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 01-Jul-2021 12:14:47 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/2_msa/Q6P4F2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/2_msa/Q6P4F2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 122 sites

WARNING: Sequences tr_B4QMS4_B4QMS4_DROSI_7240 and tr_B4HKN6_B4HKN6_DROSE_7238 are exactly identical!
WARNING: Sequences tr_B4QQK0_B4QQK0_DROSI_7240 and tr_Q8SZA8_Q8SZA8_DROME_7227 are exactly identical!
WARNING: Sequences tr_B4QQK0_B4QQK0_DROSI_7240 and tr_B4HU46_B4HU46_DROSE_7238 are exactly identical!
WARNING: Sequences tr_B4QQK0_B4QQK0_DROSI_7240 and tr_A0A1W4W6N5_A0A1W4W6N5_DROFC_30025 are exactly identical!
WARNING: Sequences tr_B6HU19_B6HU19_PENRW_500485 and tr_A0A1V6YK11_A0A1V6YK11_PENNA_60175 are exactly identical!
WARNING: Sequences tr_G1RNG2_G1RNG2_NOMLE_61853 and tr_H2QFB4_H2QFB4_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1RNG2_G1RNG2_NOMLE_61853 and sp_Q6P4F2_FDX2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1RNG2_G1RNG2_NOMLE_61853 and tr_A0A2R8ZDJ1_A0A2R8ZDJ1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3H6D1_G3H6D1_CRIGR_10029 and tr_A0A1U7QGR0_A0A1U7QGR0_MESAU_10036 are exactly identical!
WARNING: Sequences tr_J3K8H3_J3K8H3_COCIM_246410 and tr_E9DBF3_E9DBF3_COCPS_443226 are exactly identical!
WARNING: Sequences tr_J3K8H3_J3K8H3_COCIM_246410 and tr_A0A0J6YAC5_A0A0J6YAC5_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B2WHN3_B2WHN3_PYRTR_426418 and tr_A0A2W1HGK1_A0A2W1HGK1_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_C1GJQ8_C1GJQ8_PARBD_502780 and tr_C1H0G5_C1H0G5_PARBA_502779 are exactly identical!
WARNING: Sequences tr_C0NTR7_C0NTR7_AJECG_447093 and tr_C6HEH4_C6HEH4_AJECH_544712 are exactly identical!
WARNING: Sequences tr_C0NTR7_C0NTR7_AJECG_447093 and tr_F0UQ84_F0UQ84_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_Q7S0K4_Q7S0K4_NEUCR_367110 and tr_G4UFE2_G4UFE2_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_Q2LZ88_Q2LZ88_DROPS_46245 and tr_B4HAG0_B4HAG0_DROPE_7234 are exactly identical!
WARNING: Sequences tr_B8NQI7_B8NQI7_ASPFN_332952 and tr_Q2UA03_Q2UA03_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8NQI7_B8NQI7_ASPFN_332952 and tr_A0A1S9DRM2_A0A1S9DRM2_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_W7M6E4_W7M6E4_GIBM7_334819 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_A0A0D2XV15_A0A0D2XV15_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_S0DX78_S0DX78_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_N4UIH5_N4UIH5_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_X0DS94_X0DS94_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_A0A2H3TBT8_A0A2H3TBT8_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_A0A2H3HSI8_A0A2H3HSI8_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_F9FC45_F9FC45_FUSOF_660025 and tr_A0A2K0VVD3_A0A2K0VVD3_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_E9F812_E9F812_METRA_655844 and tr_A0A0B4HM85_A0A0B4HM85_METMF_1276143 are exactly identical!
WARNING: Sequences tr_A0A088A406_A0A088A406_APIME_7460 and tr_A0A2A3EMB0_A0A2A3EMB0_APICC_94128 are exactly identical!
WARNING: Sequences sp_Q9M0V0_MFDX1_ARATH_3702 and tr_D7M2J6_D7M2J6_ARALL_81972 are exactly identical!
