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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 02-Jun-2021 23:24:07 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/2_msa/P07911_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/2_msa/P07911_trimmed_msa.fasta [00:00:00] Loaded alignment with 995 taxa and 48 sites WARNING: Sequences tr_E9HR60_E9HR60_DAPPU_6669 and tr_F6VSN5_F6VSN5_CIOIN_7719 are exactly identical! WARNING: Sequences tr_A0A1D5PU10_A0A1D5PU10_CHICK_9031 and tr_G1MTL5_G1MTL5_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PU10_A0A1D5PU10_CHICK_9031 and tr_U3J262_U3J262_ANAPL_8839 are exactly identical! WARNING: Sequences sp_O08523_TECTA_MOUSE_10090 and tr_A0A1U8BM76_A0A1U8BM76_MESAU_10036 are exactly identical! WARNING: Sequences sp_Q61220_NELL2_MOUSE_10090 and sp_Q62918_NELL2_RAT_10116 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_M3YK40_M3YK40_MUSPF_9669 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_E2RS46_E2RS46_CANLF_9615 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_F7BMQ7_F7BMQ7_HORSE_9796 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_W5Q6X0_W5Q6X0_SHEEP_9940 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_F1M5Q4_F1M5Q4_RAT_10116 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_I3LW66_I3LW66_ICTTR_43179 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_H0WYU5_H0WYU5_OTOGA_30611 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_H0UUK4_H0UUK4_CAVPO_10141 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_F1RKK1_F1RKK1_PIG_9823 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_G1LEN6_G1LEN6_AILME_9646 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_F1MTZ4_F1MTZ4_BOVIN_9913 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A091DP09_A0A091DP09_FUKDA_885580 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A1U7UMC1_A0A1U7UMC1_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2U4AG09_A0A2U4AG09_TURTR_9739 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2U3WV35_A0A2U3WV35_ODORO_9708 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2U3X8X9_A0A2U3X8X9_LEPWE_9713 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2Y9RLH8_A0A2Y9RLH8_TRIMA_127582 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2Y9IKT0_A0A2Y9IKT0_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2Y9PGL2_A0A2Y9PGL2_DELLE_9749 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A2Y9SFP0_A0A2Y9SFP0_PHYCD_9755 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A384CS17_A0A384CS17_URSMA_29073 are exactly identical! WARNING: Sequences sp_Q61555_FBN2_MOUSE_10090 and tr_A0A384AMG5_A0A384AMG5_BALAS_310752 are exactly identical! WARNING: Sequences tr_M3Y2R1_M3Y2R1_MUSPF_9669 and tr_E2QZP6_E2QZP6_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3Y2R1_M3Y2R1_MUSPF_9669 and tr_F7BWN6_F7BWN6_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3Y2R1_M3Y2R1_MUSPF_9669 and tr_G1LNK9_G1LNK9_AILME_9646 are exactly identical! WARNING: Sequences tr_M3Y2R1_M3Y2R1_MUSPF_9669 and tr_A0A2Y9KHX2_A0A2Y9KHX2_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M9PB30_M9PB30_DROME_7227 and tr_B4I3A6_B4I3A6_DROSE_7238 are exactly identical! WARNING: Sequences tr_M9PB30_M9PB30_DROME_7227 and tr_A0A1W4UX80_A0A1W4UX80_DROFC_30025 are exactly identical! WARNING: Sequences tr_A0A2I3G8I5_A0A2I3G8I5_NOMLE_61853 and tr_G3SGQ4_G3SGQ4_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3G8I5_A0A2I3G8I5_NOMLE_61853 and sp_Q5R5C1_UROM_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3G8I5_A0A2I3G8I5_NOMLE_61853 and tr_A0A2I3SIL1_A0A2I3SIL1_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3G8I5_A0A2I3G8I5_NOMLE_61853 and sp_P07911_UROM_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3G8I5_A0A2I3G8I5_NOMLE_61853 and tr_A0A2R9BIY0_A0A2R9BIY0_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_G3QUA2_G3QUA2_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_H2PGF4_H2PGF4_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_K7CZX0_K7CZX0_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and sp_P35556_FBN2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_F7GCA1_F7GCA1_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_F7HHZ8_F7HHZ8_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_G7P865_G7P865_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A096MRY0_A0A096MRY0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A0D9RNR4_A0A0D9RNR4_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A2K5N208_A0A2K5N208_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A2K6BAS4_A0A2K6BAS4_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A2K5YB88_A0A2K5YB88_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3H6C3_A0A2I3H6C3_NOMLE_61853 and tr_A0A2R9C3B6_A0A2R9C3B6_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A2J8X0E6_A0A2J8X0E6_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_H2Q4Z4_H2Q4Z4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_I3MDX9_I3MDX9_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and sp_O75443_TECTA_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_G7PPC3_G7PPC3_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_F1MTV3_F1MTV3_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A096ND43_A0A096ND43_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A0D9S410_A0A0D9S410_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A2K5MYV2_A0A2K5MYV2_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A2K6DFB6_A0A2K6DFB6_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A2K5Y257_A0A2K5Y257_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1R759_G1R759_NOMLE_61853 and tr_A0A2R9B2F0_A0A2R9B2F0_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1RPF8_G1RPF8_NOMLE_61853 and tr_G3RZE9_G3RZE9_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RPF8_G1RPF8_NOMLE_61853 and tr_H2NQA8_H2NQA8_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1RPF8_G1RPF8_NOMLE_61853 and tr_A0A2J8Q5N5_A0A2J8Q5N5_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1RPF8_G1RPF8_NOMLE_61853 and sp_P55259_GP2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RPF8_G1RPF8_NOMLE_61853 and tr_A0A2R9B152_A0A2R9B152_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1PBK9_G1PBK9_MYOLU_59463 and tr_L5KLG1_L5KLG1_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G1Q393_G1Q393_MYOLU_59463 and tr_F6TJL4_F6TJL4_ORNAN_9258 are exactly identical! WARNING: Sequences tr_G1Q393_G1Q393_MYOLU_59463 and tr_A0A060XLY6_A0A060XLY6_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A2I2ZHB1_A0A2I2ZHB1_GORGO_9595 and tr_H2PT23_H2PT23_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I2ZHB1_A0A2I2ZHB1_GORGO_9595 and tr_F7GWF2_F7GWF2_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I2ZHB1_A0A2I2ZHB1_GORGO_9595 and tr_A0A2I3N448_A0A2I3N448_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I2ZHB1_A0A2I2ZHB1_GORGO_9595 and tr_A0A2K5MFS6_A0A2K5MFS6_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I2ZHB1_A0A2I2ZHB1_GORGO_9595 and tr_A0A2K5ZWK4_A0A2K5ZWK4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A7RP86_A7RP86_NEMVE_45351 and tr_A7T3I5_A7T3I5_NEMVE_45351 are exactly identical! WARNING: Sequences tr_A7RP93_A7RP93_NEMVE_45351 and tr_A7T5R6_A7T5R6_NEMVE_45351 are exactly identical! WARNING: Sequences tr_A7RP98_A7RP98_NEMVE_45351 and tr_A7T6I4_A7T6I4_NEMVE_45351 are exactly identical! WARNING: Sequences tr_G1SUS5_G1SUS5_RABIT_9986 and tr_G5AJK4_G5AJK4_HETGA_10181 are exactly identical! WARNING: Sequences tr_E2R3N3_E2R3N3_CANLF_9615 and sp_P25291_GP2_CANLF_9615 are exactly identical! WARNING: Sequences tr_F1PH06_F1PH06_CANLF_9615 and sp_Q862Z3_UROM_CANLF_9615 are exactly identical! WARNING: Sequences tr_H2R6F3_H2R6F3_PANTR_9598 and sp_Q6UWL2_SUSD1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_F7C6A5_F7C6A5_ORNAN_9258 and tr_A0A1U7QYI6_A0A1U7QYI6_MESAU_10036 are exactly identical! WARNING: Sequences tr_M4AD38_M4AD38_XIPMA_8083 and tr_A0A087YDW7_A0A087YDW7_POEFO_48698 are exactly identical! WARNING: Sequences tr_M4ASN7_M4ASN7_XIPMA_8083 and tr_A0A087XR06_A0A087XR06_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A087ZUM8_A0A087ZUM8_APIME_7460 and tr_A0A2A3EUY1_A0A2A3EUY1_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_F4X3Q7_F4X3Q7_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A0L7R344_A0A0L7R344_9HYME_597456 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A151XJK9_A0A151XJK9_9HYME_64791 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A195E0T1_A0A195E0T1_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A195BGI8_A0A195BGI8_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A195F358_A0A195F358_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A158P033_A0A158P033_ATTCE_12957 and tr_A0A195CSH3_A0A195CSH3_9HYME_456900 are exactly identical! WARNING: Sequences tr_I3JQ54_I3JQ54_ORENI_8128 and tr_H2V0I7_H2V0I7_TAKRU_31033 are exactly identical! WARNING: Sequences tr_I3JQ54_I3JQ54_ORENI_8128 and tr_G3NIV5_G3NIV5_GASAC_69293 are exactly identical! WARNING: Sequences tr_I3JQ54_I3JQ54_ORENI_8128 and tr_A0A2U9BV44_A0A2U9BV44_SCOMX_52904 are exactly identical! WARNING: Sequences tr_I3KMM5_I3KMM5_ORENI_8128 and tr_F6T791_F6T791_XENTR_8364 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_G7Q0M4_G7Q0M4_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_A0A2I3NBP6_A0A2I3NBP6_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_A0A0D9R5T6_A0A0D9R5T6_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_A0A2K5M8F6_A0A2K5M8F6_CERAT_9531 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_A0A2K6DJU0_A0A2K6DJU0_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6QVD9_F6QVD9_MACMU_9544 and tr_A0A2K5ZMH2_A0A2K5ZMH2_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7FQD6_F7FQD6_MACMU_9544 and tr_G7Q0M3_G7Q0M3_MACFA_9541 are exactly identical! WARNING: Sequences tr_W4XWD3_W4XWD3_STRPU_7668 and tr_W4ZD55_W4ZD55_STRPU_7668 are exactly identical! WARNING: Sequences tr_H0YQB2_H0YQB2_TAEGU_59729 and tr_U3JTR2_U3JTR2_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0YQB2_H0YQB2_TAEGU_59729 and tr_A0A218UDS5_A0A218UDS5_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0YZQ8_H0YZQ8_TAEGU_59729 and tr_U3JKT4_U3JKT4_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0Z1V6_H0Z1V6_TAEGU_59729 and tr_A0A093GG82_A0A093GG82_DRYPU_118200 are exactly identical! WARNING: Sequences tr_F7A3R4_F7A3R4_XENTR_8364 and tr_A0A1L8EY39_A0A1L8EY39_XENLA_8355 are exactly identical! WARNING: Sequences tr_F7A3R4_F7A3R4_XENTR_8364 and tr_A0A1L8EY68_A0A1L8EY68_XENLA_8355 are exactly identical! WARNING: Sequences tr_F7D7K9_F7D7K9_XENTR_8364 and tr_A0A1L8FG04_A0A1L8FG04_XENLA_8355 are exactly identical! WARNING: Sequences tr_F7D7K9_F7D7K9_XENTR_8364 and tr_A0A1L8FLC7_A0A1L8FLC7_XENLA_8355 are exactly identical! WARNING: Sequences tr_F1SU75_F1SU75_PIG_9823 and tr_A0A337SIK5_A0A337SIK5_FELCA_9685 are exactly identical! WARNING: Sequences tr_F1SU75_F1SU75_PIG_9823 and tr_A0A1U7QQF1_A0A1U7QQF1_MESAU_10036 are exactly identical! WARNING: Sequences tr_F1SU75_F1SU75_PIG_9823 and tr_A0A2R9A507_A0A2R9A507_PANPA_9597 are exactly identical! WARNING: Sequences tr_F1SU75_F1SU75_PIG_9823 and tr_A0A2U3XIQ5_A0A2U3XIQ5_LEPWE_9713 are exactly identical! WARNING: Sequences tr_E3MCS3_E3MCS3_CAERE_31234 and tr_A0A2G5UEI4_A0A2G5UEI4_9PELO_1611254 are exactly identical! WARNING: Sequences tr_E3N6S2_E3N6S2_CAERE_31234 and tr_A0A261A706_A0A261A706_9PELO_1503980 are exactly identical! WARNING: Sequences tr_B4GQE7_B4GQE7_DROPE_7234 and tr_B3RQ05_B3RQ05_TRIAD_10228 are exactly identical! WARNING: Sequences tr_A0A0Q9W9U1_A0A0Q9W9U1_DROVI_7244 and tr_A0A0Q9X5P6_A0A0Q9X5P6_DROMO_7230 are exactly identical! WARNING: Sequences tr_B3RL37_B3RL37_TRIAD_10228 and tr_A0A369SDP0_A0A369SDP0_9METZ_287889 are exactly identical! WARNING: Sequences tr_B3RQ07_B3RQ07_TRIAD_10228 and tr_A0A369RXL3_A0A369RXL3_9METZ_287889 are exactly identical! WARNING: Sequences tr_B3RQ10_B3RQ10_TRIAD_10228 and tr_A0A369RY18_A0A369RY18_9METZ_287889 are exactly identical! WARNING: Sequences tr_B3RS17_B3RS17_TRIAD_10228 and tr_A0A369RWY4_A0A369RWY4_9METZ_287889 are exactly identical! WARNING: Sequences tr_B3RS19_B3RS19_TRIAD_10228 and tr_B3SEJ1_B3SEJ1_TRIAD_10228 are exactly identical! WARNING: Sequences tr_B3RS21_B3RS21_TRIAD_10228 and tr_A0A369RXQ2_A0A369RXQ2_9METZ_287889 are exactly identical! WARNING: Sequences tr_B3S0C6_B3S0C6_TRIAD_10228 and tr_A0A369RTQ1_A0A369RTQ1_9METZ_287889 are exactly identical! WARNING: Sequences tr_F1MCQ0_F1MCQ0_BOVIN_9913 and sp_P48733_UROM_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3WBW4_M3WBW4_FELCA_9685 and tr_A0A1U7Q9X5_A0A1U7Q9X5_MESAU_10036 are exactly identical! WARNING: Sequences tr_U3INI3_U3INI3_ANAPL_8839 and tr_A0A226N8I6_A0A226N8I6_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A044V1M4_A0A044V1M4_ONCVO_6282 