-ctat genome lib [/tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir] validates. CMD: mkdir -p /tmp/nxf.RDXZWdDFOB/./_starF_checkpoints CMD: mkdir -p /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary -sample contains 121082139 rnaseq fragments * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir -J /tmp/nxf.RDXZWdDFOB/ColoN_FFPE_L06_RNA_01_B23LG7FLT4_2.Chimeric.out.junction -O /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 -parsing fusion evidence: /tmp/nxf.RDXZWdDFOB/ColoN_FFPE_L06_RNA_01_B23LG7FLT4_2.Chimeric.out.junction -building interval tree based on /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.13 min). -mapping reads to genes [10000], rate=33333.33/min [20000], rate=30000.00/min [30000], rate=26865.67/min [40000], rate=30769.23/min [50000], rate=30000.00/min [60000], rate=24161.07/min [70000], rate=23595.51/min [80000], rate=23300.97/min [90000], rate=24107.14/min [100000], rate=24489.80/min [110000], rate=24354.24/min [120000], rate=24573.38/min [130000], rate=24148.61/min [140000], rate=24778.76/min [150000], rate=25423.73/min [160000], rate=25668.45/min [170000], rate=25888.32/min [180000], rate=26086.96/min [190000], rate=26267.28/min [200000], rate=26548.67/min [210000], rate=26980.73/min [220000], rate=26993.87/min [230000], rate=27165.35/min [240000], rate=27799.23/min [250000], rate=28355.39/min [260000], rate=29050.28/min [270000], rate=29562.04/min [280000], rate=30270.27/min [290000], rate=30633.80/min [300000], rate=31141.87/min [310000], rate=31849.32/min [320000], rate=32432.43/min [330000], rate=33000.00/min [340000], rate=33387.89/min [350000], rate=33707.87/min [360000], rate=34560.00/min [370000], rate=35350.32/min [380000], rate=36190.48/min [390000], rate=37025.32/min [400000], rate=37854.89/min [410000], rate=38437.50/min [420000], rate=38650.31/min [430000], rate=38738.74/min [440000], rate=38880.71/min [450000], rate=39244.19/min [460000], rate=39204.55/min [470000], rate=38472.03/min [480000], rate=37994.72/min [490000], rate=37500.00/min [500000], rate=37082.82/min [510000], rate=36602.87/min [520000], rate=36152.95/min [530000], rate=35932.20/min [540000], rate=35643.56/min [550000], rate=35908.60/min [560000], rate=35935.83/min [570000], rate=35811.52/min [580000], rate=35582.82/min [590000], rate=35364.64/min [600000], rate=34985.42/min [610000], rate=34790.87/min [620000], rate=34864.10/min [630000], rate=34710.74/min [640000], rate=34688.35/min [650000], rate=34635.88/min [660000], rate=34676.01/min [670000], rate=34745.03/min [680000], rate=34782.61/min [690000], rate=34789.92/min [700000], rate=34854.77/min [710000], rate=35004.11/min [720000], rate=35207.82/min [730000], rate=35408.25/min [740000], rate=35634.03/min [750000], rate=35799.52/min [760000], rate=36104.51/min [770000], rate=36406.62/min [780000], rate=36677.12/min [790000], rate=36321.84/min [800000], rate=35874.44/min [810000], rate=35242.93/min [820000], rate=34770.32/min [830000], rate=34487.53/min [840000], rate=34309.05/min [850000], rate=34159.41/min [860000], rate=34036.94/min [870000], rate=33940.18/min [880000], rate=33911.37/min [890000], rate=33840.30/min [900000], rate=33919.60/min [910000], rate=34061.14/min [920000], rate=34221.95/min [930000], rate=34380.78/min [940000], rate=34474.33/min [950000], rate=34566.40/min [960000], rate=34719.71/min [970000], rate=34850.30/min [980000], rate=35062.61/min [990000], rate=35168.74/min [1000000], rate=35356.51/min [1010000], rate=35500.88/min [1020000], rate=35726.80/min [1030000], rate=35888.50/min [1040000], rate=35986.16/min [1050000], rate=36041.19/min [1060000], rate=36156.91/min [1070000], rate=36250.71/min [1080000], rate=36424.96/min [1090000], rate=36536.31/min [1100000], rate=36585.37/min [1110000], rate=36734.69/min [1120000], rate=36923.08/min [1130000], rate=37211.86/min [1140000], rate=37479.45/min [1150000], rate=37684.33/min [1160000], rate=37887.86/min [1170000], rate=38090.07/min [1180000], rate=38311.69/min [1190000], rate=38532.11/min [1200000], rate=38772.21/min [1210000], rate=38885.91/min [1220000], rate=38832.89/min [1230000], rate=38883.03/min [1240000], rate=38830.90/min [1250000], rate=38920.60/min [1260000], rate=38989.17/min [1270000], rate=39157.25/min [1280000], rate=39283.89/min [1290000], rate=39449.54/min [1300000], rate=39513.68/min [1310000], rate=39616.94/min [1320000], rate=39719.16/min [1330000], rate=39880.06/min [1340000], rate=40019.91/min [1350000], rate=40079.17/min [1360000], rate=40098.28/min [1370000], rate=40234.95/min [1380000], rate=40489.00/min [1390000], rate=40702.78/min [1400000], rate=40915.73/min [1410000], rate=41107.87/min [1420000], rate=41259.08/min [1430000], rate=41389.29/min [1440000], rate=41558.44/min [1450000], rate=41666.67/min [1460000], rate=41773.96/min [1470000], rate=42000.00/min [1480000], rate=42105.26/min [1490000], rate=42130.07/min [1500000], rate=42273.37/min [1510000], rate=42475.39/min [1520000], rate=42736.64/min [1530000], rate=42977.53/min [1540000], rate=43258.43/min [1550000], rate=43518.95/min [1560000], rate=43779.23/min [1570000], rate=44018.69/min [1580000], rate=44278.37/min [1590000], rate=44434.09/min [1600000], rate=44526.90/min [1610000], rate=44618.94/min [1620000], rate=44628.10/min [1630000], rate=44698.35/min [1640000], rate=44849.59/min [1650000], rate=45000.00/min [1660000], rate=45108.70/min [1670000], rate=45175.83/min [1680000], rate=45283.02/min [1690000], rate=45348.84/min [1700000], rate=45474.81/min [1710000], rate=45519.08/min [1720000], rate=45744.68/min [1730000], rate=45908.89/min [1740000], rate=46072.37/min [1750000], rate=46214.79/min [1760000], rate=46275.20/min [1770000], rate=46254.36/min [1780000], rate=46394.44/min [1790000], rate=46353.04/min [1800000], rate=46411.69/min [1810000], rate=46589.45/min [1820000], rate=46706.59/min [1830000], rate=46803.07/min [1840000], rate=46898.90/min [1850000], rate=47093.76/min [1860000], rate=47288.14/min [1870000], rate=47482.01/min [1880000], rate=47715.74/min [1890000], rate=47949.26/min [1900000], rate=48182.59/min [1910000], rate=48395.27/min [1920000], rate=48628.11/min [1930000], rate=48757.89/min [1940000], rate=48825.50/min [1950000], rate=48851.77/min [1960000], rate=48695.65/min [1970000], rate=48742.27/min [1980000], rate=48888.89/min [1990000], rate=48974.57/min [2000000], rate=48859.93/min [2010000], rate=48668.28/min [2020000], rate=48616.13/min [2030000], rate=48314.16/min [2040000], rate=48436.88/min [2050000], rate=48520.71/min [2060000], rate=48680.58/min [2070000], rate=48763.25/min [2080000], rate=48883.67/min [2090000], rate=49003.52/min [2100000], rate=49180.33/min [2110000], rate=49375.98/min [2120000], rate=49571.32/min [2130000], rate=49785.74/min [2140000], rate=50019.48/min [2150000], rate=50214.09/min [2160000], rate=50428.02/min [2170000], rate=50641.77/min [2180000], rate=50835.60/min [2190000], rate=50910.50/min [2200000], rate=51024.35/min [2210000], rate=51098.27/min [2220000], rate=51034.48/min [2230000], rate=50990.85/min [2240000], rate=50928.38/min [2250000], rate=51001.13/min [2260000], rate=50977.44/min [2270000], rate=50973.05/min -building interval tree based on /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.12 min). -mapping reads to genes [10000], rate=30000.00/min [20000], rate=36363.64/min [30000], rate=39130.43/min [40000], rate=41379.31/min [50000], rate=43478.26/min [60000], rate=45000.00/min [70000], rate=46666.67/min [80000], rate=40677.97/min [90000], rate=36986.30/min [100000], rate=33519.55/min [110000], rate=31730.77/min [120000], rate=31858.41/min [130000], rate=30952.38/min [140000], rate=29787.23/min [150000], rate=29605.26/min [160000], rate=29003.02/min [170000], rate=28977.27/min [180000], rate=29589.04/min [190000], rate=30238.73/min [200000], rate=30769.23/min [210000], rate=31265.51/min [220000], rate=31654.68/min [230000], rate=31944.44/min [240000], rate=32727.27/min [250000], rate=32258.06/min [260000], rate=32432.43/min [270000], rate=32993.89/min [280000], rate=33532.93/min [290000], rate=34319.53/min [300000], rate=35019.46/min [310000], rate=35769.23/min [320000], rate=36571.43/min [330000], rate=37429.11/min [340000], rate=38273.92/min [350000], rate=38961.04/min [360000], rate=39779.01/min [370000], rate=40510.95/min [380000], rate=41304.35/min [390000], rate=42086.33/min [400000], rate=43087.97/min [410000], rate=44007.16/min [420000], rate=44680.85/min [430000], rate=45422.54/min [440000], rate=46073.30/min [450000], rate=46875.00/min [460000], rate=47422.68/min [470000], rate=47315.44/min [480000], rate=46982.06/min [490000], rate=46518.99/min [500000], rate=46296.30/min [510000], rate=46293.49/min [520000], rate=46222.22/min [530000], rate=46559.30/min [540000], rate=46022.73/min [550000], rate=45454.55/min [560000], rate=45344.13/min [570000], rate=45600.00/min [580000], rate=45669.29/min [590000], rate=45974.03/min [600000], rate=46332.05/min [610000], rate=46683.67/min [620000], rate=47088.61/min [630000], rate=47132.17/min [640000], rate=47001.22/min [650000], rate=46706.59/min [660000], rate=46643.11/min [670000], rate=46366.78/min [680000], rate=46206.12/min [690000], rate=46153.85/min [700000], rate=46002.19/min [710000], rate=46004.32/min [720000], rate=46055.44/min [730000], rate=46153.85/min [740000], rate=46298.23/min [750000], rate=46439.63/min [760000], rate=46530.61/min [770000], rate=46713.85/min [780000], rate=46940.82/min [790000], rate=46884.27/min [800000], rate=47105.00/min [810000], rate=47368.42/min [820000], rate=47490.35/min [830000], rate=47564.47/min [840000], rate=48045.76/min [850000], rate=48022.60/min [860000], rate=47339.45/min [870000], rate=46816.14/min [880000], rate=46356.45/min [890000], rate=46113.99/min [900000], rate=45918.37/min [910000], rate=45766.97/min [920000], rate=45847.18/min [930000], rate=45812.81/min [940000], rate=45853.66/min [950000], rate=46004.84/min [960000], rate=46080.00/min [970000], rate=46007.91/min [980000], rate=46009.39/min [990000], rate=45904.17/min [1000000], rate=45871.56/min [1010000], rate=45735.85/min [1020000], rate=45434.30/min [1030000], rate=45142.44/min [1040000], rate=44956.77/min [1050000], rate=44839.86/min [1060000], rate=44915.25/min [1070000], rate=44832.40/min [1080000], rate=44875.35/min [1090000], rate=44763.86/min [1100000], rate=44867.44/min [1110000], rate=44908.97/min [1120000], rate=44979.92/min [1130000], rate=44990.05/min [1140000], rate=45088.99/min [1150000], rate=45394.74/min [1160000], rate=45729.30/min [1170000], rate=45942.41/min [1180000], rate=46063.76/min [1190000], rate=46153.85/min [1200000], rate=46361.88/min [1210000], rate=46538.46/min [1220000], rate=46683.67/min [1230000], rate=46886.91/min [1240000], rate=46792.45/min [1250000], rate=46526.05/min [1260000], rate=46295.16/min [1270000], rate=45958.99/min [1280000], rate=45933.01/min [1290000], rate=45934.72/min [1300000], rate=45909.36/min [1310000], rate=45857.64/min [1320000], rate=45859.87/min [1330000], rate=45914.84/min [1340000], rate=46153.85/min [1350000], rate=46153.85/min [1360000], rate=46101.69/min [1370000], rate=46050.42/min [1380000], rate=45670.16/min [1390000], rate=45449.59/min [1400000], rate=45503.79/min [1410000], rate=45508.34/min [1420000], rate=45440.00/min [1430000], rate=45300.95/min [1440000], rate=45378.15/min [1450000], rate=45454.55/min [1460000], rate=45435.68/min [1470000], rate=45510.84/min [1480000], rate=45608.63/min [1490000], rate=45705.52/min [1500000], rate=45824.85/min [1510000], rate=45966.51/min [1520000], rate=46083.88/min [1530000], rate=46177.06/min [1540000], rate=46246.25/min [1550000], rate=46360.92/min [1560000], rate=46336.63/min [1570000], rate=46221.79/min [1580000], rate=46108.95/min [1590000], rate=46086.96/min [1600000], rate=46065.26/min [1610000], rate=45956.23/min [1620000], rate=45935.73/min [1630000], rate=45937.06/min [1640000], rate=46002.81/min [1650000], rate=46089.39/min [1660000], rate=46111.11/min [1670000], rate=46239.04/min [1680000], rate=46302.25/min [1690000], rate=46449.84/min [1700000], rate=46554.08/min [1710000], rate=46721.31/min [1720000], rate=46909.09/min [1730000], rate=47053.49/min [1740000], rate=46984.70/min [1750000], rate=46958.86/min [1760000], rate=46995.99/min [1770000], rate=46970.37/min [1780000], rate=46842.11/min [1790000], rate=46879.09/min [1800000], rate=46956.52/min [1810000], rate=46931.72/min [1820000], rate=46806.69/min [1830000], rate=46703.53/min [1840000], rate=46720.27/min [1850000], rate=46756.53/min [1860000], rate=46753.25/min [1870000], rate=46808.51/min [1880000], rate=46882.79/min [1890000], rate=46878.88/min [1900000], rate=46971.57/min [1910000], rate=47141.09/min [1920000], rate=47387.91/min [1930000], rate=47615.13/min [1940000], rate=47822.51/min [1950000], rate=48029.56/min [1960000], rate=48236.26/min [1970000], rate=48363.34/min [1980000], rate=48489.80/min [1990000], rate=48595.85/min [2000000], rate=48721.07/min [2010000], rate=48845.69/min [2020000], rate=48772.64/min [2030000], rate=48720.00/min [2040000], rate=48745.52/min [2050000], rate=48828.90/min [2060000], rate=48989.30/min [2070000], rate=49052.13/min [2080000], rate=49056.60/min [2090000], rate=49099.45/min [2100000], rate=49161.14/min [2110000], rate=49184.15/min [2120000], rate=49245.06/min [2130000], rate=49191.69/min [2140000], rate=49252.01/min [2150000], rate=49368.54/min [2160000], rate=49352.63/min [2170000], rate=49449.30/min [2180000], rate=49583.02/min [2190000], rate=49753.88/min [2200000], rate=49924.36/min [2210000], rate=50037.74/min [2220000], rate=50112.87/min [2230000], rate=50225.23/min [2240000], rate=50355.94/min [2250000], rate=50429.59/min -building interval tree based