RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM RAxML-NG was called at 03-Jul-2021 09:37:52 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/2_msa/Q8NEG5_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5 --seed 2 --threads 1 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), NONE/sequential [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/2_msa/Q8NEG5_trimmed_msa.fasta [00:00:00] Loaded alignment with 867 taxa and 56 sites WARNING: Sequences tr_V7C6H3_V7C6H3_PHAVU_3885 and tr_A0A0L9VHN0_A0A0L9VHN0_PHAAN_3914 are exactly identical! WARNING: Sequences tr_V7C6H3_V7C6H3_PHAVU_3885 and tr_A0A1S3USS1_A0A1S3USS1_VIGRR_3916 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0E0HJH8_A0A0E0HJH8_ORYNI_4536 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_B8B191_B8B191_ORYSI_39946 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_I1PYP0_I1PYP0_ORYGL_4538 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0E0DVC2_A0A0E0DVC2_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0E0PSA9_A0A0E0PSA9_ORYRU_4529 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0D3GBQ9_A0A0D3GBQ9_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0E0A3S0_A0A0E0A3S0_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A0E0L6P6_A0A0E0L6P6_ORYPU_4537 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_Q5VME8_Q5VME8_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_C5Z218_C5Z218_SORBI_4558 and tr_A0A2T7E462_A0A2T7E462_9POAL_1504633 are exactly identical! WARNING: Sequences tr_A0A3B3HIC3_A0A3B3HIC3_ORYLA_8090 and tr_G3PV41_G3PV41_GASAC_69293 are exactly identical! WARNING: Sequences tr_A0A3B3HIC3_A0A3B3HIC3_ORYLA_8090 and tr_A0A096LVN9_A0A096LVN9_POEFO_48698 are exactly identical! WARNING: Sequences tr_Q0V0F2_Q0V0F2_PHANO_321614 and tr_E3S2L1_E3S2L1_PYRTT_861557 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_G3QW07_G3QW07_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and sp_Q5RCV8_RNF13_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_H2QNK4_H2QNK4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and sp_O43567_RNF13_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_H9ELX5_H9ELX5_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_F7ITD6_F7ITD6_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_G7NZM7_G7NZM7_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A096MS08_A0A096MS08_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A0D9RGK1_A0A0D9RGK1_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A1S3GBI1_A0A1S3GBI1_DIPOR_10020 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A2K6A6Z9_A0A2K6A6Z9_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A2R9BEY4_A0A2R9BEY4_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A2U3XPC1_A0A2U3XPC1_LEPWE_9713 are exactly identical! WARNING: Sequences tr_G1QSD2_G1QSD2_NOMLE_61853 and tr_A0A2Y9DQL6_A0A2Y9DQL6_TRIMA_127582 are exactly identical! WARNING: Sequences tr_B2W107_B2W107_PYRTR_426418 and tr_A0A317AR60_A0A317AR60_9PLEO_45151 are exactly identical! WARNING: Sequences tr_H2P984_H2P984_PONAB_9601 and tr_H2R6C1_H2R6C1_PANTR_9598 are exactly identical! WARNING: Sequences tr_H2P984_H2P984_PONAB_9601 and sp_Q8NEG5_ZSWM2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2P984_H2P984_PONAB_9601 and tr_A0A2K6BT19_A0A2K6BT19_MACNE_9545 are exactly identical! WARNING: Sequences tr_C1G0S9_C1G0S9_PARBD_502780 and tr_C1H6W6_C1H6W6_PARBA_502779 are exactly identical! WARNING: Sequences tr_G1N5G6_G1N5G6_MELGA_9103 and tr_A0A226MVX9_A0A226MVX9_CALSU_9009 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_F6T2X0_F6T2X0_MONDO_13616 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_H0XBC3_H0XBC3_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_G3TPB5_G3TPB5_LOXAF_9785 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_G3X3P2_G3X3P2_SARHA_9305 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_A0A1U7TGH6_A0A1U7TGH6_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G1SQ84_G1SQ84_RABIT_9986 and tr_A0A2U3W9T0_A0A2U3W9T0_ODORO_9708 are exactly identical! WARNING: Sequences tr_B8NBD4_B8NBD4_ASPFN_332952 and tr_Q2TZW7_Q2TZW7_ASPOR_510516 are exactly identical! WARNING: Sequences tr_B8NBD4_B8NBD4_ASPFN_332952 and tr_A0A0F0I5T5_A0A0F0I5T5_ASPPU_1403190 are exactly identical! WARNING: Sequences tr_B8NBD4_B8NBD4_ASPFN_332952 and tr_A0A1F8A8J1_A0A1F8A8J1_9EURO_109264 are exactly identical! WARNING: Sequences tr_B8NBD4_B8NBD4_ASPFN_332952 and tr_A0A1S9DDC6_A0A1S9DDC6_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_A0A179UUH3_A0A179UUH3_BLAGS_559298 and tr_A0A179U704_A0A179U704_AJEDR_559297 are exactly identical! WARNING: Sequences tr_A0A072TTS2_A0A072TTS2_MEDTR_3880 and tr_G7LD40_G7LD40_MEDTR_3880 are exactly identical! WARNING: Sequences tr_G7K5F2_G7K5F2_MEDTR_3880 and tr_A0A1S2YZF7_A0A1S2YZF7_CICAR_3827 are exactly identical! WARNING: Sequences tr_G7LD34_G7LD34_MEDTR_3880 and tr_G7LD43_G7LD43_MEDTR_3880 are exactly identical! WARNING: Sequences tr_Q4X1K6_Q4X1K6_ASPFU_330879 and tr_A1DGQ2_A1DGQ2_NEOFI_331117 are exactly identical! WARNING: Sequences tr_Q4X1K6_Q4X1K6_ASPFU_330879 and tr_A0A0S7DMR9_A0A0S7DMR9_9EURO_293939 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_F4WV10_F4WV10_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_A0A151WT35_A0A151WT35_9HYME_64791 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_A0A151J1N6_A0A151J1N6_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_A0A195BS18_A0A195BS18_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_A0A195EW65_A0A195EW65_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A158NNT3_A0A158NNT3_ATTCE_12957 and tr_A0A151I7N6_A0A151I7N6_9HYME_456900 are exactly identical! WARNING: Sequences tr_J3LXS7_J3LXS7_ORYBR_4533 and tr_A0A0D9W4V0_A0A0D9W4V0_9ORYZ_77586 are exactly identical! WARNING: Sequences sp_Q8GT75_NIP1_ARATH_3702 and tr_D7MBS4_D7MBS4_ARALL_81972 are exactly identical! WARNING: Sequences tr_A0A0E0FFW3_A0A0E0FFW3_ORYNI_4536 and tr_A0A0E0EZ67_A0A0E0EZ67_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0FFW3_A0A0E0FFW3_ORYNI_4536 and tr_A0A0E0R0M7_A0A0E0R0M7_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0FFW3_A0A0E0FFW3_ORYNI_4536 and tr_A0A0E0BBZ6_A0A0E0BBZ6_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0FFW3_A0A0E0FFW3_ORYNI_4536 and tr_A0A0E0M912_A0A0E0M912_ORYPU_4537 are exactly identical! WARNING: Sequences tr_A0A0E0FFW3_A0A0E0FFW3_ORYNI_4536 and tr_Q7XD81_Q7XD81_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0GBF2_A0A0E0GBF2_ORYNI_4536 and tr_A0A0E0NJC8_A0A0E0NJC8_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0GBF2_A0A0E0GBF2_ORYNI_4536 and tr_A0A0E0K3Q8_A0A0E0K3Q8_ORYPU_4537 are exactly identical! WARNING: Sequences tr_A0A0E0GBF2_A0A0E0GBF2_ORYNI_4536 and tr_Q6ZHC6_Q6ZHC6_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0GLS6_A0A0E0GLS6_ORYNI_4536 and tr_A2XG70_A2XG70_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0GLS6_A0A0E0GLS6_ORYNI_4536 and tr_A0A0E0NUF1_A0A0E0NUF1_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0GLS6_A0A0E0GLS6_ORYNI_4536 and tr_A0A0D9Z6M0_A0A0D9Z6M0_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0GLS6_A0A0E0GLS6_ORYNI_4536 and tr_Q10M33_Q10M33_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_A2XR03_A2XR03_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_I1PJL7_I1PJL7_ORYGL_4538 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_A0A0E0DBR5_A0A0E0DBR5_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_A0A0E0P6A8_A0A0E0P6A8_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_A0A0D3FTC8_A0A0D3FTC8_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_A0A0D9ZHS7_A0A0D9ZHS7_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0GY33_A0A0E0GY33_ORYNI_4536 and tr_Q7XT61_Q7XT61_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_A2YA79_A2YA79_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_I1Q090_I1Q090_ORYGL_4538 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_A0A0E0DY93_A0A0E0DY93_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_A0A0E0PUK3_A0A0E0PUK3_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_A0A0D3GDQ9_A0A0D3GDQ9_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_A0A0E0A666_A0A0E0A666_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0HM21_A0A0E0HM21_ORYNI_4536 and tr_B7EH89_B7EH89_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0HMM0_A0A0E0HMM0_ORYNI_4536 and tr_A0A0E0PUZ1_A0A0E0PUZ1_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0HMM0_A0A0E0HMM0_ORYNI_4536 and tr_A0A0E0A6M1_A0A0E0A6M1_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_F6XH39_F6XH39_MACMU_9544 and tr_G7PL01_G7PL01_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6XH39_F6XH39_MACMU_9544 and tr_A0A096N942_A0A096N942_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6XH39_F6XH39_MACMU_9544 and tr_A0A0D9RJ81_A0A0D9RJ81_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F6XH39_F6XH39_MACMU_9544 and tr_A0A2K5MP93_A0A2K5MP93_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2K2B4Z6_A0A2K2B4Z6_POPTR_3694 and tr_A0A3N7E9A7_A0A3N7E9A7_POPTR_3694 are exactly identical! WARNING: Sequences tr_G5BH51_G5BH51_HETGA_10181 and tr_A0A091DQP9_A0A091DQP9_FUKDA_885580 are exactly identical! WARNING: Sequences tr_A2Y495_A2Y495_ORYSI_39946 and tr_A0A0E0L227_A0A0E0L227_ORYPU_4537 are exactly identical! WARNING: Sequences tr_G9MM29_G9MM29_HYPVG_413071 and tr_A0A0F9XSI4_A0A0F9XSI4_TRIHA_5544 are exactly identical! WARNING: Sequences tr_G9MM29_G9MM29_HYPVG_413071 and tr_A0A2T4AIG8_A0A2T4AIG8_TRIHA_983964 are exactly identical! WARNING: Sequences tr_I1PAW6_I1PAW6_ORYGL_4538 and tr_A0A0D3FHY2_A0A0D3FHY2_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_I1PL66_I1PL66_ORYGL_4538 and tr_A0A0E0DE43_A0A0E0DE43_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_I1PL66_I1PL66_ORYGL_4538 and tr_A0A0D3FVS6_A0A0D3FVS6_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_I1PL66_I1PL66_ORYGL_4538 and tr_A0A0D9ZKN5_A0A0D9ZKN5_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_I1PL66_I1PL66_ORYGL_4538 and tr_A0A0P0WAF2_A0A0P0WAF2_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0RCW8_A0A0E0RCW8_ORYRU_4529 and tr_Q2QYK7_Q2QYK7_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_F6XDB6_F6XDB6_XENTR_8364 and tr_A0A1L8G494_A0A1L8G494_XENLA_8355 are exactly identical! WARNING: Sequences tr_F6XDB6_F6XDB6_XENTR_8364 and tr_Q6P414_Q6P414_XENLA_8355 are exactly identical! WARNING: Sequences tr_K7K3Z9_K7K3Z9_SOYBN_3847 and tr_A0A0L9USB9_A0A0L9USB9_PHAAN_3914 are exactly identical! WARNING: Sequences tr_K7K3Z9_K7K3Z9_SOYBN_3847 and tr_A0A1S3VT89_A0A1S3VT89_VIGRR_3916 are exactly identical! WARNING: Sequences tr_K7K3Z9_K7K3Z9_SOYBN_3847 and tr_A0A3Q0EIW6_A0A3Q0EIW6_VIGRR_3916 are exactly identical! WARNING: Sequences tr_B3RQQ4_B3RQQ4_TRIAD_10228 and tr_A0A369RVB9_A0A369RVB9_9METZ_287889 are exactly identical! WARNING: Sequences tr_A0A287FKZ9_A0A287FKZ9_HORVV_112509 and tr_A0A3B5YYI8_A0A3B5YYI8_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A287FKZ9_A0A287FKZ9_HORVV_112509 and tr_A0A3B5ZVV8_A0A3B5ZVV8_WHEAT_4565 are exactly identical! WARNING: Sequences tr_F2DFY9_F2DFY9_HORVV_112509 and tr_A0A3B6JIE2_A0A3B6JIE2_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M4CV30_M4CV30_BRARP_51351 and tr_A0A078IDP9_A0A078IDP9_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4DMJ7_M4DMJ7_BRARP_51351 and tr_A0A078ICW1_A0A078ICW1_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4E8H9_M4E8H9_BRARP_51351 and tr_A0A078HPU6_A0A078HPU6_BRANA_3708 are exactly identical! WARNING: Sequences tr_S2JIE3_S2JIE3_MUCC1_1220926 and tr_A0A0C9MXQ9_A0A0C9MXQ9_9FUNG_91626 are exactly identical! WARNING: Sequences tr_S2JIE3_S2JIE3_MUCC1_1220926 and tr_A0A0B7N3B4_A0A0B7N3B4_9FUNG_35722 are exactly identical! WARNING: Sequences tr_M7YD20_M7YD20_TRIUA_4572 and tr_A0A3B6HVX0_A0A3B6HVX0_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M7ZUE0_M7ZUE0_TRIUA_4572 and tr_A0A3B5Y022_A0A3B5Y022_WHEAT_4565 are exactly identical! WARNING: Sequences tr_W2R565_W2R565_PHYPN_761204 and tr_A0A0W8D2M4_A0A0W8D2M4_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2R565_W2R565_PHYPN_761204 and tr_W2KJP9_W2KJP9_PHYPR_4792 are exactly identical! WARNING: Sequences tr_A0A3B5Y281_A0A3B5Y281_WHEAT_4565 and tr_A0A3B5YZL0_A0A3B5YZL0_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B5Y281_A0A3B5Y281_WHEAT_4565 and tr_A0A3B5ZX63_A0A3B5ZX63_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6ARX5_A0A3B6ARX5_WHEAT_4565 