-ctat genome lib [/tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.sFcDrj6eoQ/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary
-sample contains 67574114 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir -J /tmp/nxf.sFcDrj6eoQ/SkinN_FFPE_L08_RNA_01_B23LG7FLT4_1.Chimeric.out.junction -O /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4
-parsing fusion evidence: /tmp/nxf.sFcDrj6eoQ/SkinN_FFPE_L08_RNA_01_B23LG7FLT4_1.Chimeric.out.junction
-building interval tree based on /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.10 min).
-mapping reads to genes
[10000], rate=28571.43/min
[20000], rate=20000.00/min
[30000], rate=21686.75/min
[40000], rate=23762.38/min
[50000], rate=26086.96/min
[60000], rate=26666.67/min
[70000], rate=27631.58/min
[80000], rate=29629.63/min
[90000], rate=31213.87/min
[100000], rate=32085.56/min
[110000], rate=33502.54/min
[120000], rate=33962.26/min
[130000], rate=33620.69/min
[140000], rate=34567.90/min
[150000], rate=35294.12/min
[160000], rate=36090.23/min
[170000], rate=37090.91/min
[180000], rate=38434.16/min
[190000], rate=40282.69/min
[200000], rate=40677.97/min
[210000], rate=40384.62/min
[220000], rate=41250.00/min
[230000], rate=42331.29/min
[240000], rate=43504.53/min
[250000], rate=44378.70/min
[260000], rate=44192.63/min
[270000], rate=44505.49/min
[280000], rate=44680.85/min
[290000], rate=44274.81/min
[300000], rate=44334.98/min
[310000], rate=44711.54/min
[320000], rate=44859.81/min
[330000], rate=45308.92/min
[340000], rate=45842.70/min
[350000], rate=46666.67/min
[360000], rate=47161.57/min
[370000], rate=47741.94/min
[380000], rate=48000.00/min
[390000], rate=48953.97/min
[400000], rate=50104.38/min
[410000], rate=50931.68/min
[420000], rate=51958.76/min
[430000], rate=52977.41/min
[440000], rate=53987.73/min
[450000], rate=55102.04/min
[460000], rate=56211.81/min
[470000], rate=57200.81/min
[480000], rate=58299.60/min
[490000], rate=59393.94/min
[500000], rate=60606.06/min
[510000], rate=61693.55/min
[520000], rate=62776.66/min
[530000], rate=63855.42/min
[540000], rate=65060.24/min
[550000], rate=66132.26/min
[560000], rate=67200.00/min
[570000], rate=68127.49/min
[580000], rate=69184.89/min
[590000], rate=70238.10/min
[600000], rate=70866.14/min
[610000], rate=71206.23/min
[620000], rate=72093.02/min
[630000], rate=72552.78/min
[640000], rate=72589.79/min
[650000], rate=72625.70/min
[660000], rate=72928.18/min
[670000], rate=73090.91/min
[680000], rate=73249.55/min
[690000], rate=73665.48/min
[700000], rate=74336.28/min
[710000], rate=74345.55/min
[720000], rate=73972.60/min
[730000], rate=73737.37/min
[740000], rate=74371.86/min
[750000], rate=75000.00/min
[760000], rate=75747.51/min
[770000], rate=76490.07/min
[780000], rate=77355.37/min
[790000], rate=78217.82/min
[800000], rate=78688.52/min
[810000], rate=79541.73/min
[820000], rate=79099.68/min
[830000], rate=78178.96/min
[840000], rate=78260.87/min
[850000], rate=77743.90/min
[860000], rate=76900.15/min
[870000], rate=75982.53/min
[880000], rate=76411.00/min
[890000], rate=77056.28/min
[900000], rate=77253.22/min
[910000], rate=77446.81/min
[920000], rate=78186.97/min
[930000], rate=78151.26/min
[940000], rate=78116.34/min
[950000], rate=78404.40/min
[960000], rate=78154.68/min
[970000], rate=78225.81/min
[980000], rate=78295.61/min
[990000], rate=77647.06/min
[1000000], rate=78125.00/min
[1010000], rate=78701.30/min
[1020000], rate=79274.61/min
[1030000], rate=79948.25/min
[1040000], rate=80516.13/min
[1050000], rate=81185.57/min
[1060000], rate=81853.28/min
[1070000], rate=82413.35/min
[1080000], rate=83076.92/min
[1090000], rate=83738.80/min
[1100000], rate=84398.98/min
[1110000], rate=85057.47/min
[1120000], rate=85714.29/min
[1130000], rate=86369.43/min
[1140000], rate=87133.76/min
[1150000], rate=87786.26/min
[1160000], rate=88324.87/min
[1170000], rate=88860.76/min
[1180000], rate=89393.94/min
[1190000], rate=90037.83/min
[1200000], rate=90452.26/min
[1210000], rate=89740.42/min
[1220000], rate=89926.29/min
[1230000], rate=90552.15/min
[1240000], rate=90400.97/min
[1250000], rate=90144.23/min
[1260000], rate=90214.80/min
[1270000], rate=89858.49/min
[1280000], rate=89929.74/min
[1290000], rate=90104.77/min
[1300000], rate=90487.24/min
[1310000], rate=90657.44/min
[1320000], rate=90514.29/min
[1330000], rate=90373.73/min
[1340000], rate=90744.92/min
[1350000], rate=91113.61/min
[1360000], rate=91582.49/min
[1370000], rate=92152.47/min
[1380000], rate=92617.45/min
[1390000], rate=92769.74/min
[1400000], rate=92613.01/min
[1410000], rate=92056.58/min
[1420000], rate=91318.33/min
[1430000], rate=90506.33/min
[1440000], rate=90187.89/min
[1450000], rate=90248.96/min
[1460000], rate=90589.45/min
[1470000], rate=90834.19/min
[1480000], rate=90243.90/min
[1490000], rate=90577.51/min
[1500000], rate=90725.81/min
[1510000], rate=90600.00/min
[1520000], rate=90566.04/min
[1530000], rate=90354.33/min
[1540000], rate=89883.27/min
[1550000], rate=89509.14/min
[1560000], rate=89741.13/min
[1570000], rate=89885.50/min
[1580000], rate=90199.81/min
[1590000], rate=90340.91/min
[1600000], rate=90395.48/min
[1610000], rate=90364.83/min
[1620000], rate=90671.64/min
[1630000], rate=91061.45/min
[1640000], rate=91534.88/min
[1650000], rate=92007.43/min
[1660000], rate=92479.11/min
[1670000], rate=92949.91/min
[1680000], rate=93419.83/min
[1690000], rate=93888.89/min
[1700000], rate=94095.94/min -building interval tree based on /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
[10000], rate=100000.00/min
[20000], rate=66666.67/min
[30000], rate=66666.67/min
[40000], rate=60000.00/min
