Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/4dd469ad82c18ef94335c0305b12f2/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_2.fastp.fastq.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/ab2e902a34ae0ff9f8d873b13c3043/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2.Chimeric.out.junction
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/52b8235c23d801c1734031b623cc65/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/52b8235c23d801c1734031b623cc65/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/4dd469ad82c18ef94335c0305b12f2/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_1.fastp.fastq.gz
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.SYdYiFSp24/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary
-sample contains 237892568 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir  -J /tmp/nxf.SYdYiFSp24/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2.Chimeric.out.junction  -O /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.SYdYiFSp24/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2.Chimeric.out.junction
-building interval tree based on /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.10 min).
-mapping reads to genes

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-building interval tree based on /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.10 min).
-mapping reads to genes

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[2880000], rate=59854.52/min 
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[3000000], rate=60100.17/min 
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[3040000], rate=59627.33/min 
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[3140000], rate=58930.25/min 
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[3180000], rate=58888.89/min 
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[3240000], rate=59070.19/min 
[3250000], rate=59037.24/min 
[3260000], rate=58933.41/min 
[3270000], rate=58812.95/min -building interval tree based on /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

[10000], rate=85714.29/min 
[20000], rate=85714.29/min 
[30000], rate=85714.29/min 
[40000], rate=80000.00/min 
[50000], rate=83333.33/min 
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[90000], rate=75000.00/min 
[100000], rate=75949.37/min 
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[910000], rate=69377.38/min 
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[1200000], rate=62337.66/min 
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[1460000], rate=61002.79/min 
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[1480000], rate=61114.93/min 
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[1960000], rate=48355.26/min 
[1970000], rate=48323.79/min 
[1980000], rate=48312.32/min 
[1990000], rate=48261.92/min 
[2000000], rate=48250.90/min 
[2010000], rate=48240.00/min 
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[2040000], rate=48094.30/min 
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[2100000], rate=47745.36/min 
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[2220000], rate=46250.00/min 
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[2300000], rate=46200.20/min 
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[2380000], rate=46243.52/min 
[2390000], rate=46243.15/min 
[2400000], rate=46242.77/min 
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[2440000], rate=46168.40/min 
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[2480000], rate=46254.27/min 
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[2500000], rate=46396.54/min 
[2510000], rate=46438.48/min 
[2520000], rate=46494.46/min 
[2530000], rate=46550.14/min 
[2540000], rate=46605.50/min 
[2550000], rate=46674.80/min 
[2560000], rate=46672.74/min 
[2570000], rate=46755.61/min 
[2580000], rate=46838.12/min 
[2590000], rate=46906.13/min 
[2600000], rate=47002.11/min 
[2610000], rate=47083.58/min 
[2620000], rate=47164.72/min 
[2630000], rate=47245.51/min 
[2640000], rate=47311.83/min 
[2650000], rate=47377.83/min 
[2660000], rate=47443.52/min 
[2670000], rate=47537.09/min 
[2680000], rate=47588.04/min 
[2690000], rate=47596.58/min 
[2700000], rate=47661.08/min 
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[2720000], rate=54783.48/min 
[2730000], rate=54563.62/min 
[2740000], rate=54347.11/min 
[2750000], rate=54329.93/min 
[2760000], rate=54366.38/min 
[2770000], rate=54402.62/min 
[2780000], rate=54456.42/min 
[2790000], rate=54492.19/min 
[2800000], rate=54492.38/min 
[2810000], rate=54299.52/min 
[2820000], rate=54126.68/min 
[2830000], rate=54128.15/min 
[2840000], rate=54181.24/min 
[2850000], rate=54320.20/min 
[2860000], rate=54458.90/min 
[2870000], rate=54528.18/min 
[2880000], rate=54597.16/min 
[2890000], rate=54665.83/min 
[2900000], rate=54716.98/min 
[2910000], rate=54767.88/min 
[2920000], rate=54818.52/min 
[2930000], rate=54868.91/min 
[2940000], rate=54953.27/min 
[2950000], rate=55020.21/min 
[2960000], rate=55103.94/min 
[2970000], rate=55136.14/min 
[2980000], rate=55100.15/min 
[2990000], rate=55081.36/min 
[3000000], rate=55062.71/min 
[3010000], rate=55044.19/min 
[3020000], rate=55075.99/min 
[3030000], rate=55040.87/min 
[3040000], rate=54972.88/min 
[3050000], rate=54938.46/min 
[3060000], rate=54920.73/min 
[3070000], rate=54935.88/min 
[3080000], rate=54967.28/min 
[3090000], rate=54982.21/min 
[3100000], rate=55013.31/min 
[3110000], rate=55028.02/min 
[3120000], rate=54913.46/min 
[3130000], rate=54912.28/min 
[3140000], rate=54959.16/min 
[3150000], rate=54989.82/min 
[3160000], rate=55036.28/min 
[3170000], rate=55098.49/min 
[3180000], rate=55144.51/min 
[3190000], rate=55222.16/min 
[3200000], rate=55331.41/min 
[3210000], rate=55392.58/min 
[3220000], rate=55469.42/min 
[3230000], rate=55530.09/min 
[3240000], rate=55590.51/min 
[3250000], rate=55666.57/min 
[3260000], rate=55726.50/min 
[3270000], rate=55770.32/min -building interval tree based on /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