WARNING: Sequences tr_A0A0E0FXS0_A0A0E0FXS0_ORYNI_4536 and tr_B8B6V2_B8B6V2_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0FXS0_A0A0E0FXS0_ORYNI_4536 and tr_Q7XIU2_Q7XIU2_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0IK97_A0A0E0IK97_ORYNI_4536 and tr_B8BCH5_B8BCH5_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0IK97_A0A0E0IK97_ORYNI_4536 and tr_A0A0E0QRW2_A0A0E0QRW2_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0IK97_A0A0E0IK97_ORYNI_4536 and tr_A0A0D3H7A1_A0A0D3H7A1_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0IK97_A0A0E0IK97_ORYNI_4536 and tr_A0A0E0B3E7_A0A0E0B3E7_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0IK97_A0A0E0IK97_ORYNI_4536 and tr_Q69LJ8_Q69LJ8_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_G7XN12_G7XN12_ASPKW_1033177 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_G3XLR1_G3XLR1_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_A0A146FPP9_A0A146FPP9_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_A0A1L9NG47_A0A1L9NG47_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_A0A317VK27_A0A317VK27_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_A2QUP2_A2QUP2_ASPNC_425011 and tr_A0A319BVI3_A0A319BVI3_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_G9MHH4_G9MHH4_HYPVG_413071 and tr_A0A0F9ZLA2_A0A0F9ZLA2_TRIHA_5544 are exactly identical!
WARNING: Sequences tr_G9MHH4_G9MHH4_HYPVG_413071 and tr_A0A2T4ALR6_A0A2T4ALR6_TRIHA_983964 are exactly identical!
WARNING: Sequences tr_E6RA47_E6RA47_CRYGW_367775 and tr_A0A095C6Q6_A0A095C6Q6_CRYGR_294750 are exactly identical!
WARNING: Sequences tr_G2YDM5_G2YDM5_BOTF4_999810 and tr_M7U8J4_M7U8J4_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_E3NLA4_E3NLA4_CAERE_31234 and tr_A0A260Z821_A0A260Z821_9PELO_1503980 are exactly identical!
WARNING: Sequences tr_E3NLA4_E3NLA4_CAERE_31234 and tr_A0A261C683_A0A261C683_9PELO_1503980 are exactly identical!
WARNING: Sequences tr_G2J6U3_G2J6U3_CAEBR_6238 and tr_A0A2G5TX62_A0A2G5TX62_9PELO_1611254 are exactly identical!
WARNING: Sequences tr_F2SYS5_F2SYS5_TRIRC_559305 and tr_A0A178F4M3_A0A178F4M3_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_G0RH25_G0RH25_HYPJQ_431241 and tr_A0A2T4CA40_A0A2T4CA40_TRILO_983965 are exactly identical!
WARNING: Sequences tr_B3S3V4_B3S3V4_TRIAD_10228 and tr_A0A369RV22_A0A369RV22_9METZ_287889 are exactly identical!
WARNING: Sequences tr_G7PZ73_G7PZ73_MACFA_9541 and tr_A0A0D9R4P7_A0A0D9R4P7_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G7PZ73_G7PZ73_MACFA_9541 and tr_A0A2K5P4H0_A0A2K5P4H0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7PZ73_G7PZ73_MACFA_9541 and tr_A0A2K6BWR5_A0A2K6BWR5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_L0PD86_L0PD86_PNEJ8_1209962 and tr_A0A0W4ZVJ8_A0A0W4ZVJ8_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_L2G1U9_L2G1U9_COLFN_1213859 and tr_T0L1L7_T0L1L7_COLGC_1237896 are exactly identical!
WARNING: Sequences tr_R1DCD2_R1DCD2_EMIHU_2903 and tr_R1DSP5_R1DSP5_EMIHU_2903 are exactly identical!
WARNING: Sequences tr_M7ZY72_M7ZY72_TRIUA_4572 and tr_A0A3B6RF16_A0A3B6RF16_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_M2SYB8_M2SYB8_COCSN_665912 and tr_W6YSN7_W6YSN7_COCMI_930090 are exactly identical!
WARNING: Sequences tr_U5H368_U5H368_USTV1_683840 and tr_A0A2X0MRN3_A0A2X0MRN3_9BASI_796604 are exactly identical!
WARNING: Sequences tr_U5H368_U5H368_USTV1_683840 and tr_A0A2X0MUQ1_A0A2X0MUQ1_9BASI_796604 are exactly identical!
WARNING: Sequences tr_U5H368_U5H368_USTV1_683840 and tr_A0A2X0LNY3_A0A2X0LNY3_9BASI_289078 are exactly identical!
WARNING: Sequences tr_W2PD42_W2PD42_PHYPN_761204 and tr_A0A0W8AZG2_A0A0W8AZG2_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_A0A3B6KGZ5_A0A3B6KGZ5_WHEAT_4565 and tr_A0A3B6LKP8_A0A3B6LKP8_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A015JIK9_A0A015JIK9_9GLOM_1432141 and tr_A0A2I1FSE5_A0A2I1FSE5_9GLOM_588596 are exactly identical!