on /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.15 min). -mapping reads to genes [10000], rate=75000.00/min [20000], rate=80000.00/min [30000], rate=78260.87/min [40000], rate=85714.29/min [50000], rate=93750.00/min [60000], rate=94736.84/min [70000], rate=97674.42/min [80000], rate=96000.00/min [90000], rate=96428.57/min [100000], rate=89552.24/min [110000], rate=77647.06/min [120000], rate=78260.87/min [130000], rate=82978.72/min [140000], rate=84848.48/min [150000], rate=86538.46/min [160000], rate=84210.53/min [170000], rate=87179.49/min [180000], rate=90756.30/min [190000], rate=94214.88/min [200000], rate=98360.66/min [210000], rate=103278.69/min [220000], rate=108196.72/min [230000], rate=112195.12/min [240000], rate=115200.00/min [250000], rate=114503.82/min [260000], rate=113043.48/min [270000], rate=112500.00/min [280000], rate=100598.80/min [290000], rate=100578.03/min [300000], rate=95744.68/min [310000], rate=87735.85/min [320000], rate=85714.29/min [330000], rate=84978.54/min [340000], rate=79377.43/min [350000], rate=75268.82/min [360000], rate=76056.34/min [370000], rate=77351.92/min [380000], rate=78082.19/min [390000], rate=78787.88/min [400000], rate=79207.92/min [410000], rate=80392.16/min [420000], rate=82084.69/min [430000], rate=83766.23/min [440000], rate=85436.89/min [450000], rate=87378.64/min [460000], rate=89032.26/min [470000], rate=90675.24/min [480000], rate=92307.69/min [490000], rate=92744.48/min [500000], rate=93167.70/min [510000], rate=93009.12/min [520000], rate=92581.60/min [530000], rate=92711.37/min [540000], rate=93641.62/min [550000], rate=94285.71/min [560000], rate=92307.69/min [570000], rate=89528.80/min [580000], rate=90389.61/min [590000], rate=90769.23/min [600000], rate=90452.26/min [610000], rate=90818.86/min [620000], rate=91625.62/min [630000], rate=92420.54/min [640000], rate=92530.12/min [650000], rate=93301.44/min [660000], rate=93176.47/min [670000], rate=93925.23/min [680000], rate=94663.57/min [690000], rate=94736.84/min [700000], rate=95022.62/min [710000], rate=94247.79/min [720000], rate=93709.33/min [730000], rate=93390.19/min [740000], rate=93868.92/min [750000], rate=93555.09/min [760000], rate=93827.16/min [770000], rate=93711.97/min [780000], rate=94354.84/min [790000], rate=94610.78/min [800000], rate=94488.19/min [810000], rate=94736.84/min [820000], rate=95348.84/min [830000], rate=95402.30/min [840000], rate=95817.49/min [850000], rate=95684.80/min [860000], rate=96448.60/min [870000], rate=97206.70/min [880000], rate=96526.51/min [890000], rate=88851.91/min [900000], rate=83462.13/min [910000], rate=79015.92/min [920000], rate=75102.04/min [930000], rate=71446.86/min [940000], rate=68033.78/min [950000], rate=65668.20/min [960000], rate=63506.06/min [970000], rate=61198.74/min [980000], rate=59453.99/min [990000], rate=57502.42/min [1000000], rate=55865.92/min [1010000], rate=54349.78/min [1020000], rate=53171.16/min [1030000], rate=52195.95/min [1040000], rate=51358.02/min [1050000], rate=50724.64/min [1060000], rate=50316.46/min [1070000], rate=49922.24/min [1080000], rate=49541.28/min [1090000], rate=49209.93/min [1100000], rate=48997.77/min [1110000], rate=48791.21/min [1120000], rate=48695.65/min [1130000], rate=48256.23/min [1140000], rate=47899.16/min [1150000], rate=47553.41/min [1160000], rate=47540.98/min [1170000], rate=47496.62/min [1180000], rate=47548.69/min [1190000], rate=47504.99/min [1200000], rate=47430.83/min [1210000], rate=47265.62/min [1220000], rate=47317.39/min [1230000], rate=47247.12/min [1240000], rate=47298.16/min [1250000], rate=47258.98/min [1260000], rate=47191.01/min [1270000], rate=46950.09/min [1280000], rate=46743.76/min [1290000], rate=46598.43/min [1300000], rate=46622.83/min [1310000], rate=46646.88/min [1320000], rate=46560.85/min [1330000], rate=46260.87/min [1340000], rate=46153.85/min [1350000], rate=46206.50/min [1360000], rate=46179.97/min [1370000], rate=46102.08/min [1380000], rate=45948.95/min [1390000], rate=45899.83/min [1400000], rate=45901.64/min [1410000], rate=45953.29/min [1420000], rate=45634.71/min [1430000], rate=45493.11/min [1440000], rate=45283.02/min [1450000], rate=45147.90/min [1460000], rate=44969.20/min [1470000], rate=44703.50/min [1480000], rate=44600.70/min [1490000], rate=44477.61/min [1500000], rate=44422.51/min [1510000], rate=44455.35/min [1520000], rate=44379.56/min [1530000], rate=44455.21/min [1540000], rate=44530.12/min [1550000], rate=44647.14/min [1560000], rate=44741.87/min [1570000], rate=44835.79/min [1580000], rate=44950.21/min [1590000], rate=45042.49/min [1600000], rate=44880.79/min [1610000], rate=44784.42/min [1620000], rate=44792.63/min [1630000], rate=44780.22/min [1640000], rate=44829.16/min [1650000], rate=44776.12/min [1660000], rate=44764.04/min [1670000], rate=44712.18/min [1680000], rate=44720.50/min [1690000], rate=44728.72/min [1700000], rate=44776.12/min [1710000], rate=44862.26/min [1720000], rate=44967.32/min [1730000], rate=45052.08/min [1740000], rate=45194.81/min [1750000], rate=45258.62/min [1760000], rate=45380.32/min [1770000], rate=45520.79/min [1780000], rate=45660.54/min [1790000], rate=45316.46/min [1800000], rate=45169.39/min [1810000], rate=44894.58/min [1820000], rate=44498.78/min [1830000], rate=44185.11/min [1840000], rate=43914.08/min [1850000], rate=43752.46/min [1860000], rate=43696.16/min [1870000], rate=43657.59/min [1880000], rate=43535.31/min [1890000], rate=43481.60/min [1900000], rate=43379.00/min [1910000], rate=43294.30/min [1920000], rate=43065.42/min [1930000], rate=42936.60/min [1940000], rate=42872.93/min [1950000], rate=42794.44/min [1960000], rate=42810.34/min [1970000], rate=42841.61/min [1980000], rate=42810.81/min [1990000], rate=42795.70/min [2000000], rate=42826.55/min [2010000], rate=42750.80/min [2020000], rate=42601.05/min [2030000], rate=42483.43/min [2040000], rate=42119.75/min [2050000], rate=41638.46/min [2060000], rate=41518.31/min [2070000], rate=41344.87/min [2080000], rate=41160.95/min [2090000], rate=40926.89/min [2100000], rate=40869.28/min [2110000], rate=40642.05/min [2120000], rate=40316.96/min [2130000], rate=40302.74/min [2140000], rate=40000.00/min [2150000], rate=39864.03/min [2160000], rate=39779.01/min [2170000], rate=39707.23/min [2180000], rate=39564.43/min [2190000], rate=39530.69/min [2200000], rate=39473.68/min [2210000], rate=39452.54/min [2220000], rate=39478.36/min [2230000], rate=39422.51/min [2240000], rate=39344.26/min [2250000], rate=39221.38/min [2260000], rate=39190.75/min -building interval tree based on /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.07 min). -mapping reads to genes [10000], rate=20000.00/min [20000], rate=17647.06/min [30000], rate=21686.75/min [40000], rate=22222.22/min [50000], rate=23076.92/min [60000], rate=23841.06/min [70000], rate=25609.76/min [80000], rate=26373.63/min [90000], rate=25714.29/min [100000], rate=26666.67/min [110000], rate=27731.09/min [120000], rate=28015.56/min [130000], rate=28057.55/min [140000], rate=28093.65/min [150000], rate=28391.17/min [160000], rate=27428.57/min [170000], rate=27717.39/min [180000], rate=27763.50/min [190000], rate=28148.15/min [200000], rate=28436.02/min [210000], rate=29099.31/min [220000], rate=29398.66/min [230000], rate=29175.48/min [240000], rate=29508.20/min [250000], rate=29940.12/min [260000], rate=30174.08/min [270000], rate=30508.47/min [280000], rate=30545.45/min [290000], rate=30260.87/min [300000], rate=30405.41/min [310000], rate=30441.90/min [320000], rate=30720.00/min [330000], rate=30229.01/min [340000], rate=30132.94/min [350000], rate=30172.41/min [360000], rate=30465.44/min [370000], rate=30747.92/min [380000], rate=30769.23/min [390000], rate=30870.71/min [400000], rate=31088.08/min [410000], rate=31178.71/min [420000], rate=31304.35/min [430000], rate=31386.86/min [440000], rate=31503.58/min [450000], rate=31802.12/min [460000], rate=31870.67/min [470000], rate=31792.56/min [480000], rate=31788.08/min [490000], rate=32061.07/min [500000], rate=32292.79/min [510000], rate=32380.95/min [520000], rate=32398.75/min [530000], rate=32448.98/min [540000], rate=32270.92/min [550000], rate=32038.83/min [560000], rate=31848.34/min [570000], rate=31784.39/min [580000], rate=31578.95/min [590000], rate=31663.69/min [600000], rate=31830.24/min [610000], rate=31937.17/min [620000], rate=31958.76/min [630000], rate=32006.77/min [640000], rate=32214.77/min [650000], rate=32365.15/min [660000], rate=32405.89/min [670000], rate=32367.15/min [680000], rate=32458.23/min [690000], rate=32496.08/min [700000], rate=32608.70/min [710000], rate=32519.08/min [720000], rate=32628.40/min [730000], rate=32516.70/min [740000], rate=32080.92/min [750000], rate=31869.69/min [760000], rate=31888.11/min [770000], rate=31687.24/min [780000], rate=31621.62/min [790000], rate=31621.08/min [800000], rate=31620.55/min [810000], rate=31764.71/min [820000], rate=31803.49/min [830000], rate=31821.09/min [840000], rate=31838.28/min [850000], rate=31894.93/min [860000], rate=31950.46/min [870000], rate=31985.29/min [880000], rate=32058.29/min [890000], rate=32052.82/min [900000], rate=32066.51/min [910000], rate=32079.91/min [920000], rate=32130.38/min [930000], rate=32179.93/min [940000], rate=32173.42/min [950000], rate=32239.82/min [960000], rate=32414.18/min [970000], rate=32586.79/min [980000], rate=32721.20/min [990000], rate=32890.37/min [1000000], rate=33039.65/min [1010000], rate=33223.68/min [1020000], rate=33387.89/min [1030000], rate=33568.71/min [1040000], rate=33548.39/min [1050000], rate=33350.98/min [1060000], rate=33142.26/min [1070000], rate=32973.81/min [1080000], rate=32876.71/min [1090000], rate=32749.12/min [1100000], rate=32738.10/min [1110000], rate=32711.20/min [1120000], rate=32668.94/min [1130000], rate=32722.01/min [1140000], rate=32758.62/min [1150000], rate=32732.45/min [1160000], rate=32752.94/min [1170000], rate=32757.82/min [1180000], rate=32717.19/min [1190000], rate=32662.40/min [1200000], rate=32520.33/min [1210000], rate=32425.19/min [1220000], rate=32332.16/min [1230000], rate=32269.35/min [1240000], rate=32404.18/min [1250000], rate=32495.67/min [1260000], rate=32446.35/min [1270000], rate=32397.96/min [1280000], rate=32405.06/min [1290000], rate=32439.23/min [1300000], rate=32445.92/min [1310000], rate=32452.52/min [1320000], rate=32552.40/min [1330000], rate=32651.39/min [1340000], rate=32776.19/min [1350000], rate=32900.08/min [1360000], rate=32916.50/min [1370000], rate=32932.69/min [1380000], rate=32935.56/min [1390000], rate=32925.38/min [1400000], rate=32967.03/min [1410000], rate=33046.88/min [1420000], rate=33138.86/min [1430000], rate=33076.33/min [1440000], rate=33154.26/min [1450000], rate=33269.60/min [1460000], rate=33409.61/min [1470000], rate=33548.88/min [1480000], rate=33585.48/min [1490000], rate=33621.66/min [1500000], rate=33733.13/min [1510000], rate=33755.59/min [1520000], rate=33840.45/min [1530000], rate=33887.04/min [1540000], rate=33883.39/min [1550000], rate=33818.18/min [1560000], rate=33863.97/min [1570000], rate=33982.68/min [1580000], rate=34015.07/min [1590000], rate=34034.96/min [1600000], rate=34139.40/min [1610000], rate=34243.18/min [1620000], rate=34273.62/min [1630000], rate=34315.79/min [1640000], rate=34345.55/min [1650000], rate=34446.76/min [1660000], rate=34583.33/min [1670000], rate=34539.81/min [1680000], rate=34485.12/min [1690000], rate=34419.55/min [1700000], rate=34343.43/min [1710000], rate=34188.60/min [1720000], rate=34319.92/min [1730000], rate=34291.38/min [1740000], rate=34274.46/min [1750000], rate=34347.40/min [1760000], rate=34408.60/min [1770000], rate=34491.72/min [1780000], rate=34540.75/min [1790000], rate=34622.82/min [1800000], rate=34760.22/min [1810000], rate=34874.76/min [1820000], rate=34899.33/min [1830000], rate=34801.90/min [1840000], rate=34489.22/min [1850000], rate=34450.65/min [1860000], rate=34583.20/min [1870000], rate=34715.35/min [1880000], rate=34857.85/min [1890000], rate=34806.63/min [1900000], rate=34629.40/min [1910000], rate=34497.29/min [1920000], rate=34480.69/min [1930000], rate=34382.42/min [1940000], rate=34376.85/min [1950000], rate=34442.15/min [1960000], rate=34426.23/min [1970000], rate=34460.64/min [1980000], rate=34534.88/min [1990000], rate=34608.70/min [2000000], rate=34702.14/min [2010000], rate=34715.03/min [2020000], rate=34688.04/min [2030000], rate=34700.85/min [2040000], rate=34782.61/min [2050000], rate=34834.32/min [2060000], rate=34885.69/min [2070000], rate=34946.54/min [2080000], rate=35016.84/min [2090000], rate=35067.11/min [2100000], rate=35156.25/min [2110000], rate=35254.80/min [2120000], rate=35313.71/min [2130000], rate=35431.11/min [2140000], rate=35518.67/min [2150000], rate=35605.85/min [2160000], rate=35682.82/min [2170000], rate=35779.06/min [2180000], rate=35659.76/min [2190000], rate=35561.57/min [2200000], rate=35464.80/min [2210000], rate=35483.01/min [2220000], rate=35501.07/min [2230000], rate=35528.41/min [2240000], rate=35489.83/min [2250000], rate=35433.07/min [2260000], rate=35358.54/min [2270000], rate=35367.44/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads -J /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir --filt_file /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail -M 50 > /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -parsing /tmp/nxf.RDXZWdDFOB/./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... 8000000.00 reads per min processed... 10000000.00 reads per min processed... 9000000.00 reads per min processed... 8400000.00 reads per min processed... 8000000.00 reads per min processed... 7714285.71 reads per min processed... 