[10000], rate=85714.29/min 
[20000], rate=85714.29/min 
[30000], rate=81818.18/min 
[40000], rate=80000.00/min 
[50000], rate=81081.08/min 
[60000], rate=85714.29/min 
[70000], rate=89361.70/min 
[80000], rate=90566.04/min 
[90000], rate=91525.42/min 
[100000], rate=93750.00/min 
[110000], rate=98507.46/min 
[120000], rate=107462.69/min 
[130000], rate=114705.88/min 
[140000], rate=118309.86/min 
[150000], rate=116883.12/min 
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[170000], rate=118604.65/min 
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[380000], rate=119371.73/min 
[390000], rate=118781.73/min 
[400000], rate=119402.99/min 
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[500000], rate=115384.62/min 
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[610000], rate=118831.17/min 
[620000], rate=120000.00/min 
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[650000], rate=120000.00/min 
[660000], rate=118918.92/min 
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[690000], rate=116619.72/min 
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[710000], rate=117032.97/min 
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[730000], rate=116489.36/min 
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[750000], rate=117493.47/min 
[760000], rate=118750.00/min 
[770000], rate=120312.50/min 
[780000], rate=120618.56/min 
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[800000], rate=119402.99/min 
[810000], rate=119410.32/min 
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[840000], rate=120286.40/min 
[850000], rate=115646.26/min 
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[870000], rate=99808.80/min 
[880000], rate=93783.30/min 
[890000], rate=89148.58/min 
[900000], rate=84905.66/min 
[910000], rate=81008.90/min 
[920000], rate=76880.22/min 
[930000], rate=74499.33/min 
[940000], rate=72586.87/min 
[950000], rate=70807.45/min 
[960000], rate=69314.08/min 
[970000], rate=67990.65/min 
[980000], rate=66742.34/min 
[990000], rate=65635.36/min 
[1000000], rate=64446.83/min 
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[1020000], rate=62321.79/min 
[1030000], rate=61431.41/min 
[1040000], rate=60582.52/min 
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[1070000], rate=59061.64/min 
[1080000], rate=58483.75/min 
[1090000], rate=58081.71/min 
[1100000], rate=57793.35/min 
[1110000], rate=57364.34/min 
[1120000], rate=57045.84/min 
[1130000], rate=56594.32/min 
[1140000], rate=56203.78/min 
[1150000], rate=55870.45/min 
[1160000], rate=55591.05/min 
[1170000], rate=55188.68/min 
[1180000], rate=54798.76/min 
[1190000], rate=54214.12/min 
[1200000], rate=53611.32/min 
[1210000], rate=53264.86/min 
[1220000], rate=52966.71/min 
[1230000], rate=52526.69/min 
[1240000], rate=52100.84/min 
[1250000], rate=51724.14/min 
[1260000], rate=51533.74/min 
[1270000], rate=51072.39/min 
[1280000], rate=50860.93/min 
[1290000], rate=50720.84/min 
[1300000], rate=50550.87/min 
[1310000], rate=50416.93/min 
[1320000], rate=50317.66/min 
[1330000], rate=50157.13/min 
[1340000], rate=49968.92/min 
[1350000], rate=49876.85/min 
[1360000], rate=49786.46/min 
[1370000], rate=49757.87/min 
[1380000], rate=49640.29/min 
[1390000], rate=49495.55/min 
[1400000], rate=49411.76/min 
[1410000], rate=49300.70/min 
[1420000], rate=48965.52/min 
[1430000], rate=48777.71/min 
[1440000], rate=48676.06/min 
[1450000], rate=48494.98/min 
[1460000], rate=48291.07/min 
[1470000], rate=48275.86/min 
[1480000], rate=48287.11/min 
[1490000], rate=48142.16/min 
[1500000], rate=47568.71/min 
[1510000], rate=47113.88/min 
[1520000], rate=46769.23/min 
[1530000], rate=46670.06/min 
[1540000], rate=46619.58/min 
[1550000], rate=46569.85/min 
[1560000], rate=46544.01/min 
[1570000], rate=46472.62/min 
[1580000], rate=46334.31/min 
[1590000], rate=46355.69/min 
[1600000], rate=46354.42/min 
[1610000], rate=46375.42/min 
[1620000], rate=46440.52/min 
[1630000], rate=46482.89/min 
[1640000], rate=46458.92/min 
[1650000], rate=46478.87/min 
[1660000], rate=46455.22/min 
[1670000], rate=46496.52/min 
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[3250000], rate=45882.35/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads  -J /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt  --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir  --filt_file /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail  -M 50  > /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass 
-parsing /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt, organizing read mapping info.

 0.00 reads per min processed...  
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 4136363.64 reads per min processed...  
done.

* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict  -J /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass  -O /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion 
-parsing fusion evidence: /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter  --fusion_preds /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary  -J /tmp/nxf.SYdYiFSp24/1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2.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.SYdYiFSp24/ctat_genome_lib_build_dir  --out_prefix /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -2571545.535662
EM: Round [1] log likelihood: -2570917.698290
EM: Round [2] log likelihood: -2570725.824329
EM: Round [3] log likelihood: -2570642.505649
EM: Round [4] log likelihood: -2570599.685473
EM: Round [5] log likelihood: -2570575.571282
EM: Round [6] log likelihood: -2570561.113866
EM: Round [7] log likelihood: -2570551.968402
EM: Round [8] log likelihood: -2570545.889575
EM: Round [9] log likelihood: -2570541.663925
EM: Round [10] log likelihood: -2570538.609510
EM: Round [11] log likelihood: -2570536.327457
EM: Round [12] log likelihood: -2570534.574738
EM: Round [13] log likelihood: -2570533.197247
EM: Round [14] log likelihood: -2570532.093549
EM: Round [15] log likelihood: -2570531.194596
EM: Round [16] log likelihood: -2570530.451977
