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) CPU E5-2690 v4 @ 2.60GHz, 28 cores, 251 GB RAM RAxML-NG was called at 07-Jul-2021 15:44:21 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/2_msa/Q3KP66_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66 --seed 2 --threads 2 --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), PTHREADS (2 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/2_msa/Q3KP66_trimmed_msa.fasta [00:00:00] Loaded alignment with 419 taxa and 85 sites WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_G1N0F0_G1N0F0_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_F6VN95_F6VN95_MONDO_13616 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_G3WVZ5_G3WVZ5_SARHA_9305 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_H0YVR6_H0YVR6_TAEGU_59729 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_U3JGU4_U3JGU4_FICAL_59894 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_U3I476_U3I476_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A151NQG4_A0A151NQG4_ALLMI_8496 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A0Q3MIJ1_A0A0Q3MIJ1_AMAAE_12930 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A091FN51_A0A091FN51_CORBR_85066 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A093S7X3_A0A093S7X3_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A091V717_A0A091V717_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A087RE50_A0A087RE50_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A093HNA7_A0A093HNA7_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A091WSC6_A0A091WSC6_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A099Z5N0_A0A099Z5N0_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A091FLJ0_A0A091FLJ0_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A0A0AF05_A0A0A0AF05_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A2I0MHG3_A0A2I0MHG3_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A093GAL6_A0A093GAL6_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A091HWK3_A0A091HWK3_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A1U8D0B6_A0A1U8D0B6_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A1V4K1S4_A0A1V4K1S4_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A218VAH2_A0A218VAH2_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A1D5PP12_A0A1D5PP12_CHICK_9031 and tr_A0A226MZ20_A0A226MZ20_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_G1NB47_G1NB47_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_U3IYK6_U3IYK6_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_A0A091VG70_A0A091VG70_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_A0A087RBZ3_A0A087RBZ3_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_A0A093I6J0_A0A093I6J0_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_A0A226NKS2_A0A226NKS2_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A1D5PVZ0_A0A1D5PVZ0_CHICK_9031 and tr_A0A226PPC0_A0A226PPC0_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A1L1RYD9_A0A1L1RYD9_CHICK_9031 and tr_A0A226NI64_A0A226NI64_CALSU_9009 are exactly identical! WARNING: Sequences sp_Q7TN12_INAVA_MOUSE_10090 and tr_D3ZL84_D3ZL84_RAT_10116 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_G3GVR1_G3GVR1_CRIGR_10029 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_A0A091D5Y6_A0A091D5Y6_FUKDA_885580 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_A0A1U8CEF4_A0A1U8CEF4_MESAU_10036 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_A0A2U4B785_A0A2U4B785_TURTR_9739 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_A0A2Y9NQJ7_A0A2Y9NQJ7_DELLE_9749 are exactly identical! WARNING: Sequences sp_Q8BIE6_FRM4A_MOUSE_10090 and tr_A0A384BAR0_A0A384BAR0_BALAS_310752 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G1RNH1_G1RNH1_NOMLE_61853 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G1PSU1_G1PSU1_MYOLU_59463 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G3RP94_G3RP94_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G1TZJ2_G1TZJ2_RABIT_9986 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_J9NWW0_J9NWW0_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2I3RJ61_A0A2I3RJ61_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and