-ctat genome lib [/tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.ddhURGAzK8/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary
-sample contains 163696710 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir -J /tmp/nxf.ddhURGAzK8/BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Chimeric.out.junction -O /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4
-parsing fusion evidence: /tmp/nxf.ddhURGAzK8/BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Chimeric.out.junction
-building interval tree based on /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
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[1650000], rate=58269.57/min -building interval tree based on /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
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[1650000], rate=56281.98/min -building interval tree based on /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
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[1650000], rate=41181.36/min -building interval tree based on /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.07 min).
-mapping reads to genes
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[480000], rate=40055.63/min
[490000], rate=38888.89/min
[500000], rate=37926.68/min
[510000], rate=37271.62/min
[520000], rate=36835.89/min
[530000], rate=36509.76/min
[540000], rate=36363.64/min
[550000], rate=36223.93/min
[560000], rate=36051.50/min
[570000], rate=36000.00/min
[580000], rate=35876.29/min
[590000], rate=35975.61/min
[600000], rate=35964.04/min
[610000], rate=36059.11/min
[620000], rate=36081.47/min
[630000], rate=36172.25/min
[640000], rate=36260.62/min
[650000], rate=36279.07/min
[660000], rate=36330.28/min
[670000], rate=36347.20/min
[680000], rate=36266.67/min
[690000], rate=36188.81/min
[700000], rate=36206.90/min
[710000], rate=36224.49/min
[720000], rate=36302.52/min
[730000], rate=36439.27/min
[740000], rate=36543.21/min
[750000], rate=36615.13/min
[760000], rate=36744.56/min
[770000], rate=36900.96/min
[780000], rate=37083.99/min
[790000], rate=37293.47/min
[800000], rate=37529.32/min
[810000], rate=37732.92/min
[820000], rate=37933.69/min
[830000], rate=38044.31/min
[840000], rate=38297.87/min
[850000], rate=38519.64/min
[860000], rate=38796.99/min
[870000], rate=39071.86/min
[880000], rate=39344.26/min
[890000], rate=39467.85/min
[900000], rate=39473.68/min
[910000], rate=39536.57/min
[920000], rate=39655.17/min
[930000], rate=39857.14/min
[940000], rate=40085.29/min
[950000], rate=40197.46/min
[960000], rate=40364.40/min
[970000], rate=40529.25/min
[980000], rate=40692.04/min
[990000], rate=40880.94/min
[1000000], rate=41067.76/min
[1010000], rate=41252.55/min
[1020000], rate=41491.53/min
[1030000], rate=41588.16/min
[1040000], rate=41160.95/min
[1050000], rate=40750.32/min
[1060000], rate=40458.02/min
[1070000], rate=40175.22/min
[1080000], rate=39926.06/min
[1090000], rate=39540.51/min
[1100000], rate=38892.16/min
[1110000], rate=38788.58/min
[1120000], rate=38378.07/min
[1130000], rate=37983.19/min
[1140000], rate=37936.77/min
[1150000], rate=37581.70/min
[1160000], rate=37500.00/min
[1170000], rate=37241.38/min
[1180000], rate=36971.28/min
[1190000], rate=37014.00/min
[1200000], rate=36697.25/min
[1210000], rate=36592.74/min
[1220000], rate=36710.13/min
[1230000], rate=36826.35/min
[1240000], rate=36996.52/min
[1250000], rate=37147.10/min
[1260000], rate=37186.42/min
[1270000], rate=37371.26/min
[1280000], rate=37426.90/min
[1290000], rate=37409.38/min
[1300000], rate=37213.74/min
[1310000], rate=37110.48/min
[1320000], rate=36905.87/min
[1330000], rate=36842.11/min
[1340000], rate=36796.34/min
[1350000], rate=36768.04/min
[1360000], rate=36789.90/min
[1370000], rate=36827.96/min
[1380000], rate=36881.96/min
[1390000], rate=36935.34/min
[1400000], rate=36971.83/min
[1410000], rate=37024.07/min
[1420000], rate=37075.72/min
[1430000], rate=37142.86/min
[1440000], rate=37209.30/min
[1450000], rate=37259.10/min
[1460000], rate=37356.08/min
[1470000], rate=37452.23/min
[1480000], rate=37563.45/min
[1490000], rate=37673.83/min
[1500000], rate=37767.52/min
[1510000], rate=37702.87/min
[1520000], rate=37858.03/min
[1530000], rate=37980.97/min
[1540000], rate=38118.81/min
[1550000], rate=38303.13/min
[1560000], rate=38471.02/min
[1570000], rate=38606.56/min
[1580000], rate=38709.68/min
[1590000], rate=38827.84/min
[1600000], rate=38945.23/min
[1610000], rate=39077.67/min
[1620000], rate=39209.36/min
[1630000], rate=39356.14/min
[1640000], rate=39502.21/min
[1650000], rate=39647.58/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads -J /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir --filt_file /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail -M 50 > /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-parsing /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt, organizing read mapping info.
6000000.00 reads per min processed...