6666666.67 reads per min processed... 5500000.00 reads per min processed... 5538461.54 reads per min processed... 5200000.00 reads per min processed... 4941176.47 reads per min processed... 4736842.11 reads per min processed... 4571428.57 reads per min processed... 4080000.00 reads per min processed... 3857142.86 reads per min processed... 3677419.35 reads per min processed... 3529411.76 reads per min processed... 3405405.41 reads per min processed... 3300000.00 reads per min processed... 3136363.64 reads per min processed... 3063829.79 reads per min processed... 3061224.49 reads per min processed... 3000000.00 reads per min processed... 2945454.55 reads per min processed... 3000000.00 reads per min processed... 2949152.54 reads per min processed... 3000000.00 reads per min processed... 2952380.95 reads per min processed... 2953846.15 reads per min processed... 2955223.88 reads per min processed... 2956521.74 reads per min processed... 2957746.48 reads per min processed... 2958904.11 reads per min processed... 2960000.00 reads per min processed... 2923076.92 reads per min processed... 2925000.00 reads per min processed... 2962962.96 reads per min processed... 2963855.42 reads per min processed... 2964705.88 reads per min processed... 2965517.24 reads per min processed... 2966292.13 reads per min processed... 2967032.97 reads per min processed... 2967741.94 reads per min processed... 2937500.00 reads per min processed... 2938775.51 reads per min processed... 2969696.97 reads per min processed... 2970297.03 reads per min processed... 2970873.79 reads per min processed... 3000000.00 reads per min processed... 3028571.43 reads per min processed... 3056603.77 reads per min processed... 3113207.55 reads per min processed... 3140186.92 reads per min processed... 3196261.68 reads per min processed... 3222222.22 reads per min processed... 3277777.78 reads per min processed... 3302752.29 reads per min processed... 3297297.30 reads per min processed... 3321428.57 reads per min processed... 3345132.74 reads per min processed... 3339130.43 reads per min processed... 3362068.97 reads per min processed... 3384615.38 reads per min processed... 3406779.66 reads per min processed... 3400000.00 reads per min processed... 3365853.66 reads per min processed... 3360000.00 reads per min processed... 3380952.38 reads per min processed... 3375000.00 reads per min processed... 3369230.77 reads per min processed... 3363636.36 reads per min processed... 3383458.65 reads per min processed... 3352941.18 reads per min processed... 3347826.09 reads per min processed... 3342857.14 reads per min processed... 3338028.17 reads per min processed... 3356643.36 reads per min processed... done. * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict -J /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -O /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion -parsing fusion evidence: /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -outputting fusion candidates to file: /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter --fusion_preds /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary -J /tmp/nxf.RDXZWdDFOB/ColoN_FFPE_L06_RNA_01_B23LG7FLT4_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.RDXZWdDFOB/ctat_genome_lib_build_dir --out_prefix /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion CMD: mkdir -p /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir EM: Starting log likelihood: -119379.617768 EM: Round [1] log likelihood: -119090.142061 EM: Round [2] log likelihood: -118979.179547 EM: Round [3] log likelihood: -118924.637266 EM: Round [4] log likelihood: -118894.785301 EM: Round [5] log likelihood: -118877.600704 EM: Round [6] log likelihood: -118867.329798 EM: Round [7] log likelihood: -118860.947462 EM: Round [8] log likelihood: -118856.814667 EM: Round [9] log likelihood: -118854.027455 EM: Round [10] log likelihood: -118852.075868 EM: Round [11] log likelihood: -118850.663658 EM: Round [12] log likelihood: -118849.612788 EM: Round [13] log likelihood: -118848.812350 EM: Round [14] log likelihood: -118848.190742 EM: Round [15] log likelihood: -118847.700150 EM: Round [16] log likelihood: -118847.307650 EM: Round [17] log likelihood: -118846.989946 EM: Round [18] log likelihood: -118846.730164 EM: Round [19] log likelihood: -118846.515831 EM: Round [20] log likelihood: -118846.337568 EM: Round [21] log likelihood: -118846.188221 EM: Round [22] log likelihood: -118846.062258 EM: Round [23] log likelihood: -118845.955358 EM: Round [24] log likelihood: -118845.864110 EM: Round [25] log likelihood: -118845.785800 EM: Round [26] log likelihood: -118845.718251 EM: Round [27] log likelihood: -118845.659702 EM: Round [28] log likelihood: -118845.608723 EM: Round [29] log likelihood: -118845.564142 EM: Round [30] log likelihood: -118845.524995 EM: Round [31] log likelihood: -118845.490485 EM: Round [32] log likelihood: -118845.459948 EM: Round [33] log likelihood: -118845.432831 EM: Round [34] log likelihood: -118845.408668 EM: Round [35] log likelihood: -118845.387067 EM: Round [36] log likelihood: -118845.367696 EM: Round [37] log likelihood: -118845.350274 EM: Round [38] log likelihood: -118845.334560 EM: Round [39] log likelihood: -118845.320347 EM: Round [40] log likelihood: -118845.307459 EM: Round [41] log likelihood: -118845.295742 EM: Round [42] log likelihood: -118845.285066 EM: Round [43] log likelihood: -118845.275315 EM: Round [44] log likelihood: -118845.266390 EM: Round [45] log likelihood: -118845.258203 EM: Round [46] log likelihood: -118845.250678 EM: Round [47] log likelihood: -118845.243749 EM: Round [48] log likelihood: -118845.237355 EM: Round [49] log likelihood: -118845.231446 EM: Round [50] log likelihood: -118845.225975 EM: Round [51] log likelihood: -118845.220901 EM: Round [52] log likelihood: -118845.216188 EM: Round [53] log likelihood: -118845.211804 EM: Round [54] log likelihood: -118845.207719 EM: Round [55] log likelihood: -118845.203907 EM: Round [56] log likelihood: -118845.200347 EM: Round [57] log likelihood: -118845.197016 EM: Round [58] log likelihood: -118845.193895 EM: Round [59] log likelihood: -118845.190969 EM: Round [60] log likelihood: -118845.188221 EM: Round [61] log likelihood: -118845.185638 EM: Round [62] log likelihood: -118845.183208 EM: Round [63] log likelihood: -118845.180918 EM: Round [64] log likelihood: -118845.178758 EM: Round [65] log likelihood: -118845.176719 EM: Round [66] log likelihood: -118845.174793 EM: Round [67] log likelihood: -118845.172971 EM: Round [68] log likelihood: -118845.171246 EM: Round [69] log likelihood: -118845.169612 EM: Round [70] log likelihood: -118845.168063 EM: Round [71] log likelihood: -118845.166592 EM: Round [72] log likelihood: -118845.165196 EM: Round [73] log likelihood: -118845.163868 EM: Round [74] log likelihood: -118845.162606 EM: Round [75] log