sp_Q9P2Q2_FRM4A_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_F7GYY1_F7GYY1_MACMU_9544 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G3SUG8_G3SUG8_LOXAF_9785 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_F7HW29_F7HW29_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A287BR56_A0A287BR56_PIG_9823 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_G1M4U2_G1M4U2_AILME_9646 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_E1BHJ3_E1BHJ3_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2I3MPE6_A0A2I3MPE6_PAPAN_9555 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A0D9RKX6_A0A0D9RKX6_CHLSB_60711 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A1S3AAX9_A0A1S3AAX9_ERIEU_9365 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A1U7T8N9_A0A1U7T8N9_TARSY_1868482 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2K5N4Q0_A0A2K5N4Q0_CERAT_9531 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2K6BB69_A0A2K6BB69_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2R9BPX9_A0A2R9BPX9_PANPA_9597 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2U3WJY8_A0A2U3WJY8_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2U3XCF1_A0A2U3XCF1_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2Y9R3M0_A0A2Y9R3M0_TRIMA_127582 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A2Y9KC97_A0A2Y9KC97_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3XPD0_M3XPD0_MUSPF_9669 and tr_A0A384C645_A0A384C645_URSMA_29073 are exactly identical! WARNING: Sequences tr_H2M1I5_H2M1I5_ORYLA_8090 and tr_I3KCC4_I3KCC4_ORENI_8128 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and tr_G3QIE2_G3QIE2_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and tr_H2PAA4_H2PAA4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and tr_A0A2I3TX41_A0A2I3TX41_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and sp_Q9Y2L6_FRM4B_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and tr_F7GXW1_F7GXW1_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1QPF6_G1QPF6_NOMLE_61853 and tr_A0A2R8ZJG5_A0A2R8ZJG5_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2N487_H2N487_PONAB_9601 and tr_H2Q0V4_H2Q0V4_PANTR_9598 are exactly identical! WARNING: Sequences tr_H2N487_H2N487_PONAB_9601 and sp_Q3KP66_INAVA_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2N487_H2N487_PONAB_9601 and tr_A0A2R9A2Z6_A0A2R9A2Z6_PANPA_9597 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_F6X616_F6X616_MACMU_9544 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_G7NZ89_G7NZ89_MACFA_9541 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_A0A096NCA0_A0A096NCA0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_A0A0D9RGS5_A0A0D9RGS5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_A0A2K5NKW7_A0A2K5NKW7_CERAT_9531 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_A0A2K6DP46_A0A2K6DP46_MACNE_9545 are exactly identical! WARNING: Sequences tr_F1PXZ6_F1PXZ6_CANLF_9615 and tr_A0A2K5YYX2_A0A2K5YYX2_MANLE_9568 are exactly identical! WARNING: Sequences tr_W5PJL4_W5PJL4_SHEEP_9940 and tr_F1MMR2_F1MMR2_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A3B5Q2R3_A0A3B5Q2R3_XIPMA_8083 and tr_A0A087XMQ9_A0A087XMQ9_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5QC57_A0A3B5QC57_XIPMA_8083 and tr_A0A087YJN3_A0A087YJN3_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5QC57_A0A3B5QC57_XIPMA_8083 and tr_A0A2I4BJ61_A0A2I4BJ61_9TELE_52670 are exactly identical! WARNING: Sequences tr_A0A088AUY6_A0A088AUY6_APIME_7460 and tr_A0A2A3E823_A0A2A3E823_APICC_94128 are exactly identical! WARNING: Sequences tr_H2U8E4_H2U8E4_TAKRU_31033 and tr_H3DKS5_H3DKS5_TETNG_99883 are exactly identical! WARNING: Sequences tr_H0ZHT4_H0ZHT4_TAEGU_59729 and tr_H0ZU08_H0ZU08_TAEGU_59729 are exactly identical! WARNING: Sequences tr_H0ZHT4_H0ZHT4_TAEGU_59729 and tr_U3KG00_U3KG00_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0ZHT4_H0ZHT4_TAEGU_59729 and tr_A0A091EBX1_A0A091EBX1_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0ZHT4_H0ZHT4_TAEGU_59729 