[50000], rate=58823.53/min
[60000], rate=61016.95/min
[70000], rate=65625.00/min
[80000], rate=65753.42/min
[90000], rate=63529.41/min
[100000], rate=69767.44/min
[110000], rate=71739.13/min
[120000], rate=72727.27/min
[130000], rate=75728.16/min
[140000], rate=77777.78/min
[150000], rate=78947.37/min
[160000], rate=76190.48/min
[170000], rate=78461.54/min
[180000], rate=80000.00/min
[190000], rate=83823.53/min
[200000], rate=85106.38/min
[210000], rate=82352.94/min
[220000], rate=79518.07/min
[230000], rate=81656.80/min
[240000], rate=84210.53/min
[250000], rate=87209.30/min
[260000], rate=90697.67/min
[270000], rate=93103.45/min
[280000], rate=93333.33/min
[290000], rate=93048.13/min
[300000], rate=93264.25/min
[310000], rate=90731.71/min
[320000], rate=90140.85/min
[330000], rate=87610.62/min
[340000], rate=89082.97/min
[350000], rate=90128.76/min
[360000], rate=90000.00/min
[370000], rate=91358.02/min
[380000], rate=93442.62/min
[390000], rate=93600.00/min
[400000], rate=93023.26/min
[410000], rate=93893.13/min
[420000], rate=94736.84/min
[430000], rate=94505.49/min
[440000], rate=94964.03/min
[450000], rate=95070.42/min
[460000], rate=95833.33/min
[470000], rate=96575.34/min
[480000], rate=95681.06/min
[490000], rate=93929.71/min
[500000], rate=93167.70/min
[510000], rate=93865.03/min
[520000], rate=95412.84/min
[530000], rate=96951.22/min
[540000], rate=98480.24/min
[550000], rate=99099.10/min
[560000], rate=99408.28/min
[570000], rate=97994.27/min
[580000], rate=94822.89/min
[590000], rate=87407.41/min
[600000], rate=81447.96/min
[610000], rate=79220.78/min
[620000], rate=80345.57/min
[630000], rate=81290.32/min
[640000], rate=81876.33/min
[650000], rate=82452.43/min
[660000], rate=83720.93/min
[670000], rate=83575.88/min
[680000], rate=83778.23/min
[690000], rate=84489.80/min
[700000], rate=85192.70/min
[710000], rate=85370.74/min
[720000], rate=85544.55/min
[730000], rate=84393.06/min
[740000], rate=83615.82/min
[750000], rate=83487.94/min
[760000], rate=83516.48/min
[770000], rate=83544.30/min
[780000], rate=82978.72/min
[790000], rate=82149.05/min
[800000], rate=82758.62/min
[810000], rate=82793.87/min
[820000], rate=83108.11/min
[830000], rate=83557.05/min
[840000], rate=83860.23/min
[850000], rate=84158.42/min
[860000], rate=84039.09/min
[870000], rate=84193.55/min
[880000], rate=84615.38/min
[890000], rate=85303.51/min
[900000], rate=85987.26/min
[910000], rate=86392.41/min
[920000], rate=87066.25/min
[930000], rate=86915.89/min
[940000], rate=87171.56/min
[950000], rate=87423.31/min
[960000], rate=87938.93/min
[970000], rate=88181.82/min
[980000], rate=88288.29/min
[990000], rate=88392.86/min
[1000000], rate=88626.29/min
[1010000], rate=89117.65/min
[1020000], rate=89604.69/min
[1030000], rate=89956.33/min
[1040000], rate=90303.91/min
[1050000], rate=90517.24/min
[1060000], rate=91248.21/min
[1070000], rate=91583.45/min
[1080000], rate=85601.06/min
[1090000], rate=81242.24/min
[1100000], rate=76477.40/min
[1110000], rate=72549.02/min
[1120000], rate=70000.00/min
[1130000], rate=67529.88/min
[1140000], rate=65580.06/min
[1150000], rate=64126.39/min
[1160000], rate=62702.70/min
[1170000], rate=61578.95/min
[1180000], rate=60461.14/min
[1190000], rate=59699.00/min
[1200000], rate=58919.80/min
[1210000], rate=58407.08/min
[1220000], rate=58095.24/min
[1230000], rate=57746.48/min
[1240000], rate=57407.41/min
[1250000], rate=57034.22/min
[1260000], rate=56629.21/min
[1270000], rate=56194.69/min
[1280000], rate=55611.88/min
[1290000], rate=55444.13/min
[1300000], rate=55007.05/min
[1310000], rate=54621.26/min
[1320000], rate=54620.69/min
[1330000], rate=54657.53/min
[1340000], rate=54656.70/min
[1350000], rate=54582.21/min
[1360000], rate=54655.06/min
[1370000], rate=54836.56/min
[1380000], rate=55016.61/min
[1390000], rate=55158.73/min
[1400000], rate=55335.97/min
[1410000], rate=55258.00/min
[1420000], rate=55217.11/min
[1430000], rate=55176.85/min
[1440000], rate=55137.20/min
[1450000], rate=54889.59/min
[1460000], rate=54921.63/min
[1470000], rate=54953.27/min
[1480000], rate=54882.57/min
[1490000], rate=54880.29/min
[1500000], rate=54844.61/min
[1510000], rate=54975.73/min
[1520000], rate=54906.68/min
[1530000], rate=55068.99/min
[1540000], rate=55131.26/min
[1550000], rate=55258.47/min
[1560000], rate=55450.24/min
[1570000], rate=54959.16/min
[1580000], rate=54639.77/min
[1590000], rate=54545.45/min
[1600000], rate=54237.29/min
[1610000], rate=53876.19/min
[1620000], rate=53583.24/min
[1630000], rate=53355.16/min
[1640000], rate=53246.75/min
[1650000], rate=53083.11/min
[1660000], rate=52950.56/min
[1670000], rate=52848.10/min
[1680000], rate=52747.25/min -building interval tree based on /tmp/nxf.sFcDrj6eoQ/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=52173.91/min
[30000], rate=56250.00/min
[40000], rate=60000.00/min
[50000], rate=58823.53/min
[60000], rate=56250.00/min
[70000], rate=54545.45/min
[80000], rate=51612.90/min
[90000], rate=50467.29/min
[100000], rate=51724.14/min
[110000], rate=51562.50/min
[120000], rate=52173.91/min
[130000], rate=51655.63/min
[140000], rate=53164.56/min
[150000], rate=48387.10/min
[160000], rate=43835.62/min
[170000], rate=42323.65/min
[180000], rate=41698.84/min
[190000], rate=40425.53/min
[200000], rate=40133.78/min
[210000], rate=37837.84/min
[220000], rate=36666.67/min
[230000], rate=36315.79/min
[240000], rate=36641.22/min
[250000], rate=37037.04/min
[260000], rate=36966.82/min
[270000], rate=36080.18/min
[280000], rate=36363.64/min
[290000], rate=36631.58/min
[300000], rate=36885.25/min
[310000], rate=37274.55/min