likelihood: -118845.161404 EM: Round [76] log likelihood: -118845.160259 EM: Round [77] log likelihood: -118845.159167 EM: Round [78] log likelihood: -118845.158126 EM: Round [79] log likelihood: -118845.157133 EM: Round [80] log likelihood: -118845.156184 EM: Round [81] log likelihood: -118845.155277 EM: Round [82] log likelihood: -118845.154410 EM: Round [83] log likelihood: -118845.153581 EM: Round [84] log likelihood: -118845.152787 EM: Round [85] log likelihood: -118845.152027 EM: Round [86] log likelihood: -118845.151299 EM: Round [87] log likelihood: -118845.150600 EM: Round [88] log likelihood: -118845.149931 EM: Round [89] log likelihood: -118845.149288 EM: Round [90] log likelihood: -118845.148671 EM: Round [91] log likelihood: -118845.148079 EM: Round [92] log likelihood: -118845.147509 EM: Round [93] log likelihood: -118845.146962 EM: Round [94] log likelihood: -118845.146436 EM: Round [95] log likelihood: -118845.145930 EM: Round [96] log likelihood: -118845.145443 EM: Round [97] log likelihood: -118845.144974 EM: Round [98] log likelihood: -118845.144522 EM: Round [99] log likelihood: -118845.144087 EM: Round [100] log likelihood: -118845.143667 EM: Round [101] log likelihood: -118845.143263 EM: Round [102] log likelihood: -118845.142873 EM: Round [103] log likelihood: -118845.142496 EM: Round [104] log likelihood: -118845.142133 EM: Round [105] log likelihood: -118845.141783 EM: Round [106] log likelihood: -118845.141444 EM: Round [107] log likelihood: -118845.141117 EM: Round [108] log likelihood: -118845.140801 EM: Round [109] log likelihood: -118845.140496 EM: Round [110] log likelihood: -118845.140201 EM: Round [111] log likelihood: -118845.139916 EM: Round [112] log likelihood: -118845.139640 EM: Round [113] log likelihood: -118845.139373 EM: Round [114] log likelihood: -118845.139114 EM: Round [115] log likelihood: -118845.138864 EM: Round [116] log likelihood: -118845.138622 EM: Round [117] log likelihood: -118845.138387 EM: Round [118] log likelihood: -118845.138160 EM: Round [119] log likelihood: -118845.137940 EM: Round [120] log likelihood: -118845.137727 EM: Round [121] log likelihood: -118845.137520 EM: Round [122] log likelihood: -118845.137320 EM: Round [123] log likelihood: -118845.137125 EM: Round [124] log likelihood: -118845.136937 EM: Round [125] log likelihood: -118845.136754 EM: Round [126] log likelihood: -118845.136576 EM: Round [127] log likelihood: -118845.136404 EM: Round [128] log likelihood: -118845.136237 EM: Round [129] log likelihood: -118845.136075 EM: Round [130] log likelihood: -118845.135917 EM: Round [131] log likelihood: -118845.135764 EM: Round [132] log likelihood: -118845.135615 EM: Round [133] log likelihood: -118845.135471 EM: Round [134] log likelihood: -118845.135331 EM: Round [135] log likelihood: -118845.135194 EM: Round [136] log likelihood: -118845.135062 EM: Round [137] log likelihood: -118845.134933 EM: Round [138] log likelihood: -118845.134808 EM: Round [139] log likelihood: -118845.134686 EM: Round [140] log likelihood: -118845.134567 EM: Round [141] log likelihood: -118845.134452 EM: Round [142] log likelihood: -118845.134340 EM: Round [143] log likelihood: -118845.134230 EM: Round [144] log likelihood: -118845.134124 EM: Round [145] log likelihood: -118845.134021 EM: Round [146] log likelihood: -118845.133920 EM: Round [147] log likelihood: -118845.133822 EM: Stopping iterations at round 147 due to insufficient improvement in likelihood. EM: Starting log likelihood: -119204.966701 EM: Round [1] log likelihood: -118963.632546 EM: Round [2] log likelihood: -118874.637723 EM: Round [3] log likelihood: -118832.023686 EM: Round [4] log likelihood: -118809.223566 EM: Round [5] log likelihood: -118796.353801 EM: Round [6] log likelihood: -118788.789409 EM: Round [7] log likelihood: -118784.155873 EM: Round [8] log likelihood: -118781.192638 EM: Round [9] log likelihood: -118779.215806 EM: Round [10] log likelihood: -118777.844739 EM: Round [11] log likelihood: -118776.860845 EM: Round [12] log likelihood: -118776.134066 EM: Round [13] log likelihood: -118775.584097 EM: Round [14] log likelihood: -118775.159497 EM: Round [15] log likelihood: -118774.826153 EM: Round [16] log likelihood: -118774.560726 EM: Round [17] log likelihood: -118774.346797 EM: Round [18] log likelihood: -118774.172539 EM: Round [19] log likelihood: -118774.029255 EM: Round [20] log likelihood: -118773.910440 EM: Round [21] log likelihood: -118773.811157 EM: Round [22] log likelihood: -118773.727604 EM: Round [23] log likelihood: -118773.656828 EM: Round [24] log likelihood: -118773.596506 EM: Round [25] log likelihood: -118773.544799 EM: Round [26] log likelihood: -118773.500236 EM: Round [27] log likelihood: -118773.461632 EM: Round [28] log likelihood: -118773.428029 EM: Round [29] log likelihood: -118773.398643 EM: Round [30] log likelihood: -118773.372833 EM: Round [31] log likelihood: -118773.350070 EM: Round [32] log likelihood: -118773.329913 EM: Round [33] log likelihood: -118773.311996 EM: Round [34] log likelihood: -118773.296014 EM: Round [35] log likelihood: -118773.281708 EM: Round [36] log likelihood: -118773.268860 EM: Round [37] log likelihood: -118773.257287 EM: Round [38] log likelihood: -118773.246830 EM: Round [39] log likelihood: -118773.237355 EM: Round [40] log likelihood: -118773.228746 EM: Round [41] log likelihood: -118773.220905 EM: Round [42] log likelihood: -118773.213745 EM: Round [43] log likelihood: -118773.207193 EM: Round [44] log likelihood: -118773.201182 EM: Round [45] log likelihood: -118773.195657 EM: Round [46] log likelihood: -118773.190569 EM: Round [47] log likelihood: -118773.185873 EM: Round [48] log likelihood: -118773.181532 EM: Round [49] log likelihood: -118773.177511 EM: Round [50] log likelihood: -118773.173781 EM: Round [51] log likelihood: -118773.170316 EM: Round [52] log likelihood: -118773.167091 EM: Round [53] log likelihood: -118773.164086 EM: Round [54] log likelihood: -118773.161281 EM: Round [55] log likelihood: -118773.158660 EM: Round [56] log likelihood: -118773.156208 EM: Round [57] log likelihood: -118773.153910 EM: Round [58] log likelihood: -118773.151755 EM: Round [59] log likelihood: -118773.149732 EM: Round [60] log likelihood: -118773.147830 EM: Round [61] log likelihood: -118773.146040 EM: Round [62] log likelihood: -118773.144354 EM: Round [63] log likelihood: -118773.142764 EM: Round [64] log likelihood: -118773.141263 EM: Round [65] log likelihood: -118773.139846 EM: Round [66] log likelihood: -118773.138506 EM: Round [67] log likelihood: -118773.137237 EM: Round [68] log likelihood: -118773.136036 EM: Round [69] log likelihood: -118773.134898 EM: Round [70] log likelihood: -118773.133818 EM: Round [71] log likelihood: -118773.132793 EM: Round [72] log likelihood: -118773.131819 EM: Round [73] log likelihood: -118773.130893 EM: Round [74] log likelihood: -118773.130012 EM: Round [75] log likelihood: -118773.129173 EM: Round [76] log likelihood: -118773.128374 EM: Round [77] log likelihood: -118773.127613 EM: Round [78] log likelihood: -118773.126887 EM: Round [79] log likelihood: -118773.126194 EM: Round [80] log likelihood: -118773.125532 EM: Round [81] log likelihood: -118773.124899 EM: Round [82] log likelihood: -118773.124295 EM: Round [83] log likelihood: -118773.123716 EM: Round [84] log likelihood: -118773.123163 EM: Round [85] log likelihood: -118773.122633 EM: Round [86] log likelihood: -118773.122125 EM: Round [87] log likelihood: -118773.121638 EM: Round [88] log likelihood: -118773.121172 EM: Round [89] log likelihood: -118773.120724 EM: Round [90] log likelihood: -118773.120294 EM: Round [91] log likelihood: -118773.119881 EM: Round [92] log likelihood: -118773.119485 EM: Round [93] log likelihood: -118773.119103 EM: Round [94] log likelihood: -118773.118737 EM: Round [95] log likelihood: -118773.118384 EM: Round [96] log likelihood: -118773.118045 EM: Round [97] log likelihood: -118773.117718 EM: Round [98] log likelihood: -118773.117404 EM: Round [99] log likelihood: -118773.117100 EM: Round [100] log likelihood: -118773.116808 EM: Round [101] log likelihood: -118773.116526 EM: Round [102] log likelihood: -118773.116255 EM: Round [103] log likelihood: -118773.115992 EM: Round [104] log likelihood: -118773.115739 EM: Round [105] log likelihood: -118773.115495 EM: Round [106] log likelihood: -118773.115259 EM: Round [107] log likelihood: -118773.115030 EM: Round [108] log likelihood: -118773.114810 EM: Round [109] log likelihood: -118773.114597 EM: Round [110] log likelihood: -118773.114391 EM: Round [111] log likelihood: -118773.114191 EM: Round [112] log likelihood: -118773.113998 EM: Round [113] log likelihood: -118773.113811 EM: Round [114] log likelihood: -118773.113630 EM: Round [115] log likelihood: -118773.113455 EM: Round [116] log likelihood: -118773.113285 EM: Round [117] log likelihood: -118773.113121 EM: Round [118] log likelihood: -118773.112962 EM: Round [119] log likelihood: -118773.112807 EM: Round [120] log likelihood: -118773.112657 EM: Round [121] log likelihood: -118773.112512 EM: Round [122] log likelihood: -118773.112370 EM: Round [123] log likelihood: -118773.112233 EM: Round [124] log likelihood: -118773.112100 EM: Round [125] log likelihood: -118773.111971 EM: Round [126] log likelihood: -118773.111846 EM: Round [127] log likelihood: -118773.111724 EM: Round [128] log likelihood: -118773.111606 EM: Round [129] log likelihood: -118773.111491 EM: Round [130] log likelihood: -118773.111379 EM: Round [131] log likelihood: -118773.111270 EM: Round [132] log likelihood: -118773.111164 EM: Round [133] log likelihood: -118773.111061 EM: Round [134] log likelihood: -118773.110961 EM: Round [135] log likelihood: -118773.110864 EM: Stopping iterations at round 135 due to insufficient improvement in likelihood. CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20 --fusion_preds /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 20 CMD: cp /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged CMD: ln -sf /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 121082139 > /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir > /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo * Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir --annotate /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir -done, see /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.RDXZWdDFOB/ctat_genome_lib_build_dir -filter_likely_RT_artifacts: (pass: 480, filtered: 5293) * Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.RDXZWdDFOB/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001 * Running CMD: cp /tmp/nxf.RDXZWdDFOB/./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.RDXZWdDFOB/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv WARNING, no entry stored in dbm for [ENSG00000286907.1] WARNING, no entry stored in dbm for [IGH.g@-ext] WARNING, no entry stored in dbm for [ENSG00000249540.1] WARNING, no entry stored in dbm for [ENSG00000283426.1] WARNING, no entry stored in dbm for [ENSG00000277283.1] WARNING, no entry stored in dbm for [IGH.g@-ext] WARNING, no entry stored in dbm for [ENSG00000234715.2] WARNING, no entry stored in dbm for [ENSG00000175061.18] WARNING, no entry stored in dbm for [ENSG00000224660.2] WARNING, no entry stored in dbm for [IGH.g@-ext] WARNING, no entry stored in dbm for [ENSG00000223741.1] WARNING, no entry stored in dbm for [ENSG00000143429.10] WARNING, no entry stored in dbm for [ENSG00000272779.1] WARNING, no entry stored in dbm for [IGH.g@-ext] WARNING, no entry stored in dbm for [ENSG00000227486.2] WARNING, no entry stored in dbm for [ENSG00000234420.7] WARNING, no entry stored in dbm for [ENSG00000280138.1] WARNING, no entry stored in dbm for [ENSG00000205634.7] WARNING, no entry stored in dbm for [ENSG00000230937.12] WARNING, no entry stored in dbm for [ENSG00000214432.9] WARNING, no entry stored in dbm for [ENSG00000226049.3] WARNING, no entry stored in dbm for [ENSG00000260404.3] WARNING, no entry stored in dbm for [ENSG00000286596.1] WARNING, no entry stored in dbm for [ENSG00000240549.2] WARNING, no entry stored in dbm for [ENSG00000248508.8] WARNING, no entry stored in dbm for [ENSG00000264954.2] WARNING, no entry stored in dbm for [ENSG00000215790.8] WARNING, no entry stored in dbm for [ENSG00000228948.2] WARNING, no entry stored in dbm for [ENSG00000198054.12] WARNING, no entry stored in dbm for [ENSG00000228463.10] WARNING, no entry stored in dbm for [ENSG00000215837.7] WARNING, no entry stored in dbm for [ENSG00000280953.2] WARNING, no entry stored in dbm for [ENSG00000287949.1] WARNING, no entry stored in dbm for [ENSG00000227681.5] WARNING, no entry stored in dbm for [ENSG00000286383.1] WARNING, no entry stored in dbm for [ENSG00000248936.1] WARNING, no entry stored in dbm for [ENSG00000270830.1] WARNING, no entry stored in dbm for [ENSG00000287738.1] WARNING, no entry stored in dbm for [ENSG00000213935.3] WARNING, no entry stored in dbm for [ENSG00000213653.4] WARNING, no entry stored in dbm for [ENSG00000275803.1] WARNING, no entry stored in dbm for [ENSG00000240869.3] WARNING, no entry stored in dbm for [ENSG00000264618.2] WARNING, no entry stored in dbm for [ENSG00000239224.3] WARNING, no entry stored in dbm for [ENSG00000264618.2] WARNING, no entry stored in dbm for [ENSG00000240869.3] WARNING, no entry stored in dbm for [ENSG00000243426.3] WARNING, no entry stored in dbm for [ENSG00000244642.3] WARNING, no entry stored in dbm for [ENSG00000253602.2] WARNING, no entry stored in dbm for [ENSG00000240869.3] WARNING, no entry stored in dbm for [ENSG00000264916.2] WARNING, no entry stored in dbm for [ENSG00000266828.2] WARNING, no entry stored in dbm