12000000.00 reads per min processed...
9000000.00 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
4500000.00 reads per min processed...
4666666.67 reads per min processed...
4363636.36 reads per min processed...
4153846.15 reads per min processed...
4285714.29 reads per min processed...
4125000.00 reads per min processed...
4000000.00 reads per min processed...
4105263.16 reads per min processed...
4000000.00 reads per min processed...
3913043.48 reads per min processed...
3840000.00 reads per min processed...
3777777.78 reads per min processed...
3724137.93 reads per min processed...
3677419.35 reads per min processed...
3636363.64 reads per min processed...
3600000.00 reads per min processed...
3666666.67 reads per min processed...
3631578.95 reads per min processed...
3692307.69 reads per min processed...
3658536.59 reads per min processed...
3627906.98 reads per min processed...
3600000.00 reads per min processed...
3652173.91 reads per min processed...
3625000.00 reads per min processed...
3600000.00 reads per min processed...
3576923.08 reads per min processed...
3622641.51 reads per min processed...
3666666.67 reads per min processed...
3777777.78 reads per min processed...
3750000.00 reads per min processed...
3724137.93 reads per min processed...
3700000.00 reads per min processed...
3737704.92 reads per min processed...
3714285.71 reads per min processed...
3692307.69 reads per min processed...
3671641.79 reads per min processed...
3652173.91 reads per min processed...
3685714.29 reads per min processed...
3666666.67 reads per min processed...
3648648.65 reads per min processed...
3631578.95 reads per min processed...
3615384.62 reads per min processed...
3645569.62 reads per min processed...
3629629.63 reads per min processed...
3658536.59 reads per min processed...
3642857.14 reads per min processed...
3627906.98 reads per min processed...
3655172.41 reads per min processed...
done.
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict -J /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -O /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion
-parsing fusion evidence: /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter --fusion_preds /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary -J /tmp/nxf.ddhURGAzK8/BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Chimeric.out.junction --tmpdir /tmp --min_junction_reads 0 --min_sum_frags 1 --require_LDAS 0 --max_promiscuity 10 --min_pct_dom_promiscuity 20 --min_novel_junction_support 1 --min_alt_pct_junction 10 --aggregate_novel_junction_dist 5 --min_spanning_frags_only 1 --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir --out_prefix /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -145892.900938
EM: Round [1] log likelihood: -145797.488477
EM: Round [2] log likelihood: -145758.886173
EM: Round [3] log likelihood: -145739.496388
EM: Round [4] log likelihood: -145728.882625
EM: Round [5] log likelihood: -145722.872179
EM: Round [6] log likelihood: -145719.373565
EM: Round [7] log likelihood: -145717.266004
EM: Round [8] log likelihood: -145715.944086
EM: Round [9] log likelihood: -145715.079160
EM: Round [10] log likelihood: -145714.489964
EM: Round [11] log likelihood: -145714.073872
EM: Round [12] log likelihood: -145713.770826
EM: Round [13] log likelihood: -145713.544365
EM: Round [14] log likelihood: -145713.371507
EM: Round [15] log likelihood: -145713.237229
EM: Round [16] log likelihood: -145713.131380
EM: Round [17] log likelihood: -145713.046892
EM: Round [18] log likelihood: -145712.978716
EM: Round [19] log likelihood: -145712.923168
EM: Round [20] log likelihood: -145712.877511
EM: Round [21] log likelihood: -145712.839678
EM: Round [22] log likelihood: -145712.808090
EM: Round [23] log likelihood: -145712.781524
EM: Round [24] log likelihood: -145712.759029
EM: Round [25] log likelihood: -145712.739854
EM: Round [26] log likelihood: -145712.723405
EM: Round [27] log likelihood: -145712.709207
EM: Round [28] log likelihood: -145712.696880
EM: Round [29] log likelihood: -145712.686115
EM: Round [30] log likelihood: -145712.676663
EM: Round [31] log likelihood: -145712.668320
EM: Round [32] log likelihood: -145712.660918
EM: Round [33] log likelihood: -145712.654319
EM: Round [34] log likelihood: -145712.648410
EM: Round [35] log likelihood: -145712.643095
EM: Round [36] log likelihood: -145712.638295
EM: Round [37] log likelihood: -145712.633944
EM: Round [38] log likelihood: -145712.629986
EM: Round [39] log likelihood: -145712.626372