EM: Round [17] log likelihood: -2570529.830879
EM: Round [18] log likelihood: -2570529.305712
EM: Round [19] log likelihood: -2570528.857307
EM: Round [20] log likelihood: -2570528.471071
EM: Round [21] log likelihood: -2570528.135729
EM: Round [22] log likelihood: -2570527.842460
EM: Round [23] log likelihood: -2570527.584281
EM: Round [24] log likelihood: -2570527.355610
EM: Round [25] log likelihood: -2570527.151935
EM: Round [26] log likelihood: -2570526.969583
EM: Round [27] log likelihood: -2570526.805537
EM: Round [28] log likelihood: -2570526.657298
EM: Round [29] log likelihood: -2570526.522787
EM: Round [30] log likelihood: -2570526.400257
EM: Round [31] log likelihood: -2570526.288236
EM: Round [32] log likelihood: -2570526.185472
EM: Round [33] log likelihood: -2570526.090900
EM: Round [34] log likelihood: -2570526.003605
EM: Round [35] log likelihood: -2570525.922798
EM: Round [36] log likelihood: -2570525.847797
EM: Round [37] log likelihood: -2570525.778011
EM: Round [38] log likelihood: -2570525.712922
EM: Round [39] log likelihood: -2570525.652076
EM: Round [40] log likelihood: -2570525.595077
EM: Round [41] log likelihood: -2570525.541573
EM: Round [42] log likelihood: -2570525.491255
EM: Round [43] log likelihood: -2570525.443846
EM: Round [44] log likelihood: -2570525.399101
EM: Round [45] log likelihood: -2570525.356803
EM: Round [46] log likelihood: -2570525.316754
EM: Round [47] log likelihood: -2570525.278780
EM: Round [48] log likelihood: -2570525.242721
EM: Round [49] log likelihood: -2570525.208437
EM: Round [50] log likelihood: -2570525.175798
EM: Round [51] log likelihood: -2570525.144687
EM: Round [52] log likelihood: -2570525.114999
EM: Round [53] log likelihood: -2570525.086638
EM: Round [54] log likelihood: -2570525.059515
EM: Round [55] log likelihood: -2570525.033552
EM: Round [56] log likelihood: -2570525.008673
EM: Round [57] log likelihood: -2570524.984813
EM: Round [58] log likelihood: -2570524.961910
EM: Round [59] log likelihood: -2570524.939907
EM: Round [60] log likelihood: -2570524.918752
EM: Round [61] log likelihood: -2570524.898398
EM: Round [62] log likelihood: -2570524.878798
EM: Round [63] log likelihood: -2570524.859913
EM: Round [64] log likelihood: -2570524.841704
EM: Round [65] log likelihood: -2570524.824137
EM: Round [66] log likelihood: -2570524.807177
EM: Round [67] log likelihood: -2570524.790795
EM: Round [68] log likelihood: -2570524.774962
EM: Round [69] log likelihood: -2570524.759651
EM: Round [70] log likelihood: -2570524.744839
EM: Round [71] log likelihood: -2570524.730501
EM: Round [72] log likelihood: -2570524.716616
EM: Round [73] log likelihood: -2570524.703163
EM: Round [74] log likelihood: -2570524.690124
EM: Round [75] log likelihood: -2570524.677481
EM: Round [76] log likelihood: -2570524.665216
EM: Round [77] log likelihood: -2570524.653315
EM: Round [78] log likelihood: -2570524.641761
EM: Round [79] log likelihood: -2570524.630542
EM: Round [80] log likelihood: -2570524.619643
EM: Round [81] log likelihood: -2570524.609052
EM: Round [82] log likelihood: -2570524.598758
EM: Round [83] log likelihood: -2570524.588748
EM: Round [84] log likelihood: -2570524.579013
EM: Round [85] log likelihood: -2570524.569542
EM: Round [86] log likelihood: -2570524.560326
EM: Round [87] log likelihood: -2570524.551355
EM: Round [88] log likelihood: -2570524.542622
EM: Round [89] log likelihood: -2570524.534117
EM: Round [90] log likelihood: -2570524.525833
EM: Round [91] log likelihood: -2570524.517762
EM: Round [92] log likelihood: -2570524.509897
EM: Round [93] log likelihood: -2570524.502232
EM: Round [94] log likelihood: -2570524.494760
EM: Round [95] log likelihood: -2570524.487475
EM: Round [96] log likelihood: -2570524.480370
EM: Round [97] log likelihood: -2570524.473441
EM: Round [98] log likelihood: -2570524.466682
EM: Round [99] log likelihood: -2570524.460087
EM: Round [100] log likelihood: -2570524.453651
EM: Round [101] log likelihood: -2570524.447371
EM: Round [102] log likelihood: -2570524.441240
EM: Round [103] log likelihood: -2570524.435255
EM: Round [104] log likelihood: -2570524.429412
EM: Round [105] log likelihood: -2570524.423706
EM: Round [106] log likelihood: -2570524.418134
EM: Round [107] log likelihood: -2570524.412691
EM: Round [108] log likelihood: -2570524.407374
EM: Round [109] log likelihood: -2570524.402181
EM: Round [110] log likelihood: -2570524.397106
EM: Round [111] log likelihood: -2570524.392147
EM: Round [112] log likelihood: -2570524.387301
EM: Round [113] log likelihood: -2570524.382565
EM: Round [114] log likelihood: -2570524.377936
EM: Round [115] log likelihood: -2570524.373411
EM: Round [116] log likelihood: -2570524.368987
EM: Round [117] log likelihood: -2570524.364662
EM: Round [118] log likelihood: -2570524.360433
EM: Round [119] log likelihood: -2570524.356297
EM: Round [120] log likelihood: -2570524.352253
EM: Round [121] log likelihood: -2570524.348298
EM: Round [122] log likelihood: -2570524.344430
EM: Round [123] log likelihood: -2570524.340646
EM: Round [124] log likelihood: -2570524.336944
EM: Round [125] log likelihood: -2570524.333323
EM: Round [126] log likelihood: -2570524.329781
EM: Round [127] log likelihood: -2570524.326314
EM: Round [128] log likelihood: -2570524.322923
EM: Round [129] log likelihood: -2570524.319604
EM: Round [130] log likelihood: -2570524.316357
EM: Round [131] log likelihood: -2570524.313179
EM: Round [132] log likelihood: -2570524.310068
EM: Round [133] log likelihood: -2570524.307024
EM: Round [134] log likelihood: -2570524.304044
EM: Round [135] log likelihood: -2570524.301128
EM: Round [136] log likelihood: -2570524.298272
EM: Round [137] log likelihood: -2570524.295478
EM: Round [138] log likelihood: -2570524.292741
EM: Round [139] log likelihood: -2570524.290062
EM: Round [140] log likelihood: -2570524.287440
EM: Round [141] log likelihood: -2570524.284872
EM: Round [142] log likelihood: -2570524.282357
EM: Round [143] log likelihood: -2570524.279895