and tr_A0A091WA59_A0A091WA59_OPIHO_30419 are exactly identical! WARNING: Sequences tr_H0ZHT4_H0ZHT4_TAEGU_59729 and tr_A0A218UWL6_A0A218UWL6_9PASE_299123 are exactly identical! WARNING: Sequences tr_F4X8N1_F4X8N1_ACREC_103372 and tr_A0A195FC90_A0A195FC90_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A044T1K0_A0A044T1K0_ONCVO_6282 and tr_A0A182EHZ3_A0A182EHZ3_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A2I3NHP6_A0A2I3NHP6_PAPAN_9555 and tr_A0A0D9RMX5_A0A0D9RMX5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3NHP6_A0A2I3NHP6_PAPAN_9555 and tr_A0A2K6C638_A0A2K6C638_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3NHP6_A0A2I3NHP6_PAPAN_9555 and tr_A0A2K5XIB2_A0A2K5XIB2_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A093SIB1_A0A093SIB1_9PASS_328815 and tr_A0A2I0M9S5_A0A2I0M9S5_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A1S3LLV2_A0A1S3LLV2_SALSA_8030 and tr_A0A060XIW2_A0A060XIW2_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3MHJ4_A0A1S3MHJ4_SALSA_8030 and tr_A0A1S3MHN1_A0A1S3MHN1_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A2D0PI64_A0A2D0PI64_ICTPU_7998 and tr_A0A2D0PJK6_A0A2D0PJK6_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QTW6_A0A2D0QTW6_ICTPU_7998 and tr_A0A2D0QTX2_A0A2D0QTX2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QTW6_A0A2D0QTW6_ICTPU_7998 and tr_A0A2D0QU82_A0A2D0QU82_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QTW6_A0A2D0QTW6_ICTPU_7998 and tr_A0A2D0QVU9_A0A2D0QVU9_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QTW6_A0A2D0QTW6_ICTPU_7998 and tr_A0A2D0QVV4_A0A2D0QVV4_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QTW6_A0A2D0QTW6_ICTPU_7998 and tr_A0A2D0QWJ6_A0A2D0QWJ6_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0RYI5_A0A2D0RYI5_ICTPU_7998 and tr_A0A2D0RYJ2_A0A2D0RYJ2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0RYI5_A0A2D0RYI5_ICTPU_7998 and tr_A0A2D0S026_A0A2D0S026_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U4CCH8_A0A2U4CCH8_TURTR_9739 and tr_A0A2Y9N261_A0A2Y9N261_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2Y9IYP7_A0A2Y9IYP7_ENHLU_391180 and tr_A0A384D2S0_A0A384D2S0_URSMA_29073 are exactly identical! WARNING: Duplicate sequences found: 110 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.reduced.phy Alignment comprises 1 partitions and 85 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 85 / 85 Gaps: 2.84 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.rba Parallelization scheme autoconfig: 2 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 419 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 85 / 6800 [00:00:00] Data distribution: max. searches per worker: 10 Starting ML tree search with 20 distinct starting trees [00:00:00 -49525.179767] Initial branch length optimization [00:00:00 -39282.678536] Model parameter optimization (eps = 10.000000) [00:00:11 -39182.781161] AUTODETECT spr round 1 (radius: 5) [00:00:32 -27374.849554] AUTODETECT spr round 2 (radius: 10) [00:00:56 -21054.282601] AUTODETECT spr round 3 (radius: 15) [00:01:24 -17702.727261] AUTODETECT spr round 4 (radius: 20) [00:01:58 -15638.603831] AUTODETECT spr round 5 (radius: 25) [00:02:33 -15247.534333] SPR radius for FAST iterations: 25 (autodetect) [00:02:33 -15247.534333] Model parameter optimization (eps = 3.000000) [00:02:40 -15176.890035] FAST spr round 1 (radius: 25) [00:03:03 -13204.265293] FAST spr round 2 (radius: 25) [00:03:24 -13027.992244] FAST spr round 3 (radius: 25) [00:03:44 -13024.706442] FAST spr round 4 (radius: 25) [00:04:02 -13024.704972] Model parameter optimization (eps = 1.000000) [00:04:08 -13020.084197] SLOW spr round 1 (radius: 5) [00:04:32 -13014.675993] SLOW spr round 2 (radius: 5) [00:04:54 -13014.231704] SLOW spr round 3 (radius: 5) [00:05:16 -13014.231626] SLOW spr round 4 (radius: 10) [00:05:40 -13014.054462] SLOW spr round 5 (radius: 5) [00:06:12 -13011.505208] SLOW spr round 6 (radius: 5) [00:06:38 -13010.728528] SLOW spr round 7 (radius: 5) [00:07:02 -13010.728504] SLOW spr round 8 (radius: 10) [00:07:26 -13010.728493] SLOW spr round 9 (radius: 