[320000], rate=37209.30/min
[330000], rate=37500.00/min
[340000], rate=38130.84/min
[350000], rate=39179.10/min
[360000], rate=39705.88/min
[370000], rate=39361.70/min
[380000], rate=39175.26/min
[390000], rate=39130.43/min
[400000], rate=39408.87/min
[410000], rate=39549.84/min
[420000], rate=39685.04/min
[430000], rate=39876.35/min
[440000], rate=40121.58/min
[450000], rate=40000.00/min
[460000], rate=40116.28/min
[470000], rate=40343.35/min
[480000], rate=40677.97/min
[490000], rate=40720.22/min
[500000], rate=40431.27/min
[510000], rate=40210.25/min
[520000], rate=40258.06/min
[530000], rate=39949.75/min
[540000], rate=40000.00/min
[550000], rate=40000.00/min
[560000], rate=39904.99/min
[570000], rate=39767.44/min
[580000], rate=40046.03/min
[590000], rate=40273.04/min
[600000], rate=40404.04/min
[610000], rate=40397.35/min
[620000], rate=40744.80/min
[630000], rate=40953.41/min
[640000], rate=41113.49/min
[650000], rate=41445.27/min
[660000], rate=41684.21/min
[670000], rate=42182.58/min
[680000], rate=42455.78/min
[690000], rate=42461.54/min
[700000], rate=42253.52/min
[710000], rate=42178.22/min
[720000], rate=42023.35/min
[730000], rate=41913.88/min
[740000], rate=41729.32/min
[750000], rate=41589.65/min
[760000], rate=41605.84/min
[770000], rate=41659.15/min
[780000], rate=41711.23/min
[790000], rate=41872.79/min
[800000], rate=42031.52/min
[810000], rate=42187.50/min
[820000], rate=42413.79/min
[830000], rate=42710.12/min
[840000], rate=43150.68/min
[850000], rate=43589.74/min
[860000], rate=43877.55/min
[870000], rate=44162.44/min
[880000], rate=44444.44/min
[890000], rate=44723.62/min
[900000], rate=45037.53/min
[910000], rate=44901.32/min
[920000], rate=44624.09/min
[930000], rate=44497.61/min
[940000], rate=44479.50/min
[950000], rate=44496.49/min
[960000], rate=44307.69/min
[970000], rate=44597.70/min
[980000], rate=44748.86/min
[990000], rate=44695.26/min
[1000000], rate=44642.86/min
[1010000], rate=44591.61/min
[1020000], rate=44638.95/min
[1030000], rate=44524.50/min
[1040000], rate=44412.81/min
[1050000], rate=44554.46/min
[1060000], rate=44662.92/min
[1070000], rate=44769.87/min
[1080000], rate=44906.44/min
[1090000], rate=45072.36/min
[1100000], rate=45267.49/min
[1110000], rate=45491.80/min
[1120000], rate=45807.77/min
[1130000], rate=45966.10/min
[1140000], rate=46185.01/min
[1150000], rate=46122.99/min
[1160000], rate=46092.72/min
[1170000], rate=46123.52/min
[1180000], rate=46033.81/min
[1190000], rate=46005.15/min
[1200000], rate=46035.81/min
[1210000], rate=46124.52/min
[1220000], rate=46241.31/min
[1230000], rate=46385.92/min
[1240000], rate=46558.20/min
[1250000], rate=46758.10/min
[1260000], rate=46927.37/min
[1270000], rate=47095.18/min
[1280000], rate=47232.47/min
[1290000], rate=47223.92/min
[1300000], rate=47158.40/min
[1310000], rate=47094.07/min
[1320000], rate=47030.88/min
[1330000], rate=46996.47/min
[1340000], rate=47045.06/min
[1350000], rate=47147.85/min
[1360000], rate=47113.16/min
[1370000], rate=47214.24/min
[1380000], rate=47233.31/min
[1390000], rate=47305.73/min
[1400000], rate=47350.62/min
[1410000], rate=47635.14/min
[1420000], rate=47945.98/min
[1430000], rate=48256.47/min
[1440000], rate=48566.61/min
[1450000], rate=48848.96/min
[1460000], rate=49075.63/min
[1470000], rate=49218.75/min
[1480000], rate=49388.21/min
[1490000], rate=49584.03/min
[1500000], rate=49641.48/min
[1510000], rate=49616.65/min
[1520000], rate=49646.16/min
[1530000], rate=49783.08/min
[1540000], rate=49757.67/min
[1550000], rate=49706.04/min
[1560000], rate=49787.23/min
[1570000], rate=49867.65/min
[1580000], rate=50000.00/min
[1590000], rate=50131.37/min
[1600000], rate=50288.11/min
[1610000], rate=50443.86/min
[1620000], rate=50625.00/min
[1630000], rate=50910.98/min
[1640000], rate=51170.05/min
[1650000], rate=51428.57/min
[1660000], rate=51606.22/min
[1670000], rate=51782.95/min
[1680000], rate=52039.24/min -building interval tree based on /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes
[10000], rate=27272.73/min
[20000], rate=27906.98/min
[30000], rate=26865.67/min
[40000], rate=27906.98/min
[50000], rate=30000.00/min
[60000], rate=32727.27/min
[70000], rate=34426.23/min
[80000], rate=36090.23/min
[90000], rate=37762.24/min
[100000], rate=37267.08/min
[110000], rate=35294.12/min
[120000], rate=33488.37/min
[130000], rate=32365.15/min
[140000], rate=32432.43/min
[150000], rate=33088.24/min
[160000], rate=32876.71/min
[170000], rate=32587.86/min
[180000], rate=32432.43/min
[190000], rate=32386.36/min
[200000], rate=32786.89/min
[210000], rate=33070.87/min
[220000], rate=33759.59/min
[230000], rate=34413.97/min
[240000], rate=34782.61/min
[250000], rate=35046.73/min
[260000], rate=35056.18/min
[270000], rate=35448.58/min
[280000], rate=36129.03/min
[290000], rate=36477.99/min
[300000], rate=37113.40/min
[310000], rate=37125.75/min
[320000], rate=37209.30/min
[330000], rate=37858.51/min
[340000], rate=38490.57/min
[350000], rate=39252.34/min
[360000], rate=39852.40/min
[370000], rate=40290.38/min
[380000], rate=40353.98/min
[390000], rate=40068.49/min
[400000], rate=40066.78/min
[410000], rate=40130.51/min
[420000], rate=39747.63/min
[430000], rate=40000.00/min
[440000], rate=40490.80/min
[450000], rate=40847.20/min
[460000], rate=41441.44/min
[470000], rate=41777.78/min
[480000], rate=42352.94/min
[490000], rate=42982.46/min
[500000], rate=43795.62/min
[510000], rate=44541.48/min
[520000], rate=44635.19/min
[530000], rate=44475.52/min
[540000], rate=44383.56/min
[550000], rate=44414.54/min
[560000], rate=44503.31/min
[570000], rate=44940.87/min
[580000], rate=45490.20/min