EM: Round [40] log likelihood: -145712.623064
EM: Round [41] log likelihood: -145712.620026
EM: Round [42] log likelihood: -145712.617229
EM: Round [43] log likelihood: -145712.614648
EM: Round [44] log likelihood: -145712.612260
EM: Round [45] log likelihood: -145712.610047
EM: Round [46] log likelihood: -145712.607992
EM: Round [47] log likelihood: -145712.606080
EM: Round [48] log likelihood: -145712.604299
EM: Round [49] log likelihood: -145712.602637
EM: Round [50] log likelihood: -145712.601084
EM: Round [51] log likelihood: -145712.599631
EM: Round [52] log likelihood: -145712.598271
EM: Round [53] log likelihood: -145712.596996
EM: Round [54] log likelihood: -145712.595799
EM: Round [55] log likelihood: -145712.594676
EM: Round [56] log likelihood: -145712.593620
EM: Round [57] log likelihood: -145712.592626
EM: Round [58] log likelihood: -145712.591691
EM: Round [59] log likelihood: -145712.590811
EM: Round [60] log likelihood: -145712.589981
EM: Round [61] log likelihood: -145712.589198
EM: Round [62] log likelihood: -145712.588460
EM: Round [63] log likelihood: -145712.587763
EM: Round [64] log likelihood: -145712.587105
EM: Round [65] log likelihood: -145712.586484
EM: Round [66] log likelihood: -145712.585896
EM: Round [67] log likelihood: -145712.585341
EM: Round [68] log likelihood: -145712.584815
EM: Round [69] log likelihood: -145712.584318
EM: Round [70] log likelihood: -145712.583848
EM: Round [71] log likelihood: -145712.583402
EM: Round [72] log likelihood: -145712.582980
EM: Round [73] log likelihood: -145712.582580
EM: Round [74] log likelihood: -145712.582201
EM: Round [75] log likelihood: -145712.581842
EM: Round [76] log likelihood: -145712.581501
EM: Round [77] log likelihood: -145712.581178
EM: Round [78] log likelihood: -145712.580871
EM: Round [79] log likelihood: -145712.580580
EM: Round [80] log likelihood: -145712.580303
EM: Round [81] log likelihood: -145712.580040
EM: Round [82] log likelihood: -145712.579791
EM: Round [83] log likelihood: -145712.579553
EM: Round [84] log likelihood: -145712.579328
EM: Round [85] log likelihood: -145712.579113
EM: Round [86] log likelihood: -145712.578909
EM: Round [87] log likelihood: -145712.578715
EM: Round [88] log likelihood: -145712.578530
EM: Round [89] log likelihood: -145712.578353
EM: Round [90] log likelihood: -145712.578186
EM: Round [91] log likelihood: -145712.578026
EM: Round [92] log likelihood: -145712.577873
EM: Round [93] log likelihood: -145712.577728
EM: Round [94] log likelihood: -145712.577589
EM: Round [95] log likelihood: -145712.577457
EM: Round [96] log likelihood: -145712.577331
EM: Round [97] log likelihood: -145712.577210
EM: Round [98] log likelihood: -145712.577095
EM: Round [99] log likelihood: -145712.576985
EM: Round [100] log likelihood: -145712.576879
EM: Round [101] log likelihood: -145712.576779
EM: Round [102] log likelihood: -145712.576682
EM: Stopping iterations at round 102 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -145782.434762
EM: Round [1] log likelihood: -145697.588213
EM: Round [2] log likelihood: -145664.369797
EM: Round [3] log likelihood: -145648.289329
EM: Round [4] log likelihood: -145639.780308
EM: Round [5] log likelihood: -145635.083474
EM: Round [6] log likelihood: -145632.403198
EM: Round [7] log likelihood: -145630.815732
EM: Round [8] log likelihood: -145629.834921
EM: Round [9] log likelihood: -145629.201450
EM: Round [10] log likelihood: -145628.774346
EM: Round [11] log likelihood: -145628.474901
EM: Round [12] log likelihood: -145628.257719
EM: Round [13] log likelihood: -145628.095645
EM: Round [14] log likelihood: -145627.971815
EM: Round [15] log likelihood: -145627.875351
EM: Round [16] log likelihood: -145627.798985
EM: Round [17] log likelihood: -145627.737705
EM: Round [18] log likelihood: -145627.687953
EM: Round [19] log likelihood: -145627.647143
EM: Round [20] log likelihood: -145627.613359
EM: Round [21] log likelihood: -145627.585154
EM: Round [22] log likelihood: -145627.561419
EM: Round [23] log likelihood: -145627.541299
EM: Round [24] log likelihood: -145627.524120
EM: Round [25] log likelihood: -145627.509356
EM: Round [26] log likelihood: -145627.496582
EM: Round [27] log likelihood: -145627.485463
EM: Round [28] log likelihood: -145627.475725
EM: Round [29] log likelihood: -145627.467149
EM: Round [30] log likelihood: -145627.459554
EM: Round [31] log likelihood: -145627.452793
EM: Round [32] log likelihood: -145627.446745
EM: Round [33] log likelihood: -145627.441308