15) [00:08:02 -13010.728491] SLOW spr round 10 (radius: 20) [00:08:44 -13010.728490] SLOW spr round 11 (radius: 25) [00:09:30 -13010.728489] Model parameter optimization (eps = 0.100000) [00:09:32] [worker #0] ML tree search #1, logLikelihood: -13010.651877 [00:09:32 -49602.341063] Initial branch length optimization [00:09:33 -39568.917449] Model parameter optimization (eps = 10.000000) [00:09:44 -39492.440143] AUTODETECT spr round 1 (radius: 5) [00:10:05 -27407.133523] AUTODETECT spr round 2 (radius: 10) [00:10:30 -20969.977090] AUTODETECT spr round 3 (radius: 15) [00:11:00 -17492.007388] AUTODETECT spr round 4 (radius: 20) [00:11:30 -15851.799316] AUTODETECT spr round 5 (radius: 25) [00:12:05 -15548.315328] SPR radius for FAST iterations: 25 (autodetect) [00:12:05 -15548.315328] Model parameter optimization (eps = 3.000000) [00:12:15 -15497.060868] FAST spr round 1 (radius: 25) [00:12:39 -13331.241868] FAST spr round 2 (radius: 25) [00:13:01 -13203.585176] FAST spr round 3 (radius: 25) [00:13:21 -13193.718586] FAST spr round 4 (radius: 25) [00:13:39 -13193.431678] FAST spr round 5 (radius: 25) [00:13:56 -13193.431179] Model parameter optimization (eps = 1.000000) [00:14:02 -13186.771268] SLOW spr round 1 (radius: 5) [00:14:03] [worker #1] ML tree search #2, logLikelihood: -13009.962463 [00:14:26 -13180.399055] SLOW spr round 2 (radius: 5) [00:14:50 -13177.474297] SLOW spr round 3 (radius: 5) [00:15:14 -13172.036630] SLOW spr round 4 (radius: 5) [00:15:37 -13170.783511] SLOW spr round 5 (radius: 5) [00:15:59 -13170.783495] SLOW spr round 6 (radius: 10) [00:16:23 -13170.783467] SLOW spr round 7 (radius: 15) [00:16:56 -13170.783461] SLOW spr round 8 (radius: 20) [00:17:33 -13165.363934] SLOW spr round 9 (radius: 5) [00:18:06 -13164.632148] SLOW spr round 10 (radius: 5) [00:18:35 -13164.573363] SLOW spr round 11 (radius: 10) [00:19:01 -13164.573279] SLOW spr round 12 (radius: 15) [00:19:32 -13164.573267] SLOW spr round 13 (radius: 20) [00:20:09 -13164.573267] SLOW spr round 14 (radius: 25) [00:20:49 -13164.573267] Model parameter optimization (eps = 0.100000) [00:20:51] [worker #0] ML tree search #3, logLikelihood: -13164.539248 [00:20:51 -50032.091859] Initial branch length optimization [00:20:52 -39756.243131] Model parameter optimization (eps = 10.000000) [00:21:06 -39640.343655] AUTODETECT spr round 1 (radius: 5) [00:21:27 -26576.509980] AUTODETECT spr round 2 (radius: 10) [00:21:52 -19902.364540] AUTODETECT spr round 3 (radius: 15) [00:22:19 -18045.247235] AUTODETECT spr round 4 (radius: 20) [00:22:53 -16359.449940] AUTODETECT spr round 5 (radius: 25) [00:23:26 -16104.609346] SPR radius for FAST iterations: 25 (autodetect) [00:23:26 -16104.609346] Model parameter optimization (eps = 3.000000) [00:23:37 -16037.543647] FAST spr round 1 (radius: 25) [00:24:02 -13411.840673] FAST spr round 2 (radius: 25) [00:24:24 -13252.891178] FAST spr round 3 (radius: 25) [00:24:44 -13243.890517] FAST spr round 4 (radius: 25) [00:25:02 -13239.630526] FAST spr round 5 (radius: 25) [00:25:20 -13239.630403] Model parameter optimization (eps = 1.000000) [00:25:27 -13237.287849] SLOW spr round 1 (radius: 5) [00:25:51 -13233.904067] SLOW spr round 2 (radius: 5) [00:26:13 -13232.954093] SLOW spr round 3 (radius: 5) [00:26:35 -13231.160304] SLOW spr round 4 (radius: 5) [00:26:57 -13231.044033] SLOW spr round 5 (radius: 5) [00:27:19 -13231.043435] SLOW spr round 6 (radius: 10) [00:27:43 -13230.066313] SLOW spr round 7 (radius: 5) [00:28:13 -13230.066310] SLOW spr round 8 (radius: 10) [00:28:34] [worker #1] ML tree search #4, logLikelihood: -13016.213716 [00:28:42 -13229.751047] SLOW spr round 9 (radius: 5) [00:29:11 -13229.751047] SLOW spr round 10 (radius: 10) [00:29:39 -13229.751047] SLOW spr round 11 (radius: 15) [00:30:11 -13229.750964] SLOW spr round 12 (radius: 20) [00:30:56 -13229.750964] SLOW spr round 13 (radius: 25) [00:31:49 -13069.693400] SLOW spr round 14 (radius: 5) [00:32:25 -12999.458226] SLOW spr round 15 (radius: 5) [00:32:53 -12999.225784] SLOW spr round 16 (radius: 5) [00:33:18 -12999.225782] SLOW spr round 17 (radius: 