[590000], rate=45618.56/min
[600000], rate=45397.23/min
[610000], rate=45409.43/min
[620000], rate=45588.24/min
[630000], rate=45762.71/min
[640000], rate=46043.17/min
[650000], rate=46263.35/min
[660000], rate=46808.51/min
[670000], rate=47072.60/min
[680000], rate=47386.76/min
[690000], rate=46938.78/min
[700000], rate=46204.62/min
[710000], rate=46557.38/min
[720000], rate=46956.52/min
[730000], rate=47351.35/min
[740000], rate=47537.47/min
[750000], rate=46875.00/min
[760000], rate=46578.14/min
[770000], rate=46572.58/min
[780000], rate=46613.55/min
[790000], rate=46561.89/min
[800000], rate=46601.94/min
[810000], rate=46596.36/min
[820000], rate=46502.84/min
[830000], rate=46325.58/min
[840000], rate=46153.85/min
[850000], rate=46153.85/min
[860000], rate=46112.60/min
[870000], rate=46276.60/min
[880000], rate=46153.85/min
[890000], rate=46313.96/min
[900000], rate=46312.18/min
[910000], rate=46389.12/min
[920000], rate=46347.61/min
[930000], rate=46500.00/min
[940000], rate=46534.65/min
[950000], rate=46568.63/min
[960000], rate=46677.47/min
[970000], rate=46822.20/min
[980000], rate=47002.40/min
[990000], rate=47330.68/min
[1000000], rate=47581.28/min
[1010000], rate=47867.30/min
[1020000], rate=48151.06/min
[1030000], rate=47611.71/min
[1040000], rate=46846.85/min
[1050000], rate=46323.53/min
[1060000], rate=45755.40/min
[1070000], rate=45564.23/min
[1080000], rate=45378.15/min
[1090000], rate=45353.68/min
[1100000], rate=45329.67/min
[1110000], rate=45336.96/min
[1120000], rate=45100.67/min
[1130000], rate=45079.79/min
[1140000], rate=45029.62/min
[1150000], rate=45009.78/min
[1160000], rate=45077.72/min
[1170000], rate=45173.75/min
[1180000], rate=45153.06/min
[1190000], rate=45047.32/min
[1200000], rate=45112.78/min
[1210000], rate=45261.85/min
[1220000], rate=45269.02/min
[1230000], rate=45331.70/min
[1240000], rate=45448.99/min
[1250000], rate=45482.11/min
[1260000], rate=45624.62/min
[1270000], rate=45683.45/min
[1280000], rate=45878.14/min
[1290000], rate=46181.38/min
[1300000], rate=46483.91/min
[1310000], rate=46813.58/min
[1320000], rate=47114.81/min
[1330000], rate=47359.05/min
[1340000], rate=47489.66/min
[1350000], rate=47619.05/min
[1360000], rate=47775.18/min
[1370000], rate=47902.10/min
[1380000], rate=47477.06/min
[1390000], rate=47198.64/min
[1400000], rate=46822.74/min
[1410000], rate=46585.90/min
[1420000], rate=46329.53/min
[1430000], rate=46178.69/min
[1440000], rate=46376.81/min
[1450000], rate=46153.85/min
[1460000], rate=46032.58/min
[1470000], rate=45961.44/min
[1480000], rate=45844.09/min
[1490000], rate=45658.84/min
[1500000], rate=45685.28/min
[1510000], rate=45642.32/min
[1520000], rate=45737.21/min
[1530000], rate=45785.54/min
[1540000], rate=45856.08/min
[1550000], rate=45925.93/min
[1560000], rate=45995.09/min
[1570000], rate=46086.11/min
[1580000], rate=46108.95/min
[1590000], rate=46176.19/min
[1600000], rate=46198.27/min
[1610000], rate=46264.37/min
[1620000], rate=46219.69/min
[1630000], rate=45872.42/min
[1640000], rate=45576.66/min
[1650000], rate=45288.20/min
[1660000], rate=45108.70/min
[1670000], rate=44993.26/min
[1680000], rate=44859.81/min * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.handle_multimapping_reads -J /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir --filt_file /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.fail -M 50 > /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-parsing /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt, organizing read mapping info.
0.00 reads per min processed...
12000000.00 reads per min processed...
18000000.00 reads per min processed...
12000000.00 reads per min processed...
15000000.00 reads per min processed...
12000000.00 reads per min processed...
10500000.00 reads per min processed...
12000000.00 reads per min processed...
10800000.00 reads per min processed...
10000000.00 reads per min processed...
8250000.00 reads per min processed...
8000000.00 reads per min processed...
7090909.09 reads per min processed...
7000000.00 reads per min processed...
6923076.92 reads per min processed...
6400000.00 reads per min processed...
6375000.00 reads per min processed...
6352941.18 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
5727272.73 reads per min processed...
5739130.43 reads per min processed...
5520000.00 reads per min processed...
5333333.33 reads per min processed...
5357142.86 reads per min processed...
5200000.00 reads per min processed...
5225806.45 reads per min processed...
5250000.00 reads per min processed...
5272727.27 reads per min processed...
5294117.65 reads per min processed...
5166666.67 reads per min processed...
5189189.19 reads per min processed...
5210526.32 reads per min processed...
5368421.05 reads per min processed...
5384615.38 reads per min processed...
5538461.54 reads per min processed...
5550000.00 reads per min processed...
5560975.61 reads per min processed...
5707317.07 reads per min processed...
5714285.71 reads per min processed...
5857142.86 reads per min processed...
5860465.12 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
6136363.64 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
6000000.00 reads per min processed...
5884615.38 reads per min processed...
5886792.45 reads per min processed...
5888888.89 reads per min processed...
5890909.09 reads per min processed...
5892857.14 reads per min processed...
5894736.84 reads per min processed...
5796610.17 reads per min processed...
5800000.00 reads per min processed...
5803278.69 reads per min processed...
5806451.61 reads per min processed...
done.