EM: Round [34] log likelihood: -145627.436401
EM: Round [35] log likelihood: -145627.431953
EM: Round [36] log likelihood: -145627.427905
EM: Round [37] log likelihood: -145627.424209
EM: Round [38] log likelihood: -145627.420823
EM: Round [39] log likelihood: -145627.417711
EM: Round [40] log likelihood: -145627.414844
EM: Round [41] log likelihood: -145627.412195
EM: Round [42] log likelihood: -145627.409743
EM: Round [43] log likelihood: -145627.407467
EM: Round [44] log likelihood: -145627.405351
EM: Round [45] log likelihood: -145627.403380
EM: Round [46] log likelihood: -145627.401541
EM: Round [47] log likelihood: -145627.399824
EM: Round [48] log likelihood: -145627.398217
EM: Round [49] log likelihood: -145627.396712
EM: Round [50] log likelihood: -145627.395302
EM: Round [51] log likelihood: -145627.393977
EM: Round [52] log likelihood: -145627.392733
EM: Round [53] log likelihood: -145627.391564
EM: Round [54] log likelihood: -145627.390463
EM: Round [55] log likelihood: -145627.389427
EM: Round [56] log likelihood: -145627.388451
EM: Round [57] log likelihood: -145627.387531
EM: Round [58] log likelihood: -145627.386663
EM: Round [59] log likelihood: -145627.385844
EM: Round [60] log likelihood: -145627.385070
EM: Round [61] log likelihood: -145627.384340
EM: Round [62] log likelihood: -145627.383649
EM: Round [63] log likelihood: -145627.382997
EM: Round [64] log likelihood: -145627.382380
EM: Round [65] log likelihood: -145627.381796
EM: Round [66] log likelihood: -145627.381243
EM: Round [67] log likelihood: -145627.380720
EM: Round [68] log likelihood: -145627.380224
EM: Round [69] log likelihood: -145627.379755
EM: Round [70] log likelihood: -145627.379310
EM: Round [71] log likelihood: -145627.378888
EM: Round [72] log likelihood: -145627.378488
EM: Round [73] log likelihood: -145627.378109
EM: Round [74] log likelihood: -145627.377749
EM: Round [75] log likelihood: -145627.377408
EM: Round [76] log likelihood: -145627.377083
EM: Round [77] log likelihood: -145627.376776
EM: Round [78] log likelihood: -145627.376483
EM: Round [79] log likelihood: -145627.376206
EM: Round [80] log likelihood: -145627.375941
EM: Round [81] log likelihood: -145627.375691
EM: Round [82] log likelihood: -145627.375452
EM: Round [83] log likelihood: -145627.375225
EM: Round [84] log likelihood: -145627.375009
EM: Round [85] log likelihood: -145627.374803
EM: Round [86] log likelihood: -145627.374607
EM: Round [87] log likelihood: -145627.374421
EM: Round [88] log likelihood: -145627.374243
EM: Round [89] log likelihood: -145627.374074
EM: Round [90] log likelihood: -145627.373913
EM: Round [91] log likelihood: -145627.373759
EM: Round [92] log likelihood: -145627.373612
EM: Round [93] log likelihood: -145627.373472
EM: Round [94] log likelihood: -145627.373338
EM: Round [95] log likelihood: -145627.373211
EM: Round [96] log likelihood: -145627.373089
EM: Round [97] log likelihood: -145627.372972
EM: Round [98] log likelihood: -145627.372861
EM: Round [99] log likelihood: -145627.372754
EM: Round [100] log likelihood: -145627.372652
EM: Round [101] log likelihood: -145627.372555
EM: Stopping iterations at round 101 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20 --fusion_preds /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 20
CMD: cp /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter
CMD: /usr/local/src/STAR-Fusion/util/column_exclusions.pl /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered
* Running CMD: /usr/local/src/STAR-Fusion/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 163696710 > /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM
* Running CMD: /usr/local/src/STAR-Fusion/util/append_breakpoint_junction_info.pl /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir > /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir --annotate /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot
* Running CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/filter_by_annotation_rules.pl --fusions /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir
-done, see /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_likely_RT_artifacts.pl --fusions /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 1308, filtered: 8719)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.ddhURGAzK8/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass.minFFPM.0.00001.pass star-fusion.fusion_predictions.tsv
* Running CMD: /usr/local/src/STAR-Fusion/util/column_exclusions.pl star-fusion.fusion_predictions.tsv JunctionReads,SpanningFrags > star-fusion.fusion_predictions.abridged.tsv