for [ENSG00000242559.3] WARNING, no entry stored in dbm for [ENSG00000240869.3] WARNING, no entry stored in dbm for [ENSG00000240869.3] WARNING, no entry stored in dbm for [ENSG00000266828.2] WARNING, no entry stored in dbm for [ENSG00000250903.9] WARNING, no entry stored in dbm for [ENSG00000227354.7] WARNING, no entry stored in dbm for [ENSG00000236741.4] WARNING, no entry stored in dbm for [ENSG00000224536.2] WARNING, no entry stored in dbm for [ENSG00000266278.1] WARNING, no entry stored in dbm for [ENSG00000249859.12] WARNING, no entry stored in dbm for [ENSG00000279179.1] WARNING, no entry stored in dbm for [ENSG00000236052.2] WARNING, no entry stored in dbm for [ENSG00000281128.2] WARNING, no entry stored in dbm for [ENSG00000232398.1] WARNING, no entry stored in dbm for [ENSG00000228546.2] WARNING, no entry stored in dbm for [ENSG00000250778.1] WARNING, no entry stored in dbm for [ENSG00000187953.10] WARNING, no entry stored in dbm for [ENSG00000237352.4] WARNING, no entry stored in dbm for [ENSG00000273125.2] WARNING, no entry stored in dbm for [ENSG00000286027.1] WARNING, no entry stored in dbm for [ENSG00000286765.1] WARNING, no entry stored in dbm for [ENSG00000248932.6] WARNING, no entry stored in dbm for [ENSG00000244479.7] WARNING, no entry stored in dbm for [ENSG00000204959.4] WARNING, no entry stored in dbm for [ENSG00000227627.3] WARNING, no entry stored in dbm for [ENSG00000239467.6] WARNING, no entry stored in dbm for [ENSG00000233189.1] WARNING, no entry stored in dbm for [ENSG00000234807.7] WARNING, no entry stored in dbm for [ENSG00000269680.1] WARNING, no entry stored in dbm for [ENSG00000259375.1] WARNING, no entry stored in dbm for [ENSG00000243066.3] WARNING, no entry stored in dbm for [ENSG00000244692.3] WARNING, no entry stored in dbm for [ENSG00000243426.3] WARNING, no entry stored in dbm for [ENSG00000234807.7] WARNING, no entry stored in dbm for [ENSG00000213362.3] WARNING, no entry stored in dbm for [ENSG00000250266.2] WARNING, no entry stored in dbm for [ENSG00000244128.7] WARNING, no entry stored in dbm for [ENSG00000236445.5] WARNING, no entry stored in dbm for [ENSG00000271646.1] WARNING, no entry stored in dbm for [ENSG00000260588.1] WARNING, no entry stored in dbm for [ENSG00000287929.1] WARNING, no entry stored in dbm for [ENSG00000271647.1] WARNING, no entry stored in dbm for [ENSG00000235974.1] WARNING, no entry stored in dbm for [ENSG00000225470.8] WARNING, no entry stored in dbm for [ENSG00000284699.1] WARNING, no entry stored in dbm for [ENSG00000189166.6] WARNING, no entry stored in dbm for [ENSG00000286047.1] WARNING, no entry stored in dbm for [ENSG00000254363.6] WARNING, no entry stored in dbm for [ENSG00000236373.2] WARNING, no entry stored in dbm for [ENSG00000270255.1] WARNING, no entry stored in dbm for [ENSG00000230937.12] WARNING, no entry stored in dbm for [ENSG00000206337.12] WARNING, no entry stored in dbm for [ENSG00000257771.6] WARNING, no entry stored in dbm for [ENSG00000259191.2] WARNING, no entry stored in dbm for [ENSG00000251562.8] WARNING, no entry stored in dbm for [ENSG00000262879.6] WARNING, no entry stored in dbm for [ENSG00000223893.1] WARNING, no entry stored in dbm for [ENSG00000232284.7] WARNING, no entry stored in dbm for [ENSG00000228876.4] WARNING, no entry stored in dbm for [ENSG00000234537.1] WARNING, no entry stored in dbm for [ENSG00000249478.1] WARNING, no entry stored in dbm for [ENSG00000234152.1] WARNING, no entry stored in dbm for [ENSG00000234152.1] WARNING, no entry stored in dbm for [ENSG00000263883.1] WARNING, no entry stored in dbm for [ENSG00000279891.1] WARNING, no entry stored in dbm for [ENSG00000260680.1] WARNING, no entry stored in dbm for [ENSG00000205853.12] WARNING, no entry stored in dbm for [ENSG00000254275.6] WARNING, no entry stored in dbm for [ENSG00000271162.1] WARNING, no entry stored in dbm for [ENSG00000267555.1] WARNING, no entry stored in dbm for [ENSG00000263731.1] WARNING, no entry stored in dbm for [ENSG00000237773.7] WARNING, no entry stored in dbm for [ENSG00000286389.1] WARNING, no entry stored in dbm for [ENSG00000232496.2] WARNING, no entry stored in dbm for [ENSG00000226312.7] WARNING, no entry stored in dbm for [ENSG00000197099.8] WARNING, no entry stored in dbm for [ENSG00000241684.6] WARNING, no entry stored in dbm for [ENSG00000250961.2] WARNING, no entry stored in dbm for [ENSG00000213736.2] WARNING, no entry stored in dbm for [ENSG00000288049.1] WARNING, no entry stored in dbm for [ENSG00000250922.1] WARNING, no entry stored in dbm for [ENSG00000255931.2] WARNING, no entry stored in dbm for [ENSG00000259605.3] WARNING, no entry stored in dbm for [ENSG00000287917.1] WARNING, no entry stored in dbm for [ENSG00000285799.1] WARNING, no entry stored in dbm for [ENSG00000254741.1] WARNING, no entry stored in dbm for [ENSG00000225075.1] WARNING, no entry stored in dbm for [ENSG00000238232.1] WARNING, no entry stored in dbm for [ENSG00000236358.1] WARNING, no entry stored in dbm for [ENSG00000286870.1] WARNING, no entry stored in dbm for [ENSG00000232310.8] WARNING, no entry stored in dbm for [ENSG00000285407.1] WARNING, no entry stored in dbm for [ENSG00000213107.2] WARNING, no entry stored in dbm for [ENSG00000224078.15] WARNING, no entry stored in dbm for [ENSG00000258730.1] WARNING, no entry stored in dbm for [ENSG00000229930.1] WARNING, no entry stored in dbm for [ENSG00000229930.1] WARNING, no entry stored in dbm for [ENSG00000282508.2] WARNING, no entry stored in dbm for [ENSG00000259993.1] WARNING, no entry stored in dbm for [ENSG00000259191.2] WARNING, no entry stored in dbm for [ENSG00000260404.3] WARNING, no entry stored in dbm for [ENSG00000186704.9] WARNING, no entry stored in dbm for [ENSG00000280285.1] WARNING, no entry stored in dbm for [ENSG00000260236.1] WARNING, no entry stored in dbm for [ENSG00000205976.4] WARNING, no entry stored in dbm for [ENSG00000240519.1] WARNING, no entry stored in dbm for [ENSG00000264151.6] WARNING, no entry stored in dbm for [ENSG00000277837.1] WARNING, no entry stored in dbm for [ENSG00000277837.1] WARNING, no entry stored in dbm for [ENSG00000254485.5] WARNING, no entry stored in dbm for [ENSG00000288070.1] WARNING, no entry stored in dbm for [ENSG00000257453.1] WARNING, no entry stored in dbm for [ENSG00000229914.1] WARNING, no entry stored in dbm for [ENSG00000287170.1] WARNING, no entry stored in dbm for [ENSG00000277458.1] WARNING, no entry stored in dbm for [ENSG00000189149.12] WARNING, no entry stored in dbm for [ENSG00000278975.1] WARNING, no entry stored in dbm for [ENSG00000268460.2] WARNING, no entry stored in dbm for [ENSG00000223544.1] WARNING, no entry stored in dbm for [ENSG00000286923.1] WARNING, no entry stored in dbm for [ENSG00000225722.1] * STAR-Fusion complete. See output: /tmp/nxf.RDXZWdDFOB/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)