10) [00:33:43 -12999.225780] SLOW spr round 18 (radius: 15) [00:34:15 -12997.439491] SLOW spr round 19 (radius: 5) [00:34:46 -12997.439490] SLOW spr round 20 (radius: 10) [00:35:14 -12997.439490] SLOW spr round 21 (radius: 15) [00:35:44 -12997.439490] SLOW spr round 22 (radius: 20) [00:36:21 -12997.439490] SLOW spr round 23 (radius: 25) [00:37:03 -12997.256767] SLOW spr round 24 (radius: 5) [00:37:36 -12997.255613] SLOW spr round 25 (radius: 10) [00:38:06 -12997.255487] SLOW spr round 26 (radius: 15) [00:38:36 -12997.255474] SLOW spr round 27 (radius: 20) [00:39:13 -12997.255472] SLOW spr round 28 (radius: 25) [00:39:55 -12997.255472] Model parameter optimization (eps = 0.100000) [00:39:59] [worker #0] ML tree search #5, logLikelihood: -12997.075712 [00:39:59 -49952.516708] Initial branch length optimization [00:40:00 -39233.559842] Model parameter optimization (eps = 10.000000) [00:40:10 -39119.861654] AUTODETECT spr round 1 (radius: 5) [00:40:31 -27493.812311] AUTODETECT spr round 2 (radius: 10) [00:40:57 -20284.784022] AUTODETECT spr round 3 (radius: 15) [00:41:27 -17217.378461] AUTODETECT spr round 4 (radius: 20) [00:41:56 -16376.327196] AUTODETECT spr round 5 (radius: 25) [00:42:28 -16224.461440] SPR radius for FAST iterations: 25 (autodetect) [00:42:28 -16224.461440] Model parameter optimization (eps = 3.000000) [00:42:37 -16159.049674] FAST spr round 1 (radius: 25) [00:43:01 -13901.823333] FAST spr round 2 (radius: 25) [00:43:23 -13306.274754] FAST spr round 3 (radius: 25) [00:43:45 -13039.341802] FAST spr round 4 (radius: 25) [00:44:04 -13025.641842] FAST spr round 5 (radius: 25) [00:44:14] [worker #1] ML tree search #6, logLikelihood: -13038.508466 [00:44:23 -13020.317847] FAST spr round 6 (radius: 25) [00:44:41 -13020.317343] Model parameter optimization (eps = 1.000000) [00:44:47 -13014.826484] SLOW spr round 1 (radius: 5) [00:45:11 -13011.519118] SLOW spr round 2 (radius: 5) [00:45:33 -13011.518817] SLOW spr round 3 (radius: 10) [00:45:58 -13009.769200] SLOW spr round 4 (radius: 5) [00:46:30 -13009.103099] SLOW spr round 5 (radius: 5) [00:46:57 -13009.102818] SLOW spr round 6 (radius: 10) [00:47:24 -13007.584418] SLOW spr round 7 (radius: 5) [00:47:54 -13007.584324] SLOW spr round 8 (radius: 10) [00:48:22 -13007.584322] SLOW spr round 9 (radius: 15) [00:48:55 -13001.317751] SLOW spr round 10 (radius: 5) [00:49:28 -13000.465578] SLOW spr round 11 (radius: 5) [00:49:56 -13000.465568] SLOW spr round 12 (radius: 10) [00:50:22 -13000.465568] SLOW spr round 13 (radius: 15) [00:50:55 -13000.465568] SLOW spr round 14 (radius: 20) [00:51:39 -13000.465568] SLOW spr round 15 (radius: 25) [00:52:29 -13000.465568] Model parameter optimization (eps = 0.100000) [00:52:35] [worker #0] ML tree search #7, logLikelihood: -13000.150011 [00:52:35 -50245.914740] Initial branch length optimization [00:52:35 -40007.006072] Model parameter optimization (eps = 10.000000) [00:52:46 -39920.181139] AUTODETECT spr round 1 (radius: 5) [00:53:07 -27557.048552] AUTODETECT spr round 2 (radius: 10) [00:53:33 -20936.478269] AUTODETECT spr round 3 (radius: 15) [00:54:02 -16995.883550] AUTODETECT spr round 4 (radius: 20) [00:54:33 -15946.369534] AUTODETECT spr round 5 (radius: 25) [00:55:10 -15428.027876] SPR radius for FAST iterations: 25 (autodetect) [00:55:10 -15428.027876] Model parameter optimization (eps = 3.000000) [00:55:19 -15334.238325] FAST spr round 1 (radius: 25) [00:55:45 -13181.473607] FAST spr round 2 (radius: 25) [00:56:09 -13056.217545] FAST spr round 3 (radius: 25) [00:56:29 -13046.701850] FAST spr round 4 (radius: 25) [00:56:47 -13045.862383] FAST spr round 5 (radius: 25) [00:57:05 -13045.861155] Model parameter optimization (eps = 1.000000) [00:57:10 -13042.440607] SLOW spr round 1 (radius: 5) [00:57:34 -13036.336699] SLOW spr round 2 (radius: 5) [00:57:56 -13036.334259] SLOW spr round 3 (radius: 10) [00:58:20 -13031.492379] SLOW spr round 4 (radius: 5) [00:58:52 -13031.142146] SLOW spr round 5 (radius: 5) [00:59:19 -13031.141203] SLOW spr round 6 (radius: 10) [00:59:45 -13031.141133] SLOW spr round 7 (radius: 