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/util/fusion_to_coding_region_effect.pl --fusions star-fusion.fusion_predictions.abridged.tsv --genome_lib_dir /tmp/nxf.ddhURGAzK8/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
WARNING, no entry stored in dbm for [ENSG00000228735.1]
WARNING, no entry stored in dbm for [ENSG00000239268.3]
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WARNING, no entry stored in dbm for [ENSG00000280136.2]
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WARNING, no entry stored in dbm for [ENSG00000205913.7]
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WARNING, no entry stored in dbm for [ENSG00000128254.16]
WARNING, no entry stored in dbm for [ENSG00000229037.2]
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WARNING, no entry stored in dbm for [ENSG00000215458.8]
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WARNING, no entry stored in dbm for [ENSG00000265646.2]
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WARNING, no entry stored in dbm for [ENSG00000234617.2]
WARNING, no entry stored in dbm for [ENSG00000205890.3]
WARNING, no entry stored in dbm for [ENSG00000268364.2]
WARNING, no entry stored in dbm for [ENSG00000254453.1]
WARNING, no entry stored in dbm for [ENSG00000216809.1]
WARNING, no entry stored in dbm for [ENSG00000228463.10]
WARNING, no entry stored in dbm for [ENSG00000228463.10]
WARNING, no entry stored in dbm for [ENSG00000287411.1]
WARNING, no entry stored in dbm for [ENSG00000205485.13]
WARNING, no entry stored in dbm for [ENSG00000182912.6]
WARNING, no entry stored in dbm for [ENSG00000250284.3]
WARNING, no entry stored in dbm for [ENSG00000198786.2]
WARNING, no entry stored in dbm for [ENSG00000272030.1]
WARNING, no entry stored in dbm for [ENSG00000266405.3]
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WARNING, no entry stored in dbm for [ENSG00000224221.1]
WARNING, no entry stored in dbm for [ENSG00000184139.8]
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WARNING, no entry stored in dbm for [ENSG00000224683.1]
WARNING, no entry stored in dbm for [ENSG00000243779.1]
WARNING, no entry stored in dbm for [ENSG00000232228.1]
WARNING, no entry stored in dbm for [ENSG00000239719.1]
WARNING, no entry stored in dbm for [ENSG00000223508.5]
WARNING, no entry stored in dbm for [ENSG00000213178.3]
WARNING, no entry stored in dbm for [ENSG00000197182.14]
WARNING, no entry stored in dbm for [ENSG00000286679.1]
WARNING, no entry stored in dbm for [ENSG00000183458.14]
WARNING, no entry stored in dbm for [ENSG00000243944.5]
WARNING, no entry stored in dbm for [ENSG00000227371.1]
WARNING, no entry stored in dbm for [ENSG00000241529.3]
WARNING, no entry stored in dbm for [ENSG00000239437.3]
WARNING, no entry stored in dbm for [ENSG00000264092.2]
WARNING, no entry stored in dbm for [ENSG00000213514.2]
WARNING, no entry stored in dbm for [ENSG00000275090.1]
WARNING, no entry stored in dbm for [ENSG00000240869.3]
WARNING, no entry stored in dbm for [ENSG00000199319.1]
WARNING, no entry stored in dbm for [ENSG00000251050.1]
WARNING, no entry stored in dbm for [ENSG00000233369.7]
WARNING, no entry stored in dbm for [ENSG00000227087.4]
WARNING, no entry stored in dbm for [ENSG00000224687.2]
WARNING, no entry stored in dbm for [ENSG00000238105.7]
WARNING, no entry stored in dbm for [ENSG00000287816.1]
WARNING, no entry stored in dbm for [ENSG00000260848.2]
WARNING, no entry stored in dbm for [ENSG00000253923.2]
WARNING, no entry stored in dbm for [ENSG00000261008.7]
WARNING, no entry stored in dbm for [ENSG00000234429.1]
WARNING, no entry stored in dbm for [ENSG00000257815.7]
WARNING, no entry stored in dbm for [ENSG00000279266.1]
WARNING, no entry stored in dbm for [ENSG00000241472.7]
WARNING, no entry stored in dbm for [ENSG00000235431.2]
WARNING, no entry stored in dbm for [ENSG00000272655.2]
WARNING, no entry stored in dbm for [ENSG00000276550.4]
WARNING, no entry stored in dbm for [ENSG00000215196.5]
WARNING, no entry stored in dbm for [ENSG00000078319.10]
WARNING, no entry stored in dbm for [ENSG00000078319.10]
WARNING, no entry stored in dbm for [ENSG00000187953.10]
WARNING, no entry stored in dbm for [ENSG00000131002.12]
WARNING, no entry stored in dbm for [ENSG00000250251.6]
WARNING, no entry stored in dbm for [ENSG00000235740.2]
WARNING, no entry stored in dbm for [ENSG00000230383.1]
WARNING, no entry stored in dbm for [ENSG00000247708.8]
WARNING, no entry stored in dbm for [ENSG00000253738.2]