WARNING: Sequences tr_A0A015JIK9_A0A015JIK9_9GLOM_1432141 and tr_A0A2H5R4V2_A0A2H5R4V2_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A044TE75_A0A044TE75_ONCVO_6282 and tr_A0A182E2M6_A0A182E2M6_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A084QDZ8_A0A084QDZ8_STAC4_1283841 and tr_A0A084RNH6_A0A084RNH6_STACH_1283842 are exactly identical!
WARNING: Sequences tr_A0A2I3MIV0_A0A2I3MIV0_PAPAN_9555 and tr_A0A2K6AAX5_A0A2K6AAX5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A094E420_A0A094E420_9PEZI_1420912 and tr_A0A1B8GJB4_A0A1B8GJB4_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0D2TD66_A0A0D2TD66_GOSRA_29730 and tr_A0A1U8JN87_A0A1U8JN87_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0F8WDK3_A0A0F8WDK3_9EURO_308745 and tr_A0A2T5LXK7_A0A2T5LXK7_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0L1JAB4_A0A0L1JAB4_ASPNO_1509407 and tr_A0A1F7ZWY3_A0A1F7ZWY3_9EURO_109264 are exactly identical!
WARNING: Sequences tr_A0A0L1JAB4_A0A0L1JAB4_ASPNO_1509407 and tr_A0A2G7FKX3_A0A2G7FKX3_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A0A0M8NZ80_A0A0M8NZ80_9EURO_229535 and tr_A0A0G4PJ79_A0A0G4PJ79_PENCA_1429867 are exactly identical!
WARNING: Sequences tr_A0A0M8NZ80_A0A0M8NZ80_9EURO_229535 and tr_A0A101MRT2_A0A101MRT2_9EURO_48697 are exactly identical!
WARNING: Sequences tr_A0A0M8NZ80_A0A0M8NZ80_9EURO_229535 and tr_A0A1V6NMI3_A0A1V6NMI3_9EURO_60169 are exactly identical!
WARNING: Sequences tr_A0A0M8NZ80_A0A0M8NZ80_9EURO_229535 and tr_A0A1V6R909_A0A1V6R909_9EURO_60172 are exactly identical!
WARNING: Sequences tr_A0A0N0DH59_A0A0N0DH59_FUSLA_179993 and tr_I1RPY0_I1RPY0_GIBZE_229533 are exactly identical!
WARNING: Sequences tr_A0A0N0DH59_A0A0N0DH59_FUSLA_179993 and tr_A0A2T4GN23_A0A2T4GN23_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_A0A0A1NMV8_A0A0A1NMV8_9FUNG_58291 and tr_A0A2G4SWU8_A0A2G4SWU8_9FUNG_1340429 are exactly identical!
WARNING: Sequences tr_A0A0A1NMV8_A0A0A1NMV8_9FUNG_58291 and tr_A0A367K2U3_A0A367K2U3_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A0G4LQ57_A0A0G4LQ57_9PEZI_100787 and tr_A0A0G4N790_A0A0G4N790_9PEZI_100787 are exactly identical!
WARNING: Sequences tr_A0A0S7E1I7_A0A0S7E1I7_9EURO_293939 and tr_A0A2I1CGC0_A0A2I1CGC0_9EURO_1392255 are exactly identical!
WARNING: Sequences tr_A0A0V1CJ32_A0A0V1CJ32_TRIBR_45882 and tr_A0A0V0WY79_A0A0V0WY79_9BILA_92179 are exactly identical!
WARNING: Sequences tr_A0A0V1CJ32_A0A0V1CJ32_TRIBR_45882 and tr_A0A0V0VPL3_A0A0V0VPL3_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CJ32_A0A0V1CJ32_TRIBR_45882 and tr_A0A0V1L2D1_A0A0V1L2D1_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1CJ32_A0A0V1CJ32_TRIBR_45882 and tr_A0A0V1NLB1_A0A0V1NLB1_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CJ32_A0A0V1CJ32_TRIBR_45882 and tr_A0A0V0TSR9_A0A0V0TSR9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A1S3ZV45_A0A1S3ZV45_TOBAC_4097 and tr_A0A1U7VKW2_A0A1U7VKW2_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1J6KKK3_A0A1J6KKK3_NICAT_49451 and tr_A0A1U7XBX7_A0A1U7XBX7_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A2S7NY69_A0A2S7NY69_9HELO_2070414 and tr_A0A2S7R4N0_A0A2S7R4N0_9HELO_2070412 are exactly identical!
WARNING: Sequences tr_A0A317WIU2_A0A317WIU2_9EURO_1450535 and tr_A0A319F7K9_A0A319F7K9_9EURO_1448318 are exactly identical!
WARNING: Sequences tr_A0A317WIU2_A0A317WIU2_9EURO_1450535 and tr_A0A395H2K5_A0A395H2K5_9EURO_1448316 are exactly identical!
WARNING: Sequences tr_A0A319DFJ0_A0A319DFJ0_9EURO_1448315 and tr_A0A2V5I9E0_A0A2V5I9E0_9EURO_1450541 are exactly identical!
WARNING: Duplicate sequences found: 97