EM: Round [144] log likelihood: -2570524.277484
EM: Round [145] log likelihood: -2570524.275123
EM: Round [146] log likelihood: -2570524.272811
EM: Round [147] log likelihood: -2570524.270547
EM: Round [148] log likelihood: -2570524.268329
EM: Round [149] log likelihood: -2570524.266157
EM: Round [150] log likelihood: -2570524.264030
EM: Round [151] log likelihood: -2570524.261946
EM: Round [152] log likelihood: -2570524.259905
EM: Round [153] log likelihood: -2570524.257905
EM: Round [154] log likelihood: -2570524.255947
EM: Round [155] log likelihood: -2570524.254028
EM: Round [156] log likelihood: -2570524.252149
EM: Round [157] log likelihood: -2570524.250308
EM: Round [158] log likelihood: -2570524.248504
EM: Round [159] log likelihood: -2570524.246737
EM: Round [160] log likelihood: -2570524.245005
EM: Round [161] log likelihood: -2570524.243309
EM: Round [162] log likelihood: -2570524.241646
EM: Round [163] log likelihood: -2570524.240018
EM: Round [164] log likelihood: -2570524.238422
EM: Round [165] log likelihood: -2570524.236858
EM: Round [166] log likelihood: -2570524.235326
EM: Round [167] log likelihood: -2570524.233824
EM: Round [168] log likelihood: -2570524.232353
EM: Round [169] log likelihood: -2570524.230911
EM: Round [170] log likelihood: -2570524.229498
EM: Round [171] log likelihood: -2570524.228113
EM: Round [172] log likelihood: -2570524.226756
EM: Round [173] log likelihood: -2570524.225425
EM: Round [174] log likelihood: -2570524.224122
EM: Round [175] log likelihood: -2570524.222844
EM: Round [176] log likelihood: -2570524.221592
EM: Round [177] log likelihood: -2570524.220364
EM: Round [178] log likelihood: -2570524.219161
EM: Round [179] log likelihood: -2570524.217982
EM: Round [180] log likelihood: -2570524.216826
EM: Round [181] log likelihood: -2570524.215693
EM: Round [182] log likelihood: -2570524.214582
EM: Round [183] log likelihood: -2570524.213494
EM: Round [184] log likelihood: -2570524.212427
EM: Round [185] log likelihood: -2570524.211380
EM: Round [186] log likelihood: -2570524.210355
EM: Round [187] log likelihood: -2570524.209349
EM: Round [188] log likelihood: -2570524.208364
EM: Round [189] log likelihood: -2570524.207398
EM: Round [190] log likelihood: -2570524.206450
EM: Round [191] log likelihood: -2570524.205522
EM: Round [192] log likelihood: -2570524.204611
EM: Round [193] log likelihood: -2570524.203719
EM: Round [194] log likelihood: -2570524.202843
EM: Round [195] log likelihood: -2570524.201985
EM: Round [196] log likelihood: -2570524.201144
EM: Round [197] log likelihood: -2570524.200319
EM: Round [198] log likelihood: -2570524.199510
EM: Round [199] log likelihood: -2570524.198717
EM: Round [200] log likelihood: -2570524.197940
EM: Round [201] log likelihood: -2570524.197177
EM: Round [202] log likelihood: -2570524.196430
EM: Round [203] log likelihood: -2570524.195697
EM: Round [204] log likelihood: -2570524.194978
EM: Round [205] log likelihood: -2570524.194273
EM: Round [206] log likelihood: -2570524.193582
EM: Round [207] log likelihood: -2570524.192904
EM: Round [208] log likelihood: -2570524.192240
EM: Round [209] log likelihood: -2570524.191588
EM: Round [210] log likelihood: -2570524.190949
EM: Round [211] log likelihood: -2570524.190322
EM: Round [212] log likelihood: -2570524.189707
EM: Round [213] log likelihood: -2570524.189104
EM: Round [214] log likelihood: -2570524.188513
EM: Round [215] log likelihood: -2570524.187933
EM: Round [216] log likelihood: -2570524.187365
EM: Round [217] log likelihood: -2570524.186807
EM: Round [218] log likelihood: -2570524.186260
EM: Round [219] log likelihood: -2570524.185724
EM: Round [220] log likelihood: -2570524.185198
EM: Round [221] log likelihood: -2570524.184682
EM: Round [222] log likelihood: -2570524.184176
EM: Round [223] log likelihood: -2570524.183680
EM: Round [224] log likelihood: -2570524.183193
EM: Round [225] log likelihood: -2570524.182715
EM: Round [226] log likelihood: -2570524.182247
EM: Round [227] log likelihood: -2570524.181788
EM: Round [228] log likelihood: -2570524.181337
EM: Round [229] log likelihood: -2570524.180895
EM: Round [230] log likelihood: -2570524.180462
EM: Round [231] log likelihood: -2570524.180036
EM: Round [232] log likelihood: -2570524.179619
EM: Round [233] log likelihood: -2570524.179210
EM: Round [234] log likelihood: -2570524.178809
EM: Round [235] log likelihood: -2570524.178415
EM: Round [236] log likelihood: -2570524.178029
EM: Round [237] log likelihood: -2570524.177650
EM: Round [238] log likelihood: -2570524.177278
EM: Round [239] log likelihood: -2570524.176914
EM: Round [240] log likelihood: -2570524.176556
EM: Round [241] log likelihood: -2570524.176205
EM: Round [242] log likelihood: -2570524.175861
EM: Round [243] log likelihood: -2570524.175523
EM: Round [244] log likelihood: -2570524.175192
EM: Round [245] log likelihood: -2570524.174867
EM: Round [246] log likelihood: -2570524.174548
EM: Round [247] log likelihood: -2570524.174236
EM: Round [248] log likelihood: -2570524.173929
EM: Round [249] log likelihood: -2570524.173628
EM: Round [250] log likelihood: -2570524.173332
EM: Round [251] log likelihood: -2570524.173043
EM: Round [252] log likelihood: -2570524.172758
EM: Round [253] log likelihood: -2570524.172479
EM: Round [254] log likelihood: -2570524.172206
EM: Round [255] log likelihood: -2570524.171937
EM: Round [256] log likelihood: -2570524.171674
EM: Round [257] log likelihood: -2570524.171415
EM: Round [258] log likelihood: -2570524.171162
EM: Round [259] log likelihood: -2570524.170913
EM: Round [260] log likelihood: -2570524.170668
EM: Round [261] log likelihood: -2570524.170429
EM: Round [262] log likelihood: -2570524.170194
EM: Round [263] log likelihood: -2570524.169963
EM: Round [264] log likelihood: -2570524.169737
EM: Round [265] log likelihood: -2570524.169515
EM: Round [266] log likelihood: -2570524.169297
EM: Round [267] log likelihood: -2570524.169083
EM: Round [268] log likelihood: -2570524.168873
EM: Round [269] log likelihood: -2570524.168667