and tr_A0A182DWP1_A0A182DWP1_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A087XCH1_A0A087XCH1_POEFO_48698 and tr_A0A096MF32_A0A096MF32_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A096NH75_A0A096NH75_PAPAN_9555 and tr_A0A0D9R5U4_A0A0D9R5U4_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A096NH75_A0A096NH75_PAPAN_9555 and tr_A0A2K5Y212_A0A2K5Y212_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A0K0EUT0_A0A0K0EUT0_STRVS_75913 and tr_A0A0N5BTT6_A0A0N5BTT6_STREA_174720 are exactly identical! WARNING: Sequences tr_A0A0K0E045_A0A0K0E045_STRER_6248 and tr_A0A090MWS1_A0A090MWS1_STRRB_34506 are exactly identical! WARNING: Sequences tr_A0A151M7W6_A0A151M7W6_ALLMI_8496 and tr_A0A0A0ASV9_A0A0A0ASV9_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A151NEC0_A0A151NEC0_ALLMI_8496 and tr_A0A1U7S1V4_A0A1U7S1V4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091J1G3_A0A091J1G3_EGRGA_188379 and tr_A0A091W8G5_A0A091W8G5_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A091V5R4_A0A091V5R4_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A087QU31_A0A087QU31_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A093H1J8_A0A093H1J8_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A091W836_A0A091W836_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A091GEK8_A0A091GEK8_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A0A0AIT3_A0A0A0AIT3_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A091I5T8_A0A091I5T8_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A091JBM7_A0A091JBM7_EGRGA_188379 and tr_A0A1V4KK10_A0A1V4KK10_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A194RDF3_A0A194RDF3_PAPMA_76193 and tr_A0A194Q644_A0A194Q644_PAPXU_66420 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V1D8S3_A0A0V1D8S3_TRIBR_45882 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V0W1J0_A0A0V0W1J0_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V0VVN7_A0A0V0VVN7_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V1LQ55_A0A0V1LQ55_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V0ZV86_A0A0V0ZV86_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V1PL70_A0A0V1PL70_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V1HX93_A0A0V1HX93_9BILA_268475 are exactly identical! WARNING: Sequences tr_A0A0V0RJQ9_A0A0V0RJQ9_9BILA_6336 and tr_A0A0V0UF05_A0A0V0UF05_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A1S3EKY0_A0A1S3EKY0_DIPOR_10020 and tr_A0A1U7T3W0_A0A1U7T3W0_TARSY_1868482 are exactly identical! WARNING: Sequences tr_A0A1S3HXY8_A0A1S3HXY8_LINUN_7574 and tr_A0A1S3KFN6_A0A1S3KFN6_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A1S3IDB9_A0A1S3IDB9_LINUN_7574 and tr_A0A1S3JZB6_A0A1S3JZB6_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A1I7TEP9_A0A1I7TEP9_9PELO_1561998 and tr_A0A1I7TEQ0_A0A1I7TEQ0_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A1L8HMV5_A0A1L8HMV5_XENLA_8355 and tr_A0A1L8HW58_A0A1L8HW58_XENLA_8355 are exactly identical! WARNING: Sequences tr_A0A226NHA6_A0A226NHA6_CALSU_9009 and tr_A0A226P854_A0A226P854_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2A2J604_A0A2A2J604_9BILA_2018661 and tr_A0A2A2M046_A0A2A2M046_9BILA_2018661 are exactly identical! WARNING: Sequences tr_A0A2A2JBH2_A0A2A2JBH2_9BILA_2018661 and tr_A0A2A2LTF2_A0A2A2LTF2_9BILA_2018661 are exactly identical! WARNING: Sequences tr_A0A2D0T311_A0A2D0T311_ICTPU_7998 and tr_A0A2D0T317_A0A2D0T317_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U4BVS0_A0A2U4BVS0_TURTR_9739 and tr_A0A2Y9MF68_A0A2Y9MF68_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4BVS0_A0A2U4BVS0_TURTR_9739 and tr_A0A2Y9F6T0_A0A2Y9F6T0_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 169 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.reduced.phy Alignment comprises 1 partitions and 48 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 48 / 48 Gaps: 15.20 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.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 995 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 48 / 3840 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -79392.458037] Initial branch length optimization [00:00:02 -66376.937743] Model parameter optimization (eps = 10.000000) [00:00:24 -66161.900905] AUTODETECT spr round 1 (radius: 5) [00:01:39 -50039.632390] AUTODETECT spr round 2 (radius: 10) [00:03:04 -41683.524578] AUTODETECT spr round 3 (radius: 15) [00:04:43 -36215.735094] AUTODETECT spr round 4 (radius: 20) [00:06:50 -32405.656603] AUTODETECT spr round 5 (radius: 25) [00:09:39 -30815.997484] SPR radius for FAST iterations: 25 (autodetect) [00:09:39 -30815.997484] Model parameter optimization (eps = 3.000000) [00:10:00 -30739.268717] FAST spr round 1 (radius: 25) [00:11:55 -27261.536150] FAST spr round 2 (radius: 25) [00:13:33 -26888.083267] FAST spr round 3 (radius: 25) [00:15:03 -26825.084245] FAST spr round 4 (radius: 25) [00:16:25 -26813.517830] FAST spr round 5 (radius: 25) [00:17:45 -26805.466167] FAST spr round 6 (radius: 25) [00:19:02 -26797.092544] FAST spr round 7 (radius: 25) [00:20:19 -26792.308107] FAST spr round 8 (radius: 25) [00:21:40 -26792.306697] Model parameter optimization (eps = 1.000000) [00:21:56 -26784.806608] SLOW spr round 1 (radius: 5) [00:23:45 -26782.038547] SLOW spr round 2 (radius: 5) [00:25:29 -26781.663932] SLOW spr round 3 (radius: 5) [00:27:12 -26781.663441] SLOW spr round 4 (radius: 10) [00:29:06 -26779.914865] SLOW spr round 5 (radius: 5) [00:31:20 -26779.914304] SLOW spr round 6 (radius: 10) [00:33:29 -26779.328023] SLOW spr round 7 (radius: 5) [00:35:36 -26779.327997] SLOW spr round 8 (radius: 10) [00:37:40 -26779.327981] SLOW spr round 9 (radius: 15) [00:40:54 -26773.459305] SLOW spr round 10 (radius: 5) [00:43:14 -26773.289598] SLOW spr round 11 (radius: 5) [00:45:13 -26773.281472] SLOW spr round 12 (radius: 10) [00:47:10 -26773.279813] SLOW spr round 13 (radius: 15) [00:50:26 -26773.279338] SLOW spr round 14 (radius: 20) [00:54:57 -26763.280700] SLOW spr round 15 (radius: 5) [00:57:23 -26760.377518] SLOW spr round 16 (radius: 5) [00:59:31 -26758.337625] SLOW spr round 17 (radius: 5) [01:01:27 -26758.146026] SLOW spr round 18 (radius: 5) [01:03:15 -26758.145309] SLOW spr round 19 (radius: 10) [01:05:07 -26758.145220] SLOW spr round 20 (radius: 15) [01:08:35 -26758.145215] SLOW spr round 21 (radius: 20) [01:12:54 -26757.674022] SLOW spr round 22 (radius: 5) [01:15:17 -26757.378161] SLOW spr round 23 (radius: 5) [01:17:21 -26757.377571] SLOW spr round 24 (radius: 10) [01:19:21 -26757.377509] SLOW spr round 25 (radius: 15) [01:22:40 -26757.377502] SLOW spr round 26 (radius: 20) [01:26:59 -26757.076613] SLOW spr round 27 (radius: 5) [01:29:18 -26757.076613] SLOW spr round 28 (radius: 10) [01:31:36 -26757.076613] SLOW spr round 29 (radius: 15) [01:34:47 -26757.076613] SLOW spr round 30 (radius: 20) [01:39:07 -26757.076613] SLOW spr round 31 (radius: 25) [01:44:26 -26751.168775] SLOW spr round 32 (radius: 5) [01:46:52 -26749.492869] SLOW spr round 33 (radius: 5) [01:48:54 -26749.468485] SLOW spr round 34 (radius: 10) [01:50:54 -26749.468163] SLOW spr round 35 (radius: 15) [01:54:10 -26749.468106] SLOW spr round 36 (radius: 20) [01:58:26 -26749.468094] SLOW spr round 37 (radius: 25) [02:03:41 -26749.355495] SLOW spr round 38 (radius: 5) [02:06:09 -26748.422421] SLOW spr round 39 (radius: 5) [02:08:11 -26748.422336] SLOW spr round 40 (radius: 10) [02:10:10 -26748.422330] SLOW spr round 41 (radius: 15) [02:13:26 -26748.422330] SLOW spr round 42 (radius: 20) [02:17:41 -26748.422330] SLOW spr round 43 (radius: 25) [02:22:54 -26748.365167] Model parameter optimization (eps = 0.100000) [02:23:03] ML tree search #1, logLikelihood: -26747.929807 [02:23:03 -78884.316827] Initial branch length optimization [02:23:05 -65237.643877] Model parameter optimization (eps = 10.000000) [02:23:32 -65047.317448] AUTODETECT spr round 1 (radius: 5) [02:24:50 -50915.529727] AUTODETECT spr round 2 (radius: 10) [02:26:14 -41601.936274] AUTODETECT spr round 3 (radius: 15) [02:27:53 -35560.629570] AUTODETECT spr round 4 (radius: 20) [02:29:59 -32174.703316] AUTODETECT spr round 5 (radius: 25) [02:33:38 -30783.124510] SPR radius for FAST iterations: 25 (autodetect) [02:33:38 -30783.124510] Model parameter optimization (eps = 3.000000) [02:33:57 -30712.707218] FAST spr round 1 (radius: 25) [02:36:11 -27112.778412] FAST spr round 2 (radius: 25) [02:38:13 -26900.793024] FAST spr round 3 (radius: 25) [02:39:53 -26851.839112] FAST spr round 4 (radius: 25) [02:41:22 -26849.928470] FAST spr round 5 (radius: 25) [02:42:43 -26849.383012] FAST spr round 6 (radius: 25) [02:44:00 -26849.380393] Model parameter optimization (eps = 1.000000) [02:44:10 -26845.845469] SLOW spr round 1 (radius: 5) [02:46:00 -26835.813656] SLOW spr round 2 (radius: 5) [02:47:46 -26833.920535] SLOW spr round 3 (radius: 5) [02:49:31 -26833.830860] SLOW spr round 4 (radius: 10) [02:51:23 -26827.138683] SLOW spr round 5 (radius: 5) [02:53:39 -26825.721676] SLOW spr round 6 (radius: 5) [02:55:37 -26825.641685] SLOW spr round 7 (radius: 10) [02:57:30 -26825.639455] SLOW spr round 8 (radius: 15) [03:00:50 -26819.375216] SLOW spr round 9 (radius: 5) [03:03:10 -26818.804471] SLOW spr round 10 (radius: 5) [03:05:09 -26818.803620] SLOW spr round 11 (radius: 10) [03:07:09 -26813.700472] SLOW spr round 12 (radius: 5) [03:09:21 -26812.834197] SLOW spr round 13 (radius: 5) [03:11:21 -26812.427274] SLOW spr round 14 (radius: 5) [03:13:08 -26812.427146] SLOW spr round 15 (radius: 10) [03:14:57 -26812.427138] SLOW spr round 16 (radius: 15) [03:18:25 -26812.427137] SLOW spr round 17 (radius: 20) [03:23:19 -26800.406914] SLOW spr round 18 (radius: 5) [03:25:43 -26795.767167] SLOW spr round 19 (radius: 5) [03:27:44 -26795.766727] SLOW spr round 20 (radius: 10) [03:29:42 -26795.766631] SLOW spr round 21 (radius: 15) [03:32:58 -26795.748703] SLOW spr round 22 (radius: 20) [03:37:44 -26795.108397] SLOW spr round 23 (radius: 5) [03:40:03 -26795.108264] SLOW spr round 24 (radius: 10) [03:42:20 -26795.104966] SLOW spr round 25 (radius: 15) [03:45:28 -26795.104962] SLOW spr round 26 (radius: 20) [03:50:11 -26793.542318] SLOW spr round 27 (radius: 5) [03:52:29 -26793.540410] SLOW spr round 28 (radius: 10) [03:54:46 -26793.540368] SLOW spr round 29 (radius: 15) [03:57:54 -26793.540361] SLOW spr round 30 (radius: 20) [04:02:35 -26793.540359] SLOW spr round 31 (radius: 25) [04:08:30 -26790.547385] SLOW spr round 32 (radius: 5) [04:10:50 -26789.095790] SLOW spr round 33 (radius: 5) [04:12:52 -26789.095788] SLOW spr round 34 (radius: 10) [04:14:51 -26789.095786] SLOW spr round 35 (radius: 15) [04:18:04 -26789.095783] SLOW spr round 36 (radius: 20) [04:22:40 -26789.095783] SLOW spr round 37 (radius: 25) [04:28:33 -26788.963361] SLOW spr round 38 (radius: 5) [04:30:52 -26788.963361] SLOW spr round 39 (radius: 10) [04:33:12 -26788.963361] SLOW spr round 40 (radius: 15) [04:36:18 -26788.963361] SLOW spr round 41 (radius: 20) [04:40:57 -26788.963361] SLOW spr round 42 (radius: 25) [04:46:49 -26788.963361] Model parameter optimization (eps = 0.100000) [04:46:55] ML tree search #2, logLikelihood: -26788.853864 [04:46:55 -78922.340351] Initial branch length optimization [04:46:57 -65918.902557] Model parameter optimization (eps = 10.000000) [04:47:19 -65721.781241] AUTODETECT spr round 1 (radius: 5) [04:48:37 -50060.393235] AUTODETECT spr round 2 (radius: 10) [04:50:03 -40520.462234] AUTODETECT spr round 3 (radius: 15) [04:51:42 -35784.261330] AUTODETECT spr round 4 (radius: 20) [04:53:40 -32599.820784] AUTODETECT spr round 5 (radius: 25) [04:56:33 -31445.842613] SPR radius for FAST iterations: 25 (autodetect) [04:56:33 -31445.842613] Model parameter optimization (eps = 3.000000) [04:56:52 -31367.209920] FAST spr round 1 (radius: 25) [04:59:14 -27977.709557] FAST spr round 2 (radius: 25) [05:01:45 -27394.209898] FAST spr round 3 (radius: 25) [05:03:48 -27219.529857] FAST spr round 4 (radius: 25) [05:05:37 -27204.158833] FAST spr round 5 (radius: 25) [05:07:08 -27203.445145] FAST spr round 6 (radius: 25) [05:08:33 -27203.444952] Model parameter optimization (eps = 1.000000) [05:08:52 -27189.166309] SLOW spr round 1 (radius: 5) [05:10:38 -27182.110928] SLOW spr round 2 (radius: 5) [05:12:22 -27182.054527] SLOW spr round 3 (radius: 10) [05:14:12 -27179.379236] SLOW spr round 4 (radius: 5) [05:16:23 -27179.276951] SLOW spr round 5 (radius: 5) [05:18:19 -27179.154797] SLOW spr round 6 (radius: 5) [05:20:06 -27179.153647] SLOW spr round 7 (radius: 10) [05:21:54 -27179.153195] SLOW spr round 8 (radius: 15) [05:25:27 -27176.911151] SLOW spr round 9 (radius: 5) [05:27:40 -27176.860129] SLOW spr round 10 (radius: 10) [05:29:47 -27176.860036] SLOW spr round 11 (radius: 15) [05:33:04 -27175.926190] SLOW spr round 12 (radius: 5) [05:35:17 -27175.882922] SLOW spr round 13 (radius: 10) [05:37:25 -27175.859532] SLOW spr round 14 (radius: 15) [05:40:41 -27175.857143] SLOW spr round 15 (radius: 20) [05:45:13 -27117.548625] SLOW spr round 16 (radius: 5) [05:47:36 -27097.487624] SLOW spr round 17 (radius: 5) [05:49:41 -27096.488112] SLOW spr round 18 (radius: 5) [05:51:33 -27096.486562] SLOW spr round 19 (radius: 10) [05:53:24 -27096.169116] SLOW spr round 20 (radius: 5) [05:55:34 -27096.168470] SLOW spr round 21 (radius: 10) [05:57:38 -27096.168315] SLOW spr round 22 (radius: 15) [06:00:53 -27096.168278] SLOW spr round 23 (radius: 20) [06:05:19 -27094.207428] SLOW spr round 24 (radius: 5) [06:07:41 -27093.626512] SLOW spr round 25 (radius: 5) [06:09:43 -27093.625888] SLOW spr round 26 (radius: 10) [06:11:40 -27093.625859] SLOW spr round 27 (radius: 15) [06:15:05 -27091.966437] SLOW spr round 28 (radius: 5) [06:17:19 -27091.966288] SLOW spr round 29 (radius: 10) [06:19:28 -27091.966285] SLOW spr round 30 (radius: 15) [06:22:44 -27091.966285] SLOW spr round 31 (radius: 20) [06:27:08 -27091.965237] SLOW spr round 32 (radius: 25) [06:31:54 -27089.154262] SLOW spr round 33 (radius: 5) [06:34:20 -27086.689423] SLOW spr round 34 (radius: 5) [06:36:22 -27086.686936] SLOW spr round 35 (radius: 10) [06:38:19 -27086.686900] SLOW spr round 36 (radius: 15) [06:41:35 -27086.686899] SLOW spr round 37 (radius: 20) [06:45:58 -27086.686898] SLOW spr round 38 (radius: 25) [06:50:36 -27086.686898] Model parameter optimization (eps = 0.100000) [06:50:44] ML tree search #3, logLikelihood: -27085.974243 [06:50:44 -78832.927533] Initial branch length optimization [06:50:46 -66119.302165] Model parameter optimization (eps = 10.000000) [06:51:09 -65899.705447] AUTODETECT spr round 1 (radius: 5) [06:52:26 -51503.982514] AUTODETECT spr round 2 (radius: 10) [06:53:53 -40859.844725] AUTODETECT spr round 3 (radius: 15) [06:55:31 -36765.682828] AUTODETECT spr round 4 (radius: 20) [06:57:28 -34207.375197] AUTODETECT spr round 5 (radius: 25) [06:59:51 -31944.470641] SPR radius for FAST iterations: 25 (autodetect) [06:59:51 -31944.470641] Model parameter optimization (eps = 3.000000) [06:59:57 -31941.238151] FAST spr round 1 (radius: 25) [07:02:57 -27597.367724] FAST spr round 2 (radius: 25) [07:05:01 -27001.915029] FAST spr round 3 (radius: 25) [07:06:47 -26955.391578] FAST spr round 4 (radius: 25) [07:08:24 -26951.291245] FAST spr round 5 (radius: 25) [07:09:52 -26950.283896] FAST spr round 6 (radius: 25) [07:11:15 -26950.163973] FAST spr round 7 (radius: 25) [07:12:37 -26950.163305] Model parameter optimization (eps = 1.000000) [07:13:04 -26874.963155] SLOW spr round 1 (radius: 5) [07:14:46 -26857.713093] SLOW spr round 2 (radius: 5) [07:16:27 -26855.683456] SLOW spr round 3 (radius: 5) [07:18:07 -26855.386469] SLOW spr round 4 (radius: 5) [07:19:46 -26855.386023] SLOW spr round 5 (radius: 10) [07:21:30 -26848.325602] SLOW spr round 6 (radius: 5) [07:23:36 -26844.901423] SLOW spr round 7 (radius: 5) [07:25:28 -26843.231810] SLOW spr round 8 (radius: 5) [07:27:12 -26843.230621] SLOW spr round 9 (radius: 10) [07:28:55 -26843.230349] SLOW spr round 10 (radius: 15) [07:31:59 -26827.877236] SLOW spr round 11 (radius: 5) [07:34:06 -26827.223118] SLOW spr round 12 (radius: 5) [07:35:57 -26827.221380] SLOW spr round 13 (radius: 10) [07:37:47 -26824.049854] SLOW spr round 14 (radius: 5) [07:39:46 -26824.049758] SLOW spr round 15 (radius: 10) [07:41:41 -26824.049735] SLOW spr round 16 (radius: 15) [07:44:32 -26821.742282] SLOW spr round 17 (radius: 5) [07:46:38 -26821.733162] SLOW spr round 18 (radius: 10) [07:48:39 -26821.272154] SLOW spr round 19 (radius: 5) [07:50:37 -26821.272153] SLOW spr round 20 (radius: 10) [07:52:32 -26821.272151] SLOW spr round 21 (radius: 15) [07:55:21 -26820.092254] SLOW spr round 22 (radius: 5) [07:57:28 -26820.086391] SLOW spr round 23 (radius: 10) [07:59:28 -26820.086353] SLOW spr round 24 (radius: 15) [08:02:15 -26820.086351] SLOW spr round 25 (radius: 20) [08:05:51 -26816.755093] SLOW spr round 26 (radius: 5) [08:08:02 -26816.676247] SLOW spr round 27 (radius: 10) [08:10:07 -26816.399416] SLOW spr round 28 (radius: 5) [08:12:07 -26816.399064] SLOW spr round 29 (radius: 10) [08:14:03 -26816.398730] SLOW spr round 30 (radius: 15) [08:16:55 -26816.398388] SLOW spr round 31 (radius: 20) [08:20:36 -26797.612266] SLOW spr round 32 (radius: 5) [08:22:46 -26797.610807] SLOW spr round 33 (radius: 10) [08:24:51 -26797.610318] SLOW spr round 34 (radius: 15) [08:27:43 -26797.610079] SLOW spr round 35 (radius: 20) [08:31:24 -26797.610007] SLOW spr round 36 (radius: 25) [08:35:24 -26784.008452] SLOW spr round 37 (radius: 5) [08:37:43 -26782.928480] SLOW spr round 38 (radius: 5) [08:39:41 -26782.928381] SLOW spr round 39 (radius: 10) [08:41:36 -26782.928377] SLOW spr round 40 (radius: 15) [08:44:42 -26780.200227] SLOW spr round 41 (radius: 5) [08:46:57 -26777.032288] SLOW spr round 42 (radius: 5) [08:48:56 -26776.385603] SLOW spr round 43 (radius: 5) [08:50:44 -26776.384589] SLOW spr round 44 (radius: 10) [08:52:33 -26776.384516] SLOW spr round 45 (radius: 15) [08:55:45 -26776.384498] SLOW spr round 46 (radius: 20) [08:59:41 -26776.384494] SLOW spr round 47 (radius: 25) [09:03:43 -26776.233433] SLOW spr round 48 (radius: 5) [09:05:59 -26776.232356] SLOW spr round 49 (radius: 10) [09:08:11 -26776.232299] SLOW spr round 50 (radius: 15) [09:11:12 -26776.232296] SLOW spr round 51 (radius: 20) [09:15:07 -26776.232295] SLOW spr round 52 (radius: 25) [09:19:09 -26776.232295] Model parameter optimization (eps = 0.100000) [09:19:19] ML tree search #4, logLikelihood: -26775.242264 [09:19:19 -78819.167593] Initial branch length optimization [09:19:20 -65578.093447] Model parameter optimization (eps = 10.000000) [09:19:44 -65304.913615] AUTODETECT spr round 1 (radius: 5) [09:21:00 -51005.170037] AUTODETECT spr round 2 (radius: 10) [09:22:25 -42565.813073] AUTODETECT spr round 3 (radius: 15) [09:24:05 -36811.276802] AUTODETECT spr round 4 (radius: 20) [09:26:09 -31806.081360] AUTODETECT spr round 5 (radius: 25) [09:29:17 -30738.051885] SPR radius for FAST iterations: 25 (autodetect) [09:29:17 -30738.051885] Model parameter optimization (eps = 3.000000) [09:29:37 -30670.507565] FAST spr round 1 (radius: 25) [09:31:56 -27775.199279] FAST spr round 2 (radius: 25) [09:33:40 -27193.397696] FAST spr round 3 (radius: 25) [09:35:07 -26928.205788] FAST spr round 4 (radius: 25) [09:36:27 -26868.264284] FAST spr round 5 (radius: 25) [09:37:41 -26865.564110] FAST spr round 6 (radius: 25) [09:38:54 -26863.654685] FAST spr round 7 (radius: 25) [09:40:04 -26863.654636] Model parameter optimization (eps = 1.000000) [09:40:21 -26857.699425] SLOW spr round 1 (radius: 5) [09:41:45 -26852.438522] SLOW spr round 2 (radius: 5) [09:43:09 -26847.698484] SLOW spr round 3 (radius: 5) [09:44:31 -26841.993304] SLOW spr round 4 (radius: 5) [09:45:52 -26841.992324] SLOW spr round 5 (radius: 10) [09:47:15 -26841.226640] SLOW spr round 6 (radius: 5) [09:48:51 -26841.226215] SLOW spr round 7 (radius: 10) [09:50:23 -26839.488100] SLOW spr round 8 (radius: 5) [09:51:58 -26839.474185] SLOW spr round 9 (radius: 10) [09:53:28 -26837.625594] SLOW spr round 10 (radius: 5) [09:55:02 -26837.625043] SLOW spr round 11 (radius: 10) [09:56:31 -26837.625031] SLOW spr round 12 (radius: 15) [09:58:31 -26833.509462] SLOW spr round 13 (radius: 5) [10:00:12 -26830.015405] SLOW spr round 14 (radius: 5) [10:01:42 -26829.921027] SLOW spr round 15 (radius: 10) [10:03:09 -26829.920730] SLOW spr round 16 (radius: 15) [10:05:16 -26819.512148] SLOW spr round 17 (radius: 5) [10:06:57 -26751.329055] SLOW spr round 18 (radius: 5) [10:08:27 -26750.585480] SLOW spr round 19 (radius: 5) [10:09:52 -26750.585427] SLOW spr round 20 (radius: 10) [10:11:17 -26750.585426] SLOW spr round 21 (radius: 15) [10:13:25 -26750.585425] SLOW spr round 22 (radius: 20) [10:15:57 -26747.074851] SLOW spr round 23 (radius: 5) [10:17:38 -26745.931665] SLOW spr round 24 (radius: 5) [10:19:09 -26745.931614] SLOW spr round 25 (radius: 10) [10:20:37 -26745.097596] SLOW spr round 26 (radius: 5) [10:22:15 -26743.438554] SLOW spr round 27 (radius: 5) [10:23:43 -26743.436552] SLOW spr round 28 (radius: 10) [10:25:10 -26743.436547] SLOW spr round 29 (radius: 15) [10:27:17 -26742.950875] SLOW spr round 30 (radius: 5) [10:28:56 -26741.452617] SLOW spr round 31 (radius: 5) [10:30:25 -26741.452521] SLOW spr round 32 (radius: 10) [10:31:53 -26741.452517] SLOW spr round 33 (radius: 15) [10:33:59 -26741.452517] SLOW spr round 34 (radius: 20) [10:36:31 -26741.196537] SLOW spr round 35 (radius: 5) [10:38:09 -26740.925030] SLOW spr round 36 (radius: 5) [10:39:40 -26740.888753] SLOW spr round 37 (radius: 10) [10:41:07 -26740.888005] SLOW spr round 38 (radius: 15) [10:43:12 -26740.887984] SLOW spr round 39 (radius: 20) [10:45:46 -26738.812778] SLOW spr round 40 (radius: 5) [10:47:27 -26737.367392] SLOW spr round 41 (radius: 5) [10:48:58 -26737.366126] SLOW spr round 42 (radius: 10) [10:50:25 -26737.366062] SLOW spr round 43 (radius: 15) [10:52:30 -26737.366054] SLOW spr round 44 (radius: 20) [10:55:06 -26736.817622] SLOW spr round 45 (radius: 5) [10:56:46 -26736.817162] SLOW spr round 46 (radius: 10) [10:58:22 -26736.817120] SLOW spr round 47 (radius: 15) [11:00:24 -26736.817110] SLOW spr round 48 (radius: 20) [11:03:00 -26734.820816] SLOW spr round 49 (radius: 5) [11:04:40 -26734.818868] SLOW spr round 50 (radius: 10) [11:06:17 -26734.817931] SLOW spr round 51 (radius: 15) [11:08:20 -26734.063849] SLOW spr round 52 (radius: 5) [11:09:58 -26734.063653] SLOW spr round 53 (radius: 10) [11:11:33 -26734.063604] SLOW spr round 54 (radius: 15) [11:13:37 -26734.063589] SLOW spr round 55 (radius: 20) [11:16:15 -26734.063584] SLOW spr round 56 (radius: 25) [11:19:05 -26714.757910] SLOW spr round 57 (radius: 5) [11:20:45 -26714.757591] SLOW spr round 58 (radius: 10) [11:22:24 -26714.757589] SLOW spr round 59 (radius: 15) [11:24:26 -26714.757588] SLOW spr round 60 (radius: 20) [11:27:04 -26712.307024] SLOW spr round 61 (radius: 5) [11:28:43 -26711.902126] SLOW spr round 62 (radius: 5) [11:30:14 -26711.901671] SLOW spr round 63 (radius: 10) [11:31:42 -26711.901664] SLOW spr round 64 (radius: 15) [11:33:49 -26711.901664] SLOW spr round 65 (radius: 20) [11:36:25 -26711.901664] SLOW spr round 66 (radius: 25) [11:39:14 -26711.901664] Model parameter optimization (eps = 0.100000) [11:39:21] ML tree search #5, logLikelihood: -26711.475790 [11:39:21 -78632.974560] Initial branch length optimization [11:39:23 -65781.597526] Model parameter optimization (eps = 10.000000) [11:39:45 -65599.371437] AUTODETECT spr round 1 (radius: 5) [11:41:02 -51186.715485] AUTODETECT spr round 2 (radius: 10) [11:42:27 -41662.955329] AUTODETECT spr round 3 (radius: 15) [11:44:11 -35215.388100] AUTODETECT spr round 4 (radius: 20) [11:46:18 -31632.776212] AUTODETECT spr round 5 (radius: 25) [11:49:36 -30528.848763] SPR radius for FAST iterations: 25 (autodetect) [11:49:36 -30528.848763] Model parameter optimization (eps = 3.000000) [11:49:49 -30475.951572] FAST spr round 1 (radius: 25) [11:52:00 -27355.401874] FAST spr round 2 (radius: 25) [11:54:09 -26998.045515] FAST spr round 3 (radius: 25) [11:55:53 -26903.448972] FAST spr round 4 (radius: 25) [11:57:25 -26888.036709] FAST spr round 5 (radius: 25) [11:58:47 -26888.034633] Model parameter optimization (eps = 1.000000) [11:58:59 -26881.143516] SLOW spr round 1 (radius: 5) [12:00:45 -26871.994407] SLOW spr round 2 (radius: 5) [12:02:31 -26862.527197] SLOW spr round 3 (radius: 5) [12:04:15 -26860.516265] SLOW spr round 4 (radius: 5) [12:05:57 -26860.067365] SLOW spr round 5 (radius: 5) [12:07:37 -26858.394994] SLOW spr round 6 (radius: 5) [12:09:14 -26858.394553] SLOW spr round 7 (radius: 10) [12:10:59 -26855.168742] SLOW spr round 8 (radius: 5) [12:13:02 -26854.761237] SLOW spr round 9 (radius: 5) [12:14:52 -26854.714855] SLOW spr round 10 (radius: 10) [12:16:41 -26854.030593] SLOW spr round 11 (radius: 5) [12:18:41 -26854.030572] SLOW spr round 12 (radius: 10) [12:20:40 -26854.030571] SLOW spr round 13 (radius: 15) [12:23:32 -26849.505603] SLOW spr round 14 (radius: 5) [12:25:41 -26848.939848] SLOW spr round 15 (radius: 5) [12:27:35 -26847.975186] SLOW spr round 16 (radius: 5) [12:29:18 -26847.974848] SLOW spr round 17 (radius: 10) [12:31:02 -26847.974838] SLOW spr round 18 (radius: 15) [12:34:00 -26847.974837] SLOW spr round 19 (radius: 20) [12:37:46 -26842.258466] SLOW spr round 20 (radius: 5) [12:39:53 -26842.252972] SLOW spr round 21 (radius: 10) [12:42:00 -26842.120058] SLOW spr round 22 (radius: 5) [12:43:57 -26842.111062] SLOW spr round 23 (radius: 10) [12:45:53 -26839.727427] SLOW spr round 24 (radius: 5) [12:47:50 -26839.724324] SLOW spr round 25 (radius: 10) [12:49:45 -26839.724243] SLOW spr round 26 (radius: 15) [12:52:30 -26839.724167] SLOW spr round 27 (radius: 20) [12:56:08 -26745.552880] SLOW spr round 28 (radius: 5) [12:58:11 -26745.149060] SLOW spr round 29 (radius: 5) [12:59:59 -26745.127961] SLOW spr round 30 (radius: 10) [13:01:46 -26745.126980] SLOW spr round 31 (radius: 15) [13:04:29 -26745.126586] SLOW spr round 32 (radius: 20) [13:07:58 -26744.749673] SLOW spr round 33 (radius: 5) [13:10:00 -26744.748578] SLOW spr round 34 (radius: 10) [13:12:02 -26744.748527] SLOW spr round 35 (radius: 15) [13:14:39 -26744.748517] SLOW spr round 36 (radius: 20) [13:18:06 -26744.748512] SLOW spr round 37 (radius: 25) [13:22:13 -26742.427111] SLOW spr round 38 (radius: 5) [13:24:16 -26742.423910] SLOW spr round 39 (radius: 10) [13:26:19 -26742.423876] SLOW spr round 40 (radius: 15) [13:28:57 -26740.522244] SLOW spr round 41 (radius: 5) [13:30:55 -26740.520515] SLOW spr round 42 (radius: 10) [13:32:52 -26740.520432] SLOW spr round 43 (radius: 15) [13:35:27 -26740.520425] SLOW spr round 44 (radius: 20) [13:38:55 -26736.758738] SLOW spr round 45 (radius: 5) [13:40:55 -26736.686330] SLOW spr round 46 (radius: 10) [13:42:55 -26736.684203] SLOW spr round 47 (radius: 15) [13:45:29 -26736.683522] SLOW spr round 48 (radius: 20) [13:48:51 -26736.683228] SLOW spr round 49 (radius: 25) [13:52:49 -26735.821327] SLOW spr round 50 (radius: 5) [13:54:52 -26735.767156] SLOW spr round 51 (radius: 10) [13:56:54 -26735.767116] SLOW spr round 52 (radius: 15) [13:59:29 -26735.767106] SLOW spr round 53 (radius: 20) [14:02:52 -26735.767100] SLOW spr round 54 (radius: 25) [14:06:51 -26735.767097] Model parameter optimization (eps = 0.100000) [14:06:56] ML tree search #6, logLikelihood: -26735.714384 [14:06:56 -79132.668221] Initial branch length optimization [14:06:58 -66017.638148] Model parameter optimization (eps = 10.000000) [14:07:23 -65706.552246] AUTODETECT spr round 1 (radius: 5) [14:08:41 -50527.028451] AUTODETECT spr round 2 (radius: 10) [14:10:08 -40940.237516] AUTODETECT spr round 3 (radius: 15) [14:11:51 -35052.450340] AUTODETECT spr round 4 (radius: 20) [14:14:12 -31504.520920] AUTODETECT spr round 5 (radius: 25) [14:17:31 -30636.884748] SPR radius for FAST iterations: 25 (autodetect) [14:17:31 -30636.884748] Model parameter optimization (eps = 3.000000) [14:17:49 -30588.392214] FAST spr round 1 (radius: 25) [14:20:40 -27690.977517] FAST spr round 2 (radius: 25) [14:22:11 -27293.436370] FAST spr round 3 (radius: 25) [14:23:31 -27257.915354] FAST spr round 4 (radius: 25) [14:24:46 -27252.878895] FAST spr round 5 (radius: 25) [14:25:57 -27252.843419] Model parameter optimization (eps = 1.000000) [14:26:00 -27252.638689] SLOW spr round 1 (radius: 5) [14:27:22 -27245.057496] SLOW spr round 2 (radius: 5) [14:28:43 -27240.341149] SLOW spr round 3 (radius: 5) [14:30:04 -27234.884496] SLOW spr round 4 (radius: 5) [14:31:24 -27234.528412] SLOW spr round 5 (radius: 5) [14:32:45 -27233.495902] SLOW spr round 6 (radius: 5) [14:34:04 -27233.364919] SLOW spr round 7 (radius: 5) [14:35:22 -27233.362537] SLOW spr round 8 (radius: 10) [14:36:45 -27231.158105] SLOW spr round 9 (radius: 5) [14:38:16 -27231.129398] SLOW spr round 10 (radius: 10) [14:39:45 -27231.129291] SLOW spr round 11 (radius: 15) [14:41:41 -27227.336386] SLOW spr round 12 (radius: 5) [14:43:14 -27225.886642] SLOW spr round 13 (radius: 5) [14:44:39 -27225.886553] SLOW spr round 14 (radius: 10) [14:46:04 -27225.886512] SLOW spr round 15 (radius: 15) [14:47:59 -27225.886487] SLOW spr round 16 (radius: 20) [14:50:22 -27221.336142] SLOW spr round 17 (radius: 5) [14:51:58 -27219.970210] SLOW spr round 18 (radius: 5) [14:53:26 -27219.180389] SLOW spr round 19 (radius: 5) [14:54:49 -27219.179533] SLOW spr round 20 (radius: 10) [14:56:12 -27218.567602] SLOW spr round 21 (radius: 5) [14:57:44 -27217.472027] SLOW spr round 22 (radius: 5) [14:59:08 -27217.436632] SLOW spr round 23 (radius: 10) [15:00:32 -27217.432452] SLOW spr round 24 (radius: 15) [15:02:31 -27215.580998] SLOW spr round 25 (radius: 5) [15:04:02 -27215.580303] SLOW spr round 26 (radius: 10) [15:05:32 -27215.580077] SLOW spr round 27 (radius: 15) [15:07:26 -27215.580000] SLOW spr round 28 (radius: 20) [15:09:57 -27193.622597] SLOW spr round 29 (radius: 5) [15:11:33 -27178.884849] SLOW spr round 30 (radius: 5) [15:13:01 -27170.851948] SLOW spr round 31 (radius: 5) [15:14:23 -27170.759912] SLOW spr round 32 (radius: 10) [15:15:47 -27167.102963] SLOW spr round 33 (radius: 5) [15:17:16 -27167.086650] SLOW spr round 34 (radius: 10) [15:18:43 -27167.086201] SLOW spr round 35 (radius: 15) [15:20:41 -27079.119960] SLOW spr round 36 (radius: 5) [15:22:14 -26992.598514] SLOW spr round 37 (radius: 5) 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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 03-Jun-2021 14:47:43 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/2_msa/P07911_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911 --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 WARNING: The model you specified on the command line (LG4X) will be ignored since the binary MSA file already contains a model definition. If you want to change the model, please re-run RAxML-NG with the original PHYLIP/FASTA alignment and --redo option. [00:00:00] Loading binary alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.rba [00:00:00] Alignment comprises 995 taxa, 1 partitions and 48 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 48 / 48 Gaps: 15.20 % Invariant sites: 0.00 % Parallelization scheme autoconfig: 1 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] NOTE: Resuming execution from checkpoint (logLH: -26992.60, ML trees: 6, bootstraps: 0) [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 48 / 3840 [00:00:00] Data distribution: max. searches per worker: 14 Starting ML tree search with 20 distinct starting trees [00:00:00 -26992.598514] SPR radius for FAST iterations: 25 (autodetect) [00:00:00 -26992.598514] SLOW spr round 37 (radius: 5) [00:01:25 -26981.054635] SLOW spr round 38 (radius: 5) [00:02:46 -26980.539747] SLOW spr round 39 (radius: 5) 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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 03-Jun-2021 14:52:29 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/2_msa/P07911_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911 --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 WARNING: The model you specified on the command line (LG4X) will be ignored since the binary MSA file already contains a model definition. If you want to change the model, please re-run RAxML-NG with the original PHYLIP/FASTA alignment and --redo option. [00:00:00] Loading binary alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.rba [00:00:00] Alignment comprises 995 taxa, 1 partitions and 48 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 48 / 48 Gaps: 15.20 % Invariant sites: 0.00 % Parallelization scheme autoconfig: 1 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] NOTE: Resuming execution from checkpoint (logLH: -26980.54, ML trees: 6, bootstraps: 0) [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 48 / 3840 [00:00:00] Data distribution: max. searches per worker: 14 Starting ML tree search with 20 distinct starting trees [00:00:00 -26980.539747] SPR radius for FAST iterations: 25 (autodetect) [00:00:00 -26980.539747] SLOW spr round 39 (radius: 5) [00:01:17 -26979.683558] SLOW spr round 40 (radius: 5) [00:02:33 -26977.758851] SLOW spr round 41 (radius: 5) [00:03:48 -26977.757586] SLOW spr round 42 (radius: 10) [00:05:07 -26974.507807] SLOW spr round 43 (radius: 5) [00:06:36 -26972.995842] SLOW spr round 44 (radius: 5) [00:07:57 -26972.601203] SLOW spr round 45 (radius: 5) [00:09:15 -26972.599203] SLOW spr round 46 (radius: 10) [00:10:33 -26970.146942] SLOW spr round 47 (radius: 5) [00:12:01 -26969.502062] SLOW spr round 48 (radius: 5) [00:13:22 -26969.501603] SLOW spr round 49 (radius: 10) [00:14:41 -26969.501585] SLOW spr round 50 (radius: 15) [00:16:32 -26968.736289] SLOW spr round 51 (radius: 5) [00:18:00 -26968.736155] SLOW spr round 52 (radius: 10) [00:19:25 -26968.736155] SLOW spr round 53 (radius: 15) [00:21:11 -26968.736155] SLOW spr round 54 (radius: 20) 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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 04-Jun-2021 13:13:41 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/2_msa/P07911_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911 --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 WARNING: The model you specified on the command line (LG4X) will be ignored since the binary MSA file already contains a model definition. If you want to change the model, please re-run RAxML-NG with the original PHYLIP/FASTA alignment and --redo option. [00:00:00] Loading binary alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.rba [00:00:00] Alignment comprises 995 taxa, 1 partitions and 48 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 48 / 48 Gaps: 15.20 % Invariant sites: 0.00 % Parallelization scheme autoconfig: 1 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] NOTE: Resuming execution from checkpoint (logLH: -26968.74, ML trees: 6, bootstraps: 0) [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 48 / 3840 [00:00:00] Data distribution: max. searches per worker: 14 Starting ML tree search with 20 distinct starting trees [00:00:00 -26968.736155] SPR radius for FAST iterations: 25 (autodetect) [00:00:00 -26968.736155] SLOW spr round 54 (radius: 20) [00:02:18 -26967.363671] SLOW spr round 55 (radius: 5) [00:03:48 -26967.353044] SLOW spr round 56 (radius: 10) [00:05:15 -26967.353034] SLOW spr round 57 (radius: 15) [00:07:01 -26967.256507] SLOW spr round 58 (radius: 20) [00:09:18 -26967.110684] SLOW spr round 59 (radius: 5) [00:10:49 -26967.110135] SLOW spr round 60 (radius: 10) [00:12:17 -26967.109998] SLOW spr round 61 (radius: 15) [00:14:04 -26967.109961] SLOW spr round 62 (radius: 20) [00:16:22 -26967.109952] SLOW spr round 63 (radius: 25) [00:18:54 -26960.203510] SLOW spr round 64 (radius: 5) [00:20:37 -26957.951235] SLOW spr round 65 (radius: 5) [00:22:21 -26955.195629] SLOW spr round 66 (radius: 5) [00:24:02 -26951.753690] SLOW spr round 67 (radius: 5) [00:25:30 -26951.753690] SLOW spr round 68 (radius: 10) [00:26:59 -26951.753690] SLOW spr round 69 (radius: 15) [00:29:14 -26938.389984] SLOW spr round 70 (radius: 5) [00:31:02 -26938.389950] SLOW spr round 71 (radius: 10) [00:32:37 -26938.389948] SLOW spr round 72 (radius: 15) [00:34:26 -26938.389948] SLOW spr round 73 (radius: 20) [00:36:42 -26937.016058] SLOW spr round 74 (radius: 5) [00:38:12 -26936.007066] SLOW spr round 75 (radius: 5) [00:39:35 -26935.906458] SLOW spr round 76 (radius: 5) [00:40:54 -26935.906124] SLOW spr round 77 (radius: 10) [00:42:14 -26935.906108] SLOW spr round 78 (radius: 15) [00:44:04 -26935.906107] SLOW spr round 79 (radius: 20) [00:46:18 -26935.906107] SLOW spr round 80 (radius: 25) [00:48:42 -26935.744450] SLOW spr round 81 (radius: 5) [00:50:15 -26926.883137] SLOW spr round 82 (radius: 5) [00:51:38 -26925.976434] SLOW spr round 83 (radius: 5) [00:52:57 -26924.925919] SLOW spr round 84 (radius: 5) [00:54:13 -26924.925467] SLOW spr round 85 (radius: 10) [00:55:31 -26924.925405] SLOW spr round 86 (radius: 15) [00:57:22 -26924.925397] SLOW spr round 87 (radius: 20) [00:59:35 -26924.925396] SLOW spr round 88 (radius: 25) [01:01:58 -26924.925395] Model parameter optimization (eps = 0.100000) [01:02:08] ML tree search #7, logLikelihood: -26918.008695 [01:02:08 -78759.664500] Initial branch length optimization [01:02:09 -66017.018970] Model parameter optimization (eps = 10.000000) [01:02:27 -65823.835533] AUTODETECT spr round 1 (radius: 5) [01:03:40 -50880.959433] AUTODETECT spr round 2 (radius: 10) [01:05:01 -41724.647561] AUTODETECT spr round 3 (radius: 15) [01:06:35 -35527.957352] AUTODETECT spr round 4 (radius: 20) [01:08:54 -31946.213117] AUTODETECT spr round 5 (radius: 25) [01:12:07 -30975.222626] SPR radius for FAST iterations: 25 (autodetect) [01:12:07 -30975.222626] Model parameter optimization (eps = 3.000000) [01:12:22 -30893.606092] FAST spr round 1 (radius: 25) [01:14:43 -27274.683527] FAST spr round 2 (radius: 25) [01:17:14 -26975.059166] FAST spr round 3 (radius: 25) [01:19:10 -26904.778171] FAST spr round 4 (radius: 25) [01:20:52 -26871.394378] FAST spr round 5 (radius: 25) [01:22:33 -26846.790393] FAST spr round 6 (radius: 25) [01:24:04 -26845.763376] FAST spr round 7 (radius: 25) [01:25:31 -26845.761418] Model parameter optimization (eps = 