and tr_A0A3B6D5J2_A0A3B6D5J2_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6AYR1_A0A3B6AYR1_WHEAT_4565 and tr_A0A3B6C795_A0A3B6C795_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6AYR1_A0A3B6AYR1_WHEAT_4565 and tr_A0A3B6DE77_A0A3B6DE77_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6NS82_A0A3B6NS82_WHEAT_4565 and tr_A0A3B6QJE9_A0A3B6QJE9_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6SPF2_A0A3B6SPF2_WHEAT_4565 and tr_A0A3B6TUB7_A0A3B6TUB7_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A015IC27_A0A015IC27_9GLOM_1432141 and tr_A0A2I1GNZ5_A0A2I1GNZ5_9GLOM_588596 are exactly identical! WARNING: Sequences tr_A0A015IC27_A0A015IC27_9GLOM_1432141 and tr_A0A2H5SSM0_A0A2H5SSM0_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A015JK86_A0A015JK86_9GLOM_1432141 and tr_A0A2H5SMM8_A0A2H5SMM8_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A061E0V2_A0A061E0V2_THECC_3641 and tr_A0A0D2SAT3_A0A0D2SAT3_GOSRA_29730 are exactly identical! WARNING: Sequences tr_A0A061E0V2_A0A061E0V2_THECC_3641 and tr_A0A1U8L283_A0A1U8L283_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A067DKX9_A0A067DKX9_CITSI_2711 and tr_V4SZ83_V4SZ83_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A067DZX3_A0A067DZX3_CITSI_2711 and tr_V4SR01_V4SR01_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A067ERC3_A0A067ERC3_CITSI_2711 and tr_V4SSD1_V4SSD1_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A074ZG25_A0A074ZG25_9PEZI_1043005 and tr_A0A074XK94_A0A074XK94_AURPU_1043002 are exactly identical! WARNING: Sequences tr_V4TJZ0_V4TJZ0_9ROSI_85681 and tr_A0A2H5N9L2_A0A2H5N9L2_CITUN_55188 are exactly identical! WARNING: Sequences tr_A0A0D2N2E2_A0A0D2N2E2_GOSRA_29730 and tr_A0A1U8P985_A0A1U8P985_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2PDN8_A0A0D2PDN8_GOSRA_29730 and tr_A0A1U8IUV6_A0A1U8IUV6_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2PDN8_A0A0D2PDN8_GOSRA_29730 and tr_A0A1U8IZY0_A0A1U8IZY0_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2PDN8_A0A0D2PDN8_GOSRA_29730 and tr_A0A1U8LUP2_A0A1U8LUP2_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2QQ11_A0A0D2QQ11_GOSRA_29730 and tr_A0A1U8JF36_A0A1U8JF36_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2QQ11_A0A0D2QQ11_GOSRA_29730 and tr_A0A1U8PDX4_A0A1U8PDX4_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0A1NTP4_A0A0A1NTP4_9FUNG_58291 and tr_A0A0A1P7P4_A0A0A1P7P4_9FUNG_58291 are exactly identical! WARNING: Sequences tr_A0A0A1NTP4_A0A0A1NTP4_9FUNG_58291 and tr_A0A367K0F7_A0A367K0F7_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0A1PBD2_A0A0A1PBD2_9FUNG_58291 and tr_A0A2G4SWD6_A0A2G4SWD6_9FUNG_1340429 are exactly identical! WARNING: Sequences tr_A0A0A1PBD2_A0A0A1PBD2_9FUNG_58291 and tr_A0A367J3M1_A0A367J3M1_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0L9TNA0_A0A0L9TNA0_PHAAN_3914 and tr_A0A1S3UX88_A0A1S3UX88_VIGRR_3916 are exactly identical! WARNING: Sequences tr_A0A0C9M510_A0A0C9M510_9FUNG_91626 and tr_A0A162MR24_A0A162MR24_MUCCL_747725 are exactly identical! WARNING: Sequences tr_A0A2P4ZNN2_A0A2P4ZNN2_9HYPO_398673 and tr_A0A2T3ZF86_A0A2T3ZF86_9HYPO_1042311 are exactly identical! WARNING: Sequences tr_I1R9Z9_I1R9Z9_GIBZE_229533 and tr_A0A2T4HBD0_A0A2T4HBD0_FUSCU_5516 are exactly identical! WARNING: Sequences tr_A0A194WC74_A0A194WC74_9PEZI_105487 and tr_A0A194V9H9_A0A194V9H9_9PEZI_694573 are exactly identical! WARNING: Sequences tr_A0A1S3XSM7_A0A1S3XSM7_TOBAC_4097 and tr_A0A1S4A7E7_A0A1S4A7E7_TOBAC_4097 are exactly identical! WARNING: Sequences tr_A0A1S3XSM7_A0A1S3XSM7_TOBAC_4097 and tr_A0A1J6JS45_A0A1J6JS45_NICAT_49451 are exactly identical! WARNING: Sequences tr_A0A1S3XSM7_A0A1S3XSM7_TOBAC_4097 and tr_A0A1U7W449_A0A1U7W449_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S4B1L8_A0A1S4B1L8_TOBAC_4097 and tr_A0A1U7XM44_A0A1U7XM44_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S3JZY7_A0A1S3JZY7_LINUN_7574 and tr_A0A1S3K079_A0A1S3K079_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A1B8B0W2_A0A1B8B0W2_FUSPO_36050 and tr_A0A2L2T352_A0A2L2T352_9HYPO_56646 are exactly identical! WARNING: Sequences tr_A0A1L9UJG5_A0A1L9UJG5_9EURO_767769 and tr_A0A318ZUF7_A0A318ZUF7_9EURO_1450539 are exactly identical! WARNING: Sequences tr_A0A1L9UJG5_A0A1L9UJG5_9EURO_767769 and tr_A0A395HB74_A0A395HB74_9EURO_1448316 are exactly identical! WARNING: Sequences tr_A0A1U8M809_A0A1U8M809_GOSHI_3635 and tr_A0A1U8MUD2_A0A1U8MUD2_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A1V8V3L7_A0A1V8V3L7_9PEZI_1974281 and tr_A0A1V8V4Y3_A0A1V8V4Y3_9PEZI_1974281 are exactly identical! WARNING: Sequences tr_A0A1V8V3L7_A0A1V8V3L7_9PEZI_1974281 and tr_A0A1V8TGG4_A0A1V8TGG4_9PEZI_1507870 are exactly identical! WARNING: Sequences tr_A0A2H5Q4K9_A0A2H5Q4K9_CITUN_55188 and tr_A0A2H5Q4T2_A0A2H5Q4T2_CITUN_55188 are exactly identical! WARNING: Sequences tr_A0A2G4SLA8_A0A2G4SLA8_9FUNG_1340429 and tr_A0A367JKS3_A0A367JKS3_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A2U1KYA3_A0A2U1KYA3_ARTAN_35608 and tr_A0A2U1MDX2_A0A2U1MDX2_ARTAN_35608 are exactly identical! WARNING: Duplicate sequences found: 166 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.reduced.phy Alignment comprises 1 partitions and 56 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 56 / 56 Gaps: 2.11 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 867 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 56 / 4480 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -89574.068599] Initial branch length optimization [00:00:01 -75881.005791] Model parameter optimization (eps = 10.000000) [00:00:14 -75749.213659] AUTODETECT spr round 1 (radius: 5) [00:01:08 -57897.241869] AUTODETECT spr round 2 (radius: 10) [00:02:10 -46624.472468] AUTODETECT spr round 3 (radius: 15) [00:03:20 -40395.893102] AUTODETECT spr round 4 (radius: 20) [00:04:45 -34760.745033] AUTODETECT spr round 5 (radius: 25) [00:06:08 -33701.262592] SPR radius for FAST iterations: 25 (autodetect) [00:06:08 -33701.262592] Model parameter optimization (eps = 3.000000) [00:06:21 -33591.191039] FAST spr round 1 (radius: 25) [00:07:34 -28189.894892] FAST spr round 2 (radius: 25) [00:08:32 -27520.690419] FAST spr round 3 (radius: 25) [00:09:23 -27228.524887] FAST spr round 4 (radius: 25) [00:10:12 -27201.299981] FAST spr round 5 (radius: 25) [00:10:57 -27197.909564] FAST spr round 6 (radius: 25) [00:11:42 -27197.909308] Model parameter optimization (eps = 1.000000) [00:11:46 -27195.485228] SLOW spr round 1 (radius: 5) [00:12:42 -27184.908540] SLOW spr round 2 (radius: 5) [00:13:38 -27181.614370] SLOW spr round 3 (radius: 5) [00:14:33 -27179.530820] SLOW spr round 4 (radius: 5) [00:15:28 -27179.286736] SLOW spr round 5 (radius: 5) [00:16:21 -27179.285386] SLOW spr round 6 (radius: 10) [00:17:15 -27178.030530] SLOW spr round 7 (radius: 5) [00:18:18 -27178.030406] SLOW spr round 8 (radius: 10) [00:19:14 -27178.030368] SLOW spr round 9 (radius: 15) [00:20:24 -27176.821089] SLOW spr round 10 (radius: 5) [00:21:29 -27176.818818] SLOW spr round 11 (radius: 10) [00:22:27 -27176.818246] SLOW spr round 12 (radius: 15) [00:23:36 -27176.818077] SLOW spr round 13 (radius: 20) [00:24:57 -27170.986976] SLOW spr round 14 (radius: 5) [00:26:04 -27167.727659] SLOW spr round 15 (radius: 5) [00:27:05 -27166.794162] SLOW spr round 16 (radius: 5) [00:28:02 -27165.175804] SLOW spr round 17 (radius: 5) [00:28:58 -27164.757325] SLOW spr round 18 (radius: 5) [00:29:52 -27164.756923] SLOW spr round 19 (radius: 10) [00:30:46 -27162.752770] SLOW spr round 20 (radius: 5) [00:31:50 -27160.072999] SLOW spr round 21 (radius: 5) [00:32:49 -27160.072951] SLOW spr round 22 (radius: 10) [00:33:43 -27159.448546] SLOW spr round 23 (radius: 5) [00:34:47 -27159.023406] SLOW spr round 24 (radius: 5) [00:35:45 -27159.023019] SLOW spr round 25 (radius: 10) [00:36:39 -27159.022982] SLOW spr round 26 (radius: 15) [00:37:49 -27158.410821] SLOW spr round 27 (radius: 5) [00:38:54 -27156.803230] SLOW spr round 28 (radius: 5) [00:39:54 -27156.802811] SLOW spr round 29 (radius: 10) [00:40:49 -27156.802760] SLOW spr round 30 (radius: 15) [00:41:58 -27156.802752] SLOW spr round 31 (radius: 20) [00:43:14 -27155.713353] SLOW spr round 32 (radius: 5) [00:44:20 -27154.843947] SLOW spr round 33 (radius: 5) [00:45:20 -27148.350218] SLOW spr round 34 (radius: 5) [00:46:17 -27148.350203] SLOW spr round 35 (radius: 10) [00:47:11 -27148.350203] SLOW spr round 36 (radius: 15) [00:48:21 -27148.350203] SLOW spr round 37 (radius: 20) [00:49:38 -27148.350203] SLOW spr round 38 (radius: 25) [00:51:08 -27142.085641] SLOW spr round 39 (radius: 5) [00:52:15 -27060.541989] SLOW spr round 40 (radius: 5) [00:53:17 -26998.978069] SLOW spr round 41 (radius: 5) [00:54:14 -26975.551252] SLOW spr round 42 (radius: 5) [00:55:06 -26974.339036] SLOW spr round 43 (radius: 5) [00:55:58 -26974.339035] SLOW spr round 44 (radius: 10) [00:56:51 -26974.339035] SLOW spr round 45 (radius: 15) [00:58:02 -26974.339035] SLOW spr round 46 (radius: 20) [00:59:22 -26974.339035] SLOW spr round 47 (radius: 25) [01:00:49 -26974.339035] Model parameter optimization (eps = 0.100000) [01:00:54] ML tree search #1, logLikelihood: -26974.148315 [01:00:54 -89131.808944] Initial branch length optimization [01:00:55 -75435.927366] Model parameter optimization (eps = 10.000000) [01:01:09 -75348.742574] AUTODETECT spr round 1 (radius: 5) [01:02:02 -58087.068369] AUTODETECT spr round 2 (radius: 10) [01:03:00 -46709.104794] AUTODETECT spr round 3 (radius: 15) [01:04:11 -40813.175709] AUTODETECT spr round 4 (radius: 20) [01:05:34 -38159.809307] AUTODETECT spr round 5 (radius: 25) [01:07:04 -34374.565174] SPR radius for FAST iterations: 25 (autodetect) [01:07:04 -34374.565174] Model parameter optimization (eps = 3.000000) [01:07:14 -34316.304973] FAST spr round 1 (radius: 25) [01:08:31 -28986.047051] FAST spr round 2 (radius: 25) [01:09:33 -28007.650596] FAST spr round 3 (radius: 25) [01:10:22 -27292.612440] FAST spr round 4 (radius: 25) [01:11:07 -27132.794723] FAST spr round 5 (radius: 25) [01:11:50 -27124.846841] FAST spr round 6 (radius: 25) [01:12:33 -27121.683367] FAST spr round 7 (radius: 25) [01:13:14 -27121.103512] FAST spr round 8 (radius: 25) [01:13:54 -27121.103103] Model parameter optimization (eps = 1.000000) [01:14:01 -27119.866322] SLOW spr round 1 (radius: 5) [01:14:53 -27109.506636] SLOW spr round 2 (radius: 5) [01:15:44 -27103.983878] SLOW spr round 3 (radius: 5) [01:16:34 -27100.616091] SLOW spr round 4 (radius: 5) [01:17:23 -27100.615851] SLOW spr round 5 (radius: 10) [01:18:13 -27100.358597] SLOW spr round 6 (radius: 5) [01:19:13 -27100.358020] SLOW spr round 7 (radius: 10) [01:20:07 -27100.357887] SLOW spr round 8 (radius: 15) [01:21:22 -27099.813151] SLOW spr round 9 (radius: 5) [01:22:23 -27099.813067] SLOW spr round 10 (radius: 10) [01:23:19 -27099.813064] SLOW spr round 11 (radius: 15) [01:24:33 -27099.813060] SLOW spr round 12 (radius: 20) [01:26:11 -27097.507645] SLOW spr round 13 (radius: 5) [01:27:15 -27096.844256] SLOW spr round 14 (radius: 5) [01:28:11 -27096.833407] SLOW spr round 15 (radius: 10) [01:29:03 -27096.832816] SLOW spr round 16 (radius: 15) [01:30:19 -27096.832718] SLOW spr round 17 (radius: 20) [01:31:56 -27096.140335] SLOW spr round 18 (radius: 5) [01:32:59 -27095.026768] SLOW spr round 19 (radius: 5) [01:33:55 -27095.026529] SLOW spr round 20 (radius: 10) [01:34:48 -27093.415773] SLOW spr round 21 (radius: 5) [01:35:48 -27093.241579] SLOW spr round 22 (radius: 5) [01:36:42 -27093.240898] SLOW spr round 23 (radius: 10) [01:37:33 -27093.240822] SLOW spr round 24 (radius: 15) [01:38:51 -27093.240811] SLOW spr round 25 (radius: 20) [01:40:28 -27093.240809] SLOW spr round 26 (radius: 25) [01:42:21 -27093.240809] Model parameter optimization (eps = 0.100000) [01:42:24] ML tree search #2, logLikelihood: -27093.177276 [01:42:24 -89569.253247] Initial branch length optimization [01:42:25 -75772.126398] Model parameter optimization (eps = 10.000000) [01:42:38 -75685.556687] AUTODETECT spr round 1 (radius: 5) [01:43:29 -58407.695238] AUTODETECT spr round 2 (radius: 10) [01:44:30 -45495.089113] AUTODETECT spr round 3 (radius: 15) [01:45:41 -38046.976223] AUTODETECT spr round 4 (radius: 20) [01:47:01 -34241.997500] AUTODETECT spr round 5 (radius: 25) [01:48:29 -33321.956025] SPR radius for FAST iterations: 25 (autodetect) [01:48:29 -33321.956025] Model parameter optimization (eps = 3.000000) [01:48:39 -33269.219668] FAST spr round 1 (radius: 25) [01:49:47 -28391.293312] FAST spr round 2 (radius: 25) [01:50:40 -28164.767276] FAST spr round 3 (radius: 25) [01:51:28 -28127.542135] FAST spr round 4 (radius: 25) [01:52:14 -27868.198703] FAST spr round 5 (radius: 25) [01:53:00 -27786.763503] FAST spr round 6 (radius: 25) [01:53:43 -27780.951920] FAST spr round 7 (radius: 25) [01:54:25 -27780.474288] FAST spr round 8 (radius: 25) [01:55:06 -27780.473358] Model parameter optimization (eps = 1.000000) [01:55:12 -27778.545563] SLOW spr round 1 (radius: 5) [01:56:05 -27767.131774] SLOW spr round 2 (radius: 5) [01:56:57 -27759.917539] SLOW spr round 3 (radius: 5) [01:57:50 -27753.768103] SLOW spr round 4 (radius: 5) [01:58:41 -27751.762660] SLOW spr round 5 (radius: 5) [01:59:32 -27751.760389] SLOW spr round 6 (radius: 10) [02:00:23 -27745.216654] SLOW spr round 7 (radius: 5) [02:01:25 -27741.486529] SLOW spr round 8 (radius: 5) [02:02:22 -27739.847198] SLOW spr round 9 (radius: 5) [02:03:14 -27739.654274] SLOW spr round 10 (radius: 5) [02:04:05 -27739.652175] SLOW spr round 11 (radius: 10) [02:04:55 -27739.086265] SLOW spr round 12 (radius: 5) [02:05:55 -27739.085044] SLOW spr round 13 (radius: 10) [02:06:50 -27739.085023] SLOW spr round 14 (radius: 15) [02:08:00 -27739.085022] SLOW spr round 15 (radius: 20) [02:09:26 -27735.754335] SLOW spr round 16 (radius: 5) [02:10:29 -27735.681018] SLOW spr round 17 (radius: 10) [02:11:25 -27735.680700] SLOW spr round 18 (radius: 15) [02:12:35 -27734.867247] SLOW spr round 19 (radius: 5) [02:13:37 -27732.041854] SLOW spr round 20 (radius: 5) [02:14:33 -27732.041332] SLOW spr round 21 (radius: 10) [02:15:25 -27732.041323] SLOW spr round 22 (radius: 15) [02:16:36 -27732.041322] SLOW spr round 23 (radius: 20) [02:18:03 -27615.605344] SLOW spr round 24 (radius: 5) [02:19:09 -27547.418469] SLOW spr round 25 (radius: 5) [02:20:06 -27536.776171] SLOW spr round 26 (radius: 5) [02:20:59 -27536.147502] SLOW spr round 27 (radius: 5) [02:21:50 -27536.146878] SLOW spr round 28 (radius: 10) [02:22:43 -27477.044740] SLOW spr round 29 (radius: 5) [02:23:44 -27464.913763] SLOW spr round 30 (radius: 5) [02:24:39 -27464.653882] SLOW spr round 31 (radius: 5) [02:25:30 -27462.237399] SLOW spr round 32 (radius: 5) [02:26:22 -27462.033759] SLOW spr round 33 (radius: 5) [02:27:12 -27462.033682] SLOW spr round 34 (radius: 10) [02:28:02 -27462.033669] SLOW spr round 35 (radius: 15) [02:29:16 -27456.278478] SLOW spr round 36 (radius: 5) [02:30:18 -27455.780794] SLOW spr round 37 (radius: 5) [02:31:13 -27455.779375] SLOW spr round 38 (radius: 10) [02:32:05 -27453.886440] SLOW spr round 39 (radius: 5) [02:33:06 -27452.974321] SLOW spr round 40 (radius: 5) [02:34:00 -27452.972423] SLOW spr round 41 (radius: 10) [02:34:51 -27452.972199] SLOW spr round 42 (radius: 15) [02:36:03 -27451.182527] SLOW spr round 43 (radius: 5) [02:37:06 -27442.891829] SLOW spr round 44 (radius: 5) [02:38:01 -27442.890794] SLOW spr round 45 (radius: 10) [02:38:54 -27405.679276] SLOW spr round 46 (radius: 5) [02:39:55 -27404.765307] SLOW spr round 47 (radius: 5) [02:40:52 -27400.151878] SLOW spr round 48 (radius: 5) [02:41:46 -27400.124996] SLOW spr round 49 (radius: 10) [02:42:39 -27387.784640] SLOW spr round 50 (radius: 5) [02:43:44 -27323.978786] SLOW spr round 51 (radius: 5) [02:44:42 -27321.816684] SLOW spr round 52 (radius: 5) [02:45:36 -27320.986669] SLOW spr round 53 (radius: 5) [02:46:28 -27320.971764] SLOW spr round 54 (radius: 10) [02:47:21 -27318.814263] SLOW spr round 55 (radius: 5) [02:48:22 -27318.611593] SLOW spr round 56 (radius: 5) [02:49:19 -27318.611528] SLOW spr round 57 (radius: 10) [02:50:11 -27318.611525] SLOW spr round 58 (radius: 15) [02:51:27 -27299.727329] SLOW spr round 59 (radius: 5) [02:52:31 -27248.001392] SLOW spr round 60 (radius: 5) [02:53:29 -27242.282856] SLOW spr round 61 (radius: 5) [02:54:22 -27242.282500] SLOW spr round 62 (radius: 10) [02:55:14 -27242.282463] SLOW spr round 63 (radius: 15) [02:56:31 -27231.639783] SLOW spr round 64 (radius: 5) [02:57:37 -27044.677988] SLOW spr round 65 (radius: 5) [02:58:35 -27030.442393] SLOW spr round 66 (radius: 5) [02:59:29 -27030.441557] SLOW spr round 67 (radius: 10) [03:00:22 -27029.861533] SLOW spr round 68 (radius: 5) [03:01:23 -27029.861519] SLOW spr round 69 (radius: 10) [03:02:18 -27029.861519] SLOW spr round 70 (radius: 15) [03:03:33 -26981.361672] SLOW spr round 71 (radius: 5) [03:04:38 -26927.292528] SLOW spr round 72 (radius: 5) [03:05:36 -26925.276311] SLOW spr round 73 (radius: 5) [03:06:29 -26925.275942] SLOW spr round 74 (radius: 10) [03:07:19 -26924.771193] SLOW spr round 75 (radius: 5) [03:08:19 -26924.739913] SLOW spr round 76 (radius: 10) [03:09:13 -26924.739857] SLOW spr round 77 (radius: 15) [03:10:25 -26924.739857] SLOW spr round 78 (radius: 20) [03:12:00 -26924.429056] SLOW spr round 79 (radius: 5) [03:13:03 -26924.357643] SLOW spr round 80 (radius: 10) [03:13:59 -26924.357643] SLOW spr round 81 (radius: 15) [03:15:10 -26924.357643] SLOW spr round 82 (radius: 20) [03:16:45 -26924.357643] SLOW spr round 83 (radius: 25) [03:18:35 -26921.988479] SLOW spr round 84 (radius: 5) [03:19:38 -26921.481760] SLOW spr round 85 (radius: 5) [03:20:34 -26921.480579] SLOW spr round 86 (radius: 10) [03:21:26 -26921.480494] SLOW spr round 87 (radius: 15) [03:22:39 -26921.480490] SLOW spr round 88 (radius: 20) [03:24:13 -26921.480490] SLOW spr round 89 (radius: 25) [03:26:03 -26921.480490] Model parameter optimization (eps = 0.100000) [03:26:08] ML tree search #3, logLikelihood: -26920.888725 [03:26:08 -88715.618874] Initial branch length optimization [03:26:09 -74978.466431] Model parameter optimization (eps = 10.000000) [03:26:20 -74892.661762] AUTODETECT spr round 1 (radius: 5) [03:27:11 -58320.015263] AUTODETECT spr round 2 (radius: 10) [03:28:10 -46329.912884] AUTODETECT spr round 3 (radius: 15) [03:29:18 -39878.534486] AUTODETECT spr round 4 (radius: 20) [03:30:44 -36507.512704] AUTODETECT spr round 5 (radius: 25) [03:32:07 -35469.384137] SPR radius for FAST iterations: 25 (autodetect) [03:32:07 -35469.384137] Model parameter optimization (eps = 3.000000) [03:32:17 -35431.070303] FAST spr round 1 (radius: 25) [03:33:33 -29073.902891] FAST spr round 2 (radius: 25) [03:34:30 -27826.355876] FAST spr round 3 (radius: 25) [03:35:18 -27347.170948] FAST spr round 4 (radius: 25) [03:36:03 -27253.126629] FAST spr round 5 (radius: 25) [03:36:48 -27244.268476] FAST spr round 6 (radius: 25) [03:37:30 -27242.102018] FAST spr round 7 (radius: 25) [03:38:12 -27242.100764] Model parameter optimization (eps = 1.000000) [03:38:18 -27239.054739] SLOW spr round 1 (radius: 5) [03:39:11 -27232.262172] SLOW spr round 2 (radius: 5) [03:40:03 -27231.626643] SLOW spr round 3 (radius: 5) [03:40:53 -27231.626223] SLOW spr round 4 (radius: 10) [03:41:44 -27231.444520] SLOW spr round 5 (radius: 5) [03:42:44 -27231.443220] SLOW spr round 6 (radius: 10) [03:43:39 -27231.443082] SLOW spr round 7 (radius: 15) [03:44:51 -27230.420079] SLOW spr round 8 (radius: 5) [03:45:53 -27230.417962] SLOW spr round 9 (radius: 10) [03:46:49 -27227.409988] SLOW spr round 10 (radius: 5) [03:47:48 -27227.252510] SLOW spr round 11 (radius: 5) [03:48:42 -27227.250954] SLOW spr round 12 (radius: 10) [03:49:33 -27227.250114] SLOW spr round 13 (radius: 15) [03:50:47 -27227.249662] SLOW spr round 14 (radius: 20) [03:52:21 -27226.343123] SLOW spr round 15 (radius: 5) [03:53:24 -27225.223562] SLOW spr round 16 (radius: 5) [03:54:19 -27225.223536] SLOW spr round 17 (radius: 10) [03:55:11 -27225.223535] SLOW spr round 18 (radius: 15) [03:56:25 -27225.223535] SLOW spr round 19 (radius: 20) [03:57:59 -27224.150553] SLOW spr round 20 (radius: 5) [03:59:01 -27223.898574] SLOW spr round 21 (radius: 5) [03:59:57 -27223.435965] SLOW spr round 22 (radius: 5) [04:00:50 -27223.435155] SLOW spr round 23 (radius: 10) [04:01:41 -27223.435115] SLOW spr round 24 (radius: 15) [04:02:56 -27223.435112] SLOW spr round 25 (radius: 20) [04:04:31 -27221.651633] SLOW spr round 26 (radius: 5) [04:05:33 -27221.648649] SLOW spr round 27 (radius: 10) [04:06:30 -27221.648578] SLOW spr round 28 (radius: 15) [04:07:41 -27221.648575] SLOW spr round 29 (radius: 20) [04:09:17 -27221.648575] SLOW spr round 30 (radius: 25) [04:11:07 -27208.196014] SLOW spr round 31 (radius: 5) [04:12:12 -27170.021195] SLOW spr round 32 (radius: 5) [04:13:08 -27169.996596] SLOW spr round 33 (radius: 10) [04:14:01 -27169.632977] SLOW spr round 34 (radius: 5) [04:15:01 -27169.632885] SLOW spr round 35 (radius: 10) [04:15:55 -27169.632878] SLOW spr round 36 (radius: 15) [04:17:09 -27169.632877] SLOW spr round 37 (radius: 20) [04:18:46 -27166.496871] SLOW spr round 38 (radius: 5) [04:19:49 -27163.485256] SLOW spr round 39 (radius: 5) [04:20:45 -27163.347265] SLOW spr round 40 (radius: 5) [04:21:38 -27163.347058] SLOW spr round 41 (radius: 10) [04:22:28 -27163.347039] SLOW spr round 42 (radius: 15) [04:23:44 -27162.109830] SLOW spr round 43 (radius: 5) [04:24:46 -27159.455598] SLOW spr round 44 (radius: 5) [04:25:43 -27158.178969] SLOW spr round 45 (radius: 5) [04:26:35 -27158.178296] SLOW spr round 46 (radius: 10) [04:27:26 -27158.178173] SLOW spr round 47 (radius: 15) [04:28:41 -27158.178125] SLOW spr round 48 (radius: 20) [04:30:16 -27158.178105] SLOW spr round 49 (radius: 25) [04:32:05 -27155.932756] SLOW spr round 50 (radius: 5) [04:33:08 -27155.426665] SLOW spr round 51 (radius: 5) [04:34:05 -27155.426643] SLOW spr round 52 (radius: 10) [04:34:58 -27154.629507] SLOW spr round 53 (radius: 5) [04:35:57 -27154.433303] SLOW spr round 54 (radius: 5) [04:36:51 -27154.432920] SLOW spr round 55 (radius: 10) [04:37:43 -27154.432897] SLOW spr round 56 (radius: 15) [04:38:58 -27154.432894] SLOW spr round 57 (radius: 20) [04:40:33 -27154.432894] SLOW spr round 58 (radius: 25) [04:42:24 -27154.432894] Model parameter optimization (eps = 0.100000) [04:42:30] ML tree search #4, logLikelihood: -27154.095054 [04:42:30 -89172.316343] Initial branch length optimization [04:42:31 -75196.787164] Model parameter optimization (eps = 10.000000) [04:42:45 -75103.321861] AUTODETECT spr round 1 (radius: 5) [04:43:36 -59426.789845] AUTODETECT spr round 2 (radius: 10) [04:44:36 -46995.887230] AUTODETECT spr round 3 (radius: 15) [04:45:44 -42267.051063] AUTODETECT spr round 4 (radius: 20) [04:47:06 -38568.656303] AUTODETECT spr round 5 (radius: 25) [04:48:25 -36837.882441] SPR radius for FAST iterations: 25 (autodetect) [04:48:25 -36837.882441] Model parameter optimization (eps = 3.000000) [04:48:35 -36778.330132] FAST spr round 1 (radius: 25) [04:49:46 -29770.702271] FAST spr round 2 (radius: 25) [04:50:44 -28489.333575] FAST spr round 3 (radius: 25) [04:51:33 -27785.128674] FAST spr round 4 (radius: 25) [04:52:18 -27704.246834] FAST spr round 5 (radius: 25) [04:53:03 -27584.182177] FAST spr round 6 (radius: 25) [04:53:45 -27570.791792] FAST spr round 7 (radius: 25) [04:54:27 -27570.791512] Model parameter optimization (eps = 1.000000) [04:54:33 -27557.508087] SLOW spr round 1 (radius: 5) [04:55:25 -27547.693662] SLOW spr round 2 (radius: 5) [04:56:17 -27543.288833] SLOW spr round 3 (radius: 5) [04:57:08 -27538.887637] SLOW spr round 4 (radius: 5) [04:57:59 -27536.953415] SLOW spr round 5 (radius: 5) [04:58:49 -27536.464753] SLOW spr round 6 (radius: 5) [04:59:38 -27536.464549] SLOW spr round 7 (radius: 10) [05:00:30 -27533.934121] SLOW spr round 8 (radius: 5) [05:01:32 -27533.572920] SLOW spr round 9 (radius: 5) [05:02:27 -27533.572497] SLOW spr round 10 (radius: 10) [05:03:20 -27533.572468] SLOW spr round 11 (radius: 15) [05:04:36 -27530.163619] SLOW spr round 12 (radius: 5) [05:05:39 -27530.163039] SLOW spr round 13 (radius: 10) [05:06:36 -27529.924961] SLOW spr round 14 (radius: 5) [05:07:36 -27529.847713] SLOW spr round 15 (radius: 10) [05:08:30 -27529.846523] SLOW spr round 16 (radius: 15) [05:09:46 -27528.598949] SLOW spr round 17 (radius: 5) [05:10:48 -27528.594472] SLOW spr round 18 (radius: 10) [05:11:45 -27528.594082] SLOW spr round 19 (radius: 15) [05:12:57 -27528.594049] SLOW spr round 20 (radius: 20) [05:14:32 -27520.710186] SLOW spr round 21 (radius: 5) [05:15:36 -27520.690192] SLOW spr round 22 (radius: 10) [05:16:34 -27520.690170] SLOW spr round 23 (radius: 15) [05:17:46 -27520.690169] SLOW spr round 24 (radius: 20) [05:19:19 -27520.690169] SLOW spr round 25 (radius: 25) [05:21:10 -27427.658575] SLOW