EM: Round [270] log likelihood: -2570524.168465
EM: Round [271] log likelihood: -2570524.168266
EM: Round [272] log likelihood: -2570524.168072
EM: Round [273] log likelihood: -2570524.167881
EM: Round [274] log likelihood: -2570524.167693
EM: Round [275] log likelihood: -2570524.167509
EM: Round [276] log likelihood: -2570524.167329
EM: Round [277] log likelihood: -2570524.167152
EM: Round [278] log likelihood: -2570524.166978
EM: Round [279] log likelihood: -2570524.166807
EM: Round [280] log likelihood: -2570524.166640
EM: Round [281] log likelihood: -2570524.166475
EM: Round [282] log likelihood: -2570524.166314
EM: Round [283] log likelihood: -2570524.166156
EM: Round [284] log likelihood: -2570524.166000
EM: Round [285] log likelihood: -2570524.165848
EM: Round [286] log likelihood: -2570524.165698
EM: Round [287] log likelihood: -2570524.165551
EM: Round [288] log likelihood: -2570524.165407
EM: Round [289] log likelihood: -2570524.165266
EM: Round [290] log likelihood: -2570524.165127
EM: Round [291] log likelihood: -2570524.164990
EM: Round [292] log likelihood: -2570524.164856
EM: Round [293] log likelihood: -2570524.164725
EM: Round [294] log likelihood: -2570524.164596
EM: Round [295] log likelihood: -2570524.164470
EM: Round [296] log likelihood: -2570524.164345
EM: Round [297] log likelihood: -2570524.164223
EM: Round [298] log likelihood: -2570524.164104
EM: Round [299] log likelihood: -2570524.163986
EM: Round [300] log likelihood: -2570524.163871
EM: Round [301] log likelihood: -2570524.163757
EM: Round [302] log likelihood: -2570524.163646
EM: Round [303] log likelihood: -2570524.163537
EM: Round [304] log likelihood: -2570524.163430
EM: Round [305] log likelihood: -2570524.163325
EM: Round [306] log likelihood: -2570524.163221
EM: Round [307] log likelihood: -2570524.163120
EM: Round [308] log likelihood: -2570524.163021
EM: Stopping iterations at round 308 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -2569042.903864
EM: Round [1] log likelihood: -2568527.470325
EM: Round [2] log likelihood: -2568376.538686
EM: Round [3] log likelihood: -2568312.971156
EM: Round [4] log likelihood: -2568281.038116
EM: Round [5] log likelihood: -2568263.392650
EM: Round [6] log likelihood: -2568253.001821
EM: Round [7] log likelihood: -2568246.547297
EM: Round [8] log likelihood: -2568242.336259
EM: Round [9] log likelihood: -2568239.463513
EM: Round [10] log likelihood: -2568237.425203
EM: Round [11] log likelihood: -2568235.929382
EM: Round [12] log likelihood: -2568234.799914
EM: Round [13] log likelihood: -2568233.926286
EM: Round [14] log likelihood: -2568233.236569
EM: Round [15] log likelihood: -2568232.682377
EM: Round [16] log likelihood: -2568232.230192
EM: Round [17] log likelihood: -2568231.856206
EM: Round [18] log likelihood: -2568231.543130
EM: Round [19] log likelihood: -2568231.278168
EM: Round [20] log likelihood: -2568231.051696
EM: Round [21] log likelihood: -2568230.856364
EM: Round [22] log likelihood: -2568230.686488
EM: Round [23] log likelihood: -2568230.537621
EM: Round [24] log likelihood: -2568230.406244
EM: Round [25] log likelihood: -2568230.289549
EM: Round [26] log likelihood: -2568230.185269
EM: Round [27] log likelihood: -2568230.091564
EM: Round [28] log likelihood: -2568230.006926
EM: Round [29] log likelihood: -2568229.930111
EM: Round [30] log likelihood: -2568229.860085
EM: Round [31] log likelihood: -2568229.795984
EM: Round [32] log likelihood: -2568229.737082
EM: Round [33] log likelihood: -2568229.682762
EM: Round [34] log likelihood: -2568229.632503
EM: Round [35] log likelihood: -2568229.585856
EM: Round [36] log likelihood: -2568229.542438
EM: Round [37] log likelihood: -2568229.501916
EM: Round [38] log likelihood: -2568229.464003
EM: Round [39] log likelihood: -2568229.428448
EM: Round [40] log likelihood: -2568229.395034
EM: Round [41] log likelihood: -2568229.363566
EM: Round [42] log likelihood: -2568229.333877
EM: Round [43] log likelihood: -2568229.305815
EM: Round [44] log likelihood: -2568229.279249
EM: Round [45] log likelihood: -2568229.254060
EM: Round [46] log likelihood: -2568229.230141
EM: Round [47] log likelihood: -2568229.207398
EM: Round [48] log likelihood: -2568229.185746
EM: Round [49] log likelihood: -2568229.165108
EM: Round [50] log likelihood: -2568229.145414
EM: Round [51] log likelihood: -2568229.126601
EM: Round [52] log likelihood: -2568229.108612
EM: Round [53] log likelihood: -2568229.091395
EM: Round [54] log likelihood: -2568229.074901
EM: Round [55] log likelihood: -2568229.059088
EM: Round [56] log likelihood: -2568229.043914
EM: Round [57] log likelihood: -2568229.029344
EM: Round [58] log likelihood: -2568229.015342
EM: Round [59] log likelihood: -2568229.001878
EM: Round [60] log likelihood: -2568228.988922
EM: Round [61] log likelihood: -2568228.976448
EM: Round [62] log likelihood: -2568228.964431
EM: Round [63] log likelihood: -2568228.952847
EM: Round [64] log likelihood: -2568228.941674
EM: Round [65] log likelihood: -2568228.930892
EM: Round [66] log likelihood: -2568228.920483
EM: Round [67] log likelihood: -2568228.910429
EM: Round [68] log likelihood: -2568228.900712
EM: Round [69] log likelihood: -2568228.891319
EM: Round [70] log likelihood: -2568228.882233
EM: Round [71] log likelihood: -2568228.873442
EM: Round [72] log likelihood: -2568228.864932
EM: Round [73] log likelihood: -2568228.856692
EM: Round [74] log likelihood: -2568228.848709
EM: Round [75] log likelihood: -2568228.840974
EM: Round [76] log likelihood: -2568228.833475
EM: Round [77] log likelihood: -2568228.826204
EM: Round [78] log likelihood: -2568228.819150
EM: Round [79] log likelihood: -2568228.812306
EM: Round [80] log likelihood: -2568228.805663
EM: Round [81] log likelihood: -2568228.799213
EM: Round [82] log likelihood: -2568228.792949
EM: Round [83] log likelihood: -2568228.786864
EM: Round [84] log likelihood: -2568228.780951
EM: Round [85] log likelihood: -2568228.775204
EM: Round [86] log likelihood: -2568228.769617
EM: Round [87] log likelihood: -2568228.764184