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.reduced.phy

Alignment comprises 1 partitions and 122 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 122 / 122
Gaps: 2.96 %
Invariant sites: 0.82 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.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 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 122 / 9760
[00:00:00] Data distribution: max. searches per worker: 10

Starting ML tree search with 20 distinct starting trees

[00:00:00 -172310.147347] Initial branch length optimization
[00:00:02 -144551.169824] Model parameter optimization (eps = 10.000000)
[00:00:37 -144347.619060] AUTODETECT spr round 1 (radius: 5)
[00:02:49 -106083.292286] AUTODETECT spr round 2 (radius: 10)
[00:05:14 -82493.136655] AUTODETECT spr round 3 (radius: 15)
[00:08:05 -69999.044790] AUTODETECT spr round 4 (radius: 20)
[00:11:08 -66104.895002] AUTODETECT spr round 5 (radius: 25)
[00:14:31 -63297.870754] SPR radius for FAST iterations: 25 (autodetect)
[00:14:31 -63297.870754] Model parameter optimization (eps = 3.000000)
[00:14:50 -63226.066392] FAST spr round 1 (radius: 25)
[00:17:35 -52041.030773] FAST spr round 2 (radius: 25)
[00:19:43 -51042.007738] FAST spr round 3 (radius: 25)
[00:21:33 -50720.364682] FAST spr round 4 (radius: 25)
[00:23:18 -50646.381545] FAST spr round 5 (radius: 25)
[00:24:57 -50645.071887] FAST spr round 6 (radius: 25)
[00:26:34 -50644.776960] FAST spr round 7 (radius: 25)
[00:28:09 -50644.776936] Model parameter optimization (eps = 1.000000)
[00:28:29 -50603.963078] SLOW spr round 1 (radius: 5)
[00:30:39 -50588.701259] SLOW spr round 2 (radius: 5)
[00:32:47 -50584.660042] SLOW spr round 3 (radius: 5)
[00:34:49 -50584.659296] SLOW spr round 4 (radius: 10)
[00:36:55 -50579.013304] SLOW spr round 5 (radius: 5)
[00:39:27 -50578.767557] SLOW spr round 6 (radius: 5)
[00:41:40 -50578.767509] SLOW spr round 7 (radius: 10)
[00:43:46 -50578.334157] SLOW spr round 8 (radius: 5)
[00:46:14 -50578.334128] SLOW spr round 9 (radius: 10)
[00:48:28 -50577.921173] SLOW spr round 10 (radius: 5)
[00:50:55 -50577.921099] SLOW spr round 11 (radius: 10)
[00:53:08 -50577.712556] SLOW spr round 12 (radius: 5)
[00:55:35 -50577.711149] SLOW spr round 13 (radius: 10)
[00:57:47 -50576.542706] SLOW spr round 14 (radius: 5)
[01:00:13 -50576.542691] SLOW spr round 15 (radius: 10)
[01:02:26 -50576.352600] SLOW spr round 16 (radius: 5)
[01:04:55 -50574.963815] SLOW spr round 17 (radius: 5)
[01:07:11 -50574.963200] SLOW spr round 18 (radius: 10)
[01:09:17 -50573.700864] SLOW spr round 19 (radius: 5)
[01:11:50 -50564.425683] SLOW spr round 20 (radius: 5)
[01:14:03 -50564.425366] SLOW spr round 21 (radius: 10)
[01:16:08 -50563.533330] SLOW spr round 22 (radius: 5)
[01:18:35 -50563.533268] SLOW spr round 23 (radius: 10)
[01:20:47 -50563.502360] SLOW spr round 24 (radius: 15)
[01:23:32 -50562.022996] SLOW spr round 25 (radius: 5)
[01:26:10 -50559.520264] SLOW spr round 26 (radius: 5)
[01:28:26 -50556.670765] SLOW spr round 27 (radius: 5)
[01:30:32 -50556.670747] SLOW spr round 28 (radius: 10)
[01:32:34 -50556.016583] SLOW spr round 29 (radius: 5)
[01:35:01 -50556.016266] SLOW spr round 30 (radius: 10)
[01:37:13 -50556.016265] SLOW spr round 31 (radius: 15)
[01:38:30] [worker #1] ML tree search #2, logLikelihood: -50830.376808
[01:39:56 -50556.016265] SLOW spr round 32 (radius: 20)
[01:43:26 -50556.016265] SLOW spr round 33 (radius: 25)
[01:47:50 -50556.016265] Model parameter optimization (eps = 0.100000)

