Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/6c24f450d64421a9f5be68a1229b89/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/6c24f450d64421a9f5be68a1229b89/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/21d4bf98653f54f2a6e87973fd4b81/aih-tih-sc-3e91d2-R1_B23WHYVLT4_1_1.fastp.fastq.gz Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/4d7d5db6c134add7930cd84e61b6f2/aih-tih-sc-3e91d2-R1_B23WHYVLT4_1.Chimeric.out.junction Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/21d4bf98653f54f2a6e87973fd4b81/aih-tih-sc-3e91d2-R1_B23WHYVLT4_1_2.fastp.fastq.gz ==> STAGING COMPLETE (6 inputs) -ctat genome lib [/tmp/nxf.3GYIMc1UCq/ctat_genome_lib_build_dir] validates. CMD: mkdir -p /tmp/nxf.3GYIMc1UCq/./_starF_checkpoints CMD: mkdir -p /tmp/nxf.3GYIMc1UCq/./star-fusion.preliminary -sample contains 295193843 rnaseq fragments * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.3GYIMc1UCq/ctat_genome_lib_build_dir -J /tmp/nxf.3GYIMc1UCq/aih-tih-sc-3e91d2-R1_B23WHYVLT4_1.Chimeric.out.junction -O /tmp/nxf.3GYIMc1UCq/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 -parsing fusion evidence: /tmp/nxf.3GYIMc1UCq/aih-tih-sc-3e91d2-R1_B23WHYVLT4_1.Chimeric.out.junction -building interval tree based on /tmp/nxf.3GYIMc1UCq/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.10 min). -mapping reads to genes [10000], rate=66666.67/min [20000], rate=44444.44/min [30000], rate=32727.27/min [40000], rate=35820.90/min [50000], rate=37037.04/min [60000], rate=38709.68/min [70000], rate=40384.62/min [80000], rate=41739.13/min [90000], rate=43200.00/min [100000], rate=44117.65/min [110000], rate=44295.30/min [120000], rate=44720.50/min [130000], rate=45348.84/min [140000], rate=45161.29/min [150000], rate=43478.26/min [160000], rate=41739.13/min [170000], rate=41129.03/min [180000], rate=40449.44/min [190000], rate=40140.85/min [200000], rate=40000.00/min [210000], rate=40000.00/min [220000], rate=40366.97/min [230000], rate=41071.43/min [240000], rate=42228.74/min [250000], rate=43604.65/min [260000], rate=44699.14/min [270000], rate=45892.35/min [280000], rate=46796.66/min [290000], rate=47802.20/min [300000], rate=48517.52/min [310000], rate=49600.00/min [320000], rate=50659.63/min [330000], rate=52242.74/min [340000], rate=53543.31/min [350000], rate=55118.11/min [360000], rate=56544.50/min [370000], rate=57662.34/min [380000], rate=58762.89/min [390000], rate=59541.98/min [400000], rate=60606.06/min [410000], rate=61654.14/min [420000], rate=62686.57/min [430000], rate=62926.83/min [440000], rate=63614.46/min [450000], rate=64903.85/min [460000], rate=66187.05/min [470000], rate=66824.64/min [480000], rate=67447.31/min [490000], rate=68691.59/min [500000], rate=69605.57/min [510000], rate=69863.01/min [520000], rate=70428.89/min [530000], rate=71140.94/min [540000], rate=71840.35/min [550000], rate=72210.07/min [560000], rate=72413.79/min [570000], rate=73548.39/min [580000], rate=74518.20/min [590000], rate=75319.15/min [600000], rate=75949.37/min [610000], rate=76409.19/min [620000], rate=76859.50/min [630000], rate=76985.74/min [640000], rate=77732.79/min [650000], rate=78000.00/min [660000], rate=78571.43/min [670000], rate=79289.94/min [680000], rate=79843.44/min [690000], rate=81017.61/min [700000], rate=81712.06/min [710000], rate=82239.38/min [720000], rate=82600.38/min [730000], rate=82641.51/min [740000], rate=82070.24/min [750000], rate=81521.74/min [760000], rate=81867.15/min [770000], rate=82352.94/min [780000], rate=83126.11/min [790000], rate=83745.58/min [800000], rate=84358.52/min [810000], rate=85113.84/min [820000], rate=85416.67/min [830000], rate=86010.36/min [840000], rate=86153.85/min [850000], rate=87179.49/min [860000], rate=87904.60/min [870000], rate=88474.58/min [880000], rate=88888.89/min [890000], rate=89297.66/min [900000], rate=90000.00/min [910000], rate=91000.00/min [920000], rate=91846.92/min [930000], rate=92691.03/min [940000], rate=93687.71/min [950000], rate=94527.36/min [960000], rate=95206.61/min [970000], rate=95881.38/min [980000], rate=96710.53/min [990000], rate=96900.49/min [1000000], rate=96930.53/min [1010000], rate=96805.11/min [1020000], rate=95924.76/min [1030000], rate=95517.77/min [1040000], rate=95852.53/min [1050000], rate=95599.39/min [1060000], rate=95927.60/min [1070000], rate=95820.90/min [1080000], rate=96142.43/min [1090000], rate=96602.66/min [1100000], rate=96774.19/min [1110000], rate=97226.28/min [1120000], rate=97959.18/min [1130000], rate=98546.51/min [1140000], rate=98986.98/min [1150000], rate=99567.10/min [1160000], rate=100000.00/min [1170000], rate=100429.18/min [1180000], rate=100711.24/min [1190000], rate=100280.90/min [1200000], rate=99173.55/min [1210000], rate=98240.87/min [1220000], rate=97470.04/min [1230000], rate=96596.86/min [1240000], rate=95262.48/min [1250000], rate=93283.58/min [1260000], rate=91304.35/min [1270000], rate=89647.06/min [1280000], rate=88377.45/min [1290000], rate=87162.16/min [1300000], rate=86283.19/min [1310000], rate=85434.78/min [1320000], rate=85161.29/min [1330000], rate=84713.38/min [1340000], rate=83662.85/min [1350000], rate=82484.73/min [1360000], rate=81518.48/min [1370000], rate=80746.56/min [1380000], rate=80077.37/min [1390000], rate=79504.29/min [1400000], rate=78947.37/min [1410000], rate=78624.54/min [1420000], rate=76687.67/min [1430000], rate=75131.35/min [1440000], rate=74675.89/min [1450000], rate=72439.63/min [1460000], rate=70418.01/min [1470000], rate=70055.60/min [1480000], rate=69756.48/min [1490000], rate=69517.88/min [1500000], rate=69284.06/min [1510000], rate=69054.88/min [1520000], rate=68934.24/min [1530000], rate=68712.57/min [1540000], rate=68647.85/min [1550000], rate=68533.53/min [1560000], rate=68321.17/min [1570000], rate=68162.08/min [1580000], rate=68103.45/min [1590000], rate=68094.22/min [1600000], rate=67988.67/min [1610000], rate=67884.75/min [1620000], rate=67735.19/min [1630000], rate=67728.53/min [1640000], rate=67675.38/min [1650000], rate=67530.70/min [1660000], rate=67479.67/min [1670000], rate=67383.99/min [1680000], rate=67334.67/min [1690000], rate=67330.68/min [1700000], rate=67282.32/min [1710000], rate=67190.57/min [1720000], rate=67100.13/min [1730000], rate=67141.01/min [1740000], rate=67052.02/min [1750000], rate=66878.98/min [1760000], rate=66877.77/min [1770000], rate=67003.15/min [1780000], rate=67001.25/min [1790000], rate=66957.61/min [1800000], rate=66914.50/min [1810000], rate=66871.92/min [1820000], rate=66829.87/min [1830000], rate=66828.97/min [1840000], rate=66868.56/min [1850000], rate=66907.78/min [1860000], rate=66986.79/min [1870000], rate=67065.15/min [1880000], rate=67142.86/min [1890000], rate=67180.09/min [1900000], rate=67296.34/min [1910000], rate=67411.76/min [1920000], rate=67486.82/min [1930000], rate=67561.26/min [1940000], rate=67517.40/min [1950000], rate=67010.31/min [1960000], rate=66365.69/min [1970000], rate=65849.58/min [1980000], rate=65382.50/min [1990000], rate=64926.59/min [2000000], rate=64412.24/min [2010000], rate=64046.73/min [2020000], rate=63555.32/min [2030000], rate=62686.57/min [2040000], rate=62417.13/min [2050000], rate=61871.23/min [2060000], rate=61127.60/min [2070000], rate=60320.54/min [2080000], rate=59655.83/min [2090000], rate=58873.24/min [2100000], rate=57957.68/min [2110000], rate=57129.96/min [2120000], rate=56912.75/min [2130000], rate=56800.00/min [2140000], rate=56638.73/min [2150000], rate=56554.14/min [2160000], rate=56445.99/min [2170000], rate=56363.64/min [2180000], rate=56258.06/min [2190000], rate=56177.85/min [2200000], rate=56122.45/min [2210000], rate=56067.65/min [2220000], rate=56013.46/min [2230000], rate=55913.08/min [2240000], rate=55883.58/min [2250000], rate=55854.36/min [2260000], rate=55848.43/min [2270000], rate=55865.46/min [2280000], rate=55882.35/min [2290000], rate=55853.66/min [2300000], rate=55870.45/min [2310000], rate=55819.57/min [2320000], rate=55858.75/min [2330000], rate=55897.64/min [2340000], rate=55913.98/min [2350000], rate=55930.19/min [2360000], rate=55902.09/min [2370000], rate=55918.21/min [2380000], rate=55912.29/min [2390000], rate=55906.43/min [2400000], rate=55857.25/min [2410000], rate=55830.12/min [2420000], rate=55867.64/min [2430000], rate=55904.91/min [2440000], rate=55941.92/min [2450000], rate=55978.67/min [2460000], rate=56015.18/min [2470000], rate=56072.64/min [2480000], rate=56150.94/min [2490000], rate=56228.83/min [2500000], rate=56285.18/min [2510000], 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