EM: Round [88] log likelihood: -2568228.758899
EM: Round [89] log likelihood: -2568228.753758
EM: Round [90] log likelihood: -2568228.748755
EM: Round [91] log likelihood: -2568228.743886
EM: Round [92] log likelihood: -2568228.739146
EM: Round [93] log likelihood: -2568228.734530
EM: Round [94] log likelihood: -2568228.730035
EM: Round [95] log likelihood: -2568228.725656
EM: Round [96] log likelihood: -2568228.721389
EM: Round [97] log likelihood: -2568228.717232
EM: Round [98] log likelihood: -2568228.713181
EM: Round [99] log likelihood: -2568228.709231
EM: Round [100] log likelihood: -2568228.705380
EM: Round [101] log likelihood: -2568228.701625
EM: Round [102] log likelihood: -2568228.697963
EM: Round [103] log likelihood: -2568228.694391
EM: Round [104] log likelihood: -2568228.690907
EM: Round [105] log likelihood: -2568228.687507
EM: Round [106] log likelihood: -2568228.684189
EM: Round [107] log likelihood: -2568228.680950
EM: Round [108] log likelihood: -2568228.677789
EM: Round [109] log likelihood: -2568228.674703
EM: Round [110] log likelihood: -2568228.671690
EM: Round [111] log likelihood: -2568228.668748
EM: Round [112] log likelihood: -2568228.665875
EM: Round [113] log likelihood: -2568228.663068
EM: Round [114] log likelihood: -2568228.660326
EM: Round [115] log likelihood: -2568228.657648
EM: Round [116] log likelihood: -2568228.655031
EM: Round [117] log likelihood: -2568228.652474
EM: Round [118] log likelihood: -2568228.649975
EM: Round [119] log likelihood: -2568228.647532
EM: Round [120] log likelihood: -2568228.645145
EM: Round [121] log likelihood: -2568228.642811
EM: Round [122] log likelihood: -2568228.640530
EM: Round [123] log likelihood: -2568228.638299
EM: Round [124] log likelihood: -2568228.636117
EM: Round [125] log likelihood: -2568228.633984
EM: Round [126] log likelihood: -2568228.631898
EM: Round [127] log likelihood: -2568228.629857
EM: Round [128] log likelihood: -2568228.627861
EM: Round [129] log likelihood: -2568228.625909
EM: Round [130] log likelihood: -2568228.623998
EM: Round [131] log likelihood: -2568228.622130
EM: Round [132] log likelihood: -2568228.620301
EM: Round [133] log likelihood: -2568228.618512
EM: Round [134] log likelihood: -2568228.616761
EM: Round [135] log likelihood: -2568228.615047
EM: Round [136] log likelihood: -2568228.613370
EM: Round [137] log likelihood: -2568228.611728
EM: Round [138] log likelihood: -2568228.610122
EM: Round [139] log likelihood: -2568228.608549
EM: Round [140] log likelihood: -2568228.607009
EM: Round [141] log likelihood: -2568228.605501
EM: Round [142] log likelihood: -2568228.604025
EM: Round [143] log likelihood: -2568228.602580
EM: Round [144] log likelihood: -2568228.601165
EM: Round [145] log likelihood: -2568228.599779
EM: Round [146] log likelihood: -2568228.598422
EM: Round [147] log likelihood: -2568228.597093
EM: Round [148] log likelihood: -2568228.595791
EM: Round [149] log likelihood: -2568228.594517
EM: Round [150] log likelihood: -2568228.593268
EM: Round [151] log likelihood: -2568228.592045
EM: Round [152] log likelihood: -2568228.590847
EM: Round [153] log likelihood: -2568228.589673
EM: Round [154] log likelihood: -2568228.588523
EM: Round [155] log likelihood: -2568228.587396
EM: Round [156] log likelihood: -2568228.586293
EM: Round [157] log likelihood: -2568228.585211
EM: Round [158] log likelihood: -2568228.584152
EM: Round [159] log likelihood: -2568228.583114
EM: Round [160] log likelihood: -2568228.582096
EM: Round [161] log likelihood: -2568228.581099
EM: Round [162] log likelihood: -2568228.580122
EM: Round [163] log likelihood: -2568228.579165
EM: Round [164] log likelihood: -2568228.578227
EM: Round [165] log likelihood: -2568228.577307
EM: Round [166] log likelihood: -2568228.576406
EM: Round [167] log likelihood: -2568228.575522
EM: Round [168] log likelihood: -2568228.574656
EM: Round [169] log likelihood: -2568228.573808
EM: Round [170] log likelihood: -2568228.572976
EM: Round [171] log likelihood: -2568228.572160
EM: Round [172] log likelihood: -2568228.571361
EM: Round [173] log likelihood: -2568228.570577
EM: Round [174] log likelihood: -2568228.569809
EM: Round [175] log likelihood: -2568228.569055
EM: Round [176] log likelihood: -2568228.568317
EM: Round [177] log likelihood: -2568228.567593
EM: Round [178] log likelihood: -2568228.566883
EM: Round [179] log likelihood: -2568228.566187
EM: Round [180] log likelihood: -2568228.565505
EM: Round [181] log likelihood: -2568228.564835
EM: Round [182] log likelihood: -2568228.564179
EM: Round [183] log likelihood: -2568228.563536
EM: Round [184] log likelihood: -2568228.562905
EM: Round [185] log likelihood: -2568228.562286
EM: Round [186] log likelihood: -2568228.561680
EM: Round [187] log likelihood: -2568228.561085
EM: Round [188] log likelihood: -2568228.560501
EM: Round [189] log likelihood: -2568228.559929
EM: Round [190] log likelihood: -2568228.559368
EM: Round [191] log likelihood: -2568228.558817
EM: Round [192] log likelihood: -2568228.558277
EM: Round [193] log likelihood: -2568228.557748
EM: Round [194] log likelihood: -2568228.557229
EM: Round [195] log likelihood: -2568228.556719
EM: Round [196] log likelihood: -2568228.556220
EM: Round [197] log likelihood: -2568228.555730
EM: Round [198] log likelihood: -2568228.555249
EM: Round [199] log likelihood: -2568228.554778
EM: Round [200] log likelihood: -2568228.554315
EM: Round [201] log likelihood: -2568228.553862
EM: Round [202] log likelihood: -2568228.553417
EM: Round [203] log likelihood: -2568228.552980
EM: Round [204] log likelihood: -2568228.552552
EM: Round [205] log likelihood: -2568228.552132
EM: Round [206] log likelihood: -2568228.551720
EM: Round [207] log likelihood: -2568228.551315
EM: Round [208] log likelihood: -2568228.550919
EM: Round [209] log likelihood: -2568228.550529
EM: Round [210] log likelihood: -2568228.550148
EM: Round [211] log likelihood: -2568228.549773
EM: Round [212] log likelihood: -2568228.549406
EM: Round [213] log likelihood: -2568228.549045