spr round 26 (radius: 5) [05:22:18 -27314.112282] SLOW spr round 27 (radius: 5) [05:23:17 -27311.495295] SLOW spr round 28 (radius: 5) [05:24:10 -27310.423257] SLOW spr round 29 (radius: 5) [05:25:01 -27310.423154] SLOW spr round 30 (radius: 10) [05:25:52 -27310.423150] SLOW spr round 31 (radius: 15) [05:27:07 -27310.423150] SLOW spr round 32 (radius: 20) [05:28:36 -27310.423150] SLOW spr round 33 (radius: 25) [05:30:22 -27310.423150] Model parameter optimization (eps = 0.100000) [05:30:26] ML tree search #5, logLikelihood: -27310.065677 [05:30:26 -89436.049892] Initial branch length optimization [05:30:27 -75819.303883] Model parameter optimization (eps = 10.000000) [05:30:39 -75739.302125] AUTODETECT spr round 1 (radius: 5) [05:31:30 -56076.541869] AUTODETECT spr round 2 (radius: 10) [05:32:27 -45740.760546] AUTODETECT spr round 3 (radius: 15) [05:33:37 -37078.955574] AUTODETECT spr round 4 (radius: 20) [05:34:58 -34455.646671] AUTODETECT spr round 5 (radius: 25) [05:36:18 -34113.633483] SPR radius for FAST iterations: 25 (autodetect) [05:36:18 -34113.633483] Model parameter optimization (eps = 3.000000) [05:36:27 -34044.376133] FAST spr round 1 (radius: 25) [05:37:36 -28911.414556] FAST spr round 2 (radius: 25) [05:38:33 -27681.219156] FAST spr round 3 (radius: 25) [05:39:21 -27322.549895] FAST spr round 4 (radius: 25) [05:40:07 -27242.075460] FAST spr round 5 (radius: 25) [05:40:51 -27241.273904] FAST spr round 6 (radius: 25) [05:41:34 -27241.272395] Model parameter optimization (eps = 1.000000) [05:41:36 -27241.216121] SLOW spr round 1 (radius: 5) [05:42:30 -27234.392110] SLOW spr round 2 (radius: 5) [05:43:22 -27228.648611] SLOW spr round 3 (radius: 5) [05:44:13 -27228.636896] SLOW spr round 4 (radius: 10) [05:45:05 -27221.341865] SLOW spr round 5 (radius: 5) [05:46:06 -27219.344253] SLOW spr round 6 (radius: 5) [05:47:01 -27219.344218] SLOW spr round 7 (radius: 10) [05:47:56 -27211.472754] SLOW spr round 8 (radius: 5) [05:48:58 -27203.664814] SLOW spr round 9 (radius: 5) [05:49:52 -27203.663287] SLOW spr round 10 (radius: 10) [05:50:44 -27203.662821] SLOW spr round 11 (radius: 15) [05:52:00 -27190.111181] SLOW spr round 12 (radius: 5) [05:53:01 -27190.093848] SLOW spr round 13 (radius: 10) [05:53:58 -27188.678425] SLOW spr round 14 (radius: 5) [05:54:57 -27188.676691] SLOW spr round 15 (radius: 10) [05:55:51 -27187.862467] SLOW spr round 16 (radius: 5) [05:56:50 -27187.861898] SLOW spr round 17 (radius: 10) [05:57:44 -27187.861556] SLOW spr round 18 (radius: 15) [05:58:56 -27187.861314] SLOW spr round 19 (radius: 20) [06:00:32 -27186.752020] SLOW spr round 20 (radius: 5) [06:01:35 -27186.736318] SLOW spr round 21 (radius: 10) [06:02:32 -27186.734963] SLOW spr round 22 (radius: 15) [06:03:43 -27186.734352] SLOW spr round 23 (radius: 20) [06:05:18 -27186.733920] SLOW spr round 24 (radius: 25) [06:07:11 -27125.136447] SLOW spr round 25 (radius: 5) [06:08:18 -27065.541727] SLOW spr round 26 (radius: 5) [06:09:14 -27062.373323] SLOW spr round 27 (radius: 5) [06:10:06 -27062.371353] SLOW spr round 28 (radius: 10) [06:10:57 -27062.370916] SLOW spr round 29 (radius: 15) [06:12:10 -27062.370821] SLOW spr round 30 (radius: 20) [06:13:38 -27062.370801] SLOW spr round 31 (radius: 25) [06:15:24 -27055.124948] SLOW spr round 32 (radius: 5) [06:16:27 -27054.711878] SLOW spr round 33 (radius: 5) [06:17:22 -27053.746502] SLOW spr round 34 (radius: 5) [06:18:15 -27053.746106] SLOW spr round 35 (radius: 10) [06:19:05 -27053.745963] SLOW spr round 36 (radius: 15) [06:20:18 -27053.745879] SLOW spr round 37 (radius: 20) [06:21:46 -27053.745828] SLOW spr round 38 (radius: 25) [06:23:33 -27053.438259] SLOW spr round 39 (radius: 5) [06:24:35 -27053.438234] SLOW spr round 40 (radius: 10) [06:25:31 -27053.438223] SLOW spr round 41 (radius: 15) [06:26:40 -27053.438217] SLOW spr round 42 (radius: 20) [06:28:10 -27053.438213] SLOW spr round 43 (radius: 25) [06:29:56 -27053.438210] Model parameter optimization (eps = 0.100000) [06:29:58] ML tree search #6, logLikelihood: -27053.360524 [06:29:58 -89029.350584] Initial branch length optimization [06:29:59 -75353.802471] Model parameter optimization (eps = 10.000000) [06:30:15 -75222.063329] AUTODETECT spr round 1 (radius: 5) [06:31:06 -58625.078687] AUTODETECT spr round 2 (radius: 10) [06:32:10 -45656.537575] AUTODETECT spr round 3 (radius: 15) [06:33:19 -37315.139581] AUTODETECT spr round 4 (radius: 20) [06:34:26 -34535.177459] AUTODETECT spr round 5 (radius: 25) [06:35:38 -32286.027552] SPR radius for FAST iterations: 25 (autodetect) [06:35:38 -32286.027552] Model parameter optimization (eps = 3.000000) [06:35:51 -32184.496973] FAST spr round 1 (radius: 25) [06:36:51 -27462.425417] FAST spr round 2 (radius: 25) [06:37:41 -26948.527113] FAST spr round 3 (radius: 25) [06:38:27 -26901.846255] FAST spr round 4 (radius: 25) [06:39:11 -26890.947979] FAST spr round 5 (radius: 25) [06:39:54 -26889.418659] FAST spr round 6 (radius: 25) [06:40:35 -26889.417288] Model parameter optimization (eps = 1.000000) [06:40:40 -26885.096148] SLOW spr round 1 (radius: 5) [06:41:32 -26878.389488] SLOW spr round 2 (radius: 5) [06:42:22 -26878.254265] SLOW spr round 3 (radius: 5) [06:43:12 -26877.903025] SLOW spr round 4 (radius: 5) [06:44:01 -26877.902098] SLOW spr round 5 (radius: 10) [06:44:52 -26871.413800] SLOW spr round 6 (radius: 5) [06:45:53 -26864.994580] SLOW spr round 7 (radius: 5) [06:46:49 -26863.737276] SLOW spr round 8 (radius: 5) [06:47:40 -26863.736331] SLOW spr round 9 (radius: 10) [06:48:31 -26862.873780] SLOW spr round 10 (radius: 5) [06:49:31 -26862.756434] SLOW spr round 11 (radius: 5) [06:50:26 -26862.753970] SLOW spr round 12 (radius: 10) [06:51:17 -26862.753695] SLOW spr round 13 (radius: 15) [06:52:33 -26860.351055] SLOW spr round 14 (radius: 5) [06:53:34 -26860.334408] SLOW spr round 15 (radius: 10) [06:54:30 -26860.334385] SLOW spr round 16 (radius: 15) [06:55:43 -26859.247477] SLOW spr round 17 (radius: 5) [06:56:44 -26859.184895] SLOW spr round 18 (radius: 10) [06:57:41 -26859.183634] SLOW spr round 19 (radius: 15) [06:58:53 -26859.182868] SLOW spr round 20 (radius: 20) [07:00:28 -26833.979825] SLOW spr round 21 (radius: 5) [07:01:30 -26833.975907] SLOW spr round 22 (radius: 10) [07:02:27 -26833.975392] SLOW spr round 23 (radius: 15) [07:03:38 -26833.975326] SLOW spr round 24 (radius: 20) [07:05:12 -26833.975318] SLOW spr round 25 (radius: 25) [07:06:53 -26832.274095] SLOW spr round 26 (radius: 5) [07:07:56 -26832.273144] SLOW spr round 27 (radius: 10) [07:08:54 -26832.273120] SLOW spr round 28 (radius: 15) [07:10:06 -26832.273117] SLOW spr round 29 (radius: 20) [07:11:40 -26832.273117] SLOW spr round 30 (radius: 25) [07:13:20 -26832.273117] Model parameter optimization (eps = 0.100000) [07:13:23] ML tree search #7, logLikelihood: -26832.210003 [07:13:23 -89440.443455] Initial branch length optimization [07:13:24 -75642.543711] Model parameter optimization (eps = 10.000000) [07:13:37 -75556.497913] AUTODETECT spr round 1 (radius: 5) [07:14:27 -59200.768554] AUTODETECT spr round 2 (radius: 10) [07:15:26 -46105.545412] AUTODETECT spr round 3 (radius: 15) [07:16:35 -39815.152841] AUTODETECT spr round 4 (radius: 20) [07:17:49 -34954.112990] AUTODETECT spr round 5 (radius: 25) [07:19:09 -32923.580892] SPR radius for FAST iterations: 25 (autodetect) [07:19:09 -32923.580892] Model parameter optimization (eps = 3.000000) [07:19:21 -32871.347922] FAST spr round 1 (radius: 25) [07:20:26 -27332.844756] FAST spr round 2 (radius: 25) [07:21:18 -26990.200167] FAST spr round 3 (radius: 25) [07:22:05 -26921.493657] FAST spr round 4 (radius: 25) [07:22:51 -26900.509527] FAST spr round 5 (radius: 25) [07:23:35 -26826.179528] FAST spr round 6 (radius: 25) [07:24:17 -26812.799543] FAST spr round 7 (radius: 25) [07:24:58 -26812.798227] Model parameter optimization (eps = 1.000000) [07:25:05 -26810.466092] SLOW spr round 1 (radius: 5) [07:25:57 -26806.337288] SLOW spr round 2 (radius: 5) [07:26:47 -26803.559714] SLOW spr round 3 (radius: 5) [07:27:36 -26803.559482] SLOW spr round 4 (radius: 10) [07:28:27 -26797.176272] SLOW spr round 5 (radius: 5) [07:29:27 -26797.170416] SLOW spr round 6 (radius: 10) [07:30:21 -26797.169839] SLOW spr round 7 (radius: 15) [07:31:31 -26796.811000] SLOW spr round 8 (radius: 5) [07:32:32 -26796.809178] SLOW spr round 9 (radius: 10) [07:33:28 -26796.808904] SLOW spr round 10 (radius: 15) [07:34:38 -26796.192144] SLOW spr round 11 (radius: 5) [07:35:40 -26794.867349] SLOW spr round 12 (radius: 5) [07:36:35 -26794.866062] SLOW spr round 13 (radius: 10) [07:37:26 -26792.688286] SLOW spr round 14 (radius: 5) [07:38:25 -26792.687080] SLOW spr round 15 (radius: 10) [07:39:19 -26792.686990] SLOW spr round 16 (radius: 15) [07:40:31 -26792.423967] SLOW spr round 17 (radius: 5) [07:41:32 -26792.423336] SLOW spr round 18 (radius: 10) [07:42:28 -26792.423237] SLOW spr round 19 (radius: 15) [07:43:39 -26792.423221] SLOW spr round 20 (radius: 20) [07:45:12 -26792.423218] SLOW spr round 21 (radius: 25) [07:47:02 -26791.909444] SLOW spr round 22 (radius: 5) [07:48:05 -26791.857553] SLOW spr round 23 (radius: 10) [07:49:03 -26786.090056] SLOW spr round 24 (radius: 5) [07:50:01 -26786.089835] SLOW spr round 25 (radius: 10) [07:50:55 -26786.089809] SLOW spr round 26 (radius: 15) [07:52:06 -26786.089806] SLOW spr round 27 (radius: 20) [07:53:38 -26786.089805] SLOW spr round 28 (radius: 25) [07:55:27 -26786.089805] Model parameter optimization (eps = 0.100000) [07:55:30] ML tree search #8, logLikelihood: -26785.957376 [07:55:30 -89275.160783] Initial branch length optimization [07:55:31 -75517.155917] Model parameter optimization (eps = 10.000000) [07:55:45 -75414.233993] AUTODETECT spr round 1 (radius: 5) [07:56:35 -57219.079264] AUTODETECT spr round 2 (radius: 10) [07:57:40 -44624.387812] AUTODETECT spr round 3 (radius: 15) [07:58:46 -40052.127195] AUTODETECT spr round 4 (radius: 20) [08:00:26 -35232.662757] AUTODETECT spr round 5 (radius: 25) [08:01:48 -33328.566483] SPR radius for FAST iterations: 25 (autodetect) [08:01:48 -33328.566483] Model parameter optimization (eps = 3.000000) [08:01:57 -33277.941899] FAST spr round 1 (radius: 25) [08:03:05 -28057.470745] FAST spr round 2 (radius: 25) [08:03:59 -27468.542905] FAST spr round 3 (radius: 25) [08:04:45 -27274.100167] FAST spr round 4 (radius: 25) [08:05:31 -27199.057822] FAST spr round 5 (radius: 25) [08:06:14 -27141.627130] FAST spr round 6 (radius: 25) [08:06:55 -27139.130649] FAST spr round 7 (radius: 25) [08:07:37 -27139.130319] Model parameter optimization (eps = 1.000000) [08:07:43 -27130.346920] SLOW spr round 1 (radius: 5) [08:08:35 -27124.606841] SLOW spr round 2 (radius: 5) [08:09:27 -27123.077474] SLOW spr round 3 (radius: 5) [08:10:16 -27122.731448] SLOW spr round 4 (radius: 5) [08:11:06 -27121.924862] SLOW spr round 5 (radius: 5) [08:11:55 -27121.924673] SLOW spr round 6 (radius: 10) [08:12:46 -27118.658003] SLOW spr round 7 (radius: 5) [08:13:48 -27116.984207] SLOW spr round 8 (radius: 5) [08:14:42 -27116.983932] SLOW spr round 9 (radius: 10) [08:15:33 -27116.983909] SLOW spr round 10 (radius: 15) [08:16:48 -27115.649365] SLOW spr round 11 (radius: 5) [08:17:49 -27115.551329] SLOW spr round 12 (radius: 10) [08:18:44 -27112.770666] SLOW spr round 13 (radius: 5) [08:19:44 -27088.089480] SLOW spr round 14 (radius: 5) [08:20:38 -27088.063166] SLOW spr round 15 (radius: 10) [08:21:29 -27088.060345] SLOW spr round 16 (radius: 15) [08:22:44 -27087.380278] SLOW spr round 17 (radius: 5) [08:23:47 -27086.344579] SLOW spr round 18 (radius: 5) [08:24:42 -27086.344501] SLOW spr round 19 (radius: 10) [08:25:34 -27086.344483] SLOW spr round 20 (radius: 15) [08:26:48 -27086.206263] SLOW spr round 21 (radius: 5) [08:27:50 -27086.200145] SLOW spr round 22 (radius: 10) [08:28:45 -27086.199302] SLOW spr round 23 (radius: 15) [08:29:54 -27086.199178] SLOW spr round 24 (radius: 20) [08:31:27 -26988.311777] SLOW spr round 25 (radius: 5) [08:32:32 -26952.674537] SLOW spr round 26 (radius: 5) [08:33:29 -26947.790087] SLOW spr round 27 (radius: 5) [08:34:21 -26947.789671] SLOW spr round 28 (radius: 10) [08:35:12 -26947.789651] SLOW spr round 29 (radius: 15) [08:36:27 -26947.789650] SLOW spr round 30 (radius: 20) [08:37:59 -26945.844815] SLOW spr round 31 (radius: 5) [08:39:02 -26944.960707] SLOW spr round 32 (radius: 5) [08:39:58 -26944.954783] SLOW spr round 33 (radius: 10) [08:40:51 -26944.953081] SLOW spr round 34 (radius: 15) [08:42:04 -26944.952454] SLOW spr round 35 (radius: 20) [08:43:37 -26944.952195] SLOW spr round 36 (radius: 25) [08:45:28 -26903.384098] SLOW spr round 37 (radius: 5) [08:46:32 -26837.972450] SLOW spr round 38 (radius: 5) [08:47:29 -26836.945884] SLOW spr round 39 (radius: 5) [08:48:21 -26836.945567] SLOW spr round 40 (radius: 10) [08:49:12 -26836.945564] SLOW spr round 41 (radius: 15) [08:50:29 -26836.945563] SLOW spr round 42 (radius: 20) [08:52:07 -26836.945563] SLOW spr round 43 (radius: 25) [08:54:01 -26836.945563] Model parameter optimization (eps = 0.100000) [08:54:04] ML tree search #9, logLikelihood: -26836.792544 [08:54:04 -89359.701437] Initial branch length optimization [08:54:06 -75738.279389] Model parameter optimization (eps = 10.000000) [08:54:15 -75670.004763] AUTODETECT spr round 1 (radius: 5) [08:55:05 -57676.207829] AUTODETECT spr round 2 (radius: 10) [08:56:04 -45421.033929] AUTODETECT spr round 3 (radius: 15) [08:57:14 -39512.667871] AUTODETECT spr round 4 (radius: 20) [08:58:27 -34825.538028] AUTODETECT spr round 5 (radius: 25) [08:59:48 -33180.910281] SPR radius for FAST iterations: 25 (autodetect) [08:59:48 -33180.910281] Model parameter optimization (eps = 3.000000) [08:59:58 -33151.607833] FAST spr round 1 (radius: 25) [09:01:00 -27965.843862] FAST spr round 2 (radius: 25) [09:01:51 -27567.263161] FAST spr round 3 (radius: 25) [09:02:39 -27399.093752] FAST spr round 4 (radius: 25) [09:03:26 -27258.378997] FAST spr round 5 (radius: 25) [09:04:12 -27138.448880] FAST spr round 6 (radius: 25) [09:04:55 -27120.484400] FAST spr round 7 (radius: 25) [09:05:37 -27120.483738] Model parameter optimization (eps = 1.000000) [09:05:44 -27113.886329] SLOW spr round 1 (radius: 5) [09:06:37 -27105.106103] SLOW spr round 2 (radius: 5) [09:07:29 -27104.844249] SLOW spr round 3 (radius: 5) [09:08:20 -27104.842664] SLOW spr round 4 (radius: 10) [09:09:12 -27104.176414] SLOW spr round 5 (radius: 5) [09:10:14 -27104.175853] SLOW spr round 6 (radius: 10) [09:11:11 -27104.175654] SLOW spr round 7 (radius: 15) [09:12:25 -27104.050555] SLOW spr round 8 (radius: 5) [09:13:28 -27102.249131] SLOW spr round 9 (radius: 5) [09:14:25 -27102.248968] SLOW spr round 10 (radius: 10) [09:15:19 -27101.838431] SLOW spr round 11 (radius: 5) [09:16:20 -27101.838127] SLOW spr round 12 (radius: 10) [09:17:17 -27101.838098] SLOW spr round 13 (radius: 15) [09:18:30 -27101.838093] SLOW spr round 14 (radius: 20) [09:20:05 -27100.033192] SLOW spr round 15 (radius: 5) [09:21:11 -27098.339943] SLOW spr round 16 (radius: 5) [09:22:09 -27097.868103] SLOW spr round 17 (radius: 5) [09:23:03 -27097.866264] SLOW spr round 18 (radius: 10) [09:23:55 -27097.866146] SLOW spr round 19 (radius: 15) [09:25:12 -27029.875573] SLOW spr round 20 (radius: 5) [09:26:17 -27019.503044] SLOW spr round 21 (radius: 5) [09:27:15 -27006.276937] SLOW spr round 22 (radius: 5) [09:28:09 -27006.275360] SLOW spr round 23 (radius: 10) [09:29:01 -27006.275264] SLOW spr round 24 (radius: 15) [09:30:18 -27004.655089] SLOW spr round 25 (radius: 5) [09:31:23 -27002.882476] SLOW spr round 26 (radius: 5) [09:32:21 -27002.882399] SLOW spr round 27 (radius: 10) [09:33:15 -27002.882399] SLOW spr round 28 (radius: 15) [09:34:30 -27002.882399] SLOW spr round 29 (radius: 20) [09:36:05 -27002.882399] SLOW spr round 30 (radius: 25) [09:37:58 -27002.717508] SLOW spr round 31 (radius: 5) [09:39:06 -26999.906244] SLOW spr round 32 (radius: 5) [09:40:05 -26998.861241] SLOW spr round 33 (radius: 5) [09:41:01 -26998.674206] SLOW spr round 34 (radius: 5) [09:41:53 -26998.673709] SLOW spr round 35 (radius: 10) [09:42:45 -26998.673702] SLOW spr round 36 (radius: 15) [09:44:01 -26998.673702] SLOW spr round 37 (radius: 20) [09:45:35 -26998.026256] SLOW spr round 38 (radius: 5) [09:46:40 -26998.025918] SLOW spr round 39 (radius: 10) [09:47:39 -26998.025913] SLOW spr round 40 (radius: 15) [09:48:52 -26998.025913] SLOW spr round 41 (radius: 20) [09:50:27 -26998.025913] SLOW spr round 42 (radius: 25) [09:52:16 -26998.025913] Model parameter optimization (eps = 0.100000) [09:52:19] ML tree search #10, logLikelihood: -26997.931521 [09:52:19 -89720.589845] Initial branch length optimization [09:52:20 -75835.698384] Model parameter optimization (eps = 10.000000) [09:52:35 -75703.188588] AUTODETECT spr round 1 (radius: 5) [09:53:25 -58545.465463] AUTODETECT spr round 2 (radius: 10) [09:54:22 -45232.556094] AUTODETECT spr round 3 (radius: 15) [09:55:31 -38414.645019] AUTODETECT spr round 4 (radius: 20) [09:56:46 -35643.193081] AUTODETECT spr round 5 (radius: 25) [09:58:10 -34405.003110] SPR radius for FAST iterations: 25 (autodetect) [09:58:10 -34405.003110] Model parameter optimization (eps = 3.000000) [09:58:21 -34343.011179] FAST spr round 1 (radius: 25) [09:59:21 -27853.053769] FAST spr round 2 (radius: 25) [10:00:07 -27513.167459] FAST spr round 3 (radius: 25) [10:00:50 -27430.972377] FAST spr round 4 (radius: 25) [10:01:32 -27061.498805] FAST spr round 5 (radius: 25) [10:02:14 -27017.943485] FAST spr round 6 (radius: 25) [10:02:53 -27015.613167] FAST spr round 7 (radius: 25) [10:03:31 -27015.611288] Model parameter optimization (eps = 1.000000) [10:03:37 -27008.972839] SLOW spr round 1 (radius: 5) [10:04:25 -27002.281518] SLOW spr round 2 (radius: 5) [10:05:12 -27001.464537] SLOW spr round 3 (radius: 5) [10:05:58 -26999.445596] SLOW spr round 4 (radius: 5) [10:06:43 -26999.445090] SLOW spr round 5 (radius: 10) [10:07:30 -26997.688745] SLOW spr round 6 (radius: 5) [10:08:27 -26986.656994] SLOW spr round 7 (radius: 5) [10:09:17 -26985.509393] SLOW spr round 8 (radius: 5) [10:10:07 -26985.509320] SLOW spr round 9 (radius: 10) [10:10:59 -26985.509319] SLOW spr round 10 (radius: 15) [10:12:19 -26984.872165] SLOW spr round 11 (radius: 5) [10:13:22 -26984.754668] SLOW spr round 12 (radius: 5) [10:14:19 -26984.754667] SLOW spr round 13 (radius: 10) [10:15:13 -26984.754667] SLOW spr round 14 (radius: 15) [10:16:31 -26984.471122] SLOW spr round 15 (radius: 5) [10:17:34 -26984.176897] SLOW spr round 16 (radius: 5) [10:18:30 -26984.175082] SLOW spr round 17 (radius: 10) [10:19:24 -26984.174843] SLOW spr round 18 (radius: 15) [10:20:41 -26984.174805] SLOW spr round 19 (radius: 20) [10:22:19 -26982.496566] SLOW spr round 20 (radius: 5) [10:23:23 -26982.496064] SLOW spr round 21 (radius: 10) [10:24:21 -26982.496041] SLOW spr round 22 (radius: 15) [10:25:33 -26982.496039] SLOW spr round 23 (radius: 20) [10:27:12 -26982.496038] SLOW spr round 24 (radius: 25) [10:29:08 -26982.192457] SLOW spr round 25 (radius: 5) [10:30:13 -26982.192446] SLOW spr round 26 (radius: 10) [10:31:13 -26982.192446] SLOW spr round 27 (radius: 15) [10:32:26 -26982.192446] SLOW spr round 28 (radius: 20) [10:34:05 -26982.192446] SLOW spr round 29 (radius: 25) [10:36:01 -26982.192446] Model parameter optimization (eps = 0.100000) [10:36:04] ML tree search #11, logLikelihood: -26982.092605 [10:36:04 -89094.724774] Initial branch length optimization [10:36:05 -75326.152503] Model parameter optimization (eps = 10.000000) [10:36:18 -75241.076055] AUTODETECT spr round 1 (radius: 5) [10:37:10 -57872.121935] AUTODETECT spr round 2 (radius: 10) [10:38:10 -45740.259942] AUTODETECT spr round 3 (radius: 15) [10:39:18 -40628.859067] AUTODETECT spr round 4 (radius: 20) [10:40:38 -37325.855598] AUTODETECT spr round 5 (radius: 25) [10:41:58 -35197.370771] SPR radius for FAST iterations: 25 (autodetect) [10:41:58 -35197.370771] Model parameter optimization (eps = 3.000000) [10:42:11 -35137.421510] FAST spr round 1 (radius: 25) [10:43:18 -30103.153081] FAST spr round 2 (radius: 25) [10:44:23 -29484.758436] FAST spr round 3 (radius: 25) [10:45:21 -29315.881833] FAST spr round 4 (radius: 25) [10:46:16 -29303.008661] FAST spr round 5 (radius: 25) [10:47:03 -29301.811621] FAST spr round 6 (radius: 25) [10:47:51 -29298.414939] FAST spr round 7 (radius: 25) [10:48:38 -29292.069032] FAST spr round 8 (radius: 25) [10:49:24 -29292.068820] Model parameter optimization (eps = 1.000000) [10:49:30 -29278.181178] SLOW spr round 1 (radius: 5) [10:50:25 -29267.962058] SLOW spr round 2 (radius: 5) [10:51:19 -29267.070545] SLOW spr round 3 (radius: 5) [10:52:10 -29267.068437] SLOW spr round 4 (radius: 10) [10:53:03 -29263.036381] SLOW spr round 5 (radius: 5) [10:54:06 -29259.839334] SLOW spr round 6 (radius: 5) [10:55:02 -29259.839285] SLOW spr round 7 (radius: 10) [10:55:56 -29259.839282] SLOW spr round 8 (radius: 15) [10:57:18 -29088.710860] SLOW spr round 9 (radius: 5) [10:58:23 -28552.417177] SLOW spr round 10 (radius: 5) [10:59:22 -28049.606549] SLOW spr round 11 (radius: 5) [11:00:17 -27991.629821] SLOW spr round 12 (radius: 5) [11:01:10 -27951.624584] SLOW spr round 13 (radius: 5) [11:02:03 -27905.704239] SLOW spr round 14 (radius: 5) [11:02:54 -27904.116684] SLOW spr round 15 (radius: 5) [11:03:44 -27904.115852] SLOW spr round 16 (radius: 10) [11:04:37 -27822.715469] SLOW spr round 17 (radius: 5) [11:05:40 -27813.668254] SLOW spr round 18 (radius: 5) [11:06:35 -27811.253602] SLOW spr round 19 (radius: 5) [11:07:27 -27811.252524] SLOW spr round 20 (radius: 10) [11:08:19 -27810.727353] SLOW spr round 21 (radius: 5) [11:09:21 -27810.645963] SLOW spr round 22 (radius: 10) [11:10:18 -27777.298704] SLOW spr round 23 (radius: 5) [11:11:23 -27432.894032] SLOW spr round 24 (radius: 5) [11:12:21 -27250.125295] SLOW spr round 25 (radius: 5) [11:13:17 -27132.424564] SLOW spr round 26 (radius: 5) [11:14:12 -26963.308193] SLOW spr round 27 (radius: 5) [11:15:05 -26956.623639] SLOW spr round 28 (radius: 5) [11:15:56 -26956.623090] SLOW spr round 29 (radius: 10) [11:16:48 -26945.428592] SLOW spr round 30 (radius: 5) [11:17:49 -26945.389741] SLOW spr round 31 (radius: 10) [11:18:45 -26945.388030] SLOW spr round 32 (radius: 15) [11:19:56 -26882.329800] SLOW spr round 33 (radius: 5) [11:21:00 -26864.784576] SLOW spr round 34 (radius: 5) [11:21:57 -26864.782661] SLOW spr round 35 (radius: 10) [11:22:51 -26864.782154] SLOW spr round 36 (radius: 15) [11:24:03 -26864.782075] SLOW spr round 37 (radius: 20) [11:25:33 -26853.849027] SLOW spr round 38 (radius: 5) [11:26:39 -26844.499002] SLOW spr round 39 (radius: 5) [11:27:37 -26844.365809] SLOW spr round 40 (radius: 5) [11:28:31 -26844.365102] SLOW spr round 41 (radius: 10) [11:29:23 -26844.365089] SLOW spr round 42 (radius: 15) [11:30:36 -26844.365084] SLOW spr round 43 (radius: 20) [11:32:02 -26843.864235] SLOW spr round 44 (radius: 5) [11:33:07 -26803.363008] SLOW spr round 45 (radius: 5) [11:34:04 -26802.130715] SLOW spr round 46 (radius: 5) [11:34:58 -26802.130484] SLOW spr round 47 (radius: 10) [11:35:50 -26802.130484] SLOW spr round 48 (radius: 15) [11:37:02 -26802.130483] SLOW spr round 49 (radius: 20) [11:38:28 -26801.664104] SLOW spr round 50 (radius: 5) [11:39:32 -26799.641610] SLOW spr round 51 (radius: 5) [11:40:28 -26799.641037] SLOW spr round 52 (radius: 10) [11:41:21 -26799.640985] SLOW spr round 53 (radius: 15) [11:42:32 -26799.640971] SLOW spr round 54 (radius: 20) [11:43:57 -26799.604280] SLOW spr round 55 (radius: 25) [11:45:37 -26796.478196] SLOW spr round 56 (radius: 5) [11:46:42 -26795.825527] SLOW spr round 57 (radius: 5) [11:47:39 -26795.824851] SLOW spr round 58 (radius: 10) [11:48:32 -26795.824820] SLOW spr round 59 (radius: 15) [11:49:45 -26795.824818] SLOW spr round 60 (radius: 20) [11:51:16 -26794.054230] SLOW spr round 61 (radius: 5) [11:52:21 -26794.001435] SLOW spr round 62 (radius: 10) [11:53:20 -26794.000715] SLOW spr round 63 (radius: 15) [11:54:32 -26794.000554] SLOW spr round 64 (radius: 20) [11:56:03 -26793.344511] SLOW spr round 65 (radius: 5) [11:57:07 -26793.291360] SLOW spr round 66 (radius: 10) [11:58:07 -26793.290886] SLOW spr round 67 (radius: 15) [11:59:19 -26793.290670] SLOW spr round 68 (radius: 20) [12:00:51 -26793.290576] SLOW spr round 69 (radius: 25) [12:02:37 -26793.290536] Model parameter optimization (eps = 0.100000) [12:02:41] ML tree search #12, logLikelihood: -26793.074022 [12:02:41 -88626.737055] Initial branch length optimization [12:02:42 -74972.598030] Model parameter optimization (eps = 10.000000) [12:02:56 -74834.233004] AUTODETECT spr round 1 (radius: 5) [12:03:49 -57310.426459] AUTODETECT spr round 2 (radius: 10) [12:04:54 -45231.074768] AUTODETECT spr round 3 (radius: 15) [12:06:09 -39108.875802] AUTODETECT spr round 4 (radius: 