15) [01:00:19 -13030.496151] SLOW spr round 8 (radius: 5) [01:00:52 -13030.496056] SLOW spr round 9 (radius: 10) [01:01:22 -13025.836534] SLOW spr round 10 (radius: 5) [01:01:53 -13014.073165] SLOW spr round 11 (radius: 5) [01:02:19 -13013.877905] SLOW spr round 12 (radius: 5) [01:02:43 -13013.877872] SLOW spr round 13 (radius: 10) [01:03:08 -13013.877859] SLOW spr round 14 (radius: 15) [01:03:41 -13012.313632] SLOW spr round 15 (radius: 5) [01:04:13] [worker #1] ML tree search #8, logLikelihood: -13000.851134 [01:04:14 -13012.124173] SLOW spr round 16 (radius: 5) [01:04:42 -13012.123469] SLOW spr round 17 (radius: 10) [01:05:08 -13012.123411] SLOW spr round 18 (radius: 15) [01:05:42 -13012.123403] SLOW spr round 19 (radius: 20) [01:06:32 -13012.123402] SLOW spr round 20 (radius: 25) [01:07:20 -13012.123402] Model parameter optimization (eps = 0.100000) [01:07:26] [worker #0] ML tree search #9, logLikelihood: -13011.910972 [01:07:26 -50005.931536] Initial branch length optimization [01:07:27 -39645.719561] Model parameter optimization (eps = 10.000000) [01:07:37 -39474.944669] AUTODETECT spr round 1 (radius: 5) [01:07:58 -27225.434606] AUTODETECT spr round 2 (radius: 10) [01:08:23 -20956.647020] AUTODETECT spr round 3 (radius: 15) [01:08:53 -16988.471785] AUTODETECT spr round 4 (radius: 20) [01:09:31 -15504.652084] AUTODETECT spr round 5 (radius: 25) [01:10:14 -15389.353624] SPR radius for FAST iterations: 25 (autodetect) [01:10:14 -15389.353624] Model parameter optimization (eps = 3.000000) [01:10:22 -15323.093534] FAST spr round 1 (radius: 25) [01:10:46 -13293.065409] FAST spr round 2 (radius: 25) [01:11:06 -13049.825106] FAST spr round 3 (radius: 25) [01:11:27 -13024.729143] FAST spr round 4 (radius: 25) [01:11:45 -13024.093130] FAST spr round 5 (radius: 25) [01:12:03 -13023.740543] FAST spr round 6 (radius: 25) [01:12:21 -13023.740310] Model parameter optimization (eps = 1.000000) [01:12:26 -13021.356734] SLOW spr round 1 (radius: 5) [01:12:50 -13015.211465] SLOW spr round 2 (radius: 5) [01:13:13 -13015.147662] SLOW spr round 3 (radius: 10) [01:13:36 -13011.173789] SLOW spr round 4 (radius: 5) [01:14:07 -13008.294700] SLOW spr round 5 (radius: 5) [01:14:34 -13008.009510] SLOW spr round 6 (radius: 5) [01:14:57 -13008.009500] SLOW spr round 7 (radius: 10) [01:15:22 -13007.889425] SLOW spr round 8 (radius: 5) [01:15:53 -13007.530354] SLOW spr round 9 (radius: 5) [01:16:19 -13007.529816] SLOW spr round 10 (radius: 10) [01:16:44 -13007.529803] SLOW spr round 11 (radius: 15) [01:17:16 -13000.568565] SLOW spr round 12 (radius: 5) [01:17:48 -13000.568544] SLOW spr round 13 (radius: 10) [01:18:17 -13000.050669] SLOW spr round 14 (radius: 5) [01:18:19] [worker #1] ML tree search #10, logLikelihood: -13299.879606 [01:18:45 -13000.050668] SLOW spr round 15 (radius: 10) [01:19:12 -13000.050668] SLOW spr round 16 (radius: 15) [01:19:44 -13000.050668] SLOW spr round 17 (radius: 20) [01:20:21 -12998.233662] SLOW spr round 18 (radius: 5) [01:20:53 -12998.233598] SLOW spr round 19 (radius: 10) [01:21:23 -12998.233597] SLOW spr round 20 (radius: 15) [01:21:55 -12998.233597] SLOW spr round 21 (radius: 20) [01:22:33 -12998.233597] SLOW spr round 22 (radius: 25) [01:23:17 -12998.233597] Model parameter optimization (eps = 0.100000) [01:23:25] [worker #0] ML tree search #11, logLikelihood: -12995.744193 [01:23:25 -50238.665416] Initial branch length optimization [01:23:25 -40348.904584] Model parameter optimization (eps = 10.000000) [01:23:36 -40255.878714] AUTODETECT spr round 1 (radius: 5) [01:23:57 -27775.131779] AUTODETECT spr round 2 (radius: 10) [01:24:21 -21331.794409] AUTODETECT spr round 3 (radius: 15) [01:24:47 -18228.973780] AUTODETECT spr round 4 (radius: 20) [01:25:30 -15108.647365] AUTODETECT spr round 5 (radius: 25) [01:26:05 -14951.943866] SPR radius for FAST iterations: 25 (autodetect) [01:26:05 -14951.943866] Model parameter optimization (eps = 3.000000) [01:26:16 -14888.058154] FAST spr round 1 (radius: 25) [01:26:41 -13181.485293] FAST spr round 2 (radius: 25) [01:27:04 -13029.234624] FAST spr round 3 (radius: 25) [01:27:23 -13023.866753] FAST spr round 4 (radius: 25) [01:27:40 -13023.866672] Model parameter optimization (eps = 1.000000) [01:27:46 -13015.604959] SLOW spr round 1 (radius: 5) [01:28:09 -13012.217054] SLOW spr round 2 (radius: 5) [01:28:31 -13011.933051] SLOW spr round 3 (radius: 5) [01:28:53 -13010.771260] SLOW spr round 4 (radius: 5) [01:29:16 -13010.372449] SLOW spr round 5 (radius: 5) [01:29:37 -13010.372040] SLOW spr round 6 (radius: 10) [01:30:01 -13008.860821] SLOW spr round 7 (radius: 5) [01:30:31 -13008.840969] SLOW spr round 8 (radius: 10) [01:30:47] [worker #1] ML tree search #12, logLikelihood: -13004.236671 [01:30:59 -13007.519948] SLOW spr round 9 (radius: 5) [01:31:28 -13005.521117] SLOW spr round 10 (radius: 5) [01:31:54 -13005.520174] SLOW spr round 11 (radius: 10) [01:32:18 -13005.520154] SLOW spr round 12 (radius: 15) [01:32:51 -13004.930871] SLOW spr round 13 (radius: 5) [01:33:23 -13004.459599] SLOW spr round 14 (radius: 5) [01:33:50 -13004.459522] SLOW spr round 15 (radius: 10) [01:34:15 -13004.459521] SLOW spr round 16 (radius: 15) [01:34:48 -13003.979114] SLOW spr round 17 (radius: 5) [01:35:19 -13003.979114] SLOW spr round 18 (radius: 10) [01:35:47 -13003.979114] SLOW spr round 19 (radius: 15) [01:36:19 -13003.979114] SLOW spr round 20 (radius: 20) [01:37:02 -13003.979114] SLOW spr round 21 (radius: 25) [01:37:55 -13003.979114] Model parameter optimization (eps = 0.100000) [01:37:58] [worker #0] ML tree search #13, logLikelihood: -13003.831632 [01:37:58 -49494.235440] Initial branch length optimization [01:37:59 -39052.469235] Model parameter optimization (eps = 10.000000) [01:38:09 -38980.050617] AUTODETECT spr round 1 (radius: 5) [01:38:30 -27195.411901] AUTODETECT spr round 2 (radius: 10) [01:38:54 -21172.305445] AUTODETECT spr round 3 (radius: 15) [01:39:22 -17674.806698] AUTODETECT spr round 4 (radius: 20) [01:39:37] [worker #1] ML tree search #14, logLikelihood: -13002.836233 [01:39:55 -16529.658290] AUTODETECT spr round 5 (radius: 25) [01:40:26 -16134.726594] SPR radius for FAST iterations: 25 (autodetect) [01:40:26 -16134.726594] Model parameter optimization (eps = 3.000000) [01:40:37 -16081.898945] FAST spr round 1 (radius: 25) [01:41:01 -14041.823306] FAST spr round 2 (radius: 25) [01:41:22 -13637.957401] FAST spr round 3 (radius: 25) [01:41:43 -13517.199903] FAST spr round 4 (radius: 25) [01:42:03 -13505.818516] FAST spr round 5 (radius: 25) [01:42:21 -13504.924804] FAST spr round 6 (radius: 25) [01:42:39 -13504.924732] Model parameter optimization (eps = 1.000000) [01:42:45 -13499.330258] SLOW spr round 1 (radius: 5) [01:43:09 -13495.582851] SLOW spr round 2 (radius: 5) [01:43:32 -13495.164945] SLOW spr round 3 (radius: 5) [01:43:54 -13495.164677] SLOW spr round 4 (radius: 10) [01:44:18 -13494.459584] SLOW spr round 5 (radius: 5) [01:44:48 -13494.363353] SLOW spr round 6 (radius: 10) [01:45:16 -13494.363350] SLOW spr round 7 (radius: 15) [01:45:47 -13486.815087] SLOW spr round 8 (radius: 5) [01:46:20 -13485.163045] SLOW spr round 9 (radius: 5) [01:46:47 -13485.162942] SLOW spr round 10 (radius: 10) [01:47:13 -13485.162936] SLOW spr round 11 (radius: 15) [01:47:44 -13485.162935] SLOW spr round 12 (radius: 20) [01:48:13] [worker #1] ML tree search #16, logLikelihood: -13003.525884 [01:48:23 -13484.983982] SLOW spr round 13 (radius: 5) [01:48:57 -13484.983864] SLOW spr round 14 (radius: 10) [01:49:27 -13484.983862] SLOW spr round 15 (radius: 15) [01:49:58 -13484.983862] SLOW spr round 16 (radius: 20) [01:50:37 -13484.983862] SLOW spr round 17 (radius: 25) [01:51:22 -13484.983862] Model parameter optimization (eps = 0.100000) [01:51:35] [worker #0] ML tree search #15, logLikelihood: -13483.799678 [01:51:35 -50253.948737] Initial branch length optimization [01:51:36 -39817.491987] Model parameter optimization (eps = 10.000000) [01:51:50 -39698.588262] AUTODETECT spr round 1 (radius: 5) [01:52:11 -26962.610517] AUTODETECT spr round 2 (radius: 10) [01:52:36 -21057.470704] AUTODETECT spr round 3 (radius: 15) [01:53:05 -17504.969551] AUTODETECT spr round 4 (radius: 