EM: Round [214] log likelihood: -2568228.548691
EM: Round [215] log likelihood: -2568228.548344
EM: Round [216] log likelihood: -2568228.548004
EM: Round [217] log likelihood: -2568228.547669
EM: Round [218] log likelihood: -2568228.547342
EM: Round [219] log likelihood: -2568228.547020
EM: Round [220] log likelihood: -2568228.546704
EM: Round [221] log likelihood: -2568228.546395
EM: Round [222] log likelihood: -2568228.546091
EM: Round [223] log likelihood: -2568228.545792
EM: Round [224] log likelihood: -2568228.545500
EM: Round [225] log likelihood: -2568228.545212
EM: Round [226] log likelihood: -2568228.544931
EM: Round [227] log likelihood: -2568228.544654
EM: Round [228] log likelihood: -2568228.544383
EM: Round [229] log likelihood: -2568228.544116
EM: Round [230] log likelihood: -2568228.543855
EM: Round [231] log likelihood: -2568228.543599
EM: Round [232] log likelihood: -2568228.543347
EM: Round [233] log likelihood: -2568228.543100
EM: Round [234] log likelihood: -2568228.542857
EM: Round [235] log likelihood: -2568228.542619
EM: Round [236] log likelihood: -2568228.542386
EM: Round [237] log likelihood: -2568228.542157
EM: Round [238] log likelihood: -2568228.541932
EM: Round [239] log likelihood: -2568228.541711
EM: Round [240] log likelihood: -2568228.541494
EM: Round [241] log likelihood: -2568228.541282
EM: Round [242] log likelihood: -2568228.541073
EM: Round [243] log likelihood: -2568228.540868
EM: Round [244] log likelihood: -2568228.540667
EM: Round [245] log likelihood: -2568228.540470
EM: Round [246] log likelihood: -2568228.540276
EM: Round [247] log likelihood: -2568228.540086
EM: Round [248] log likelihood: -2568228.539899
EM: Round [249] log likelihood: -2568228.539716
EM: Round [250] log likelihood: -2568228.539536
EM: Round [251] log likelihood: -2568228.539360
EM: Round [252] log likelihood: -2568228.539187
EM: Round [253] log likelihood: -2568228.539017
EM: Round [254] log likelihood: -2568228.538850
EM: Round [255] log likelihood: -2568228.538686
EM: Round [256] log likelihood: -2568228.538525
EM: Round [257] log likelihood: -2568228.538367
EM: Round [258] log likelihood: -2568228.538212
EM: Round [259] log likelihood: -2568228.538060
EM: Round [260] log likelihood: -2568228.537911
EM: Round [261] log likelihood: -2568228.537764
EM: Round [262] log likelihood: -2568228.537620
EM: Round [263] log likelihood: -2568228.537479
EM: Round [264] log likelihood: -2568228.537340
EM: Round [265] log likelihood: -2568228.537204
EM: Round [266] log likelihood: -2568228.537070
EM: Round [267] log likelihood: -2568228.536939
EM: Round [268] log likelihood: -2568228.536810
EM: Round [269] log likelihood: -2568228.536683
EM: Round [270] log likelihood: -2568228.536559
EM: Round [271] log likelihood: -2568228.536437
EM: Round [272] log likelihood: -2568228.536317
EM: Round [273] log likelihood: -2568228.536200
EM: Round [274] log likelihood: -2568228.536084
EM: Round [275] log likelihood: -2568228.535971
EM: Round [276] log likelihood: -2568228.535860
EM: Round [277] log likelihood: -2568228.535751
EM: Round [278] log likelihood: -2568228.535643
EM: Round [279] log likelihood: -2568228.535538
EM: Round [280] log likelihood: -2568228.535435
EM: Round [281] log likelihood: -2568228.535333
EM: Round [282] log likelihood: -2568228.535233
EM: Stopping iterations at round 282 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20  --fusion_preds /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir 
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter  --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir  --max_promiscuity 10  --min_pct_dom_promiscuity 20 
CMD: cp /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 237892568 > /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir > /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir --annotate /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir
-done, see /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.SYdYiFSp24/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 834, filtered: 5040)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.SYdYiFSp24/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.SYdYiFSp24/./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.SYdYiFSp24/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
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WARNING, no entry stored in dbm for [ENSG00000279080.1]
WARNING, no entry stored in dbm for [ENSG00000240498.9]
WARNING, no entry stored in dbm for [ENSG00000237949.2]
WARNING, no entry stored in dbm for [ENSG00000279022.1]
WARNING, no entry stored in dbm for [ENSG00000149531.15]
WARNING, no entry stored in dbm for [ENSG00000252139.1]
WARNING, no entry stored in dbm for [ENSG00000215409.4]
WARNING, no entry stored in dbm for [ENSG00000227288.3]
WARNING, no entry stored in dbm for [ENSG00000280007.1]
WARNING, no entry stored in dbm for [ENSG00000226835.3]
WARNING, no entry stored in dbm for [ENSG00000233109.4]
WARNING, no entry stored in dbm for [ENSG00000253332.1]
WARNING, no entry stored in dbm for [ENSG00000213979.3]
WARNING, no entry stored in dbm for [ENSG00000256035.1]
WARNING, no entry stored in dbm for [ENSG00000230551.4]
WARNING, no entry stored in dbm for [ENSG00000226043.2]
WARNING, no entry stored in dbm for [ENSG00000254902.1]
WARNING, no entry stored in dbm for [ENSG00000239969.5]
WARNING, no entry stored in dbm for [ENSG00000230006.7]
WARNING, no entry stored in dbm for [ENSG00000228714.4]
WARNING, no entry stored in dbm for [ENSG00000272501.1]
WARNING, no entry stored in dbm for [ENSG00000170161.7]
WARNING, no entry stored in dbm for [ENSG00000231212.1]
WARNING, no entry stored in dbm for [ENSG00000275649.1]
WARNING, no entry stored in dbm for [ENSG00000235749.3]
WARNING, no entry stored in dbm for [ENSG00000227463.3]
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 [ENSG00000234763.3]
WARNING, no entry stored in dbm for [ENSG00000280425.2]
WARNING, no entry stored in dbm for [ENSG00000224356.5]