20) [12:07:40 -34604.943400] AUTODETECT spr round 5 (radius: 25) [12:09:09 -32823.276299] SPR radius for FAST iterations: 25 (autodetect) [12:09:09 -32823.276299] Model parameter optimization (eps = 3.000000) [12:09:21 -32763.519998] FAST spr round 1 (radius: 25) [12:10:34 -27432.448627] FAST spr round 2 (radius: 25) [12:11:38 -27025.175014] FAST spr round 3 (radius: 25) [12:12:36 -26852.840846] FAST spr round 4 (radius: 25) [12:13:29 -26848.350770] FAST spr round 5 (radius: 25) [12:14:21 -26848.349451] Model parameter optimization (eps = 1.000000) [12:14:25 -26847.266061] SLOW spr round 1 (radius: 5) [12:15:31 -26830.516500] SLOW spr round 2 (radius: 5) [12:16:35 -26824.404417] SLOW spr round 3 (radius: 5) [12:17:38 -26820.608372] SLOW spr round 4 (radius: 5) [12:18:40 -26820.019177] SLOW spr round 5 (radius: 5) [12:19:42 -26820.019172] SLOW spr round 6 (radius: 10) [12:20:45 -26817.590190] SLOW spr round 7 (radius: 5) [12:22:00 -26814.697886] SLOW spr round 8 (radius: 5) [12:23:10 -26813.816427] SLOW spr round 9 (radius: 5) [12:24:14 -26813.815902] SLOW spr round 10 (radius: 10) [12:25:17 -26813.434251] SLOW spr round 11 (radius: 5) [12:26:31 -26813.434247] SLOW spr round 12 (radius: 10) [12:27:39 -26813.434244] SLOW spr round 13 (radius: 15) [12:29:07 -26812.739080] SLOW spr round 14 (radius: 5) [12:30:24 -26812.722492] SLOW spr round 15 (radius: 10) [12:31:33 -26812.722383] SLOW spr round 16 (radius: 15) [12:32:59 -26812.643341] SLOW spr round 17 (radius: 20) [12:34:42 -26809.386630] SLOW spr round 18 (radius: 5) [12:36:03 -26807.890239] SLOW spr round 19 (radius: 5) [12:37:13 -26807.885640] SLOW spr round 20 (radius: 10) [12:38:18 -26805.211313] SLOW spr round 21 (radius: 5) [12:39:35 -26804.534970] SLOW spr round 22 (radius: 5) [12:40:42 -26804.534881] SLOW spr round 23 (radius: 10) [12:41:46 -26804.534852] SLOW spr round 24 (radius: 15) [12:43:15 -26804.534842] SLOW spr round 25 (radius: 20) [12:44:55 -26804.534838] SLOW spr round 26 (radius: 25) [12:46:39 -26799.340494] SLOW spr round 27 (radius: 5) [12:47:59 -26797.393304] SLOW spr round 28 (radius: 5) [12:49:09 -26797.393133] SLOW spr round 29 (radius: 10) [12:50:14 -26797.393126] SLOW spr round 30 (radius: 15) [12:51:43 -26797.393125] SLOW spr round 31 (radius: 20) [12:53:23 -26797.393125] SLOW spr round 32 (radius: 25) [12:55:08 -26797.393125] Model parameter optimization (eps = 0.100000) [12:55:11] ML tree search #13, logLikelihood: -26797.085563 [12:55:12 -89421.762454] Initial branch length optimization [12:55:13 -75440.159845] Model parameter optimization (eps = 10.000000) [12:55:29 -75360.421006] AUTODETECT spr round 1 (radius: 5) [12:56:31 -56715.553712] AUTODETECT spr round 2 (radius: 10) [12:57:44 -45181.400391] AUTODETECT spr round 3 (radius: 15) [12:59:06 -38019.272872] AUTODETECT spr round 4 (radius: 20) [13:00:27 -35635.396470] AUTODETECT spr round 5 (radius: 25) [13:02:01 -33981.230170] SPR radius for FAST iterations: 25 (autodetect) [13:02:01 -33981.230170] Model parameter optimization (eps = 3.000000) [13:02:12 -33896.343382] FAST spr round 1 (radius: 25) [13:03:37 -28449.353083] FAST spr round 2 (radius: 25) [13:04:45 -27503.572608] FAST spr round 3 (radius: 25) [13:05:43 -27173.647491] FAST spr round 4 (radius: 25) [13:06:39 -27150.420888] FAST spr round 5 (radius: 25) [13:07:32 -27148.758937] FAST spr round 6 (radius: 25) [13:08:23 -27148.757585] Model parameter optimization (eps = 1.000000) [13:08:28 -27145.325173] SLOW spr round 1 (radius: 5) [13:09:32 -27135.721633] SLOW spr round 2 (radius: 5) [13:10:36 -27133.875090] SLOW spr round 3 (radius: 5) [13:11:38 -27133.874625] SLOW spr round 4 (radius: 10) [13:12:40 -27133.152239] SLOW spr round 5 (radius: 5) [13:13:54 -27133.152215] SLOW spr round 6 (radius: 10) [13:15:01 -27133.152208] SLOW spr round 7 (radius: 15) [13:16:30 -27129.938589] SLOW spr round 8 (radius: 5) [13:17:48 -27129.499923] SLOW spr round 9 (radius: 5) [13:18:58 -27128.371255] SLOW spr round 10 (radius: 5) [13:20:03 -27128.369937] SLOW spr round 11 (radius: 10) [13:21:08 -27128.369812] SLOW spr round 12 (radius: 15) [13:22:40 -27127.956857] SLOW spr round 13 (radius: 5) [13:23:57 -27127.824622] SLOW spr round 14 (radius: 5) [13:25:05 -27127.824061] SLOW spr round 15 (radius: 10) [13:26:10 -27127.824043] SLOW spr round 16 (radius: 15) [13:27:41 -27126.852956] SLOW spr round 17 (radius: 5) [13:29:00 -27057.443867] SLOW spr round 18 (radius: 5) [13:30:10 -27032.465584] SLOW spr round 19 (radius: 5) [13:31:16 -27032.465560] SLOW spr round 20 (radius: 10) [13:32:18 -27032.465559] SLOW spr round 21 (radius: 15) [13:33:51 -27032.465558] SLOW spr round 22 (radius: 20) [13:35:44 -27031.568928] SLOW spr round 23 (radius: 5) [13:37:04 -27028.160707] SLOW spr round 24 (radius: 5) [13:38:15 -27023.865148] SLOW spr round 25 (radius: 5) [13:39:19 -27023.770325] SLOW spr round 26 (radius: 10) [13:40:22 -27023.769955] SLOW spr round 27 (radius: 15) [13:41:53 -27023.769942] SLOW spr round 28 (radius: 20) [13:43:46 -27023.211425] SLOW spr round 29 (radius: 5) [13:45:03 -27021.092471] SLOW spr round 30 (radius: 5) [13:46:13 -27020.442874] SLOW spr round 31 (radius: 5) [13:47:18 -27020.442834] SLOW spr round 32 (radius: 10) [13:48:21 -27018.603973] SLOW spr round 33 (radius: 5) [13:49:35 -27018.603703] SLOW spr round 34 (radius: 10) [13:50:42 -27018.603687] SLOW spr round 35 (radius: 15) [13:52:05 -27018.603686] SLOW spr round 36 (radius: 20) [13:53:50 -27018.603686] SLOW spr round 37 (radius: 25) [13:55:56 -26975.160986] SLOW spr round 38 (radius: 5) [13:57:18 -26893.712276] SLOW spr round 39 (radius: 5) [13:58:28 -26892.621201] SLOW spr round 40 (radius: 5) [13:59:33 -26892.620915] SLOW spr round 41 (radius: 10) [14:00:35 -26892.620898] SLOW spr round 42 (radius: 15) [14:02:02 -26890.036862] SLOW spr round 43 (radius: 5) [14:03:17 -26889.703019] SLOW spr round 44 (radius: 5) [14:04:27 -26889.484920] SLOW spr round 45 (radius: 5) [14:05:32 -26889.285457] SLOW spr round 46 (radius: 5) [14:06:35 -26889.284958] SLOW spr round 47 (radius: 10) [14:07:37 -26889.284952] SLOW spr round 48 (radius: 15) [14:09:03 -26889.284952] SLOW spr round 49 (radius: 20) [14:10:47 -26885.927194] SLOW spr round 50 (radius: 5) [14:12:04 -26885.452842] SLOW spr round 51 (radius: 5) [14:13:13 -26885.450571] SLOW spr round 52 (radius: 10) [14:14:16 -26885.450234] SLOW spr round 53 (radius: 15) [14:15:42 -26885.450184] SLOW spr round 54 (radius: 20) [14:17:26 -26885.450176] SLOW spr round 55 (radius: 25) [14:19:35 -26834.061982] SLOW spr round 56 (radius: 5) [14:20:54 -26801.808341] SLOW spr round 57 (radius: 5) [14:22:03 -26801.808280] SLOW spr round 58 (radius: 10) [14:23:07 -26801.808279] SLOW spr round 59 (radius: 15) [14:24:32 -26801.808279] SLOW spr round 60 (radius: 20) [14:26:17 -26801.808279] SLOW spr round 61 (radius: 25) [14:28:25 -26801.808279] Model parameter optimization (eps = 0.100000) [14:28:29] ML tree search #14, logLikelihood: -26801.288256 [14:28:29 -89151.007359] Initial branch length optimization [14:28:30 -75633.754941] Model parameter optimization (eps = 10.000000) [14:28:47 -75540.293388] AUTODETECT spr round 1 (radius: 5) [14:29:49 -57390.138228] AUTODETECT spr round 2 (radius: 10) [14:31:01 -46086.460408] AUTODETECT spr round 3 (radius: 15) [14:32:26 -41048.700466] AUTODETECT spr round 4 (radius: 20) [14:34:17 -36756.540175] AUTODETECT spr round 5 (radius: 25) [14:35:54 -34786.313314] SPR radius for FAST iterations: 25 (autodetect) [14:35:54 -34786.313314] Model parameter optimization (eps = 3.000000) [14:36:07 -34735.837389] FAST spr round 1 (radius: 25) [14:37:38 -29507.517656] FAST spr round 2 (radius: 25) [14:38:54 -28281.332656] FAST spr round 3 (radius: 25) [14:39:57 -27916.725499] FAST spr round 4 (radius: 25) [14:40:57 -27707.457845] FAST spr round 5 (radius: 25) [14:41:54 -27673.763567] FAST spr round 6 (radius: 25) [14:42:48 -27671.742235] FAST spr round 7 (radius: 25) [14:43:40 -27671.741845] Model parameter optimization (eps = 1.000000) [14:43:48 -27667.852098] SLOW spr round 1 (radius: 5) [14:44:56 -27659.971295] SLOW spr round 2 (radius: 5) [14:46:03 -27659.041251] SLOW spr round 3 (radius: 5) [14:47:08 -27657.990158] SLOW spr round 4 (radius: 5) [14:48:13 -27657.765377] SLOW spr round 5 (radius: 5) [14:49:19 -27657.765304] SLOW spr round 6 (radius: 10) [14:50:26 -27648.244184] SLOW spr round 7 (radius: 5) [14:51:46 -27646.142953] SLOW spr round 8 (radius: 5) [14:52:57 -27646.142633] SLOW spr round 9 (radius: 10) [14:54:03 -27646.142626] SLOW spr round 10 (radius: 15) [14:55:33 -27646.142625] SLOW spr round 11 (radius: 20) [14:57:24 -27644.481085] SLOW spr round 12 (radius: 5) [14:58:49 -27639.666519] SLOW spr round 13 (radius: 5) [15:00:01 -27637.576520] SLOW spr round 14 (radius: 5) [15:01:10 -27637.576129] SLOW spr round 15 (radius: 10) [15:02:15 -27637.576094] SLOW spr round 16 (radius: 15) [15:03:49 -27598.795984] SLOW spr round 17 (radius: 5) [15:05:09 -27598.688185] SLOW spr round 18 (radius: 5) [15:06:19 -27598.687599] SLOW spr round 19 (radius: 10) [15:07:25 -27598.687524] SLOW spr round 20 (radius: 15) [15:08:54 -27598.687506] SLOW spr round 21 (radius: 20) [15:10:41 -27594.656624] SLOW spr round 22 (radius: 5) [15:12:02 -27574.798598] SLOW spr round 23 (radius: 5) [15:13:16 -27572.396310] SLOW spr round 24 (radius: 5) [15:14:23 -27572.213716] SLOW spr round 25 (radius: 5) [15:15:29 -27572.211379] SLOW spr round 26 (radius: 10) [15:16:33 -27572.211111] SLOW spr round 27 (radius: 15) [15:18:04 -27571.503772] SLOW spr round 28 (radius: 5) [15:19:23 -27571.500203] SLOW spr round 29 (radius: 10) [15:20:34 -27571.499866] SLOW spr round 30 (radius: 15) [15:22:00 -27571.499812] SLOW spr round 31 (radius: 20) [15:23:53 -27561.357666] SLOW spr round 32 (radius: 5) [15:25:16 -27553.313792] SLOW spr round 33 (radius: 5) [15:26:29 -27551.059048] SLOW spr round 34 (radius: 5) [15:27:35 -27551.057544] SLOW spr round 35 (radius: 10) [15:28:41 -27546.296081] SLOW spr round 36 (radius: 5) [15:29:58 -27546.243130] SLOW spr round 37 (radius: 10) [15:31:07 -27546.241843] SLOW spr round 38 (radius: 15) [15:32:37 -27507.723055] SLOW spr round 39 (radius: 5) [15:33:57 -27504.967776] SLOW spr round 40 (radius: 5) [15:35:08 -27504.966347] SLOW spr round 41 (radius: 10) [15:36:15 -27504.966340] SLOW spr round 42 (radius: 15) [15:37:45 -27504.966340] SLOW spr round 43 (radius: 20) [15:39:38 -27504.641257] SLOW spr round 44 (radius: 5) [15:41:01 -27423.870456] SLOW spr round 45 (radius: 5) [15:42:14 -27409.359030] SLOW spr round 46 (radius: 5) [15:43:21 -27409.357788] SLOW spr round 47 (radius: 10) [15:44:27 -27409.357728] SLOW spr round 48 (radius: 15) [15:45:59 -27409.357725] SLOW spr round 49 (radius: 20) [15:47:53 -27409.267761] SLOW spr round 50 (radius: 25) [15:50:07 -27401.977837] SLOW spr round 51 (radius: 5) [15:51:31 -27354.767069] SLOW spr round 52 (radius: 5) [15:52:45 -27326.947976] SLOW spr round 53 (radius: 5) [15:53:54 -27326.505902] SLOW spr round 54 (radius: 5) [15:54:59 -27326.505217] SLOW spr round 55 (radius: 10) [15:56:04 -27326.177849] SLOW spr round 56 (radius: 5) [15:57:21 -27326.177801] SLOW spr round 57 (radius: 10) [15:58:30 -27326.177800] SLOW spr round 58 (radius: 15) [15:59:58 -27326.177800] SLOW spr round 59 (radius: 20) [16:01:52 -27323.058362] SLOW spr round 60 (radius: 5) [16:03:13 -27321.799558] SLOW spr round 61 (radius: 5) [16:04:25 -27321.799545] SLOW spr round 62 (radius: 10) [16:05:31 -27321.799542] SLOW spr round 63 (radius: 15) [16:07:02 -27321.799541] SLOW spr round 64 (radius: 20) [16:08:53 -27321.799540] SLOW spr round 65 (radius: 25) [16:11:04 -27321.293546] SLOW spr round 66 (radius: 5) [16:12:24 -27321.251745] SLOW spr round 67 (radius: 10) [16:13:37 -27321.251741] SLOW spr round 68 (radius: 15) [16:15:04 -27321.251740] SLOW spr round 69 (radius: 20) [16:16:57 -27321.251740] SLOW spr round 70 (radius: 25) [16:19:07 -27321.251740] Model parameter optimization (eps = 0.100000) [16:19:12] ML tree search #15, logLikelihood: -27320.966227 [16:19:12 -89033.674914] Initial branch length optimization [16:19:14 -74940.485454] Model parameter optimization (eps = 10.000000) [16:19:27 -74858.061461] AUTODETECT spr round 1 (radius: 5) [16:20:31 -58910.619158] AUTODETECT spr round 2 (radius: 10) [16:21:43 -45103.545027] AUTODETECT spr round 3 (radius: 15) [16:23:04 -40136.469622] AUTODETECT spr round 4 (radius: 20) [16:24:50 -35025.550675] AUTODETECT spr round 5 (radius: 25) [16:26:24 -33197.398701] SPR radius for FAST iterations: 25 (autodetect) [16:26:24 -33197.398701] Model parameter optimization (eps = 3.000000) [16:26:35 -33144.908444] FAST spr round 1 (radius: 25) [16:27:54 -27942.867539] FAST spr round 2 (radius: 25) [16:29:00 -27503.051905] FAST spr round 3 (radius: 25) [16:30:00 -27268.229855] FAST spr round 4 (radius: 25) [16:30:56 -27172.324759] FAST spr round 5 (radius: 25) [16:31:50 -27156.254055] FAST spr round 6 (radius: 25) [16:32:42 -27153.739831] FAST spr round 7 (radius: 25) [16:33:34 -27153.739132] Model parameter optimization (eps = 1.000000) [16:33:39 -27152.734148] SLOW spr round 1 (radius: 5) [16:34:46 -27144.658735] SLOW spr round 2 (radius: 5) [16:35:50 -27144.302866] SLOW spr round 3 (radius: 5) [16:36:52 -27144.302501] SLOW spr round 4 (radius: 10) [16:37:55 -27144.160447] SLOW spr round 5 (radius: 5) [16:39:09 -27144.157364] SLOW spr round 6 (radius: 10) [16:40:16 -27144.156703] SLOW spr round 7 (radius: 15) [16:41:42 -27143.598180] SLOW spr round 8 (radius: 5) [16:42:57 -27143.597698] SLOW spr round 9 (radius: 10) [16:44:05 -27143.597685] SLOW spr round 10 (radius: 15) [16:45:31 -27143.597683] SLOW spr round 11 (radius: 20) [16:47:25 -27143.445439] SLOW spr round 12 (radius: 5) [16:48:42 -27143.289658] SLOW spr round 13 (radius: 5) [16:49:52 -27143.289414] SLOW spr round 14 (radius: 10) [16:50:56 -27143.289380] SLOW spr round 15 (radius: 15) [16:52:23 -27143.289366] SLOW spr round 16 (radius: 20) [16:54:17 -27143.289360] SLOW spr round 17 (radius: 25) [16:56:30 -27142.445620] SLOW spr round 18 (radius: 5) [16:57:48 -27142.441962] SLOW spr round 19 (radius: 10) [16:58:59 -27140.897815] SLOW spr round 20 (radius: 5) [17:00:12 -27140.895345] SLOW spr round 21 (radius: 10) [17:01:20 -27140.895020] SLOW spr round 22 (radius: 15) [17:02:50 -27134.093817] SLOW spr round 23 (radius: 5) [17:04:06 -27118.948469] SLOW spr round 24 (radius: 5) [17:05:15 -27118.948464] SLOW spr round 25 (radius: 10) [17:06:19 -27118.948464] SLOW spr round 26 (radius: 15) [17:07:47 -27118.948464] SLOW spr round 27 (radius: 20) [17:09:41 -27118.948464] SLOW spr round 28 (radius: 25) [17:11:54 -27118.948464] Model parameter optimization (eps = 0.100000) [17:11:57] ML tree search #16, logLikelihood: -27118.900817 [17:11:58 -89294.095428] Initial branch length optimization [17:11:58 -75536.328990] Model parameter optimization (eps = 10.000000) [17:12:11 -75452.068246] AUTODETECT spr round 1 (radius: 5) [17:13:15 -58313.676566] AUTODETECT spr round 2 (radius: 10) [17:14:31 -43926.988701] AUTODETECT spr round 3 (radius: 15) [17:15:55 -38850.072754] AUTODETECT spr round 4 (radius: 20) [17:17:32 -36186.568752] AUTODETECT spr round 5 (radius: 25) [17:19:07 -35603.454751] SPR radius for FAST iterations: 25 (autodetect) [17:19:07 -35603.454751] Model parameter optimization (eps = 3.000000) [17:19:18 -35568.559020] FAST spr round 1 (radius: 25) [17:20:36 -30707.146524] FAST spr round 2 (radius: 25) [17:21:47 -30431.972336] FAST spr round 3 (radius: 25) [17:22:50 -30393.552620] FAST spr round 4 (radius: 25) [17:23:50 -30362.267093] FAST spr round 5 (radius: 25) [17:24:45 -30362.007519] FAST spr round 6 (radius: 25) [17:25:42 -30362.006783] Model parameter optimization (eps = 1.000000) [17:25:50 -30354.724684] SLOW spr round 1 (radius: 5) [17:27:18 -30345.086511] SLOW spr round 2 (radius: 5) [17:28:40 -30344.211873] SLOW spr round 3 (radius: 5) [17:30:01 -30344.210602] SLOW spr round 4 (radius: 10) [17:31:21 -30343.729268] SLOW spr round 5 (radius: 5) [17:33:05 -30343.723367] SLOW spr round 6 (radius: 10) [17:34:34 -30343.400775] SLOW spr round 7 (radius: 5) [17:36:15 -30343.391663] SLOW spr round 8 (radius: 10) [17:37:42 -30343.390684] SLOW spr round 9 (radius: 15) [17:39:53 -30342.644906] SLOW spr round 10 (radius: 5) [17:41:40 -30342.643580] SLOW spr round 11 (radius: 10) [17:43:11 -30342.643562] SLOW spr round 12 (radius: 15) [17:45:19 -30342.643561] SLOW spr round 13 (radius: 20) [17:48:11 -30329.061499] SLOW spr round 14 (radius: 5) [17:50:07 -30311.196107] SLOW spr round 15 (radius: 5) [17:51:43 -30310.591533] SLOW spr round 16 (radius: 5) [17:53:08 -30310.589482] SLOW spr round 17 (radius: 10) [17:54:27 -30310.589161] SLOW spr round 18 (radius: 15) [17:56:43 -30310.589094] SLOW spr round 19 (radius: 20) [17:59:34 -30310.589078] SLOW spr round 20 (radius: 25) [18:02:54 -30310.488328] SLOW spr round 21 (radius: 5) [18:04:46 -30305.351054] SLOW spr round 22 (radius: 5) [18:06:27 -30156.149853] SLOW spr round 23 (radius: 5) [18:07:55 -30153.237443] SLOW spr round 24 (radius: 5) [18:09:19 -30146.472641] SLOW spr round 25 (radius: 5) [18:10:39 -30146.471971] SLOW spr round 26 (radius: 10) [18:11:59 -30146.187434] SLOW spr round 27 (radius: 5) [18:13:44 -30145.959751] SLOW spr round 28 (radius: 5) [18:15:14 -30145.959409] SLOW spr round 29 (radius: 10) [18:16:36 -30145.959399] SLOW spr round 30 (radius: 15) [18:18:52 -30145.959399] SLOW spr round 31 (radius: 20) [18:21:43 -30145.959399] SLOW spr round 32 (radius: 25) [18:25:05 -30145.959399] Model parameter optimization (eps = 0.100000) [18:25:09] ML tree search #17, logLikelihood: -30145.798618 [18:25:09 -89016.218924] Initial branch length optimization [18:25:10 -75466.683050] Model parameter optimization (eps = 10.000000) [18:25:28 -75327.594871] AUTODETECT spr round 1 (radius: 5) [18:26:30 -58745.023415] AUTODETECT spr round 2 (radius: 10) [18:27:45 -44619.976371] AUTODETECT spr round 3 (radius: 15) [18:29:07 -40256.024402] AUTODETECT spr round 4 (radius: 20) [18:30:48 -36745.388449] AUTODETECT spr round 5 (radius: 25) [18:32:38 -34688.117746] SPR radius for FAST iterations: 25 (autodetect) [18:32:38 -34688.117746] Model parameter optimization (eps = 3.000000) [18:32:50 -34624.078440] FAST spr round 1 (radius: 25) [18:34:16 -28422.455603] FAST spr round 2 (radius: 25) [18:35:24 -27322.596158] FAST spr round 3 (radius: 25) [18:36:24 -27255.696840] FAST spr round 4 (radius: 25) [18:37:20 -27240.915844] FAST spr round 5 (radius: 25) [18:38:15 -27237.714500] FAST spr round 6 (radius: 25) [18:39:10 -27234.833069] FAST spr round 7 (radius: 25) [18:40:03 -27234.531281] FAST spr round 8 (radius: 25) [18:40:57 -27232.852278] FAST spr round 9 (radius: 25) [18:41:49 -27232.851333] Model parameter optimization (eps = 1.000000) [18:41:54 -27231.994696] SLOW spr round 1 (radius: 5) [18:43:01 -27222.389897] SLOW spr round 2 (radius: 5) [18:44:07 -27219.703920] SLOW spr round 3 (radius: 5) [18:45:10 -27219.703775] SLOW spr round 4 (radius: 10) [18:46:15 -27214.973047] SLOW spr round 5 (radius: 5) [18:47:33 -27208.458595] SLOW spr round 6 (radius: 5) [18:48:43 -27208.455739] SLOW spr round 7 (radius: 10) [18:49:50 -27206.365616] SLOW spr round 8 (radius: 5) [18:51:05 -27205.308805] SLOW spr round 9 (radius: 5) [18:52:14 -27205.306668] SLOW spr round 10 (radius: 10) [18:53:19 -27205.305661] SLOW spr round 11 (radius: 15) [18:54:53 -27204.700983] SLOW spr round 12 (radius: 5) [18:56:09 -27204.696939] SLOW spr round 13 (radius: 10) [18:57:19 -27204.696342] SLOW spr round 14 (radius: 15) [18:58:47 -27204.696201] SLOW spr round 15 (radius: 20) [19:00:37 -27165.822483] SLOW spr round 16 (radius: 5) [19:01:58 -27143.654430] SLOW spr round 17 (radius: 5) [19:03:11 -27096.967512] SLOW spr round 18 (radius: 5) [19:04:19 -27055.876912] SLOW spr round 19 (radius: 5) [19:05:25 -27025.590850] SLOW spr round 20 (radius: 5) [19:06:27 -27025.590814] SLOW spr round 21 (radius: 10) [19:07:29 -27025.590814] SLOW spr round 22 (radius: 15) [19:09:02 -27025.590814] SLOW spr round 23 (radius: 20) [19:10:50 -27025.590814] SLOW spr round 24 (radius: 25) [19:12:52 -27022.430666] SLOW spr round 25 (radius: 5) [19:14:09 -27022.426442] SLOW spr round 26 (radius: 10) [19:15:21 -27022.425966] SLOW spr round 27 (radius: 15) [19:16:48 -27022.425917] SLOW spr round 28 (radius: 20) [19:18:38 -27022.425912] SLOW spr round 29 (radius: 25) [19:20:40 -27022.425911] Model parameter optimization (eps = 0.100000) [19:20:44] ML tree search #18, logLikelihood: -27022.276474 [19:20:44 -89285.725784] Initial branch length optimization [19:20:45 -75609.312823] Model parameter optimization (eps = 10.000000) [19:20:59 -75514.028303] AUTODETECT spr round 1 (radius: 5) [19:22:02 -58528.798489] AUTODETECT spr round 2 (radius: 10) [19:23:17 -45940.803929] AUTODETECT spr round 3 (radius: 15) [19:24:37 -39155.649203] AUTODETECT spr round 4 (radius: 20) [19:26:12 -35905.525297] AUTODETECT spr round 5 (radius: 25) [19:27:49 -35034.203440] SPR radius for FAST iterations: 25 (autodetect) [19:27:49 -35034.203440] Model parameter optimization (eps = 3.000000) [19:28:02 -34987.222015] FAST spr round 1 (radius: 25) [19:29:34 -29675.125526] FAST spr round 2 (radius: 25) [19:30:49 -28951.372648] FAST spr round 3 (radius: 25) [19:31:50 -28686.689381] FAST spr round 4 (radius: 25) [19:32:48 -28673.967262] FAST spr round 5 (radius: 25) [19:33:42 -28671.992145] FAST spr round 6 (radius: 25) [19:34:36 -28671.990400] Model parameter optimization (eps = 1.000000) [19:34:45 -28668.399138] SLOW spr round 1 (radius: 5) [19:35:55 -28658.681930] SLOW spr round 2 (radius: 5) [19:37:02 -28658.427338] SLOW spr round 3 (radius: 5) [19:38:07 -28658.426804] SLOW spr round 4 (radius: 10) [19:39:13 -28655.844526] SLOW spr round 5 (radius: 5) [19:40:32 -28653.971776] SLOW spr round 6 (radius: 5) [19:41:44 -28653.971610] SLOW spr round 7 (radius: 10) [19:42:51 -28653.971588] SLOW spr round 8 (radius: 15) [19:44:20 -28652.435944] SLOW spr round 9 (radius: 5) [19:45:43 -28650.894784] SLOW spr round 10 (radius: 5) [19:46:56 -28650.894542] SLOW spr round 11 (radius: 10) [19:48:03 -28650.894535] SLOW spr round 12 (radius: 15) [19:49:30 -28650.767396] SLOW spr round 13 (radius: 5) [19:50:52 -28650.263147] SLOW spr round 14 (radius: 5) [19:52:04 -28650.262635] SLOW spr round 15 (radius: 10) [19:53:11 -28650.262616] SLOW spr round 16 (radius: 15) [19:54:38 -28650.262612] SLOW spr round 17 (radius: 20) [19:56:23 -28650.163868] SLOW spr round 18 (radius: 25) [19:58:26 -28646.095085] SLOW spr round 19 (radius: 5) [19:59:51 -28641.867253] SLOW spr round 20 (radius: 5) [20:01:04 -28641.848958] SLOW spr round 21 (radius: 10) [20:02:12 -28641.848690] SLOW spr round 22 (radius: 15) [20:03:39 -28641.415214] SLOW spr round 23 (radius: 5) [20:04:59 -28641.415040] SLOW spr round 24 (radius: 10) [20:06:11 -28641.415036] SLOW spr round 25 (radius: 15) [20:07:36 -28641.415034] SLOW spr round 26 (radius: 20) [20:09:22 -28641.415033] SLOW spr round 27 (radius: 25) [20:11:27 -28637.113562] SLOW spr round 28 (radius: 5) [20:12:53 -28472.084319] SLOW spr round 29 (radius: 5) [20:14:10 -28434.482623] SLOW spr round 30 (radius: 5) [20:15:18 -28434.480556] SLOW spr round 31 (radius: 10) [20:16:32 -27874.381463] SLOW spr round 32 (radius: 5) [20:17:49 -27613.952670] SLOW spr round 33 (radius: 5) [20:18:58 -27524.309925] SLOW spr round 34 (radius: 5) [20:20:03 -27517.591544] SLOW spr round 35 (radius: 5) [20:21:05 -27517.591509] SLOW spr round 36 (radius: 10) [20:22:08 -27516.294275] SLOW spr round 37 (radius: 5) [20:23:23 -27515.927543] SLOW spr round 38 (radius: 5) [20:24:30 -27515.926335] SLOW spr round 39 (radius: 10) [20:25:34 -27515.926278] SLOW spr round 40 (radius: 15) [20:27:02 -27512.796155] SLOW spr round 41 (radius: 5) [20:28:18 -27512.795675] SLOW spr round 42 (radius: 10) [20:29:29 -27512.795617] SLOW spr round 43 (radius: 15) [20:30:54 -27512.795610] SLOW spr round 44 (radius: 20) [20:32:43 -27503.559066] SLOW spr round 45 (radius: 5) [20:34:02 -27502.910118] SLOW spr round 46 (radius: 5) [20:35:12 -27502.907691] SLOW spr round 47 (radius: 10) [20:36:18 -27502.907215] SLOW spr round 48 (radius: 15) [20:37:46 -27502.907106] SLOW spr round 49 (radius: 20) [20:39:34 -27502.907080] SLOW spr round 50 (radius: 25) [20:41:43 -27465.309393] SLOW spr round 51 (radius: 5) [20:43:05 -27395.109227] SLOW spr round 52 (radius: 5) [20:44:17 -27391.248820] SLOW spr round 53 (radius: 5) [20:45:24 -27391.248732] SLOW spr round 54 (radius: 10) [20:46:29 -27391.248705] SLOW spr round 55 (radius: 15) [20:47:59 -27390.990554] SLOW spr round 56 (radius: 5) [20:49:16 -27390.671834] SLOW spr round 57 (radius: 5) [20:50:26 -27390.671833] SLOW spr round 58 (radius: 10) [20:51:32 -27390.671833] SLOW spr round 59 (radius: 15) [20:53:01 -27390.418824] SLOW spr round 