1.000000) [01:25:53 -26833.678333] SLOW spr round 1 (radius: 5) [01:27:39 -26825.008401] SLOW spr round 2 (radius: 5) [01:29:24 -26821.661133] SLOW spr round 3 (radius: 5) [01:31:05 -26821.549050] SLOW spr round 4 (radius: 5) [01:32:42 -26821.548187] SLOW spr round 5 (radius: 10) [01:34:28 -26814.485618] SLOW spr round 6 (radius: 5) [01:36:36 -26814.484797] SLOW spr round 7 (radius: 10) [01:38:40 -26814.021998] SLOW spr round 8 (radius: 5) [01:40:43 -26813.410404] SLOW spr round 9 (radius: 5) [01:42:32 -26813.410333] SLOW spr round 10 (radius: 10) [01:44:20 -26813.410286] SLOW spr round 11 (radius: 15) [01:47:47 -26800.066561] SLOW spr round 12 (radius: 5) [01:50:01 -26799.504379] SLOW spr round 13 (radius: 5) [01:51:58 -26799.495986] SLOW spr round 14 (radius: 10) [01:53:51 -26799.495662] SLOW spr round 15 (radius: 15) [01:57:08 -26794.521938] SLOW spr round 16 (radius: 5) [01:59:22 -26794.354572] SLOW spr round 17 (radius: 5) [02:01:17 -26794.354518] SLOW spr round 18 (radius: 10) [02:03:11 -26793.683171] SLOW spr round 19 (radius: 5) [02:05:15 -26793.680268] SLOW spr round 20 (radius: 10) [02:07:14 -26793.679991] SLOW spr round 21 (radius: 15) [02:10:18 -26793.679918] SLOW spr round 22 (radius: 20) [02:14:50 -26788.045917] SLOW spr round 23 (radius: 5) [02:17:08 -26787.791903] SLOW spr round 24 (radius: 5) [02:19:06 -26787.791021] SLOW spr round 25 (radius: 10) [02:21:01 -26787.083996] SLOW spr round 26 (radius: 5) [02:23:06 -26787.083188] SLOW spr round 27 (radius: 10) [02:25:06 -26787.083127] SLOW spr round 28 (radius: 15) [02:28:18 -26786.702193] SLOW spr round 29 (radius: 5) [02:30:30 -26786.702192] SLOW spr round 30 (radius: 10) [02:32:37 -26786.702192] SLOW spr round 31 (radius: 15) [02:35:47 -26786.702190] SLOW spr round 32 (radius: 20) [02:40:21 -26785.983505] SLOW spr round 33 (radius: 5) [02:42:37 -26785.974899] SLOW spr round 34 (radius: 10) [02:44:47 -26785.974521] SLOW spr round 35 (radius: 15) [02:47:52 -26785.974482] SLOW spr round 36 (radius: 20) [02:52:18 -26785.974475] SLOW spr round 37 (radius: 25) [02:57:44 -26767.674678] SLOW spr round 38 (radius: 5) [03:00:03 -26767.612756] SLOW spr round 39 (radius: 10) [03:02:16 -26767.150016] SLOW spr round 40 (radius: 5) [03:04:19 -26767.149966] SLOW spr round 41 (radius: 10) [03:06:17 -26767.149964] SLOW spr round 42 (radius: 15) [03:09:29 -26765.582677] SLOW spr round 43 (radius: 5) [03:11:46 -26763.094443] SLOW spr round 44 (radius: 5) [03:13:42 -26761.902349] SLOW spr round 45 (radius: 5) [03:15:28 -26761.902263] SLOW spr round 46 (radius: 10) [03:17:15 -26761.902261] SLOW spr round 47 (radius: 15) [03:20:34 -26761.902261] SLOW spr round 48 (radius: 20) [03:25:04 -26761.353655] SLOW spr round 49 (radius: 5) [03:27:20 -26761.352278] SLOW spr round 50 (radius: 10) [03:29:30 -26761.352276] SLOW spr round 51 (radius: 15) [03:32:35 -26761.352275] SLOW spr round 52 (radius: 20) [03:37:06 -26761.352274] SLOW spr round 53 (radius: 25) [03:42:29 -26761.352274] Model parameter optimization (eps = 0.100000) [03:42:38] ML tree search #8, logLikelihood: -26760.463204 [03:42:38 -78900.155142] Initial branch length optimization [03:42:40 -65952.180852] Model parameter optimization (eps = 10.000000) [03:43:01 -65736.733555] AUTODETECT spr round 1 (radius: 5) [03:44:14 -50470.439241] AUTODETECT spr round 2 (radius: 10) [03:45:36 -40870.754741] AUTODETECT spr round 3 (radius: 15) [03:47:13 -35616.567451] AUTODETECT spr round 4 (radius: 20) [03:48:59 -33606.173062] AUTODETECT spr round 5 (radius: 25) [03:51:16 -31540.775248] SPR radius for FAST iterations: 25 (autodetect) [03:51:16 -31540.775248] Model parameter optimization (eps = 3.000000) [03:51:35 -31508.259792] FAST spr round 1 (radius: 25) [03:54:04 -28071.003692] FAST spr round 2 (radius: 25) [03:55:57 -27428.290954] FAST spr round 3 (radius: 25) [03:57:31 -27262.956495] FAST spr round 4 (radius: 25) [03:58:57 -27241.042839] FAST spr round 5 (radius: 25) [04:00:14 -27240.092699] FAST spr round 6 (radius: 25) [04:01:27 -27240.091478] Model parameter optimization (eps = 1.000000) [04:01:40 -27230.830226] SLOW spr round 1 (radius: 5) [04:03:17 -27218.816658] SLOW spr round 2 (radius: 5) [04:04:54 -27217.565245] SLOW spr round 3 (radius: 5) [04:06:27 -27217.565192] SLOW spr round 4 (radius: 10) [04:08:04 -27216.846815] SLOW spr round 5 (radius: 5) [04:10:07 -27216.324565] SLOW spr round 6 (radius: 5) [04:11:54 -27216.322750] SLOW spr round 7 (radius: 10) [04:13:39 -27216.322634] SLOW spr round 8 (radius: 15) [04:16:44 -27212.751871] SLOW spr round 9 (radius: 5) [04:18:49 -27212.652324] SLOW spr round 10 (radius: 10) [04:20:45 -27212.652056] SLOW spr round 11 (radius: 15) [04:23:42 -27212.652018] SLOW spr round 12 (radius: 20) [04:27:36 -27207.959562] SLOW spr round 13 (radius: 5) [04:29:47 -27205.314544] SLOW spr round 14 (radius: 5) [04:31:39 -27204.627346] SLOW spr round 15 (radius: 5) [04:33:22 -27204.625310] SLOW spr round 16 (radius: 10) [04:35:07 -27181.222919] SLOW spr round 17 (radius: 5) [04:37:09 -27173.112988] SLOW spr round 18 (radius: 5) [04:38:57 -27173.112869] SLOW spr round 19 (radius: 10) [04:40:42 -27173.112841] SLOW spr round 20 (radius: 15) [04:43:51 -27173.112814] SLOW spr round 21 (radius: 20) [04:47:57 -27172.634098] SLOW spr round 22 (radius: 5) [04:50:05 -27172.632721] SLOW spr round 23 (radius: 10) [04:52:06 -27171.619853] SLOW spr round 24 (radius: 5) [04:54:05 -27171.618076] SLOW spr round 25 (radius: 10) [04:55:57 -27171.617848] SLOW spr round 26 (radius: 15) [04:59:02 -27171.617796] SLOW spr round 27 (radius: 20) [05:03:06 -27171.617767] SLOW spr round 28 (radius: 25) [05:07:14 -27165.023143] SLOW spr round 29 (radius: 5) [05:09:30 -27157.546121] SLOW spr round 30 (radius: 5) [05:11:28 -27154.486794] SLOW spr round 31 (radius: 5) [05:13:14 -27154.485790] SLOW spr round 32 (radius: 10) [05:14:58 -27154.485505] SLOW spr round 33 (radius: 15) [05:18:12 -27154.485379] SLOW spr round 34 (radius: 20) [05:22:18 -27152.767303] SLOW spr round 35 (radius: 5) [05:24:26 -27152.767200] SLOW spr round 36 (radius: 10) [05:26:27 -27152.767187] SLOW spr round 37 (radius: 15) [05:29:32 -27152.767181] SLOW spr round 38 (radius: 20) [05:33:40 -27152.767178] SLOW spr round 39 (radius: 25) [05:37:50 -27152.767177] Model parameter optimization (eps = 0.100000) [05:37:55] ML tree search #9, logLikelihood: -27152.560287 [05:37:55 -79779.966368] Initial branch length optimization [05:37:57 -66729.789169] Model parameter optimization (eps = 10.000000) [05:38:23 -66428.487410] AUTODETECT spr round 1 (radius: 5) [05:39:36 -50518.491361] AUTODETECT spr round 2 (radius: 10) [05:41:00 -41423.616725] AUTODETECT spr round 3 (radius: 15) [05:42:37 -36182.513363] AUTODETECT spr round 4 (radius: 20) [05:44:42 -33092.652635] AUTODETECT spr round 5 (radius: 25) [05:48:10 -30162.476881] SPR radius for FAST iterations: 25 (autodetect) [05:48:10 -30162.476881] Model parameter optimization (eps = 3.000000) [05:48:25 -30131.398322] FAST spr round 1 (radius: 25) [05:51:08 -27235.164278] FAST spr round 2 (radius: 25) [05:52:53 -26888.263709] FAST spr round 3 (radius: 25) [05:54:16 -26864.818930] FAST spr round 4 (radius: 25) [05:55:33 -26850.624028] FAST spr round 5 (radius: 25) [05:56:46 -26843.005929] FAST spr round 6 (radius: 25) [05:57:55 -26843.005115] Model parameter optimization (eps = 1.000000) [05:58:10 -26829.855682] SLOW spr round 1 (radius: 5) [05:59:27 -26813.387442] SLOW spr round 2 (radius: 5) [06:00:45 -26809.750173] SLOW spr round 3 (radius: 5) [06:02:01 -26809.735893] SLOW spr round 4 (radius: 10) [06:03:20 -26807.053944] SLOW spr round 5 (radius: 5) [06:04:50 -26806.465855] SLOW spr round 6 (radius: 5) [06:06:13 -26806.465412] SLOW spr round 7 (radius: 10) [06:07:34 -26806.465380] SLOW spr round 8 (radius: 15) [06:09:35 -26801.155675] SLOW spr round 9 (radius: 5) [06:11:04 -26801.155195] SLOW spr round 10 (radius: 10) [06:12:30 -26801.155163] SLOW spr round 11 (radius: 15) [06:14:26 -26800.920988] SLOW spr round 12 (radius: 5) [06:15:56 -26800.920930] SLOW spr round 13 (radius: 10) [06:17:23 -26800.920928] SLOW spr round 14 (radius: 15) [06:19:19 -26800.920927] SLOW spr round 15 (radius: 20) [06:21:44 -26793.902094] SLOW spr round 16 (radius: 5) [06:23:16 -26793.648595] SLOW spr round 17 (radius: 5) [06:24:40 -26793.647476] SLOW spr round 18 (radius: 10) [06:26:02 -26793.647460] SLOW spr round 19 (radius: 15) [06:28:01 -26793.647459] SLOW spr round 20 (radius: 20) [06:30:26 -26788.230041] SLOW spr round 21 (radius: 5) [06:31:59 -26785.515526] SLOW spr round 22 (radius: 5) [06:33:22 -26785.515150] SLOW spr round 23 (radius: 10) [06:34:45 -26785.515149] SLOW spr round 24 (radius: 15) [06:36:44 -26784.562078] SLOW spr round 25 (radius: 5) [06:38:14 -26784.561851] SLOW spr round 26 (radius: 10) [06:39:40 -26784.561845] SLOW spr round 27 (radius: 15) [06:41:37 -26784.561845] SLOW spr round 28 (radius: 20) [06:44:03 -26784.359009] SLOW spr round 29 (radius: 5) [06:45:34 -26783.266661] SLOW spr round 30 (radius: 5) [06:46:58 -26783.263787] SLOW spr round 31 (radius: 10) [06:48:20 -26781.054853] SLOW spr round 32 (radius: 5) [06:49:48 -26781.054067] SLOW spr round 33 (radius: 10) [06:51:12 -26781.053977] SLOW spr round 34 (radius: 15) [06:53:11 -26778.847491] SLOW spr round 35 (radius: 5) [06:54:41 -26778.463042] SLOW spr round 36 (radius: 5) [06:56:04 -26778.462793] SLOW spr round 37 (radius: 10) [06:57:25 -26778.462760] SLOW spr round 38 (radius: 15) [06:59:25 -26778.462756] SLOW spr round 39 (radius: 20) [07:01:49 -26778.447078] SLOW spr round 40 (radius: 25) [07:04:32 -26777.276202] SLOW spr round 41 (radius: 5) [07:06:05 -26719.575846] SLOW spr round 42 (radius: 5) [07:07:31 -26700.329639] SLOW spr round 43 (radius: 5) [07:08:51 -26700.327169] SLOW spr round 44 (radius: 10) [07:10:13 -26697.477062] SLOW spr round 45 (radius: 5) [07:11:41 -26696.790014] SLOW spr round 46 (radius: 5) [07:13:01 -26696.789918] SLOW spr round 47 (radius: 10) [07:14:21 -26696.789914] SLOW spr round 48 (radius: 15) [07:16:22 -26696.719181] SLOW spr round 49 (radius: 20) [07:18:48 -26696.718357] SLOW spr round 50 (radius: 25) [07:21:29 -26696.718287] Model parameter optimization (eps = 0.100000) [07:21:39] ML tree search #10, logLikelihood: -26695.769130 [07:21:39 -78459.683794] Initial branch length optimization [07:21:40 -65771.417454] Model parameter optimization (eps = 10.000000) [07:22:12 -65554.600762] AUTODETECT spr round 1 (radius: 5) [07:23:27 -51316.883854] AUTODETECT spr round 2 (radius: 10) [07:24:51 -40912.113638] AUTODETECT spr round 3 (radius: 15) [07:26:30 -34782.755634] AUTODETECT spr round 4 (radius: 20) [07:28:49 -31599.155493] AUTODETECT spr round 5 (radius: 25) [07:31:48 -30493.946675] SPR radius for FAST iterations: 25 (autodetect) [07:31:48 -30493.946675] Model parameter optimization (eps = 3.000000) [07:32:10 -30428.432801] FAST spr round 1 (radius: 25) [07:34:39 -27472.453056] FAST spr round 2 (radius: 25) [07:36:29 -27204.507425] FAST spr round 3 (radius: 25) [07:38:02 -27156.482323] FAST spr round 4 (radius: 25) [07:39:24 -27145.212034] FAST spr round 5 (radius: 25) [07:40:41 -27143.071306] FAST spr round 6 (radius: 25) [07:41:54 -27143.071114] Model parameter optimization (eps = 1.000000) [07:42:07 -27137.217018] SLOW spr round 1 (radius: 5) [07:44:17 -27126.600084] SLOW spr round 2 (radius: 5) [07:46:28 -27126.000253] SLOW spr round 3 (radius: 5) [07:48:30 -27125.999240] SLOW spr round 4 (radius: 10) [07:50:45 -27122.667112] SLOW spr round 5 (radius: 5) [07:53:39 -27120.171191] SLOW spr round 6 (radius: 5) [07:56:03 -27120.169329] SLOW spr round 7 (radius: 10) [07:58:26 -27119.845919] SLOW spr round 8 (radius: 5) [08:01:07 -27119.845440] SLOW spr round 9 (radius: 10) [08:03:40 -27119.027574] SLOW spr round 10 (radius: 5) [08:06:19 -27119.027468] SLOW spr round 11 (radius: 10) [08:08:51 -27119.027468] SLOW spr round 12 (radius: 15) [08:12:54 -27112.195565] SLOW spr round 13 (radius: 5) [08:15:55 -27110.117909] SLOW spr round 14 (radius: 5) [08:18:29 -27108.473220] SLOW spr round 15 (radius: 5) [08:20:44 -27108.473066] SLOW spr round 16 (radius: 10) [08:22:58 -27108.473062] SLOW spr round 17 (radius: 15) [08:27:14 -27108.473061] SLOW spr round 18 (radius: 20) [08:32:56 -27101.963325] SLOW spr round 19 (radius: 5) [08:35:54 -27101.871166] SLOW spr round 20 (radius: 10) [08:38:42 -27101.870746] SLOW spr round 21 (radius: 15) [08:42:38 -27101.870724] SLOW spr round 22 (radius: 20) [08:48:08 -27101.870723] SLOW spr round 23 (radius: 25) [08:54:10 -27098.922128] SLOW spr round 24 (radius: 5) [08:57:18 -27098.865052] SLOW spr round 25 (radius: 10) [09:00:14 -27098.865015] SLOW spr round 26 (radius: 15) [09:04:14 -27098.865015] SLOW spr round 27 (radius: 20) [09:09:45 -27098.865015] SLOW spr round 28 (radius: 25) [09:15:44 -27098.599882] SLOW spr round 29 (radius: 5) [09:18:53 -27096.437201] SLOW spr round 30 (radius: 5) [09:21:26 -27096.437159] SLOW spr round 31 (radius: 10) [09:23:54 -27096.437158] SLOW spr round 32 (radius: 15) [09:28:08 -27094.317058] SLOW spr round 33 (radius: 5) [09:31:02 -27094.309203] SLOW spr round 34 (radius: 10) [09:33:48 -27094.308463] SLOW spr round 35 (radius: 15) [09:37:53 -27094.308380] SLOW spr round 36 (radius: 20) [09:43:26 -27094.308370] SLOW spr round 37 (radius: 25) [09:49:28 -27094.308369] Model parameter optimization (eps = 0.100000) [09:49:36] ML tree search #11, logLikelihood: -27094.027365 [09:49:36 -78878.875716] Initial branch length optimization [09:49:37 -65772.194154] Model parameter optimization (eps = 10.000000) [09:50:01 -65561.978145] AUTODETECT spr round 1 (radius: 5) [09:51:15 -52205.126545] AUTODETECT spr round 2 (radius: 10) [09:52:36 -42220.595616] AUTODETECT spr round 3 (radius: 15) [09:54:12 -36817.629632] AUTODETECT spr round 4 (radius: 20) [09:56:07 -34326.285104] AUTODETECT spr round 5 (radius: 25) [09:58:55 -31472.553716] SPR radius for FAST iterations: 25 (autodetect) [09:58:55 -31472.553716] Model parameter optimization (eps = 3.000000) [09:59:11 -31438.538335] FAST spr round 1 (radius: 25) [10:01:33 -27659.566458] FAST spr round 2 (radius: 25) [10:04:08 -27145.362147] FAST spr round 3 (radius: 25) [10:06:18 -26961.243804] FAST spr round 4 (radius: 25) [10:08:04 -26950.921980] FAST spr round 5 (radius: 25) [10:09:38 -26947.188643] FAST spr round 6 (radius: 25) [10:11:03 -26947.186790] Model parameter optimization (eps = 1.000000) [10:11:16 -26937.889375] SLOW spr round 1 (radius: 5) [10:13:04 -26930.272454] SLOW spr round 2 (radius: 5) [10:14:53 -26926.821225] SLOW spr round 3 (radius: 5) [10:16:38 -26926.789432] SLOW spr round 4 (radius: 10) [10:18:31 -26926.227692] SLOW spr round 5 (radius: 5) [10:20:47 -26926.227606] SLOW spr round 6 (radius: 10) [10:22:58 -26926.227573] SLOW spr round 7 (radius: 15) [10:26:33 -26919.891477] SLOW spr round 8 (radius: 5) [10:28:58 -26919.179553] SLOW spr round 9 (radius: 5) [10:31:00 -26919.179489] SLOW spr round 10 (radius: 10) [10:33:02 -26919.179479] SLOW spr round 11 (radius: 15) [10:36:40 -26916.802336] SLOW spr round 12 (radius: 5) [10:39:07 -26912.857045] SLOW spr round 13 (radius: 5) [10:41:10 -26912.856839] SLOW spr round 14 (radius: 10) [10:43:13 -26912.856813] SLOW spr round 15 (radius: 15) [10:46:57 -26907.021630] SLOW spr round 16 (radius: 5) [10:49:24 -26902.193679] SLOW spr round 17 (radius: 5) [10:51:29 -26901.701885] SLOW spr round 18 (radius: 5) [10:53:20 -26901.701403] SLOW spr round 19 (radius: 10) [10:55:16 -26901.701383] SLOW spr round 20 (radius: 15) [10:58:58 -26900.947043] SLOW spr round 21 (radius: 5) [11:01:19 -26899.641206] SLOW spr round 22 (radius: 5) [11:03:21 -26899.641021] SLOW spr round 23 (radius: 10) [11:05:23 -26899.641019] SLOW spr round 24 (radius: 15) [11:08:59 -26899.641018] SLOW spr round 25 (radius: 20) [11:13:52 -26886.920376] SLOW spr round 26 (radius: 5) [11:16:23 -26885.819094] SLOW spr round 27 (radius: 5) [11:18:30 -26885.814363] SLOW spr round 28 (radius: 10) [11:20:35 -26884.462362] SLOW spr round 29 (radius: 5) [11:22:51 -26884.200335] SLOW spr round 30 (radius: 5) [11:24:51 -26884.198458] SLOW spr round 31 (radius: 10) [11:26:49 -26884.198165] SLOW spr round 32 (radius: 15) [11:30:31 -26884.197970] SLOW spr round 33 (radius: 20) [11:35:10 -26883.410201] SLOW spr round 34 (radius: 5) [11:37:38 -26883.383214] SLOW spr round 35 (radius: 10) [11:40:00 -26883.382725] SLOW spr round 36 (radius: 15) [11:43:27 -26883.382534] SLOW spr round 37 (radius: 20) [11:48:00 -26883.382385] SLOW spr round 38 (radius: 25) [11:53:17 -26854.559151] SLOW spr round 39 (radius: 5) [11:55:52 -26833.152890] SLOW spr round 40 (radius: 5) [11:58:02 -26831.874128] SLOW spr round 41 (radius: 5) [11:59:58 -26831.873411] SLOW spr round 42 (radius: 10) [12:01:54 -26831.873348] SLOW spr round 43 (radius: 15) [12:05:38 -26825.770203] SLOW spr round 44 (radius: 5) [12:08:01 -26825.685176] SLOW spr round 45 (radius: 10) [12:10:18 -26825.685137] SLOW spr round 46 (radius: 15) [12:13:47 -26825.685109] SLOW spr round 47 (radius: 20) [12:18:25 -26825.685084] SLOW spr round 48 (radius: 25) [12:23:41 -26809.259784] SLOW spr round 49 (radius: 5) [12:26:08 -26809.259730] SLOW spr round 50 (radius: 10) [12:28:33 -26808.561003] SLOW spr round 51 (radius: 5) [12:30:45 -26808.558485] SLOW spr round 52 (radius: 10) [12:32:52 -26808.557967] SLOW spr round 53 (radius: 15) [12:36:29 -26806.027903] SLOW spr round 54 (radius: 5) [12:38:51 -26805.032576] SLOW spr round 55 (radius: 5) [12:40:54 -26805.029767] SLOW spr round 56 (radius: 10) [12:42:54 -26805.029336] SLOW spr round 57 (radius: 15) [12:46:29 -26805.029262] SLOW spr round 58 (radius: 20) [12:51:07 -26805.029247] SLOW spr round 59 (radius: 25) [12:56:19 -26804.864865] SLOW spr round 60 (radius: 5) [12:58:46 -26804.864454] SLOW spr round 61 (radius: 10) [13:01:14 -26802.034002] SLOW spr round 62 (radius: 5) [13:03:28 -26802.033086] SLOW spr round 63 (radius: 10) [13:05:36 -26802.033055] SLOW spr round 64 (radius: 15) [13:09:07 -26802.033047] SLOW spr round 65 (radius: 20) [13:13:45 -26802.033045] SLOW spr round 66 (radius: 25) [13:18:52 -26802.033044] Model parameter optimization (eps = 0.100000) [13:19:03] ML tree search #12, logLikelihood: -26801.111603 [13:19:03 -78645.330555] Initial branch length optimization [13:19:04 -65628.199163] Model parameter optimization (eps = 10.000000) [13:19:25 -65349.621606] AUTODETECT spr round 1 (radius: 5) [13:20:38 -50076.046562] AUTODETECT spr round 2 (radius: 10) [13:22:01 -40005.914856] AUTODETECT spr round 3 (radius: 15) [13:23:34 -36033.493952] AUTODETECT spr round 4 (radius: 20) [13:25:33 -33315.390163] AUTODETECT spr round 5 (radius: 25) [13:27:57 -31410.661822] SPR radius for FAST iterations: 25 (autodetect) [13:27:57 -31410.661822] Model parameter optimization (eps = 3.000000) [13:28:15 -31352.893382] FAST spr round 1 (radius: 25) [13:30:34 -27877.612303] FAST spr round 2 (radius: 25) [13:32:38 -27562.469874] FAST spr round 3 (radius: 25) [13:34:36 -27174.519295] FAST spr round 4 (radius: 25) [13:36:20 -27035.960739] FAST spr round 5 (radius: 25) [13:37:55 -27032.542211] FAST spr round 6 (radius: 25) [13:39:22 -27030.859366] FAST spr round 7 (radius: 25) [13:40:49 -27029.710119] FAST spr round 8 (radius: 25) [13:42:12 -27029.709966] Model parameter optimization (eps = 1.000000) [13:42:27 -27018.457127] SLOW spr round 1 (radius: 5) [13:44:13 -27006.606200] SLOW spr round 2 (radius: 5) [13:46:01 -27005.740594] SLOW spr round 3 (radius: 5) [13:47:46 -27005.671903] SLOW spr round 4 (radius: 10) [13:49:39 -27003.238275] SLOW spr round 5 (radius: 5) [13:51:56 -27002.491591] SLOW spr round 6 (radius: 5) [13:53:54 -27002.490799] SLOW spr round 7 (radius: 10) [13:55:52 -27002.343025] SLOW spr round 8 (radius: 5) [13:58:02 -27002.342842] SLOW spr round 9 (radius: 10) [14:00:10 -27002.342833] SLOW spr round 10 (radius: 15) [14:03:33 -26996.803139] SLOW spr round 11 (radius: 5) [14:05:59 -26992.829304] SLOW spr round 12 (radius: 5) [14:08:07 -26988.308423] SLOW spr round 13 (radius: 5) [14:10:05 -26987.798655] SLOW spr round 14 (radius: 5) [14:11:53 -26987.790424] SLOW spr round 15 (radius: 10) [14:13:44 -26987.790297] SLOW spr round 16 (radius: 15) [14:17:15 -26987.147205] SLOW spr round 17 (radius: 5) [14:19:33 -26987.145599] SLOW spr round 18 (radius: 10) [14:21:47 -26987.145547] SLOW spr round 19 (radius: 15) [14:25:03 -26987.145538] SLOW spr round 20 (radius: 20) [14:29:48 -26961.417405] SLOW spr round 21 (radius: 5) [14:32:14 -26956.778093] SLOW spr round 22 (radius: 5) [14:34:20 -26956.753557] SLOW spr round 23 (radius: 10) [14:36:22 -26956.742369] SLOW spr round 24 (radius: 15) [14:39:40 -26956.730782] SLOW spr round 25 (radius: 20) [14:44:15 -26956.718774] SLOW spr round 26 (radius: 25) [14:49:29 -26947.791629] SLOW spr round 27 (radius: 5) [14:51:58 -26947.013412] SLOW spr round 28 (radius: 5) [14:54:04 -26947.009513] SLOW spr round 29 (radius: 10) [14:56:05 -26947.009315] SLOW spr round 30 (radius: 15) [14:59:25 -26943.290050] SLOW spr round 31 (radius: 5) [15:01:51 -26938.390325] SLOW spr round 32 (radius: 5) [15:03:56 -26917.093077] SLOW spr round 33 (radius: 5) [15:05:47 -26917.093049] SLOW spr round 34 (radius: 10) [15:07:41 -26917.093040] SLOW spr round 35 (radius: 15) [15:11:06 -26917.093036] SLOW spr round 36 (radius: 20) [15:15:44 -26916.905073] SLOW spr round 37 (radius: 5) [15:18:04 -26916.905014] SLOW spr round 38 (radius: 10) [15:20:23 -26916.905006] SLOW spr round 39 (radius: 15) [15:23:36 -26916.905004] SLOW spr round 40 (radius: 20) [15:28:16 -26916.905003] SLOW spr round 41 (radius: 25) [15:33:24 -26916.905003] Model parameter optimization (eps = 0.100000) [15:33:31] ML tree search #13, logLikelihood: -26916.380393 [15:33:31 -78936.341369] Initial branch length optimization [15:33:33 -66021.627913] Model parameter optimization (eps = 10.000000) [15:33:56 -65826.653760] AUTODETECT spr round 1 (radius: 5) [15:35:11 -51000.266247] AUTODETECT spr round 2 (radius: 10) [15:36:32 -41941.356821] AUTODETECT spr round 3 (radius: 15) [15:38:09 -36073.088842] AUTODETECT spr round 4 (radius: 20) [15:40:06 -32685.628705] AUTODETECT spr round 5 (radius: 25) [15:42:41 -31435.956596] SPR radius for FAST iterations: 25 (autodetect) [15:42:41 -31435.956596] Model parameter optimization (eps = 3.000000) [15:43:11 -31308.864459] FAST spr round 1 (radius: 25) [15:45:09 -27890.618048] FAST spr round 2 (radius: 25) [15:46:45 -27537.364101] FAST spr round 3 (radius: 25) [15:48:12 -27374.983663] FAST spr round 4 (radius: 25) [15:49:37 -27181.164241] FAST spr round 5 (radius: 25) [15:50:58 -27153.766073] FAST spr round 6 (radius: 25) [15:52:12 -27153.765544] Model parameter optimization (eps = 1.000000) [15:52:26 -27149.624456] SLOW spr round 1 (radius: 5) [15:54:05 -27143.944030] SLOW spr round 2 (radius: 5) [15:55:42 -27143.941490] SLOW spr round 3 (radius: 10) [15:57:23 -27140.907298] SLOW spr round 4 (radius: 5) [15:59:24 -27139.312967] SLOW spr round 5 (radius: 5) [16:01:10 -27138.989531] SLOW spr round 6 (radius: 5) [16:02:48 -27138.988813] SLOW spr round 7 (radius: 10) [16:04:29 -27138.988417] SLOW spr round 8 (radius: 15) [16:07:19 -27133.067960] SLOW spr round 9 (radius: 5) [16:09:26 -27132.214299] SLOW spr round 10 (radius: 5) [16:11:13 -27132.214262] SLOW spr round 11 (radius: 10) [16:12:57 -27132.214251] SLOW spr round 12 (radius: 15) [16:15:38 -27132.214244] SLOW spr round 13 (radius: 20) [16:19:17 -27123.844467] SLOW spr round 14 (radius: 5) [16:21:27 -27123.294217] SLOW spr round 15 (radius: 5) [16:23:18 -27123.293025] SLOW spr round 16 (radius: 10) [16:25:04 -27123.292789] SLOW spr round 17 (radius: 15) [16:27:48 -27123.292684] SLOW spr round 18 (radius: 20) [16:31:25 -27122.630105] SLOW spr round 19 (radius: 5) [16:33:31 -27122.368675] SLOW spr round 20 (radius: 5) [16:35:22 -27122.368587] SLOW spr round 21 (radius: 10) [16:37:10 -27120.062588] SLOW spr round 22 (radius: 5) [16:39:14 -27118.708586] SLOW spr round 23 (radius: 5) [16:41:00 -27118.705048] SLOW spr round 24 (radius: 10) [16:42:45 -27118.703187] SLOW spr round 25 (radius: 15) [16:45:31 -27118.702179] SLOW spr round 26 (radius: 20) [16:49:00 -27118.701635] SLOW spr round 27 (radius: 25) [16:53:03 -27114.825365] SLOW spr round 28 (radius: 5) [16:55:20 -27112.088863] SLOW spr round 29 (radius: 5) [16:57:12 -27112.087749] SLOW spr round 30 (radius: 10) [16:59:00 -27112.087671] SLOW spr round 31 (radius: 15) [17:01:45 -27111.765175] SLOW spr round 32 (radius: 5) [17:03:50 -27111.765138] SLOW spr round 33 (radius: 10) [17:05:49 -27111.600231] SLOW spr round 34 (radius: 5) [17:07:47 -27111.599577] SLOW spr round 35 (radius: 10) [17:09:38 -27111.599555] SLOW spr round 36 (radius: 15) [17:12:23 -27111.599554] SLOW spr round 37 (radius: 20) [17:15:54 -27111.599554] SLOW spr round 38 (radius: 25) [17:20:02 -27111.158561] SLOW spr round 39 (radius: 5) [17:22:10 -27111.158186] SLOW spr round 40 (radius: 10) [17:24:13 -27111.158185] SLOW spr round 41 (radius: 15) [17:26:59 -27108.657744] SLOW spr round 42 (radius: 5) [17:29:04 -27108.657590] SLOW spr round 43 (radius: 10) [17:31:02 -27108.657568] SLOW spr round 44 (radius: 15) [17:33:45 -27108.657564] SLOW spr round 45 (radius: 20) [17:37:17 -27108.657563] SLOW spr round 46 (radius: 25) [17:41:24 -27108.626144] Model parameter optimization (eps = 0.100000) [17:41:32] ML tree search #14, logLikelihood: -27108.106791 [17:41:32 -78759.572553] Initial branch length optimization [17:41:33 -65896.167471] Model parameter optimization (eps = 10.000000) [17:41:55 -65575.264313] AUTODETECT spr round 1 (radius: 5) [17:43:09 -50298.169678] AUTODETECT spr round 2 (radius: 10) [17:44:32 -40418.541484] AUTODETECT spr round 3 (radius: 15) [17:46:09 -36643.380803] AUTODETECT spr round 4 (radius: 20) [17:48:15 -33401.241587] AUTODETECT spr round 5 (radius: 25) [17:51:02 -32015.616095] SPR radius for FAST iterations: 25 (autodetect) [17:51:02 -32015.616095] Model parameter optimization (eps = 3.000000) [17:51:25 -31966.040131] FAST spr round 1 (radius: 25) [17:53:49 -27949.203418] FAST spr round 2 (radius: 25) [17:55:31 -27027.228010] FAST spr round 3 (radius: 25) [17:56:54 -26934.213247] FAST spr round 4 (radius: 25) [17:58:12 -26916.137040] FAST spr round 5 (radius: 25) [17:59:23 -26910.861111] FAST spr round 6 (radius: 25) [18:00:34 -26907.316434] FAST spr round 7 (radius: 25) [18:01:44 -26904.966567] FAST spr round 8 (radius: 25) [18:02:53 -26903.461237] FAST spr round 9 (radius: 25) [18:04:01 -26903.460903] Model parameter optimization (eps = 1.000000) [18:04:17 -26889.340759] SLOW spr round 1 (radius: 5) [18:06:04 -26885.588643] SLOW spr round 2 (radius: 5) [18:07:49 -26884.389750] SLOW spr round 3 (radius: 5) [18:09:36 -26883.149228] SLOW spr round 4 (radius: 5) [18:11:18 -26883.147970] SLOW spr round 5 (radius: 10) [18:13:04 -26881.645847] SLOW spr round 6 (radius: 5) [18:15:16 -26881.486754] SLOW spr round 7 (radius: 5) [18:17:13 -26881.118888] SLOW spr round 8 (radius: 5) [18:19:02 -26881.118754] SLOW spr round 9 (radius: 10) [18:20:50 -26881.118748] SLOW spr round 10 (radius: 15) [18:24:13 -26876.665153] SLOW spr round 11 (radius: 5) [18:26:29 -26875.991257] SLOW spr round 12 (radius: 5) [18:28:27 -26875.983944] SLOW spr round 13 (radius: 10) [18:30:20 -26875.983361] SLOW spr round 14 (radius: 15) [18:33:30 -26875.744064] SLOW spr round 15 (radius: 5) [18:35:43 -26875.703108] SLOW spr round 16 (radius: 10) [18:37:49 -26874.488154] SLOW spr round 17 (radius: 5) [18:39:55 -26874.487458] SLOW spr round 18 (radius: 10) [18:41:53 -26874.487418] SLOW spr round 19 (radius: 15) [18:44:58 -26874.487414] SLOW spr round 20 (radius: 20) [18:49:33 -26870.236503] SLOW spr round 21 (radius: 5) [18:51:50 -26870.177312] SLOW spr round 22 (radius: 10) [18:53:59 -26870.177168] SLOW spr round 23 (radius: 15) [18:57:03 -26870.177163] SLOW spr round 24 (radius: 20) [19:01:32 -26870.176941] SLOW spr round 25 (radius: 25) [19:06:51 -26861.674031] SLOW spr round 26 (radius: 5) [19:09:15 -26858.616111] SLOW spr round 27 (radius: 5) [19:11:22 -26855.783607] SLOW spr round 28 (radius: 5) [19:13:16 -26855.349934] SLOW spr round 29 (radius: 5) [19:15:02 -26855.346636] SLOW spr round 30 (radius: 10) [19:16:49 -26855.244574] SLOW spr round 31 (radius: 5) [19:18:58 -26855.229019] SLOW spr round 32 (radius: 10) [19:21:01 -26854.214913] SLOW spr round 33 (radius: 5) [19:23:07 -26854.211941] SLOW spr round 34 (radius: 10) [19:25:07 -26851.389083] SLOW spr round 35 (radius: 5) [19:27:14 -26851.387449] SLOW spr round 36 (radius: 10) [19:29:13 -26851.387153] SLOW spr round 37 (radius: 15) [19:32:25 -26850.894867] SLOW spr round 38 (radius: 5) [19:34:39 -26850.892889] SLOW spr round 39 (radius: 10) [19:36:45 -26850.892842] SLOW spr round 40 (radius: 15) [19:39:51 -26850.892836] SLOW spr round 41 (radius: 20) [19:44:22 -26849.851084] SLOW spr round 42 (radius: 5) [19:46:39 -26849.717002] SLOW spr round 43 (radius: 5) [19:48:38 -26849.715356] SLOW spr round 44 (radius: 10) [19:50:32 -26849.715299] SLOW spr round 45 (radius: 15) [19:53:43 -26849.715292] SLOW spr round 46 (radius: 20) [19:58:13 -26849.715292] SLOW spr round 47 (radius: 25) [20:03:30 -26847.855751] SLOW spr round 48 (radius: 5) [20:05:49 -26847.855014] SLOW spr round 49 (radius: 10) [20:08:01 -26847.855003] SLOW spr round 50 (radius: 15) [20:11:05 -26847.855003] SLOW spr round 51 (radius: 20) [20:15:35 -26847.855003] SLOW spr round 52 (radius: 25) [20:20:52 -26847.855003] Model parameter optimization (eps = 0.100000) [20:21:01] ML tree search #15, logLikelihood: -26847.368589 [20:21:02 -78863.774789] Initial branch length optimization [20:21:03 -66078.762547] Model parameter optimization (eps = 10.000000) [20:21:20 -65872.491739] AUTODETECT spr round 1 (radius: 5) [20:22:35 -49951.571358] AUTODETECT spr round 2 (radius: 10) [20:23:56 -41452.606679] AUTODETECT spr round 3 (radius: 15) [20:25:35 -35739.065998] AUTODETECT spr round 4 (radius: 20) [20:27:44 -32740.193327] AUTODETECT spr round 5 (radius: 25) [20:30:35 -31181.337931] SPR radius for FAST iterations: 25 (autodetect) [20:30:35 -31181.337931] Model parameter optimization (eps = 3.000000) [20:30:49 -31153.120835] FAST spr round 1 (radius: 25) [20:32:56 -27752.187004] FAST spr round 2 (radius: 25) [20:34:40 -27308.757335] FAST spr round 3 (radius: 25) [20:36:14 -27213.677001] FAST spr round 4 (radius: 25) [20:37:42 -27200.043883] FAST spr round 5 (radius: 25) [20:39:00 -27199.736813] FAST spr round 6 (radius: 25) [20:40:15 -27199.736500] Model parameter optimization (eps = 1.000000) [20:40:19 -27199.580309] SLOW spr round 1 (radius: 5) [20:42:00 -27191.266057] SLOW spr round 2 (radius: 5) [20:43:41 -27190.506686] SLOW spr round 3 (radius: 5) [20:45:19 -27190.503576] SLOW spr round 4 (radius: 10) [20:47:03 -27186.955488] SLOW spr round 5 (radius: 5) [20:49:08 -27186.877367] SLOW spr round 6 (radius: 10) [20:51:07 -27186.296970] SLOW spr round 7 (radius: 5) [20:53:06 -27186.296370] SLOW spr round 8 (radius: 10) [20:55:02 -27186.296012] SLOW spr round 9 (radius: 15) [20:58:09 -26948.598327] SLOW spr round 10 (radius: 5) [21:00:28 -26809.389252] SLOW spr round 11 (radius: 5) [21:02:32 -26799.729310] SLOW spr round 12 (radius: 5) [21:04:21 -26799.729018] SLOW spr round 13 (radius: 10) [21:06:14 -26793.867857] SLOW spr round 14 (radius: 5) [21:08:25 -26793.867234] SLOW spr round 15 (radius: 10) [21:10:31 -26793.867230] SLOW spr round 16 (radius: 15) [21:13:41 -26793.867229] SLOW spr round 17 (radius: 20) [21:18:10 -26767.367494] SLOW spr round 18 (radius: 5) [21:20:38 -26757.272115] SLOW spr round 19 (radius: 5) [21:22:43 -26756.582879] SLOW spr round 20 (radius: 5) [21:24:36 -26756.497051] SLOW spr round 21 (radius: 10) [21:26:28 -26756.493656] SLOW spr round 22 (radius: 15) [21:29:44 -26756.493641] SLOW spr round 23 (radius: 20) [21:33:55 -26755.662179] SLOW spr round 24 (radius: 5) [21:36:17 -26755.650335] SLOW spr round 25 (radius: 10) [21:38:32 -26755.649142] SLOW spr round 26 (radius: 15) [21:41:37 -26755.333014] SLOW spr round 27 (radius: 5) [21:43:54 -26755.333002] SLOW spr round 28 (radius: 10) [21:46:04 -26755.333000] SLOW spr round 29 (radius: 15) [21:49:05 -26755.333000] SLOW spr round 30 (radius: 20) [21:53:13 -26755.333000] SLOW spr round 31 (radius: 25) [21:57:57 -26750.985722] SLOW spr round 32 (radius: 5) [22:00:22 -26750.464113] SLOW spr round 33 (radius: 5) [22:02:27 -26748.969823] SLOW spr round 34 (radius: 5) [22:04:19 -26748.967105] SLOW spr round 35 (radius: 10) [22:06:12 -26748.966620] SLOW spr round 36 (radius: 15) [22:09:32 -26747.009488] SLOW spr round 37 (radius: 5) [22:11:50 -26747.008168] SLOW spr round 38 (radius: 10) [22:14:00 -26746.743611] SLOW spr round 39 (radius: 5) [22:16:10 -26746.206031] SLOW spr round 40 (radius: 5) [22:18:05 -26746.205956] SLOW spr round 41 (radius: 10) [22:19:59 -26746.205956] SLOW spr round 42 (radius: 15) [22:23:11 -26746.205955] SLOW spr round 43 (radius: 20) [22:27:25 -26745.086562] SLOW spr round 44 (radius: 5) [22:29:44 -26745.080385] SLOW spr round 45 (radius: 10) [22:31:59 -26744.775571] SLOW spr round 46 (radius: 5) [22:34:10 -26744.746979] SLOW spr round 47 (radius: 10) [22:36:13 -26744.746607] SLOW spr round 48 (radius: 15) [22:39:17 -26744.746521] SLOW spr round 49 (radius: 20) [22:43:33 -26744.686195] SLOW spr round 50 (radius: 25) [22:48:27 -26744.686164] Model parameter optimization (eps = 0.100000) [22:48:29] ML tree search #16, logLikelihood: -26744.686150 [22:48:29 -78537.878277] Initial branch length optimization [22:48:30 -65723.192262] Model parameter optimization (eps = 10.000000) [22:48:56 -65562.747114] AUTODETECT spr round 1 (radius: 5) [22:50:10 -50904.792565] AUTODETECT spr round 2 (radius: 10) [22:51:34 -41130.092940] AUTODETECT spr round 3 (radius: 15) [22:53:12 -36317.313050] AUTODETECT spr round 4 (radius: 20) [22:55:19 -31750.837211] AUTODETECT spr round 5 (radius: 25) [22:57:58 -30276.195555] SPR radius for FAST iterations: 25 (autodetect) [22:57:58 -30276.195555] Model parameter optimization (eps = 3.000000) [22:58:11 -30204.463660] FAST spr round 1 (radius: 25) [23:00:04 -27404.646052] FAST spr round 2 (radius: 25) [23:01:40 -27114.527984] FAST spr round 3 (radius: 25) [23:03:06 -26881.177302] FAST spr round 4 (radius: 25) [23:04:27 -26866.481720] FAST spr round 5 (radius: 25) [23:05:43 -26862.085551] FAST spr round 6 (radius: 25) [23:06:56 -26862.082859] Model parameter optimization (eps = 1.000000) [23:07:05 -26857.502902] SLOW spr round 1 (radius: 5) [23:08:48 -26849.745443] SLOW spr round 2 (radius: 5) [23:10:32 -26843.771908] SLOW spr round 3 (radius: 5) [23:12:15 -26842.770087] SLOW spr round 4 (radius: 5) [23:13:54 -26842.769236] SLOW spr round 5 (radius: 10) [23:15:41 -26842.442513] SLOW spr round 6 (radius: 5) [23:17:47 -26841.595953] SLOW spr round 7 (radius: 5) [23:19:37 -26841.550701] SLOW spr round 8 (radius: 10) [23:21:27 -26841.550650] SLOW spr round 9 (radius: 15) [23:24:31 -26834.248736] SLOW spr round 10 (radius: 5) [23:26:41 -26833.619909] SLOW spr round 11 (radius: 5) [23:28:34 -26833.619354] SLOW spr round 12 (radius: 10) [23:30:26 -26830.781338] SLOW spr round 13 (radius: 5) [23:32:27 -26830.781306] SLOW spr round 14 (radius: 10) [23:34:24 -26830.781304] SLOW spr round 15 (radius: 15) [23:37:18 -26830.781297] SLOW spr round 16 (radius: 20) [23:41:23 -26826.192595] SLOW spr round 17 (radius: 5) [23:43:38 -26825.903139] SLOW spr round 18 (radius: 5) [23:45:33 -26825.901659] SLOW spr round 19 (radius: 10) [23:47:27 -26824.552994] SLOW spr round 20 (radius: 5) [23:49:33 -26822.778225] SLOW spr round 21 (radius: 5) [23:51:22 -26822.777717] SLOW spr round 22 (radius: 10) [23:53:12 -26822.777427] SLOW spr round 23 (radius: 15) [23:56:15 -26820.952831] SLOW spr round 24 (radius: 5) [23:58:24 -26820.952125] SLOW spr round 25 (radius: 10) [24:00:28 -26820.952030] SLOW spr round 26 (radius: 15) [24:03:22 -26820.951972] SLOW spr round 27 (radius: 20) [24:07:23 -26820.081785] SLOW spr round 28 (radius: 5) [24:09:34 -26820.081751] SLOW spr round 29 (radius: 10) [24:11:41 -26820.081727] SLOW spr round 30 (radius: 15) [24:14:36 -26820.081709] SLOW spr round 31 (radius: 20) [24:18:37 -26820.081696] SLOW spr round 32 (radius: 25) [24:23:46 -26809.949940] SLOW spr round 33 (radius: 5) [24:26:06 -26809.060078] SLOW spr round 34 (radius: 5) [24:28:04 -26809.059281] SLOW spr round 35 (radius: 10) [24:29:59 -26807.269637] SLOW spr round 36 (radius: 5) [24:32:04 -26807.269053] SLOW spr round 37 (radius: 10) [24:34:03 -26807.268961] SLOW spr round 38 (radius: 15) [24:37:03 -26804.968055] SLOW spr round 39 (radius: 5) [24:39:16 -26804.942517] SLOW spr round 40 (radius: 10) [24:41:23 -26803.553634] SLOW spr round 41 (radius: 5) [24:43:29 -26802.878910] SLOW spr round 42 (radius: 5) [24:45:20 -26802.878883] SLOW spr round 43 (radius: 10) [24:47:13 -26802.128729] SLOW spr round 44 (radius: 5) [24:49:21 -26802.037338] SLOW spr round 45 (radius: 10) [24:51:21 -26802.033450] SLOW spr round 46 (radius: 15) [24:54:21 -26802.033198] SLOW spr round 47 (radius: 20) [24:58:24 -26802.033156] SLOW spr round 48 (radius: 25) [25:03:06 -26802.033144] Model parameter optimization (eps = 0.100000) [25:03:15] ML tree search #17, logLikelihood: -26801.251431 [25:03:15 -79234.696857] Initial branch length optimization [25:03:17 -66450.005463] Model parameter optimization (eps = 10.000000) [25:03:51 -66174.815088] AUTODETECT spr round 1 (radius: 5) [25:05:06 -51373.606395] AUTODETECT spr round 2 (radius: 10) [25:06:28 -41613.293373] AUTODETECT spr round 3 (radius: 15) [25:08:11 -34140.929180] AUTODETECT spr round 4 (radius: 20) [25:10:32 -31234.398658] AUTODETECT spr round 5 (radius: 25) [25:13:53 -30328.455498] SPR radius for FAST iterations: 25 (autodetect) [25:13:53 -30328.455498] Model parameter optimization (eps = 3.000000) [25:14:07 -30280.274826] FAST spr round 1 (radius: 25) [25:16:59 -27530.556464] FAST spr round 2 (radius: 25) [25:18:31 -27208.974454] FAST spr round 3 (radius: 25) [25:19:48 -27175.766571] FAST spr round 4 (radius: 25) [25:21:00 -27173.157671] FAST spr round 5 (radius: 25) [25:22:08 -27173.156828] Model parameter optimization (eps = 1.000000) [25:22:11 -27172.898314] SLOW spr round 1 (radius: 5) [25:23:30 -27167.496448] SLOW spr round 