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.predict -J /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass -O /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion
-parsing fusion evidence: /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt.pass
-outputting fusion candidates to file: /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.filter --fusion_preds /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary -J /tmp/nxf.sFcDrj6eoQ/SkinN_FFPE_L08_RNA_01_B23LG7FLT4_1.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.sFcDrj6eoQ/ctat_genome_lib_build_dir --out_prefix /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion
CMD: mkdir -p /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir
EM: Starting log likelihood: -85716.074422
EM: Round [1] log likelihood: -85411.466990
EM: Round [2] log likelihood: -85292.621071
EM: Round [3] log likelihood: -85236.050171
EM: Round [4] log likelihood: -85206.062043
EM: Round [5] log likelihood: -85189.199338
EM: Round [6] log likelihood: -85179.296949
EM: Round [7] log likelihood: -85173.238188
EM: Round [8] log likelihood: -85169.376563
EM: Round [9] log likelihood: -85166.816416
EM: Round [10] log likelihood: -85165.055831
EM: Round [11] log likelihood: -85163.804319
EM: Round [12] log likelihood: -85162.888075
EM: Round [13] log likelihood: -85162.199648
EM: Round [14] log likelihood: -85161.670509
EM: Round [15] log likelihood: -85161.255656
EM: Round [16] log likelihood: -85160.924726
EM: Round [17] log likelihood: -85160.656723
EM: Round [18] log likelihood: -85160.436792
EM: Round [19] log likelihood: -85160.254204
EM: Round [20] log likelihood: -85160.101062
EM: Round [21] log likelihood: -85159.971453
EM: Round [22] log likelihood: -85159.860879
EM: Round [23] log likelihood: -85159.765869
EM: Round [24] log likelihood: -85159.683707
EM: Round [25] log likelihood: -85159.612246
EM: Round [26] log likelihood: -85159.549765
EM: Round [27] log likelihood: -85159.494876
EM: Round [28] log likelihood: -85159.446446
EM: Round [29] log likelihood: -85159.403541
EM: Round [30] log likelihood: -85159.365391
EM: Round [31] log likelihood: -85159.331350
EM: Round [32] log likelihood: -85159.300879
EM: Round [33] log likelihood: -85159.273519
EM: Round [34] log likelihood: -85159.248883
EM: Round [35] log likelihood: -85159.226641
EM: Round [36] log likelihood: -85159.206509
EM: Round [37] log likelihood: -85159.188242
EM: Round [38] log likelihood: -85159.171630
EM: Round [39] log likelihood: -85159.156491
EM: Round [40] log likelihood: -85159.142664
EM: Round [41] log likelihood: -85159.130012
EM: Round [42] log likelihood: -85159.118413
EM: Round [43] log likelihood: -85159.107759
EM: Round [44] log likelihood: -85159.097957
EM: Round [45] log likelihood: -85159.088924
EM: Round [46] log likelihood: -85159.080586
EM: Round [47] log likelihood: -85159.072877
EM: Round [48] log likelihood: -85159.065741
EM: Round [49] log likelihood: -85159.059124
EM: Round [50] log likelihood: -85159.052980
EM: Round [51] log likelihood: -85159.047269
EM: Round [52] log likelihood: -85159.041952
EM: Round [53] log likelihood: -85159.036997
EM: Round [54] log likelihood: -85159.032373
EM: Round [55] log likelihood: -85159.028052
EM: Round [56] log likelihood: -85159.024011
EM: Round [57] log likelihood: -85159.020226
EM: Round [58] log likelihood: -85159.016679
EM: Round [59] log likelihood: -85159.013349
EM: Round [60] log likelihood: -85159.010222
EM: Round [61] log likelihood: -85159.007280
EM: Round [62] log likelihood: -85159.004511
EM: Round [63] log likelihood: -85159.001902
EM: Round [64] log likelihood: -85158.999441
EM: Round [65] log likelihood: -85158.997117
EM: Round [66] log likelihood: -85158.994921
EM: Round [67] log likelihood: -85158.992844
EM: Round [68] log likelihood: -85158.990877
EM: Round [69] log likelihood: -85158.989014
EM: Round [70] log likelihood: -85158.987246
EM: Round [71] log likelihood: -85158.985567
EM: Round [72] log likelihood: -85158.983972
EM: Round [73] log likelihood: -85158.982456
EM: Round [74] log likelihood: -85158.981012
EM: Round [75] log likelihood: -85158.979636
EM: Round [76] log likelihood: -85158.978325
EM: Round [77] log likelihood: -85158.977073
EM: Round [78] log likelihood: -85158.975878
EM: Round [79] log likelihood: -85158.974735
EM: Round [80] log likelihood: -85158.973642
EM: Round [81] log likelihood: -85158.972596
EM: Round [82] log likelihood: -85158.971593
EM: Round [83] log likelihood: -85158.970631
EM: Round [84] log likelihood: -85158.969708
EM: Round [85] log likelihood: -85158.968822
EM: Round [86] log likelihood: -85158.967970
EM: Round [87] log likelihood: -85158.967150
EM: Round [88] log likelihood: -85158.966361
EM: Round [89] log likelihood: -85158.965602
EM: Round [90] log likelihood: -85158.964869
EM: Round [91] log likelihood: -85158.964162
EM: Round [92] log likelihood: -85158.963480
EM: Round [93] log likelihood: -85158.962821
EM: Round [94] log likelihood: -85158.962184
EM: Round [95] log likelihood: -85158.961568
EM: Round [96] log likelihood: -85158.960972
EM: Round [97] log likelihood: -85158.960395
EM: Round [98] log likelihood: -85158.959835
EM: Round [99] log likelihood: -85158.959292
EM: Round [100] log likelihood: -85158.958766
EM: Round [101] log likelihood: -85158.958254
EM: Round [102] log likelihood: -85158.957758
EM: Round [103] log likelihood: -85158.957275
EM: Round [104] log likelihood: -85158.956806
EM: Round [105] log likelihood: -85158.956350
EM: Round [106] log likelihood: -85158.955905
EM: Round [107] log likelihood: -85158.955473
EM: Round [108] log likelihood: -85158.955051
EM: Round [109] log likelihood: -85158.954640
EM: Round [110] log likelihood: -85158.954239
EM: Round [111] log likelihood: -85158.953848
EM: Round [112] log likelihood: -85158.953466
EM: Round [113] log likelihood: -85158.953094
EM: Round [114] log likelihood: -85158.952729
EM: Round [115] log likelihood: -85158.952374
EM: Round [116] log likelihood: -85158.952026
EM: Round [117] log likelihood: -85158.951686
EM: Round [118] log likelihood: -85158.951353
EM: Round [119] log likelihood: -85158.951028
EM: Round [120] log likelihood: -85158.950709
EM: Round [121] log likelihood: -85158.950397
EM: Round [122] log likelihood: -85158.950091
EM: Round [123] log likelihood: -85158.949792
EM: Round [124] log likelihood: -85158.949498
EM: Round [125] log likelihood: -85158.949211
EM: Round [126] log likelihood: -85158.948929
EM: Round [127] log likelihood: -85158.948652
EM: Round [128] log likelihood: -85158.948381
EM: Round [129] log likelihood: -85158.948115
EM: Round [130] log likelihood: -85158.947853
EM: Round [131] log likelihood: -85158.947597
EM: Round [132] log likelihood: -85158.947345
EM: Round [133] log likelihood: -85158.947098
EM: Round [134] log likelihood: -85158.946855
EM: Round [135] log likelihood: -85158.946617
EM: Round [136] log likelihood: -85158.946382
EM: Round [137] log likelihood: -85158.946152
EM: Round [138] log likelihood: -85158.945926
EM: Round [139] log likelihood: -85158.945704
EM: Round [140] log likelihood: -85158.945485
EM: Round [141] log likelihood: -85158.945270
EM: Round [142] log likelihood: -85158.945059
EM: Round [143] log likelihood: -85158.944851
EM: Round [144] log likelihood: -85158.944647
EM: Round [145] log likelihood: -85158.944446
EM: Round [146] log likelihood: -85158.944248
EM: Round [147] log likelihood: -85158.944054
EM: Round [148] log likelihood: -85158.943862
EM: Round [149] log likelihood: -85158.943674
EM: Round [150] log likelihood: -85158.943489
EM: Round [151] log likelihood: -85158.943307
EM: Round [152] log likelihood: -85158.943127
EM: Round [153] log likelihood: -85158.942951
EM: Round [154] log likelihood: -85158.942777
EM: Round [155] log likelihood: -85158.942606
EM: Round [156] log likelihood: -85158.942437
EM: Round [157] log likelihood: -85158.942272
EM: Round [158] log likelihood: -85158.942108
EM: Round [159] log likelihood: -85158.941948
EM: Round [160] log likelihood: -85158.941789
EM: Round [161] log likelihood: -85158.941634
EM: Round [162] log likelihood: -85158.941480
EM: Round [163] log likelihood: -85158.941329
EM: Round [164] log likelihood: -85158.941180
EM: Round [165] log likelihood: -85158.941034
EM: Round [166] log likelihood: -85158.940890
EM: Round [167] log likelihood: -85158.940748
EM: Round [168] log likelihood: -85158.940608
EM: Round [169] log likelihood: -85158.940470
EM: Round [170] log likelihood: -85158.940334
EM: Round [171] log likelihood: -85158.940201
EM: Round [172] log likelihood: -85158.940069
EM: Round [173] log likelihood: -85158.939939
EM: Round [174] log likelihood: -85158.939811
EM: Round [175] log likelihood: -85158.939686
EM: Round [176] log likelihood: -85158.939562
EM: Round [177] log likelihood: -85158.939440
EM: Round [178] log likelihood: -85158.939319
EM: Round [179] log likelihood: -85158.939201
EM: Round [180] log likelihood: -85158.939084
EM: Round [181] log likelihood: -85158.938969
EM: Round [182] log likelihood: -85158.938856
EM: Round [183] log likelihood: -85158.938744
EM: Round [184] log likelihood: -85158.938634
EM: Round [185] log likelihood: -85158.938526
EM: Round [186] log likelihood: -85158.938419
EM: Round [187] log likelihood: -85158.938314
EM: Round [188] log likelihood: -85158.938211
EM: Round [189] log likelihood: -85158.938109
EM: Round [190] log likelihood: -85158.938008
EM: Round [191] log likelihood: -85158.937909
EM: Stopping iterations at round 191 due to insufficient improvement in likelihood.