20) [01:53:39 -15891.652166] AUTODETECT spr round 5 (radius: 25) [01:54:11 -15774.828795] SPR radius for FAST iterations: 25 (autodetect) [01:54:11 -15774.828795] Model parameter optimization (eps = 3.000000) [01:54:21 -15697.599061] FAST spr round 1 (radius: 25) [01:54:46 -13208.773374] FAST spr round 2 (radius: 25) [01:55:07 -13038.830036] FAST spr round 3 (radius: 25) [01:55:27 -13018.740405] FAST spr round 4 (radius: 25) [01:55:45 -13017.578803] FAST spr round 5 (radius: 25) [01:56:03 -13017.578091] Model parameter optimization (eps = 1.000000) [01:56:10 -13015.082243] SLOW spr round 1 (radius: 5) [01:56:34 -13010.356742] SLOW spr round 2 (radius: 5) [01:56:56 -13010.355914] SLOW spr round 3 (radius: 10) [01:57:20 -13010.355845] SLOW spr round 4 (radius: 15) [01:57:54 -13010.355829] SLOW spr round 5 (radius: 20) [01:58:34 -13009.621538] SLOW spr round 6 (radius: 5) [01:59:09 -13003.632612] SLOW spr round 7 (radius: 5) [01:59:38 -13000.653340] SLOW spr round 8 (radius: 5) [02:00:04 -13000.653317] SLOW spr round 9 (radius: 10) [02:00:28 -13000.653311] SLOW spr round 10 (radius: 15) [02:01:01 -13000.653308] SLOW spr round 11 (radius: 20) [02:01:03] [worker #1] ML tree search #18, logLikelihood: -13003.444668 [02:01:42 -13000.653306] SLOW spr round 12 (radius: 25) [02:02:27 -13000.637691] Model parameter optimization (eps = 0.100000) [02:02:33] [worker #0] ML tree search #17, logLikelihood: -12998.301270 [02:02:33 -49631.996814] Initial branch length optimization [02:02:34 -39823.969153] Model parameter optimization (eps = 10.000000) [02:02:43 -39750.181514] AUTODETECT spr round 1 (radius: 5) [02:03:04 -26487.729891] AUTODETECT spr round 2 (radius: 10) [02:03:29 -21348.334473] AUTODETECT spr round 3 (radius: 15) [02:04:02 -17486.976423] AUTODETECT spr round 4 (radius: 20) [02:04:35 -16089.311531] AUTODETECT spr round 5 (radius: 25) [02:05:13 -15712.340981] SPR radius for FAST iterations: 25 (autodetect) [02:05:13 -15712.340981] Model parameter optimization (eps = 3.000000) [02:05:24 -15636.589685] FAST spr round 1 (radius: 25) [02:05:48 -13243.432358] FAST spr round 2 (radius: 25) [02:06:10 -13050.626221] FAST spr round 3 (radius: 25) [02:06:31 -13038.756144] FAST spr round 4 (radius: 25) [02:06:49 -13038.755409] Model parameter optimization (eps = 1.000000) [02:06:54 -13036.304663] SLOW spr round 1 (radius: 5) [02:07:19 -13029.913045] SLOW spr round 2 (radius: 5) [02:07:41 -13029.286196] SLOW spr round 3 (radius: 5) [02:08:03 -13029.286183] SLOW spr round 4 (radius: 10) [02:08:27 -13023.851377] SLOW spr round 5 (radius: 5) [02:08:58 -13020.053172] SLOW spr round 6 (radius: 5) [02:09:25 -13020.053130] SLOW spr round 7 (radius: 10) [02:09:50 -13020.053129] SLOW spr round 8 (radius: 15) [02:10:22 -13020.053129] SLOW spr round 9 (radius: 20) [02:11:03 -13019.651969] SLOW spr round 10 (radius: 5) [02:11:37 -13019.299512] SLOW spr round 11 (radius: 5) [02:12:05 -13019.299418] SLOW spr round 12 (radius: 10) [02:12:32 -13019.299418] SLOW spr round 13 (radius: 15) [02:13:04 -13019.299418] SLOW spr round 14 (radius: 20) [02:13:45 -13019.299418] SLOW spr round 15 (radius: 25) [02:14:33 -13019.299418] Model parameter optimization (eps = 0.100000) [02:14:39] [worker #0] ML tree search #19, logLikelihood: -13018.337265 [02:15:15] [worker #1] ML tree search #20, logLikelihood: -13000.953826 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.178142,0.353820) (0.145008,1.060670) (0.428262,0.785450) (0.248588,1.797295) 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: -12995.744193 AIC score: 27673.488385 / AICc score: 1443917.488385 / BIC score: 29727.758092 Free parameters (model + branch lengths): 841 WARNING: Number of free parameters (K=841) is larger than alignment size (n=85). This might lead to overfitting and compromise tree inference results! Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q3KP66/3_mltree/Q3KP66.raxml.log Analysis started: 07-Jul-2021 15:44:21 / finished: 07-Jul-2021 17:59:36 Elapsed time: 8115.581 seconds Consumed energy: 540.753 Wh (= 3 km in an electric car, or 14 km with an e-scooter!)