WARNING, no entry stored in dbm for [ENSG00000249419.1]
WARNING, no entry stored in dbm for [ENSG00000253796.2]
WARNING, no entry stored in dbm for [ENSG00000242118.3]
WARNING, no entry stored in dbm for [ENSG00000280119.1]
WARNING, no entry stored in dbm for [ENSG00000286565.1]
WARNING, no entry stored in dbm for [ENSG00000237187.9]
WARNING, no entry stored in dbm for [ENSG00000249494.6]
WARNING, no entry stored in dbm for [ENSG00000265788.2]
WARNING, no entry stored in dbm for [ENSG00000248092.8]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000224697.1]
WARNING, no entry stored in dbm for [ENSG00000287997.1]
WARNING, no entry stored in dbm for [ENSG00000245532.9]
WARNING, no entry stored in dbm for [ENSG00000245532.9]
WARNING, no entry stored in dbm for [ENSG00000213661.3]
WARNING, no entry stored in dbm for [ENSG00000135502.19]
WARNING, no entry stored in dbm for [ENSG00000237296.9]
WARNING, no entry stored in dbm for [ENSG00000283117.1]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000203825.4]
WARNING, no entry stored in dbm for [ENSG00000228323.2]
WARNING, no entry stored in dbm for [ENSG00000231831.1]
WARNING, no entry stored in dbm for [ENSG00000215914.4]
WARNING, no entry stored in dbm for [ENSG00000197182.14]
WARNING, no entry stored in dbm for [ENSG00000197182.14]
WARNING, no entry stored in dbm for [ENSG00000272655.2]
WARNING, no entry stored in dbm for [ENSG00000225746.13]
WARNING, no entry stored in dbm for [ENSG00000245864.3]
WARNING, no entry stored in dbm for [ENSG00000260102.2]
WARNING, no entry stored in dbm for [ENSG00000270670.1]
WARNING, no entry stored in dbm for [ENSG00000231689.2]
WARNING, no entry stored in dbm for [ENSG00000231312.7]
WARNING, no entry stored in dbm for [ENSG00000248323.7]
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WARNING, no entry stored in dbm for [ENSG00000285210.1]
WARNING, no entry stored in dbm for [ENSG00000261039.3]
WARNING, no entry stored in dbm for [ENSG00000250127.1]
WARNING, no entry stored in dbm for [ENSG00000232233.1]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000261008.7]
WARNING, no entry stored in dbm for [ENSG00000267779.7]
WARNING, no entry stored in dbm for [ENSG00000281404.2]
WARNING, no entry stored in dbm for [ENSG00000182648.13]
WARNING, no entry stored in dbm for [ENSG00000182648.13]
WARNING, no entry stored in dbm for [ENSG00000282508.2]
WARNING, no entry stored in dbm for [ENSG00000241769.7]
WARNING, no entry stored in dbm for [ENSG00000258701.1]
WARNING, no entry stored in dbm for [ENSG00000153363.13]
WARNING, no entry stored in dbm for [ENSG00000245526.11]
WARNING, no entry stored in dbm for [ENSG00000264112.1]
WARNING, no entry stored in dbm for [ENSG00000224699.9]
WARNING, no entry stored in dbm for [ENSG00000287581.1]
WARNING, no entry stored in dbm for [ENSG00000287920.1]
WARNING, no entry stored in dbm for [ENSG00000237978.6]
WARNING, no entry stored in dbm for [ENSG00000285668.1]
WARNING, no entry stored in dbm for [ENSG00000200156.1]
WARNING, no entry stored in dbm for [ENSG00000197536.11]
WARNING, no entry stored in dbm for [ENSG00000205930.10]
WARNING, no entry stored in dbm for [ENSG00000225675.2]
WARNING, no entry stored in dbm for [ENSG00000280434.1]
WARNING, no entry stored in dbm for [ENSG00000284674.1]
WARNING, no entry stored in dbm for [ENSG00000283122.1]
WARNING, no entry stored in dbm for [ENSG00000285219.2]
WARNING, no entry stored in dbm for [ENSG00000205940.8]
WARNING, no entry stored in dbm for [ENSG00000217334.1]
WARNING, no entry stored in dbm for [ENSG00000099251.14]
WARNING, no entry stored in dbm for [ENSG00000282458.1]
WARNING, no entry stored in dbm for [ENSG00000231711.2]
WARNING, no entry stored in dbm for [ENSG00000212769.5]
WARNING, no entry stored in dbm for [ENSG00000235390.4]
WARNING, no entry stored in dbm for [ENSG00000235734.4]
WARNING, no entry stored in dbm for [ENSG00000231470.1]
WARNING, no entry stored in dbm for [ENSG00000203489.3]
WARNING, no entry stored in dbm for [ENSG00000287390.1]
WARNING, no entry stored in dbm for [ENSG00000276550.4]
WARNING, no entry stored in dbm for [ENSG00000235903.9]
WARNING, no entry stored in dbm for [ENSG00000241011.1]
WARNING, no entry stored in dbm for [ENSG00000253816.3]
WARNING, no entry stored in dbm for [ENSG00000224458.3]
WARNING, no entry stored in dbm for [ENSG00000216285.5]
WARNING, no entry stored in dbm for [ENSG00000259570.1]
WARNING, no entry stored in dbm for [ENSG00000281103.2]
WARNING, no entry stored in dbm for [ENSG00000241621.1]