EM: Starting log likelihood: -85600.357800
EM: Round [1] log likelihood: -85335.974505
EM: Round [2] log likelihood: -85236.603303
EM: Round [3] log likelihood: -85190.298242
EM: Round [4] log likelihood: -85166.028822
EM: Round [5] log likelihood: -85152.456518
EM: Round [6] log likelihood: -85144.507818
EM: Round [7] log likelihood: -85139.653896
EM: Round [8] log likelihood: -85136.567657
EM: Round [9] log likelihood: -85134.528537
EM: Round [10] log likelihood: -85133.132459
EM: Round [11] log likelihood: -85132.145181
EM: Round [12] log likelihood: -85131.426351
EM: Round [13] log likelihood: -85130.889162
EM: Round [14] log likelihood: -85130.478302
EM: Round [15] log likelihood: -85130.157541
EM: Round [16] log likelihood: -85129.902530
EM: Round [17] log likelihood: -85129.696519
EM: Round [18] log likelihood: -85129.527725
EM: Round [19] log likelihood: -85129.387696
EM: Round [20] log likelihood: -85129.270250
EM: Round [21] log likelihood: -85129.170788
EM: Round [22] log likelihood: -85129.085833
EM: Round [23] log likelihood: -85129.012718
EM: Round [24] log likelihood: -85128.949365
EM: Round [25] log likelihood: -85128.894139
EM: Round [26] log likelihood: -85128.845735
EM: Round [27] log likelihood: -85128.803102
EM: Round [28] log likelihood: -85128.765384
EM: Round [29] log likelihood: -85128.731879
EM: Round [30] log likelihood: -85128.702005
EM: Round [31] log likelihood: -85128.675276
EM: Round [32] log likelihood: -85128.651285
EM: Round [33] log likelihood: -85128.629688
EM: Round [34] log likelihood: -85128.610193
EM: Round [35] log likelihood: -85128.592548
EM: Round [36] log likelihood: -85128.576540
EM: Round [37] log likelihood: -85128.561984
EM: Round [38] log likelihood: -85128.548719
EM: Round [39] log likelihood: -85128.536606
EM: Round [40] log likelihood: -85128.525523
EM: Round [41] log likelihood: -85128.515365
EM: Round [42] log likelihood: -85128.506037
EM: Round [43] log likelihood: -85128.497458
EM: Round [44] log likelihood: -85128.489554
EM: Round [45] log likelihood: -85128.482262
EM: Round [46] log likelihood: -85128.475524
EM: Round [47] log likelihood: -85128.469290
EM: Round [48] log likelihood: -85128.463514
EM: Round [49] log likelihood: -85128.458154
EM: Round [50] log likelihood: -85128.453176
EM: Round [51] log likelihood: -85128.448546
EM: Round [52] log likelihood: -85128.444235
EM: Round [53] log likelihood: -85128.440216
EM: Round [54] log likelihood: -85128.436466
EM: Round [55] log likelihood: -85128.432962
EM: Round [56] log likelihood: -85128.429685
EM: Round [57] log likelihood: -85128.426617
EM: Round [58] log likelihood: -85128.423743
EM: Round [59] log likelihood: -85128.421046
EM: Round [60] log likelihood: -85128.418514
EM: Round [61] log likelihood: -85128.416134
EM: Round [62] log likelihood: -85128.413896
EM: Round [63] log likelihood: -85128.411789
EM: Round [64] log likelihood: -85128.409802
EM: Round [65] log likelihood: -85128.407929
EM: Round [66] log likelihood: -85128.406161
EM: Round [67] log likelihood: -85128.404490
EM: Round [68] log likelihood: -85128.402910
EM: Round [69] log likelihood: -85128.401414
EM: Round [70] log likelihood: -85128.399998
EM: Round [71] log likelihood: -85128.398655
EM: Round [72] log likelihood: -85128.397381
EM: Round [73] log likelihood: -85128.396171
EM: Round [74] log likelihood: -85128.395021
EM: Round [75] log likelihood: -85128.393927
EM: Round [76] log likelihood: -85128.392886
EM: Round [77] log likelihood: -85128.391894
EM: Round [78] log likelihood: -85128.390949
EM: Round [79] log likelihood: -85128.390047
EM: Round [80] log likelihood: -85128.389185
EM: Round [81] log likelihood: -85128.388362
EM: Round [82] log likelihood: -85128.387575
EM: Round [83] log likelihood: -85128.386821
EM: Round [84] log likelihood: -85128.386099
EM: Round [85] log likelihood: -85128.385407
EM: Round [86] log likelihood: -85128.384744
EM: Round [87] log likelihood: -85128.384107
EM: Round [88] log likelihood: -85128.383495
EM: Round [89] log likelihood: -85128.382906
EM: Round [90] log likelihood: -85128.382340
EM: Round [91] log likelihood: -85128.381795
EM: Round [92] log likelihood: -85128.381270
EM: Round [93] log likelihood: -85128.380764
EM: Round [94] log likelihood: -85128.380275
EM: Round [95] log likelihood: -85128.379804
EM: Round [96] log likelihood: -85128.379348
EM: Round [97] log likelihood: -85128.378908
EM: Round [98] log likelihood: -85128.378482
EM: Round [99] log likelihood: -85128.378070
EM: Round [100] log likelihood: -85128.377671
EM: Round [101] log likelihood: -85128.377284
EM: Round [102] log likelihood: -85128.376909
EM: Round [103] log likelihood: -85128.376545
EM: Round [104] log likelihood: -85128.376191
EM: Round [105] log likelihood: -85128.375848
EM: Round [106] log likelihood: -85128.375514
EM: Round [107] log likelihood: -85128.375190
EM: Round [108] log likelihood: -85128.374874
EM: Round [109] log likelihood: -85128.374567
EM: Round [110] log likelihood: -85128.374268
EM: Round [111] log likelihood: -85128.373977
EM: Round [112] log likelihood: -85128.373693
EM: Round [113] log likelihood: -85128.373416
EM: Round [114] log likelihood: -85128.373146
EM: Round [115] log likelihood: -85128.372882
EM: Round [116] log likelihood: -85128.372624
EM: Round [117] log likelihood: -85128.372373
EM: Round [118] log likelihood: -85128.372127
EM: Round [119] log likelihood: -85128.371887
EM: Round [120] log likelihood: -85128.371652
EM: Round [121] log likelihood: -85128.371422
EM: Round [122] log likelihood: -85128.371197
EM: Round [123] log likelihood: -85128.370977
EM: Round [124] log likelihood: -85128.370762
EM: Round [125] log likelihood: -85128.370551
EM: Round [126] log likelihood: -85128.370344
EM: Round [127] log likelihood: -85128.370141
EM: Round [128] log likelihood: -85128.369942