60 (radius: 5) [20:54:18 -27390.414577] SLOW spr round 61 (radius: 10) [20:55:29 -27390.414567] SLOW spr round 62 (radius: 15) [20:56:55 -27390.414567] SLOW spr round 63 (radius: 20) [20:58:45 -27390.414567] SLOW spr round 64 (radius: 25) [21:00:51 -27390.414567] Model parameter optimization (eps = 0.100000) [21:00:54] ML tree search #19, logLikelihood: -27390.403619 [21:00:54 -89247.728737] Initial branch length optimization [21:00:55 -75268.476638] Model parameter optimization (eps = 10.000000) [21:01:14 -75151.148011] AUTODETECT spr round 1 (radius: 5) [21:02:15 -57556.267367] AUTODETECT spr round 2 (radius: 10) [21:03:32 -43687.111746] AUTODETECT spr round 3 (radius: 15) [21:05:03 -37458.897131] AUTODETECT spr round 4 (radius: 20) [21:06:30 -35139.136476] AUTODETECT spr round 5 (radius: 25) [21:08:08 -33489.868895] SPR radius for FAST iterations: 25 (autodetect) [21:08:08 -33489.868895] Model parameter optimization (eps = 3.000000) [21:08:21 -33400.492697] FAST spr round 1 (radius: 25) [21:09:49 -28310.583371] FAST spr round 2 (radius: 25) [21:11:01 -27638.730557] FAST spr round 3 (radius: 25) [21:12:04 -27170.432439] FAST spr round 4 (radius: 25) [21:13:00 -27157.592860] FAST spr round 5 (radius: 25) [21:13:53 -27156.784226] FAST spr round 6 (radius: 25) [21:14:45 -27156.782673] Model parameter optimization (eps = 1.000000) [21:14:54 -27153.949820] SLOW spr round 1 (radius: 5) [21:15:59 -27144.198851] SLOW spr round 2 (radius: 5) [21:17:04 -27139.607710] SLOW spr round 3 (radius: 5) [21:18:06 -27139.607674] SLOW spr round 4 (radius: 10) [21:19:09 -27139.607652] SLOW spr round 5 (radius: 15) [21:20:37 -27139.335908] SLOW spr round 6 (radius: 5) [21:21:53 -27139.335438] SLOW spr round 7 (radius: 10) [21:23:01 -27139.335267] SLOW spr round 8 (radius: 15) [21:24:25 -27139.077754] SLOW spr round 9 (radius: 5) [21:25:40 -27139.077233] SLOW spr round 10 (radius: 10) [21:26:48 -27139.077205] SLOW spr round 11 (radius: 15) [21:28:11 -27138.986332] SLOW spr round 12 (radius: 20) [21:29:52 -27138.560103] SLOW spr round 13 (radius: 5) [21:31:09 -27138.557757] SLOW spr round 14 (radius: 10) [21:32:18 -27138.557562] SLOW spr round 15 (radius: 15) [21:33:39 -27138.557516] SLOW spr round 16 (radius: 20) [21:35:19 -27137.556737] SLOW spr round 17 (radius: 5) [21:36:36 -27137.433053] SLOW spr round 18 (radius: 5) [21:37:45 -27137.431157] SLOW spr round 19 (radius: 10) [21:38:49 -27137.430903] SLOW spr round 20 (radius: 15) [21:40:14 -27137.430850] SLOW spr round 21 (radius: 20) [21:41:55 -27137.430832] SLOW spr round 22 (radius: 25) [21:43:50 -27135.550878] SLOW spr round 23 (radius: 5) [21:45:09 -27134.141921] SLOW spr round 24 (radius: 5) [21:46:19 -27134.141784] SLOW spr round 25 (radius: 10) [21:47:23 -27134.141777] SLOW spr round 26 (radius: 15) [21:48:49 -27134.141774] SLOW spr round 27 (radius: 20) [21:50:30 -27134.141772] SLOW spr round 28 (radius: 25) [21:52:26 -27133.060670] SLOW spr round 29 (radius: 5) [21:53:46 -27132.132065] SLOW spr round 30 (radius: 5) [21:54:56 -27132.129945] SLOW spr round 31 (radius: 10) [21:56:00 -27132.129726] SLOW spr round 32 (radius: 15) [21:57:27 -27052.230053] SLOW spr round 33 (radius: 5) [21:58:44 -27039.630666] SLOW spr round 34 (radius: 5) [21:59:53 -27039.630651] SLOW spr round 35 (radius: 10) [22:00:56 -27039.630649] SLOW spr round 36 (radius: 15) [22:02:23 -27039.630648] SLOW spr round 37 (radius: 20) [22:04:04 -27038.546783] SLOW spr round 38 (radius: 5) [22:05:23 -27005.821084] SLOW spr round 39 (radius: 5) [22:06:32 -27005.821076] SLOW spr round 40 (radius: 10) [22:07:37 -27005.645573] SLOW spr round 41 (radius: 5) [22:08:51 -27005.644134] SLOW spr round 42 (radius: 10) [22:09:58 -27005.643985] SLOW spr round 43 (radius: 15) [22:11:22 -27005.643968] SLOW spr round 44 (radius: 20) [22:13:04 -27005.643966] SLOW spr round 45 (radius: 25) [22:14:59 -27005.643965] Model parameter optimization (eps = 0.100000) [22:15:04] ML tree search #20, logLikelihood: -27005.624020 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.196492,0.112047) (0.249987,0.528927) (0.321391,1.205682) (0.232130,1.974169) Base frequencies (model): M0: 0.147383 0.017579 0.058208 0.017707 0.026331 0.041582 0.017494 0.027859 0.011849 0.076971 0.147823 0.019535 0.037132 0.029940 0.008059 0.088179 0.089653 0.006477 0.032308 0.097931 M1: 0.063139 0.066357 0.011586 0.066571 0.010800 0.009276 0.053984 0.146986 0.034214 0.088822 0.098196 0.032390 0.021263 0.072697 0.016761 0.020711 0.020797 0.025463 0.045615 0.094372 M2: 0.062457 0.066826 0.049332 0.065270 0.006513 0.041231 0.058965 0.080852 0.028024 0.037024 0.075925 0.064131 0.019620 0.028710 0.104579 0.056388 0.062027 0.008241 0.033124 0.050760 M3: 0.106471 0.074171 0.044513 0.096390 0.002148 0.066733 0.158908 0.037625 0.020691 0.014608 0.028797 0.105352 0.007864 0.007477 0.083595 0.055726 0.047711 0.003975 0.010088 0.027159 Substitution rates (model): M 0: 0.295719 0.067388 0.253712 1.029289 0.107964 0.514644 10.868848 0.380498 0.084223 0.086976 0.188789 0.286389 0.155567 1.671061 2.132922 0.529591 0.115551 0.102453 0.916683 0.448317 0.457483 0.576016 1.741924 0.736017 0.704334 5.658311 0.123387 0.221777 93.433377 0.382175 0.235965 6.535048 0.525521 0.303537 0.641259 0.289466 0.102065 2.358429 0.251987 0.216561 0.503084 0.435271 4.873453 0.090748 0.033310 0.746537 0.128905 0.127321 0.904011 0.939733 0.435450 0.046646 0.262076 0.043986 0.189008 0.599450 109.901504 1.070052 5.229858 0.052764 0.021407 0.621146 0.081091 0.205164 5.164456 0.747330 0.308078 0.260889 0.185083 0.080708 0.029955 0.084794 1.862626 0.553477 0.151733 0.230320 0.096955 0.352526 0.590018 0.386853 1.559564 0.606648 0.587531 0.592318 0.885230 4.117654 0.246260 6.508329 0.054187 0.195703 1.669092 0.810168 0.066081 2.437439 0.165666 0.106333 0.093417 0.035149 0.072549 1.202023 1.634845 0.060194 0.069359 2.448827 0.232297 0.064822 3.537387 0.435384 0.290413 0.280695 0.105999 0.206603 0.404968 0.048984 0.069963 0.256662 0.228519 0.241077 4.320442 3.656545 0.290216 0.307466 0.096556 0.306067 0.204296 0.504221 1.991533 0.655465 6.799829 11.291065 0.961142 0.448965 6.227274 20.304886 0.205944 1.495537 0.091940 1.994320 0.754940 0.170343 0.050315 0.372166 0.206332 0.097050 5.381403 0.122332 3.256485 2.261319 0.848067 0.064441 0.102493 0.459041 0.133091 0.561215 0.457430 0.163849 5.260446 0.360946 0.389413 0.033291 0.115301 0.112593 1.559944 0.426508 0.132547 0.498634 0.559069 0.264728 0.693307 0.438856 0.306683 0.109129 18.392863 66.647302 0.400021 4.586081 2.099355 0.411347 0.476350 0.584622 3.634276 0.101797 0.148995 0.089177 0.034710 0.063603 0.755865 20.561407 0.133790 0.154902 M 1: 0.066142 0.590377 0.069930 9.850951 1.101363 0.150375 0.568586 0.051668 0.127170 0.292429 0.071458 1.218562 0.075144 7.169085 30.139501 13.461692 0.021372 0.045779 4.270235 0.468325 0.013688 0.302287 1.353957 0.028386 0.037750 0.262130 0.016923 0.064289 0.855973 0.079621 0.011169 0.161937 0.276530 0.161053 0.081472 0.036742 0.030342 2.851667 3.932151 8.159169 0.219934 0.421974 2.468752 0.344765 0.210724 1.172204 0.763553 0.082464 0.726566 11.149790 4.782635 0.058046 0.498072 0.258487 0.146882 0.249672 0.560142 0.046719 0.106259 0.003656 0.004200 0.014189 0.009876 0.002656 0.040244 0.267322 0.053740 0.006597 0.027639 0.012745 0.582670 0.005035 0.275844 0.098208 0.445038 1.217010 0.033969 1.988516 0.681161 0.825960 18.762977 11.949233 0.286794 0.534219 4.336817 3.054085 0.129551 4.210126 0.165753 1.088704 1.889645 3.344809 0.111063 2.067758 3.547017 2.466507 0.188236 0.203493 0.281953 0.037250 0.029788 0.008541 0.014768 0.125869 0.056702 0.004186 0.110993 0.201148 0.139705 0.009201 0.012095 0.043812 0.013513 0.002533 0.005848 0.031390 0.021612 0.004854 0.129497 0.976631 0.053397 0.019475 0.004964 0.015539 0.031779 0.064558 0.065585 0.079927 0.095591 0.196886 0.408834 0.126088 0.037226 0.452302 0.016212 7.278994 0.029917 7.918203 0.450964 0.169797 0.104288 1.578530 0.015909 0.094365 16.179952 0.042762 14.799537 1.506485 0.637893 0.123793 0.641351 0.154810 0.140750 3.416059 0.259400 0.009457 0.090576 0.292108 0.297913 0.017172 0.021976 0.032578 1.375871 0.457399 0.598048 4.418398 0.239749 0.168432 2.950318 0.143327 0.328689 0.125011 0.562720 1.414883 0.227807 3.478333 2.984862 0.061299 0.077470 1.050562 13.974326 0.154326 0.224675 0.112000 0.060703 0.123480 5.294490 0.447011 0.033381 0.045528 M 2: 0.733336 0.558955 0.503360 4.149599 1.415369 1.367574 1.263002 0.994098 0.517204 0.775054 0.763094 1.890137 0.540460 0.200122 4.972745 1.825593 0.450842 0.526135 3.839269 0.597671 0.058964 2.863355 2.872594 0.258365 0.366868 2.578946 0.358350 0.672023 5.349861 0.691594 0.063347 0.032875 0.821562 0.580847 0.661866 0.265730 0.395134 5.581680 1.279881 1.335650 0.397108 1.840061 5.739035 0.284730 0.109781 1.612642 0.466979 0.141582 0.019509 4.670980 1.967383 0.088064 0.581928 0.145401 0.225860 0.434096 2.292917 1.024707 0.821921 0.027824 0.021443 0.088850 0.060820 0.018288 0.042687 1.199607 0.420710 0.037642 0.141233 0.090101 1.043232 0.209978 0.823594 3.039380 1.463390 1.983693 0.397640 2.831098 4.102068 0.059723 5.901348 2.034980 2.600668 5.413080 4.193725 4.534772 0.377181 4.877840 0.370939 1.298542 3.509873 2.646440 0.087872 0.072299 1.139018 0.864479 0.390688 0.322761 0.625409 0.496780 0.532488 0.232460 0.169219 0.755219 0.379926 0.020447 0.023282 0.503875 0.577513 0.109318 0.153776 0.696533 0.398817 0.008940 0.043707 0.436013 0.087640 0.064863 0.036426 1.673207 0.124068 0.218118 0.039217 0.104335 0.349195 0.838324 0.888693 0.488389 1.385133 0.050226 0.962470 0.502294 1.065585 8.351808 0.377304 5.102837 0.561690 7.010411 3.054968 0.039318 0.204155 2.653232 0.564368 0.854294 15.559906 0.401070 8.929538 5.525874 0.067505 0.273372 0.437116 1.927515 0.940458 2.508169 1.357738 0.043394 0.023126 0.567639 1.048288 0.120994 0.180650 0.449074 3.135353 0.012695 0.570771 2.319555 1.856122 0.975427 3.404087 0.015631 0.458799 0.151684 4.154750 11.429924 1.457957 0.233109 0.077004 0.011074 0.026268 0.052132 8.113282 0.377578 0.429221 0.260296 0.222293 0.273138 2.903836 4.731579 0.564762 0.681215 M 3: 0.658412 0.566269 0.854111 0.884454 1.309554 1.272639 1.874713 0.552007 0.227683 0.581512 0.695190 0.967985 0.344015 0.978992 3.427163 2.333253 0.154701 0.221089 2.088785 0.540749 0.058015 5.851132 2.294145 0.182966 0.684164 3.192521 0.528161 1.128882 3.010922 1.012866 0.227296 0.156635 0.878405 0.802754 0.830884 0.431617 0.456530 3.060574 1.279257 1.438430 0.431464 2.075952 4.840271 0.644656 0.266076 2.084975 0.720060 0.291854 0.028961 4.071574 2.258357 0.073037 1.238426 0.199728 0.160296 0.482619 2.992763 1.296206 0.841829 0.031467 0.048542 0.132774 0.133055 0.056045 0.209188 0.925172 0.360522 0.094591 0.313945 0.118104 0.992259 0.086318 2.149634 5.103188 3.775817 3.954021 0.190734 1.776095 4.495841 0.264277 7.063879 2.221150 3.017954 8.558815 4.310199 2.130054 0.571406 4.137385 0.437589 2.071689 2.498630 1.763546 0.116381 0.296578 1.033710 1.283423 0.312579 0.305772 0.681277 0.507160 0.351381 0.189152 0.217780 0.767361 0.278392 0.092075 0.177263 0.451893 0.653836 0.074620 0.181992 0.752277 0.679853 0.025780 0.082005 0.326441 0.343977 0.195877 0.217424 3.057583 0.377558 0.401252 0.072258 0.241015 0.665865 1.266791 0.680174 0.717301 4.001286 0.362942 1.189259 0.964545 1.350568 12.869737 0.531100 8.904999 0.652629 10.091413 2.671718 0.086367 0.359932 4.797423 0.336801 1.021885 23.029406 0.440178 14.013035 5.069337 0.539010 0.742569 0.780580 1.331875 1.531589 4.414850 1.082703 0.091278 0.172734 0.693405 1.422571 0.068958 0.163829 0.481711 4.643214 0.121821 0.584083 4.216178 1.677263 1.575754 5.046403 0.161015 1.531223 0.599244 5.832025 33.873091 1.914768 1.287474 0.444362 0.076328 0.079916 0.466823 5.231362 0.548763 0.831890 0.382271 0.208791 0.307846 3.717971 5.910440 0.282540 0.964421 Final LogLikelihood: -26785.957376 AIC score: 57045.914752 / AICc score: 6094857.914752 / BIC score: 60563.950639 Free parameters (model + branch lengths): 1737 WARNING: Number of free parameters (K=1737) is larger than alignment size (n=56). This might lead to overfitting and compromise tree inference results! Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8NEG5/3_mltree/Q8NEG5.raxml.log Analysis started: 03-Jul-2021 09:37:52 / finished: 04-Jul-2021 07:52:56 Elapsed time: 80104.402 seconds Consumed energy: 6076.294 Wh (= 30 km in an electric car, or 152 km with an e-scooter!)