelihood: -8306.193666
EM: Round [291] log likelihood: -8306.193536
EM: Round [292] log likelihood: -8306.193406
EM: Round [293] log likelihood: -8306.193277
EM: Round [294] log likelihood: -8306.193150
EM: Round [295] log likelihood: -8306.193023
EM: Round [296] log likelihood: -8306.192898
EM: Round [297] log likelihood: -8306.192773
EM: Round [298] log likelihood: -8306.192650
EM: Round [299] log likelihood: -8306.192528
EM: Round [300] log likelihood: -8306.192406
EM: Round [301] log likelihood: -8306.192286
EM: Round [302] log likelihood: -8306.192167
EM: Round [303] log likelihood: -8306.192048
EM: Round [304] log likelihood: -8306.191931
EM: Round [305] log likelihood: -8306.191814
EM: Round [306] log likelihood: -8306.191699
EM: Round [307] log likelihood: -8306.191584
EM: Round [308] log likelihood: -8306.191471
EM: Round [309] log likelihood: -8306.191358
EM: Round [310] log likelihood: -8306.191246
EM: Round [311] log likelihood: -8306.191135
EM: Round [312] log likelihood: -8306.191025
EM: Round [313] log likelihood: -8306.190916
EM: Round [314] log likelihood: -8306.190807
EM: Round [315] log likelihood: -8306.190700
EM: Round [316] log likelihood: -8306.190593
EM: Round [317] log likelihood: -8306.190487
EM: Round [318] log likelihood: -8306.190382
EM: Round [319] log likelihood: -8306.190278
EM: Round [320] log likelihood: -8306.190174
EM: Round [321] log likelihood: -8306.190072
EM: Round [322] log likelihood: -8306.189970
EM: Round [323] log likelihood: -8306.189868
EM: Round [324] log likelihood: -8306.189768
EM: Round [325] log likelihood: -8306.189668
EM: Stopping iterations at round 325 due to insufficient improvement in likelihood.
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
-extracting read coordinates from /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam into /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords
CMD: touch /tmp/nxf.uEBBjWs2L5/1173_NMN_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.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.read_coords > /tmp/nxf.uEBBjWs2L5/1173_NMN_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.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.consolidated.bam.frag_coords > /tmp/nxf.uEBBjWs2L5/1173_NMN_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.uEBBjWs2L5/fi_workdir/1173_NMN_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.uEBBjWs2L5/fi_workdir/1173_NMN_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.uEBBjWs2L5/fi_workdir/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.post_blast_and_promiscuity_filter
-done, see /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.post_blast_and_promiscuity_filter.annot_filter.pass
EM: Starting log likelihood: -7904.799434
EM: Round [1] log likelihood: -7904.798257
EM: Round [2] log likelihood: -7904.798207
EM: Stopping iterations at round 2 due to insufficient improvement in likelihood.
-total frags in /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_1.fastp.fastq.gz: 257771495
Warning - not locating file: /tmp/nxf.uEBBjWs2L5/1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2.gmap_trinity_GG.fusions.gff3.bed
WARNING, no entry stored in dbm for [ENSG00000286472.1]
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 [ENSG00000214837.8]
WARNING, no entry stored in dbm for [ENSG00000270025.2]
WARNING, no entry stored in dbm for [ENSG00000270025.2]
WARNING, no entry stored in dbm for [ENSG00000270025.2]
WARNING, no entry stored in dbm for [ENSG00000241621.1]
WARNING, no entry stored in dbm for [ENSG00000245248.8]
WARNING, no entry stored in dbm for [ENSG00000245248.8]
WARNING, no entry stored in dbm for [ENSG00000223698.3]
ls: cannot access 'IGV_inputs': No such file or directory