EM: Round [129] log likelihood: -85128.369748
EM: Round [130] log likelihood: -85128.369557
EM: Round [131] log likelihood: -85128.369369
EM: Round [132] log likelihood: -85128.369186
EM: Round [133] log likelihood: -85128.369005
EM: Round [134] log likelihood: -85128.368828
EM: Round [135] log likelihood: -85128.368654
EM: Round [136] log likelihood: -85128.368484
EM: Round [137] log likelihood: -85128.368316
EM: Round [138] log likelihood: -85128.368151
EM: Round [139] log likelihood: -85128.367990
EM: Round [140] log likelihood: -85128.367831
EM: Round [141] log likelihood: -85128.367675
EM: Round [142] log likelihood: -85128.367521
EM: Round [143] log likelihood: -85128.367370
EM: Round [144] log likelihood: -85128.367222
EM: Round [145] log likelihood: -85128.367076
EM: Round [146] log likelihood: -85128.366933
EM: Round [147] log likelihood: -85128.366791
EM: Round [148] log likelihood: -85128.366653
EM: Round [149] log likelihood: -85128.366516
EM: Round [150] log likelihood: -85128.366382
EM: Round [151] log likelihood: -85128.366250
EM: Round [152] log likelihood: -85128.366120
EM: Round [153] log likelihood: -85128.365992
EM: Round [154] log likelihood: -85128.365866
EM: Round [155] log likelihood: -85128.365743
EM: Round [156] log likelihood: -85128.365621
EM: Round [157] log likelihood: -85128.365501
EM: Round [158] log likelihood: -85128.365383
EM: Round [159] log likelihood: -85128.365267
EM: Round [160] log likelihood: -85128.365152
EM: Round [161] log likelihood: -85128.365040
EM: Round [162] log likelihood: -85128.364929
EM: Round [163] log likelihood: -85128.364820
EM: Round [164] log likelihood: -85128.364712
EM: Round [165] log likelihood: -85128.364606
EM: Round [166] log likelihood: -85128.364502
EM: Round [167] log likelihood: -85128.364399
EM: Round [168] log likelihood: -85128.364298
EM: Round [169] log likelihood: -85128.364199
EM: Stopping iterations at round 169 due to insufficient improvement in likelihood.
CMD: /usr/local/src/STAR-Fusion/util/../FusionFilter/blast_and_promiscuity_filter.pl --out_prefix /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion --max_promiscuity 10 --min_pct_dom_promiscuity 20 --fusion_preds /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 20
CMD: cp /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.pre_blast_filter.post_blast_filter.post_promisc_filter /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter JunctionReads,SpanningFrags > /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter.abridged
CMD: ln -sf /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.filter.intermediates_dir/star-fusion.post_blast_and_promiscuity_filter /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered 67574114 > /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.filtered.FFPM /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir > /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo
* Running CMD: /usr/local/src/STAR-Fusion/FusionAnnotator/FusionAnnotator --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir --annotate /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo > /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir
-done, see /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass --genome_lib_dir /tmp/nxf.sFcDrj6eoQ/ctat_genome_lib_build_dir
-filter_likely_RT_artifacts: (pass: 323, filtered: 3932)
* Running CMD: /usr/local/src/STAR-Fusion/util/filter_by_min_FFPM.pl /tmp/nxf.sFcDrj6eoQ/./star-fusion.preliminary/star-fusion.fusion_candidates.preliminary.wSpliceInfo.wAnnot.annot_filter.pass.RTartifact.pass 0.00001
* Running CMD: cp /tmp/nxf.sFcDrj6eoQ/./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.sFcDrj6eoQ/ctat_genome_lib_build_dir > star-fusion.fusion_predictions.abridged.coding_effect.tsv
WARNING, no entry stored in dbm for [ENSG00000229739.4]
WARNING, no entry stored in dbm for [ENSG00000234996.4]
WARNING, no entry stored in dbm for [ENSG00000277283.1]
WARNING, no entry stored in dbm for [ENSG00000225292.2]
WARNING, no entry stored in dbm for [ENSG00000228327.3]
WARNING, no entry stored in dbm for [ENSG00000248323.7]
WARNING, no entry stored in dbm for [ENSG00000237296.9]
WARNING, no entry stored in dbm for [ENSG00000229807.12]
WARNING, no entry stored in dbm for [ENSG00000225465.10]
WARNING, no entry stored in dbm for [ENSG00000197251.3]
WARNING, no entry stored in dbm for [ENSG00000234715.2]
WARNING, no entry stored in dbm for [ENSG00000203865.11]
WARNING, no entry stored in dbm for [ENSG00000227220.1]
WARNING, no entry stored in dbm for [ENSG00000282375.1]
WARNING, no entry stored in dbm for [ENSG00000228998.4]
WARNING, no entry stored in dbm for [ENSG00000257167.2]
WARNING, no entry stored in dbm for [ENSG00000185986.12]
WARNING, no entry stored in dbm for [ENSG00000264911.1]
WARNING, no entry stored in dbm for [ENSG00000178107.2]
WARNING, no entry stored in dbm for [ENSG00000267248.3]
WARNING, no entry stored in dbm for [ENSG00000266179.2]
WARNING, no entry stored in dbm for [ENSG00000279217.1]
WARNING, no entry stored in dbm for [ENSG00000279217.1]
WARNING, no entry stored in dbm for [ENSG00000241656.1]
WARNING, no entry stored in dbm for [ENSG00000223974.1]
WARNING, no entry stored in dbm for [ENSG00000232894.1]
WARNING, no entry stored in dbm for [ENSG00000249072.1]
WARNING, no entry stored in dbm for [ENSG00000223768.2]
WARNING, no entry stored in dbm for [ENSG00000241316.8]
WARNING, no entry stored in dbm for [ENSG00000203262.3]
WARNING, no entry stored in dbm for [ENSG00000248890.2]
WARNING, no entry stored in dbm for [ENSG00000199753.1]
WARNING, no entry stored in dbm for [ENSG00000262202.4]
WARNING, no entry stored in dbm for [ENSG00000199753.1]
WARNING, no entry stored in dbm for [ENSG00000262202.4]
WARNING, no entry stored in dbm for [ENSG00000255153.1]
WARNING, no entry stored in dbm for [ENSG00000240241.5]
