Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/61c72f74b3aacfc4b6c39c8be712c9/aih-tih-sc-522d83-R1_B23WHYVLT4_1_2.fastp.fastq.gz Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/58e1678fb32d6f717cbd7dbe4c9b41/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/58e1678fb32d6f717cbd7dbe4c9b41/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/61c72f74b3aacfc4b6c39c8be712c9/aih-tih-sc-522d83-R1_B23WHYVLT4_1_1.fastp.fastq.gz Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/78e926b96b2588440f4adffc6a8a11/aih-tih-sc-522d83-R1_B23WHYVLT4_1.Chimeric.out.junction ==> STAGING COMPLETE (6 inputs) -ctat genome lib [/tmp/nxf.c2Wf9ChgxY/ctat_genome_lib_build_dir] validates. CMD: mkdir -p /tmp/nxf.c2Wf9ChgxY/./_starF_checkpoints CMD: mkdir -p /tmp/nxf.c2Wf9ChgxY/./star-fusion.preliminary -sample contains 294514862 rnaseq fragments * Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.c2Wf9ChgxY/ctat_genome_lib_build_dir -J /tmp/nxf.c2Wf9ChgxY/aih-tih-sc-522d83-R1_B23WHYVLT4_1.Chimeric.out.junction -O /tmp/nxf.c2Wf9ChgxY/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 -parsing fusion evidence: /tmp/nxf.c2Wf9ChgxY/aih-tih-sc-522d83-R1_B23WHYVLT4_1.Chimeric.out.junction -building interval tree based on /tmp/nxf.c2Wf9ChgxY/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu -done building interval tree (0.12 min). -mapping reads to genes [10000], rate=18181.82/min [20000], rate=23529.41/min [30000], rate=27272.73/min [40000], rate=29629.63/min [50000], rate=31914.89/min [60000], rate=33962.26/min [70000], rate=35593.22/min [80000], rate=36641.22/min [90000], rate=38297.87/min [100000], rate=39473.68/min [110000], rate=40490.80/min [120000], rate=41860.47/min [130000], rate=42857.14/min [140000], rate=44210.53/min [150000], rate=45685.28/min [160000], rate=46601.94/min [170000], rate=47441.86/min [180000], rate=48214.29/min [190000], rate=49137.93/min [200000], rate=49792.53/min [210000], rate=50400.00/min [220000], rate=51162.79/min [230000], rate=51879.70/min [240000], rate=52363.64/min [250000], rate=53191.49/min [260000], rate=53979.24/min [270000], rate=54362.42/min [280000], rate=54901.96/min [290000], rate=55414.01/min [300000], rate=56250.00/min [310000], rate=56880.73/min [320000], rate=56804.73/min [330000], rate=55774.65/min [340000], rate=54986.52/min [350000], rate=54263.57/min [360000], rate=51674.64/min [370000], rate=50684.93/min [380000], rate=48822.27/min [390000], rate=45173.75/min [400000], rate=45112.78/min [410000], rate=44404.33/min [420000], rate=44444.44/min [430000], rate=44406.20/min [440000], rate=44295.30/min [450000], rate=44189.85/min [460000], rate=44160.00/min [470000], rate=42598.19/min [480000], rate=41678.73/min [490000], rate=40720.22/min [500000], rate=40816.33/min [510000], rate=40583.55/min [520000], rate=39846.74/min [530000], rate=39799.75/min [540000], rate=39852.40/min [550000], rate=39807.00/min [560000], rate=39857.65/min [570000], rate=40000.00/min [580000], rate=40046.03/min [590000], rate=40045.25/min [600000], rate=38420.49/min [610000], rate=37007.08/min [620000], rate=36399.22/min [630000], rate=36521.74/min [640000], rate=36641.22/min [650000], rate=36757.78/min [660000], rate=36871.51/min [670000], rate=37016.57/min [680000], rate=37158.47/min [690000], rate=37263.73/min [700000], rate=37433.16/min [710000], rate=37632.51/min [720000], rate=37828.37/min [730000], rate=37987.86/min [740000], rate=38209.98/min [750000], rate=38428.69/min [760000], rate=38611.35/min [770000], rate=38856.18/min [780000], rate=39097.74/min [790000], rate=39336.10/min [800000], rate=39538.71/min [810000], rate=39836.07/min [820000], rate=40065.15/min [830000], rate=40323.89/min [840000], rate=40579.71/min [850000], rate=40832.67/min [860000], rate=41050.12/min [870000], rate=41102.36/min [880000], rate=40709.33/min [890000], rate=40332.33/min [900000], rate=39881.83/min [910000], rate=39593.91/min [920000], rate=39176.72/min [930000], rate=38803.89/min [940000], rate=38577.29/min [950000], rate=38203.75/min [960000], rate=37994.72/min [970000], rate=37767.68/min [980000], rate=37619.96/min [990000], rate=37452.71/min [1000000], rate=37336.65/min [1010000], rate=37292.31/min [1020000], rate=37294.33/min [1030000], rate=37228.92/min [1040000], rate=37231.50/min [1050000], rate=37234.04/min [1060000], rate=37280.19/min [1070000], rate=37325.58/min [1080000], rate=37435.01/min [1090000], rate=37521.51/min [1100000], rate=37564.03/min [1110000], rate=37584.65/min [1120000], rate=37689.29/min [1130000], rate=37750.56/min [1140000], rate=37873.75/min [1150000], rate=37953.80/min [1160000], rate=38032.79/min [1170000], rate=38048.78/min [1180000], rate=38105.49/min [1190000], rate=38181.82/min [1200000], rate=38257.17/min [1210000], rate=38372.09/min [1220000], rate=38465.58/min [1230000], rate=38638.74/min [1240000], rate=38810.64/min [1250000], rate=39021.85/min [1260000], rate=39211.62/min [1270000], rate=39379.84/min [1280000], rate=39546.86/min [1290000], rate=39753.47/min [1300000], rate=39918.12/min [1310000], rate=40102.04/min [1320000], rate=40264.36/min [1330000], rate=40446.02/min [1340000], rate=40606.06/min [1350000], rate=40785.50/min [1360000], rate=40943.30/min [1370000], rate=41058.94/min [1380000], rate=41194.03/min [1390000], rate=41287.13/min [1400000], rate=41399.70/min [1410000], rate=41490.93/min [1420000], rate=41601.56/min [1430000], rate=41731.52/min [1440000], rate=41860.47/min [1450000], rate=42028.99/min [1460000], rate=42155.92/min [1470000], rate=42281.88/min [1480000], rate=42427.14/min [1490000], rate=42632.33/min [1500000], rate=42775.67/min [1510000], rate=42897.73/min [1520000], rate=43039.17/min [1530000], rate=43179.68/min [1540000], rate=43137.25/min [1550000], rate=43075.50/min [1560000], rate=42994.95/min [1570000], rate=42896.17/min [1580000], rate=42818.43/min [1590000], rate=42761.09/min [1600000], rate=42704.63/min [1610000], rate=42667.84/min [1620000], rate=42669.01/min [1630000], rate=42688.78/min [1640000], rate=42689.80/min [1650000], rate=42690.82/min [1660000], rate=42691.81/min [1670000], rate=42692.80/min [1680000], rate=42729.97/min [1690000], rate=42766.77/min [1700000], rate=42803.19/min [1710000], rate=42839.25/min [1720000], rate=42892.77/min [1730000], rate=42945.80/min [1740000], rate=43016.07/min [1750000], rate=43068.09/min [1760000], rate=43154.88/min [1770000], rate=43241.04/min [1780000], rate=43326.57/min [1790000], rate=43411.48/min [1800000], rate=43530.83/min [1810000], rate=43631.98/min [1820000], rate=43732.48/min [1830000], rate=43849.84/min [1840000], rate=43966.55/min [1850000], rate=44100.12/min [1860000], rate=44250.59/min [1870000], rate=44382.91/min [1880000], rate=44532.18/min [1890000], rate=44663.25/min [1900000], rate=44811.32/min [1910000], rate=44941.18/min [1920000], rate=45088.06/min [1930000], rate=45234.38/min [1940000], rate=45380.12/min [1950000], rate=45507.58/min [1960000], rate=45634.46/min [1970000], rate=45743.03/min [1980000], rate=45868.73/min [1990000], rate=45958.43/min [2000000], rate=46065.26/min [2010000], rate=46153.85/min [2020000], rate=46224.26/min [2030000], rate=46153.85/min [2040000], rate=46119.07/min [2050000], rate=46084.68/min [2060000], rate=46050.67/min [2070000], rate=46017.04/min [2080000], rate=46000.74/min [2090000], rate=45967.74/min [2100000], rate=45951.86/min [2110000], rate=45969.50/min [2120000], rate=45970.37/min [2130000], rate=45987.77/min [2140000], rate=46005.02/min [2150000], rate=46038.54/min [2160000], rate=46088.19/min [2170000], rate=46137.49/min [2180000], rate=46186.44/min [2190000], rate=46251.32/min [2200000], rate=46234.68/min [2210000], rate=46282.72/min [2220000], rate=46362.69/min [2230000], rate=46426.09/min [2240000], rate=46489.10/min [2250000], rate=46567.78/min [2260000], rate=46629.99/min [2270000], rate=46707.82/min [2280000], rate=46785.23/min [2290000], rate=46878.20/min [2300000], rate=46986.72/min [2310000], rate=47078.80/min [2320000], rate=47154.47/min [2330000], rate=47245.69/min [2340000], rate=47336.48/min [2350000], rate=47426.84/min [2360000], rate=47516.78/min [2370000], rate=47606.29/min [2380000], rate=47695.39/min [2390000], rate=47784.07/min [2400000], rate=47856.43/min [2410000], rate=47864.95/min [2420000], rate=47841.85/min [2430000], rate=47834.65/min [2440000], rate=47843.14/min [2450000], rate=47835.99/min [2460000], rate=47844.41/min [2470000], rate=47868.22/min [2480000], rate=47876.45/min [2490000], rate=47884.62/min [2500000], rate=47908.02/min [2510000], rate=47931.25/min [2520000], rate=47969.54/min [2530000], rate=48022.78/min [2540000], rate=48075.71/min [2550000], rate=48113.21/min [2560000], rate=48165.57/min [2570000], rate=48202.56/min [2580000], rate=48254.36/min [2590000], rate=48305.88/min [2600000], rate=48372.09/min [2610000], rate=48423.01/min [2620000], rate=48473.64/min [2630000], rate=48553.85/min [2640000], rate=48618.78/min [2650000], rate=48683.40/min [2660000], rate=48762.60/min [2670000], rate=48841.46/min [2680000], rate=48934.88/min [2690000], rate=49013.06/min [2700000], rate=49105.79/min [2710000], rate=49183.30/min [2720000], rate=49260.49/min [2730000], rate=49352.21/min [2740000], rate=49428.74/min [2750000], rate=49504.95/min