WARNING, no entry stored in dbm for [ENSG00000166104.15]
WARNING, no entry stored in dbm for [ENSG00000166104.15]
WARNING, no entry stored in dbm for [ENSG00000288685.1]
WARNING, no entry stored in dbm for [ENSG00000272396.1]
WARNING, no entry stored in dbm for [ENSG00000285367.1]
WARNING, no entry stored in dbm for [ENSG00000215483.11]
WARNING, no entry stored in dbm for [ENSG00000255052.5]
WARNING, no entry stored in dbm for [ENSG00000254016.3]
WARNING, no entry stored in dbm for [ENSG00000255052.5]
WARNING, no entry stored in dbm for [ENSG00000254016.3]
WARNING, no entry stored in dbm for [ENSG00000236438.7]
WARNING, no entry stored in dbm for [ENSG00000224349.2]
WARNING, no entry stored in dbm for [ENSG00000256995.8]
WARNING, no entry stored in dbm for [ENSG00000239246.3]
WARNING, no entry stored in dbm for [ENSG00000185684.15]
WARNING, no entry stored in dbm for [ENSG00000226688.7]
WARNING, no entry stored in dbm for [ENSG00000250546.6]
WARNING, no entry stored in dbm for [ENSG00000265749.6]
WARNING, no entry stored in dbm for [ENSG00000286681.1]
WARNING, no entry stored in dbm for [ENSG00000230239.1]
WARNING, no entry stored in dbm for [ENSG00000229140.11]
WARNING, no entry stored in dbm for [ENSG00000232298.2]
WARNING, no entry stored in dbm for [ENSG00000278733.1]
WARNING, no entry stored in dbm for [ENSG00000232907.8]
WARNING, no entry stored in dbm for [ENSG00000240048.1]
WARNING, no entry stored in dbm for [ENSG00000260422.1]
WARNING, no entry stored in dbm for [ENSG00000226950.8]
WARNING, no entry stored in dbm for [ENSG00000222041.11]
WARNING, no entry stored in dbm for [ENSG00000241350.1]
WARNING, no entry stored in dbm for [ENSG00000222041.11]
WARNING, no entry stored in dbm for [ENSG00000204745.4]
WARNING, no entry stored in dbm for [ENSG00000276077.4]
WARNING, no entry stored in dbm for [ENSG00000252524.1]
WARNING, no entry stored in dbm for [ENSG00000234715.2]
WARNING, no entry stored in dbm for [ENSG00000280434.1]
WARNING, no entry stored in dbm for [ENSG00000253331.1]
WARNING, no entry stored in dbm for [ENSG00000260628.5]
WARNING, no entry stored in dbm for [ENSG00000215117.6]
WARNING, no entry stored in dbm for [ENSG00000256847.1]
WARNING, no entry stored in dbm for [ENSG00000197214.5]
WARNING, no entry stored in dbm for [ENSG00000154898.15]
WARNING, no entry stored in dbm for [ENSG00000154898.15]
WARNING, no entry stored in dbm for [ENSG00000235397.1]
WARNING, no entry stored in dbm for [ENSG00000284600.1]
WARNING, no entry stored in dbm for [ENSG00000233013.10]
WARNING, no entry stored in dbm for [ENSG00000259605.3]
WARNING, no entry stored in dbm for [ENSG00000226007.3]
WARNING, no entry stored in dbm for [ENSG00000231995.2]
WARNING, no entry stored in dbm for [ENSG00000272525.1]
WARNING, no entry stored in dbm for [ENSG00000230046.1]
WARNING, no entry stored in dbm for [ENSG00000158482.10]
WARNING, no entry stored in dbm for [ENSG00000227883.1]
WARNING, no entry stored in dbm for [ENSG00000240241.5]
WARNING, no entry stored in dbm for [ENSG00000224844.1]
WARNING, no entry stored in dbm for [ENSG00000271147.8]
WARNING, no entry stored in dbm for [ENSG00000226955.1]
WARNING, no entry stored in dbm for [ENSG00000280287.1]
WARNING, no entry stored in dbm for [ENSG00000279833.1]
WARNING, no entry stored in dbm for [ENSG00000234076.1]
WARNING, no entry stored in dbm for [ENSG00000263745.7]
WARNING, no entry stored in dbm for [ENSG00000250390.2]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000284625.1]
WARNING, no entry stored in dbm for [ENSG00000249655.1]
WARNING, no entry stored in dbm for [ENSG00000228980.4]
WARNING, no entry stored in dbm for [ENSG00000232576.2]
WARNING, no entry stored in dbm for [ENSG00000272574.1]
WARNING, no entry stored in dbm for [ENSG00000223356.1]
WARNING, no entry stored in dbm for [ENSG00000225096.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000228685.1]
WARNING, no entry stored in dbm for [ENSG00000234851.4]
WARNING, no entry stored in dbm for [ENSG00000258561.2]
WARNING, no entry stored in dbm for [ENSG00000284738.1]
WARNING, no entry stored in dbm for [ENSG00000286215.1]
WARNING, no entry stored in dbm for [ENSG00000279929.1]
WARNING, no entry stored in dbm for [ENSG00000266505.1]
WARNING, no entry stored in dbm for [ENSG00000267458.1]
WARNING, no entry stored in dbm for [ENSG00000275741.1]
WARNING, no entry stored in dbm for [ENSG00000275741.1]
WARNING, no entry stored in dbm for [ENSG00000230490.3]
WARNING, no entry stored in dbm for [ENSG00000220685.3]