WARNING, no entry stored in dbm for [ENSG00000223396.4]
WARNING, no entry stored in dbm for [ENSG00000226407.1]
WARNING, no entry stored in dbm for [ENSG00000206975.1]
WARNING, no entry stored in dbm for [ENSG00000251889.1]
WARNING, no entry stored in dbm for [ENSG00000201648.1]
WARNING, no entry stored in dbm for [ENSG00000251889.1]
WARNING, no entry stored in dbm for [ENSG00000201806.1]
WARNING, no entry stored in dbm for [ENSG00000180846.8]
WARNING, no entry stored in dbm for [ENSG00000201793.1]
WARNING, no entry stored in dbm for [ENSG00000199719.1]
WARNING, no entry stored in dbm for [ENSG00000201793.1]
WARNING, no entry stored in dbm for [ENSG00000201564.1]
WARNING, no entry stored in dbm for [ENSG00000201793.1]
WARNING, no entry stored in dbm for [ENSG00000223056.1]
WARNING, no entry stored in dbm for [ENSG00000202058.1]
WARNING, no entry stored in dbm for [ENSG00000200708.1]
WARNING, no entry stored in dbm for [ENSG00000202058.1]
WARNING, no entry stored in dbm for [ENSG00000200794.1]
WARNING, no entry stored in dbm for [ENSG00000201428.1]
WARNING, no entry stored in dbm for [ENSG00000201564.1]
WARNING, no entry stored in dbm for [ENSG00000201428.1]
WARNING, no entry stored in dbm for [ENSG00000223056.1]
WARNING, no entry stored in dbm for [ENSG00000200379.1]
WARNING, no entry stored in dbm for [ENSG00000201758.1]
WARNING, no entry stored in dbm for [ENSG00000200379.1]
WARNING, no entry stored in dbm for [ENSG00000200673.1]
WARNING, no entry stored in dbm for [ENSG00000201794.1]
WARNING, no entry stored in dbm for [ENSG00000200131.1]
WARNING, no entry stored in dbm for [ENSG00000201600.1]
WARNING, no entry stored in dbm for [ENSG00000199719.1]
WARNING, no entry stored in dbm for [ENSG00000201600.1]
WARNING, no entry stored in dbm for [ENSG00000201564.1]
WARNING, no entry stored in dbm for [ENSG00000201600.1]
WARNING, no entry stored in dbm for [ENSG00000223056.1]
WARNING, no entry stored in dbm for [ENSG00000270938.1]
WARNING, no entry stored in dbm for [ENSG00000241570.8]
WARNING, no entry stored in dbm for [ENSG00000259856.1]
WARNING, no entry stored in dbm for [ENSG00000274356.1]
WARNING, no entry stored in dbm for [ENSG00000080947.15]
WARNING, no entry stored in dbm for [ENSG00000249419.1]
WARNING, no entry stored in dbm for [ENSG00000281903.2]
WARNING, no entry stored in dbm for [ENSG00000237187.9]
WARNING, no entry stored in dbm for [ENSG00000248360.7]
WARNING, no entry stored in dbm for [ENSG00000270231.4]
WARNING, no entry stored in dbm for [ENSG00000233321.2]
WARNING, no entry stored in dbm for [ENSG00000287624.1]
WARNING, no entry stored in dbm for [ENSG00000242324.1]
WARNING, no entry stored in dbm for [ENSG00000287754.1]
WARNING, no entry stored in dbm for [ENSG00000286807.1]
WARNING, no entry stored in dbm for [ENSG00000229891.2]
WARNING, no entry stored in dbm for [ENSG00000232903.2]
WARNING, no entry stored in dbm for [ENSG00000232677.9]
WARNING, no entry stored in dbm for [ENSG00000268163.1]
WARNING, no entry stored in dbm for [ENSG00000260807.7]
WARNING, no entry stored in dbm for [ENSG00000226145.7]
WARNING, no entry stored in dbm for [ENSG00000283103.3]
WARNING, no entry stored in dbm for [ENSG00000286694.1]
WARNING, no entry stored in dbm for [ENSG00000285219.2]
WARNING, no entry stored in dbm for [ENSG00000248873.1]
WARNING, no entry stored in dbm for [ENSG00000237390.1]
WARNING, no entry stored in dbm for [ENSG00000229249.7]
WARNING, no entry stored in dbm for [ENSG00000214433.4]
WARNING, no entry stored in dbm for [ENSG00000166104.15]
WARNING, no entry stored in dbm for [ENSG00000166104.15]
WARNING, no entry stored in dbm for [ENSG00000231367.6]
WARNING, no entry stored in dbm for [ENSG00000277737.3]
WARNING, no entry stored in dbm for [ENSG00000237238.3]
WARNING, no entry stored in dbm for [ENSG00000283036.3]
WARNING, no entry stored in dbm for [ENSG00000270171.1]
WARNING, no entry stored in dbm for [ENSG00000229109.2]
WARNING, no entry stored in dbm for [ENSG00000196366.3]
WARNING, no entry stored in dbm for [ENSG00000234241.1]
WARNING, no entry stored in dbm for [ENSG00000242324.1]
WARNING, no entry stored in dbm for [ENSG00000237773.7]
WARNING, no entry stored in dbm for [ENSG00000280828.1]
WARNING, no entry stored in dbm for [ENSG00000236830.7]
WARNING, no entry stored in dbm for [ENSG00000286837.1]
WARNING, no entry stored in dbm for [ENSG00000231764.10]
WARNING, no entry stored in dbm for [ENSG00000231140.3]
WARNING, no entry stored in dbm for [ENSG00000204959.4]
WARNING, no entry stored in dbm for [ENSG00000278217.1]
WARNING, no entry stored in dbm for [ENSG00000287356.1]
WARNING, no entry stored in dbm for [ENSG00000258858.1]
WARNING, no entry stored in dbm for [ENSG00000285887.1]
WARNING, no entry stored in dbm for [ENSG00000235749.3]
WARNING, no entry stored in dbm for [ENSG00000232599.1]
WARNING, no entry stored in dbm for [ENSG00000288068.1]
WARNING, no entry stored in dbm for [ENSG00000226482.1]
WARNING, no entry stored in dbm for [ENSG00000285062.1]
WARNING, no entry stored in dbm for [ENSG00000278212.2]
WARNING, no entry stored in dbm for [ENSG00000270960.1]
WARNING, no entry stored in dbm for [ENSG00000251314.2]
WARNING, no entry stored in dbm for [ENSG00000276538.1]
WARNING, no entry stored in dbm for [ENSG00000224016.2]
WARNING, no entry stored in dbm for [ENSG00000273805.1]
WARNING, no entry stored in dbm for [ENSG00000273805.1]
WARNING, no entry stored in dbm for [ENSG00000266208.1]
WARNING, no entry stored in dbm for [ENSG00000205682.2]
WARNING, no entry stored in dbm for [ENSG00000267011.5]
WARNING, no entry stored in dbm for [ENSG00000237036.5]
WARNING, no entry stored in dbm for [ENSG00000271394.1]
WARNING, no entry stored in dbm for [ENSG00000200794.1]
* STAR-Fusion complete. See output: /tmp/nxf.sFcDrj6eoQ/./star-fusion.fusion_predictions.tsv (or .abridged.tsv version)