2 (radius: 5) [25:24:49 -27164.452149] SLOW spr round 3 (radius: 5) [25:26:06 -27164.335256] SLOW spr round 4 (radius: 5) [25:27:22 -27164.334910] SLOW spr round 5 (radius: 10) [25:28:42 -27162.740191] SLOW spr round 6 (radius: 5) [25:30:11 -27161.635371] SLOW spr round 7 (radius: 5) [25:31:33 -27161.633865] SLOW spr round 8 (radius: 10) [25:32:54 -27158.788119] SLOW spr round 9 (radius: 5) [25:34:21 -27158.787806] SLOW spr round 10 (radius: 10) [25:35:46 -27158.787735] SLOW spr round 11 (radius: 15) [25:37:39 -27156.594718] SLOW spr round 12 (radius: 5) [25:39:11 -27150.973804] SLOW spr round 13 (radius: 5) [25:40:35 -27149.907515] SLOW spr round 14 (radius: 5) [25:41:54 -27149.907350] SLOW spr round 15 (radius: 10) [25:43:13 -27149.300922] SLOW spr round 16 (radius: 5) [25:44:43 -27147.301708] SLOW spr round 17 (radius: 5) [25:46:05 -27147.300687] SLOW spr round 18 (radius: 10) [25:47:26 -27147.300596] SLOW spr round 19 (radius: 15) [25:49:22 -27146.950523] SLOW spr round 20 (radius: 5) [25:50:52 -27146.631544] SLOW spr round 21 (radius: 5) [25:52:15 -27146.631241] SLOW spr round 22 (radius: 10) [25:53:36 -27146.631229] SLOW spr round 23 (radius: 15) [25:55:31 -27146.631227] SLOW spr round 24 (radius: 20) [25:58:04 -27057.099875] SLOW spr round 25 (radius: 5) [25:59:38 -27038.123663] SLOW spr round 26 (radius: 5) [26:01:02 -27037.400415] SLOW spr round 27 (radius: 5) [26:02:21 -27037.399975] SLOW spr round 28 (radius: 10) [26:03:40 -27037.399917] SLOW spr round 29 (radius: 15) [26:05:38 -27037.399906] SLOW spr round 30 (radius: 20) [26:08:06 -27036.912768] SLOW spr round 31 (radius: 5) [26:09:37 -27036.912768] SLOW spr round 32 (radius: 10) [26:11:05 -27036.912767] SLOW spr round 33 (radius: 15) [26:12:57 -27036.912766] SLOW spr round 34 (radius: 20) [26:15:26 -27036.716566] SLOW spr round 35 (radius: 5) [26:16:57 -27036.433439] SLOW spr round 36 (radius: 5) [26:18:21 -27036.433412] SLOW spr round 37 (radius: 10) [26:19:43 -27036.433411] SLOW spr round 38 (radius: 15) [26:21:37 -27036.433411] SLOW spr round 39 (radius: 20) [26:24:06 -27036.433411] SLOW spr round 40 (radius: 25) [26:26:55 -26936.486937] SLOW spr round 41 (radius: 5) [26:28:29 -26885.325404] SLOW spr round 42 (radius: 5) [26:29:55 -26878.107882] SLOW spr round 43 (radius: 5) [26:31:16 -26877.593879] SLOW spr round 44 (radius: 5) [26:32:34 -26876.509669] SLOW spr round 45 (radius: 5) [26:33:51 -26876.509009] SLOW spr round 46 (radius: 10) [26:35:09 -26875.826930] SLOW spr round 47 (radius: 5) [26:36:37 -26875.825872] SLOW spr round 48 (radius: 10) [26:38:02 -26872.761273] SLOW spr round 49 (radius: 5) [26:39:29 -26872.524248] SLOW spr round 50 (radius: 5) [26:40:50 -26872.181775] SLOW spr round 51 (radius: 5) [26:42:08 -26872.181648] SLOW spr round 52 (radius: 10) [26:43:26 -26872.181646] SLOW spr round 53 (radius: 15) [26:45:24 -26872.181646] SLOW spr round 54 (radius: 20) [26:47:51 -26871.629051] SLOW spr round 55 (radius: 5) [26:49:21 -26871.626282] SLOW spr round 56 (radius: 10) [26:50:49 -26871.626192] SLOW spr round 57 (radius: 15) [26:52:41 -26871.626189] SLOW spr round 58 (radius: 20) [26:55:09 -26870.172997] SLOW spr round 59 (radius: 5) [26:56:40 -26870.107087] SLOW spr round 60 (radius: 10) [26:58:08 -26870.105327] SLOW spr round 61 (radius: 15) [27:00:00 -26870.105269] SLOW spr round 62 (radius: 20) [27:02:29 -26869.887627] SLOW spr round 63 (radius: 5) [27:04:01 -26869.546462] SLOW spr round 64 (radius: 5) [27:05:24 -26869.546256] SLOW spr round 65 (radius: 10) [27:06:46 -26869.546254] SLOW spr round 66 (radius: 15) [27:08:41 -26869.546254] SLOW spr round 67 (radius: 20) [27:11:09 -26869.546254] SLOW spr round 68 (radius: 25) [27:13:55 -26868.419838] SLOW spr round 69 (radius: 5) [27:15:27 -26868.195142] SLOW spr round 70 (radius: 5) [27:16:51 -26868.173118] SLOW spr round 71 (radius: 10) [27:18:13 -26867.080924] SLOW spr round 72 (radius: 5) [27:19:40 -26867.080358] SLOW spr round 73 (radius: 10) [27:21:05 -26867.080319] SLOW spr round 74 (radius: 15) [27:22:59 -26867.080316] SLOW spr round 75 (radius: 20) [27:25:28 -26866.565334] SLOW spr round 76 (radius: 5) [27:26:59 -26866.565242] SLOW spr round 77 (radius: 10) [27:28:27 -26866.565238] SLOW spr round 78 (radius: 15) [27:30:20 -26866.565238] SLOW spr round 79 (radius: 20) [27:32:49 -26866.565238] SLOW spr round 80 (radius: 25) [27:35:36 -26866.297742] SLOW spr round 81 (radius: 5) [27:37:07 -26866.292437] SLOW spr round 82 (radius: 10) [27:38:36 -26866.292418] SLOW spr round 83 (radius: 15) [27:40:29 -26866.292418] SLOW spr round 84 (radius: 20) [27:42:59 -26866.292418] SLOW spr round 85 (radius: 25) [27:45:44 -26866.292418] Model parameter optimization (eps = 0.100000) [27:45:46] ML tree search #18, logLikelihood: -26866.292414 [27:45:46 -79272.307990] Initial branch length optimization [27:45:48 -66423.832110] Model parameter optimization (eps = 10.000000) [27:46:08 -66158.535220] AUTODETECT spr round 1 (radius: 5) [27:47:23 -51105.181946] AUTODETECT spr round 2 (radius: 10) [27:48:45 -41344.677627] AUTODETECT spr round 3 (radius: 15) [27:50:30 -34363.418601] AUTODETECT spr round 4 (radius: 20) [27:52:53 -31350.186069] AUTODETECT spr round 5 (radius: 25) [27:56:45 -29850.535833] SPR radius for FAST iterations: 25 (autodetect) [27:56:45 -29850.535833] Model parameter optimization (eps = 3.000000) [27:57:06 -29807.044191] FAST spr round 1 (radius: 25) [27:59:24 -27121.800788] FAST spr round 2 (radius: 25) [28:01:22 -26921.217752] FAST spr round 3 (radius: 25) [28:03:00 -26844.278453] FAST spr round 4 (radius: 25) [28:04:27 -26830.531139] FAST spr round 5 (radius: 25) [28:05:47 -26717.080039] FAST spr round 6 (radius: 25) [28:07:03 -26717.079582] Model parameter optimization (eps = 1.000000) [28:07:14 -26710.983005] SLOW spr round 1 (radius: 5) [28:08:37 -26705.108463] SLOW spr round 2 (radius: 5) [28:09:59 -26702.367147] SLOW spr round 3 (radius: 5) [28:11:18 -26702.366882] SLOW spr round 4 (radius: 10) [28:12:41 -26701.506433] SLOW spr round 5 (radius: 5) [28:14:16 -26701.130640] SLOW spr round 6 (radius: 5) [28:15:42 -26701.130471] SLOW spr round 7 (radius: 10) [28:17:08 -26701.003975] SLOW spr round 8 (radius: 5) [28:18:42 -26701.003089] SLOW spr round 9 (radius: 10) [28:20:13 -26701.003063] SLOW spr round 10 (radius: 15) [28:22:24 -26697.518668] SLOW spr round 11 (radius: 5) [28:24:01 -26697.258803] SLOW spr round 12 (radius: 5) [28:25:29 -26697.258742] SLOW spr round 13 (radius: 10) [28:26:57 -26697.258742] SLOW spr round 14 (radius: 15) [28:29:07 -26697.258742] SLOW spr round 15 (radius: 20) [28:31:50 -26695.698299] SLOW spr round 16 (radius: 5) [28:33:28 -26695.697442] SLOW spr round 17 (radius: 10) [28:35:05 -26695.696597] SLOW spr round 18 (radius: 15) [28:37:12 -26693.445781] SLOW spr round 19 (radius: 5) [28:38:48 -26693.445780] SLOW spr round 20 (radius: 10) [28:40:22 -26693.445780] SLOW spr round 21 (radius: 15) [28:42:29 -26693.445780] SLOW spr round 22 (radius: 20) [28:45:12 -26693.445780] SLOW spr round 23 (radius: 25) [28:48:18 -26690.213148] SLOW spr round 24 (radius: 5) [28:50:01 -26685.705231] SLOW spr round 25 (radius: 5) [28:51:33 -26683.886494] SLOW spr round 26 (radius: 5) [28:52:58 -26683.886350] SLOW spr round 27 (radius: 10) [28:54:23 -26683.886327] SLOW spr round 28 (radius: 15) [28:56:35 -26683.886322] SLOW spr round 29 (radius: 20) [28:59:21 -26683.886321] SLOW spr round 30 (radius: 25) [29:02:29 -26679.892059] SLOW spr round 31 (radius: 5) [29:04:11 -26676.325320] SLOW spr round 32 (radius: 5) [29:05:40 -26676.325145] SLOW spr round 33 (radius: 10) [29:07:09 -26674.952355] SLOW spr round 34 (radius: 5) [29:08:42 -26674.952156] SLOW spr round 35 (radius: 10) [29:10:13 -26674.952137] SLOW spr round 36 (radius: 15) [29:12:22 -26672.640576] SLOW spr round 37 (radius: 5) [29:13:57 -26672.640562] SLOW spr round 38 (radius: 10) [29:15:31 -26672.640560] SLOW spr round 39 (radius: 15) [29:17:38 -26671.863699] SLOW spr round 40 (radius: 5) [29:19:13 -26671.863582] SLOW spr round 41 (radius: 10) [29:20:47 -26671.863564] SLOW spr round 42 (radius: 15) [29:22:54 -26671.863561] SLOW spr round 43 (radius: 20) [29:25:41 -26671.863561] SLOW spr round 44 (radius: 25) [29:28:50 -26671.682444] SLOW spr round 45 (radius: 5) [29:30:28 -26671.682438] SLOW spr round 46 (radius: 10) [29:32:06 -26671.682438] SLOW spr round 47 (radius: 15) [29:34:13 -26671.017969] SLOW spr round 48 (radius: 5) [29:35:49 -26670.640708] SLOW spr round 49 (radius: 5) [29:37:16 -26670.640689] SLOW spr round 50 (radius: 10) [29:38:43 -26670.640689] SLOW spr round 51 (radius: 15) [29:40:53 -26670.640685] SLOW spr round 52 (radius: 20) [29:43:40 -26670.640685] SLOW spr round 53 (radius: 25) [29:46:49 -26670.640681] Model parameter optimization (eps = 0.100000) [29:46:56] ML tree search #19, logLikelihood: -26670.339428 [29:46:56 -78912.432827] Initial branch length optimization [29:46:58 -66096.377365] Model parameter optimization (eps = 10.000000) [29:47:21 -65765.279251] AUTODETECT spr round 1 (radius: 5) [29:48:33 -49772.643513] AUTODETECT spr round 2 (radius: 10) [29:49:55 -40773.270871] AUTODETECT spr round 3 (radius: 15) [29:51:33 -35224.884748] AUTODETECT spr round 4 (radius: 20) [29:53:41 -31523.090045] AUTODETECT spr round 5 (radius: 25) [29:57:00 -30132.663868] SPR radius for FAST iterations: 25 (autodetect) [29:57:00 -30132.663868] Model parameter optimization (eps = 3.000000) [29:57:15 -30094.005364] FAST spr round 1 (radius: 25) [29:59:58 -27270.954071] FAST spr round 2 (radius: 25) [30:01:52 -26946.495493] FAST spr round 3 (radius: 25) [30:03:32 -26784.978630] FAST spr round 4 (radius: 25) [30:04:58 -26774.983074] FAST spr round 5 (radius: 25) [30:06:18 -26772.271629] FAST spr round 6 (radius: 25) [30:07:34 -26772.271392] Model parameter optimization (eps = 1.000000) [30:07:43 -26769.490788] SLOW spr round 1 (radius: 5) [30:09:26 -26763.360957] SLOW spr round 2 (radius: 5) [30:11:08 -26761.508286] SLOW spr round 3 (radius: 5) [30:12:45 -26761.499019] SLOW spr round 4 (radius: 10) [30:14:27 -26761.119539] SLOW spr round 5 (radius: 5) [30:16:29 -26761.098323] SLOW spr round 6 (radius: 10) [30:18:28 -26761.096652] SLOW spr round 7 (radius: 15) [30:21:32 -26751.929130] SLOW spr round 8 (radius: 5) [30:23:39 -26751.928973] SLOW spr round 9 (radius: 10) [30:25:43 -26751.928906] SLOW spr round 10 (radius: 15) [30:28:40 -26751.596110] SLOW spr round 11 (radius: 5) [30:30:47 -26751.586203] SLOW spr round 12 (radius: 10) [30:32:50 -26751.585439] SLOW spr round 13 (radius: 15) [30:35:47 -26751.584840] SLOW spr round 14 (radius: 20) [30:39:58 -26748.766797] SLOW spr round 15 (radius: 5) [30:42:10 -26747.818443] SLOW spr round 16 (radius: 5) [30:44:08 -26747.175680] SLOW spr round 17 (radius: 5) [30:45:51 -26747.175402] SLOW spr round 18 (radius: 10) [30:47:35 -26746.576009] SLOW spr round 19 (radius: 5) [30:49:35 -26746.561774] SLOW spr round 20 (radius: 10) [30:51:30 -26746.561150] SLOW spr round 21 (radius: 15) [30:54:24 -26746.561088] SLOW spr round 22 (radius: 20) [30:58:28 -26745.708830] SLOW spr round 23 (radius: 5) [31:00:35 -26745.656836] SLOW spr round 24 (radius: 10) [31:02:39 -26745.654457] SLOW spr round 25 (radius: 15) [31:05:30 -26745.654114] SLOW spr round 26 (radius: 20) [31:09:35 -26745.654067] SLOW spr round 27 (radius: 25) [31:14:08 -26742.152669] SLOW spr round 28 (radius: 5) [31:16:21 -26741.640199] SLOW spr round 29 (radius: 5) [31:18:13 -26741.640140] SLOW spr round 30 (radius: 10) [31:20:03 -26741.640139] SLOW spr round 31 (radius: 15) [31:23:04 -26741.640139] SLOW spr round 32 (radius: 20) [31:27:12 -26741.640139] SLOW spr round 33 (radius: 25) [31:31:42 -26741.640139] Model parameter optimization (eps = 0.100000) [31:31:49] ML tree search #20, logLikelihood: -26741.477124 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.312538,0.218275) (0.041633,1.457383) (0.541681,1.234732) (0.104148,1.942191) 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: -26670.339428 AIC score: 57326.678856 / AICc score: 8005410.678856 / BIC score: 61055.982471 Free parameters (model + branch lengths): 1993 WARNING: Number of free parameters (K=1993) is larger than alignment size (n=48). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 1 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.bestTreeCollapsed Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.bestTree All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.mlTrees Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.bestModel Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P07911/3_mltree/P07911.raxml.log Analysis started: 04-Jun-2021 13:13:41 / finished: 05-Jun-2021 20:45:31 Elapsed time: 113509.909 seconds (this run) / 170282.558 seconds (total with restarts)