WARNING, no entry stored in dbm for [ENSG00000259020.3]
WARNING, no entry stored in dbm for [ENSG00000285578.1]
WARNING, no entry stored in dbm for [ENSG00000271746.1]
WARNING, no entry stored in dbm for [ENSG00000287343.1]
WARNING, no entry stored in dbm for [ENSG00000215450.2]
WARNING, no entry stored in dbm for [ENSG00000270935.1]
WARNING, no entry stored in dbm for [ENSG00000232599.1]
WARNING, no entry stored in dbm for [ENSG00000233611.3]
WARNING, no entry stored in dbm for [ENSG00000224016.2]
WARNING, no entry stored in dbm for [ENSG00000225746.13]
WARNING, no entry stored in dbm for [ENSG00000250493.2]
WARNING, no entry stored in dbm for [ENSG00000227193.2]
WARNING, no entry stored in dbm for [ENSG00000275557.1]
WARNING, no entry stored in dbm for [ENSG00000281741.2]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000260628.5]
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 [ENSG00000215158.9]
WARNING, no entry stored in dbm for [ENSG00000219201.4]
WARNING, no entry stored in dbm for [ENSG00000235421.1]
WARNING, no entry stored in dbm for [ENSG00000227113.2]
WARNING, no entry stored in dbm for [ENSG00000241884.2]
WARNING, no entry stored in dbm for [ENSG00000260660.4]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000277746.1]
WARNING, no entry stored in dbm for [ENSG00000249771.2]
WARNING, no entry stored in dbm for [ENSG00000205890.3]
WARNING, no entry stored in dbm for [ENSG00000286467.1]
WARNING, no entry stored in dbm for [ENSG00000227077.3]
WARNING, no entry stored in dbm for [ENSG00000287129.1]
WARNING, no entry stored in dbm for [ENSG00000231646.6]
WARNING, no entry stored in dbm for [ENSG00000287589.1]
WARNING, no entry stored in dbm for [ENSG00000276538.1]
WARNING, no entry stored in dbm for [ENSG00000224016.2]
WARNING, no entry stored in dbm for [ENSG00000276538.1]
WARNING, no entry stored in dbm for [ENSG00000224016.2]
WARNING, no entry stored in dbm for [ENSG00000254919.1]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000267151.5]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000250207.1]
WARNING, no entry stored in dbm for [ENSG00000257225.1]
WARNING, no entry stored in dbm for [ENSG00000239985.2]
WARNING, no entry stored in dbm for [ENSG00000286401.1]
WARNING, no entry stored in dbm for [ENSG00000233665.8]
WARNING, no entry stored in dbm for [ENSG00000259433.2]
WARNING, no entry stored in dbm for [ENSG00000240535.8]
WARNING, no entry stored in dbm for [ENSG00000223703.1]
WARNING, no entry stored in dbm for [ENSG00000237684.1]
WARNING, no entry stored in dbm for [ENSG00000254485.5]
WARNING, no entry stored in dbm for [ENSG00000285600.1]
WARNING, no entry stored in dbm for [ENSG00000280332.1]
WARNING, no entry stored in dbm for [ENSG00000285106.2]
WARNING, no entry stored in dbm for [ENSG00000249839.1]
WARNING, no entry stored in dbm for [ENSG00000244151.1]
WARNING, no entry stored in dbm for [ENSG00000262732.1]
WARNING, no entry stored in dbm for [ENSG00000286314.1]
WARNING, no entry stored in dbm for [ENSG00000257884.2]
WARNING, no entry stored in dbm for [ENSG00000284711.1]
WARNING, no entry stored in dbm for [ENSG00000229543.1]
WARNING, no entry stored in dbm for [ENSG00000111788.10]
WARNING, no entry stored in dbm for [ENSG00000216895.9]
WARNING, no entry stored in dbm for [ENSG00000214331.8]
WARNING, no entry stored in dbm for [ENSG00000269243.1]
WARNING, no entry stored in dbm for [ENSG00000261369.1]
WARNING, no entry stored in dbm for [ENSG00000230189.7]
WARNING, no entry stored in dbm for [ENSG00000244510.2]
WARNING, no entry stored in dbm for [ENSG00000279865.1]
WARNING, no entry stored in dbm for [ENSG00000196205.8]
WARNING, no entry stored in dbm for [ENSG00000268460.2]
WARNING, no entry stored in dbm for [ENSG00000236531.2]
WARNING, no entry stored in dbm for [ENSG00000226040.3]
WARNING, no entry stored in dbm for [ENSG00000214243.3]
WARNING, no entry stored in dbm for [ENSG00000205485.13]
WARNING, no entry stored in dbm for [ENSG00000214243.3]
WARNING, no entry stored in dbm for [ENSG00000205485.13]
WARNING, no entry stored in dbm for [ENSG00000228434.1]
WARNING, no entry stored in dbm for [ENSG00000254610.3]
WARNING, no entry stored in dbm for [ENSG00000286923.1]
WARNING, no entry stored in dbm for [ENSG00000268163.1]
WARNING, no entry stored in dbm for [ENSG00000283638.2]
WARNING, no entry stored in dbm for [ENSG00000235560.4]
WARNING, no entry stored in dbm for [ENSG00000231749.3]
* STAR-Fusion complete. See output: /tmp/nxf.ddhURGAzK8/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)