WARNING, no entry stored in dbm for [ENSG00000284977.2]
WARNING, no entry stored in dbm for [ENSG00000264148.1]
WARNING, no entry stored in dbm for [ENSG00000285269.2]
WARNING, no entry stored in dbm for [ENSG00000197670.6]
WARNING, no entry stored in dbm for [ENSG00000284735.1]
WARNING, no entry stored in dbm for [ENSG00000279253.1]
WARNING, no entry stored in dbm for [ENSG00000183239.5]
WARNING, no entry stored in dbm for [ENSG00000243730.2]
WARNING, no entry stored in dbm for [ENSG00000227486.2]
WARNING, no entry stored in dbm for [ENSG00000227486.2]
WARNING, no entry stored in dbm for [ENSG00000274760.1]
WARNING, no entry stored in dbm for [ENSG00000185839.3]
WARNING, no entry stored in dbm for [ENSG00000288543.1]
WARNING, no entry stored in dbm for [ENSG00000224341.1]
WARNING, no entry stored in dbm for [ENSG00000242100.2]
WARNING, no entry stored in dbm for [ENSG00000284719.1]
WARNING, no entry stored in dbm for [ENSG00000243289.1]
WARNING, no entry stored in dbm for [ENSG00000261011.1]
WARNING, no entry stored in dbm for [ENSG00000230964.1]
WARNING, no entry stored in dbm for [ENSG00000230581.2]
WARNING, no entry stored in dbm for [ENSG00000213080.3]
WARNING, no entry stored in dbm for [ENSG00000223804.5]
WARNING, no entry stored in dbm for [ENSG00000223804.5]
WARNING, no entry stored in dbm for [ENSG00000223779.6]
WARNING, no entry stored in dbm for [ENSG00000275121.1]
WARNING, no entry stored in dbm for [ENSG00000233013.10]
WARNING, no entry stored in dbm for [ENSG00000277125.1]
WARNING, no entry stored in dbm for [ENSG00000232729.8]
WARNING, no entry stored in dbm for [ENSG00000248468.2]
WARNING, no entry stored in dbm for [ENSG00000242073.2]
WARNING, no entry stored in dbm for [ENSG00000254701.3]
WARNING, no entry stored in dbm for [ENSG00000224458.3]
WARNING, no entry stored in dbm for [ENSG00000215158.9]
WARNING, no entry stored in dbm for [ENSG00000279196.1]
WARNING, no entry stored in dbm for [ENSG00000108958.4]
WARNING, no entry stored in dbm for [ENSG00000108958.4]
WARNING, no entry stored in dbm for [ENSG00000108958.4]
WARNING, no entry stored in dbm for [ENSG00000262873.2]
WARNING, no entry stored in dbm for [ENSG00000166104.15]
WARNING, no entry stored in dbm for [ENSG00000259570.1]
WARNING, no entry stored in dbm for [ENSG00000259948.2]
WARNING, no entry stored in dbm for [ENSG00000284675.1]
WARNING, no entry stored in dbm for [ENSG00000261889.1]
WARNING, no entry stored in dbm for [ENSG00000245025.3]
WARNING, no entry stored in dbm for [ENSG00000241411.1]
WARNING, no entry stored in dbm for [ENSG00000254035.1]
WARNING, no entry stored in dbm for [ENSG00000254035.1]
WARNING, no entry stored in dbm for [ENSG00000265218.1]
WARNING, no entry stored in dbm for [ENSG00000284648.1]
WARNING, no entry stored in dbm for [ENSG00000242759.8]
WARNING, no entry stored in dbm for [ENSG00000285836.1]
WARNING, no entry stored in dbm for [ENSG00000288620.1]
WARNING, no entry stored in dbm for [ENSG00000288620.1]
WARNING, no entry stored in dbm for [ENSG00000187953.10]
WARNING, no entry stored in dbm for [ENSG00000284783.1]
WARNING, no entry stored in dbm for [ENSG00000285035.1]
WARNING, no entry stored in dbm for [ENSG00000265936.1]
WARNING, no entry stored in dbm for [ENSG00000214259.3]
WARNING, no entry stored in dbm for [ENSG00000265750.1]
WARNING, no entry stored in dbm for [ENSG00000287022.1]
WARNING, no entry stored in dbm for [ENSG00000284627.1]
WARNING, no entry stored in dbm for [ENSG00000248618.1]
WARNING, no entry stored in dbm for [ENSG00000227769.7]
WARNING, no entry stored in dbm for [ENSG00000283393.1]
WARNING, no entry stored in dbm for [ENSG00000280331.1]
WARNING, no entry stored in dbm for [ENSG00000229212.8]
WARNING, no entry stored in dbm for [ENSG00000189136.9]
WARNING, no entry stored in dbm for [ENSG00000276101.1]
WARNING, no entry stored in dbm for [ENSG00000287951.1]
WARNING, no entry stored in dbm for [ENSG00000272140.2]
WARNING, no entry stored in dbm for [ENSG00000242858.1]
WARNING, no entry stored in dbm for [ENSG00000234584.1]
WARNING, no entry stored in dbm for [ENSG00000213963.6]
WARNING, no entry stored in dbm for [ENSG00000233611.3]
WARNING, no entry stored in dbm for [ENSG00000281896.1]
WARNING, no entry stored in dbm for [ENSG00000237491.10]
WARNING, no entry stored in dbm for [ENSG00000269032.1]
WARNING, no entry stored in dbm for [ENSG00000184319.16]
WARNING, no entry stored in dbm for [ENSG00000258454.1]
WARNING, no entry stored in dbm for [ENSG00000272384.1]
WARNING, no entry stored in dbm for [ENSG00000264982.1]
WARNING, no entry stored in dbm for [ENSG00000261526.2]
WARNING, no entry stored in dbm for [ENSG00000270100.1]
WARNING, no entry stored in dbm for [ENSG00000259755.1]
WARNING, no entry stored in dbm for [ENSG00000249839.1]
WARNING, no entry stored in dbm for [ENSG00000283695.1]
WARNING, no entry stored in dbm for [ENSG00000286314.1]
WARNING, no entry stored in dbm for [ENSG00000260905.1]
WARNING, no entry stored in dbm for [ENSG00000284671.1]
WARNING, no entry stored in dbm for [ENSG00000286828.1]
WARNING, no entry stored in dbm for [ENSG00000267984.1]
WARNING, no entry stored in dbm for [ENSG00000267062.1]
WARNING, no entry stored in dbm for [ENSG00000213488.4]
WARNING, no entry stored in dbm for [ENSG00000249526.1]
WARNING, no entry stored in dbm for [ENSG00000270453.1]
WARNING, no entry stored in dbm for [ENSG00000238165.1]
WARNING, no entry stored in dbm for [ENSG00000225728.2]
WARNING, no entry stored in dbm for [ENSG00000225726.1]
WARNING, no entry stored in dbm for [ENSG00000272256.1]
WARNING, no entry stored in dbm for [ENSG00000283132.1]
WARNING, no entry stored in dbm for [ENSG00000236213.2]
WARNING, no entry stored in dbm for [ENSG00000241057.2]
WARNING, no entry stored in dbm for [ENSG00000230305.2]
WARNING, no entry stored in dbm for [ENSG00000212663.2]
WARNING, no entry stored in dbm for [ENSG00000212663.2]
WARNING, no entry stored in dbm for [ENSG00000231749.3]


	* STAR-Fusion complete.  See output: /tmp/nxf.SYdYiFSp24/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)