[01:48:02] [worker #0] ML tree search #1, logLikelihood: -50553.470125

[01:48:03 -171757.024027] Initial branch length optimization
[01:48:05 -144107.065917] Model parameter optimization (eps = 10.000000)
[01:48:35 -143912.287345] AUTODETECT spr round 1 (radius: 5)
[01:50:49 -106283.168877] AUTODETECT spr round 2 (radius: 10)
[01:53:23 -82412.663365] AUTODETECT spr round 3 (radius: 15)
[01:56:06 -69402.686872] AUTODETECT spr round 4 (radius: 20)
[01:59:22 -65064.669229] AUTODETECT spr round 5 (radius: 25)
[02:02:47 -63447.408524] SPR radius for FAST iterations: 25 (autodetect)
[02:02:47 -63447.408524] Model parameter optimization (eps = 3.000000)
[02:03:06 -63372.501908] FAST spr round 1 (radius: 25)
[02:06:03 -53445.291740] FAST spr round 2 (radius: 25)
[02:08:13 -50878.800987] FAST spr round 3 (radius: 25)
[02:10:07 -50705.339638] FAST spr round 4 (radius: 25)
[02:11:52 -50688.817893] FAST spr round 5 (radius: 25)
[02:13:29 -50688.816322] Model parameter optimization (eps = 1.000000)
[02:13:43 -50630.742697] SLOW spr round 1 (radius: 5)
[02:15:58 -50610.198916] SLOW spr round 2 (radius: 5)
[02:18:06 -50605.163934] SLOW spr round 3 (radius: 5)
[02:20:10 -50602.981621] SLOW spr round 4 (radius: 5)
[02:22:09 -50602.981470] SLOW spr round 5 (radius: 10)
[02:24:11 -50597.537159] SLOW spr round 6 (radius: 5)
[02:26:40 -50597.170558] SLOW spr round 7 (radius: 5)
[02:28:53 -50597.170354] SLOW spr round 8 (radius: 10)
[02:30:56 -50596.689231] SLOW spr round 9 (radius: 5)
[02:33:26 -50594.922333] SLOW spr round 10 (radius: 5)
[02:35:38 -50594.922320] SLOW spr round 11 (radius: 10)
[02:37:40 -50594.922311] SLOW spr round 12 (radius: 15)
[02:40:35 -50590.408835] SLOW spr round 13 (radius: 5)
[02:43:11 -50583.437866] SLOW spr round 14 (radius: 5)
[02:45:30 -50578.427171] SLOW spr round 15 (radius: 5)
[02:47:38 -50576.475180] SLOW spr round 16 (radius: 5)
[02:49:39 -50576.462885] SLOW spr round 17 (radius: 10)
[02:51:38 -50576.462801] SLOW spr round 18 (radius: 15)
[02:54:36 -50569.391668] SLOW spr round 19 (radius: 5)
[02:57:07 -50567.303752] SLOW spr round 20 (radius: 5)
[02:59:21 -50567.303734] SLOW spr round 21 (radius: 10)
[03:01:24 -50567.303732] SLOW spr round 22 (radius: 15)
[03:04:15 -50567.303731] SLOW spr round 23 (radius: 20)
[03:07:50 -50567.303729] SLOW spr round 24 (radius: 25)
[03:12:19 -50567.303728] Model parameter optimization (eps = 0.100000)

[03:12:29] [worker #0] ML tree search #3, logLikelihood: -50566.491745

[03:12:29 -171560.875193] Initial branch length optimization
[03:12:32 -144201.614042] Model parameter optimization (eps = 10.000000)
[03:13:01 -144020.958660] AUTODETECT spr round 1 (radius: 5)
[03:15:15 -105656.447709] AUTODETECT spr round 2 (radius: 10)
[03:17:51 -83274.851236] AUTODETECT spr round 3 (radius: 15)
[03:20:33] [worker #1] ML tree search #4, logLikelihood: -50632.418999
[03:20:41 -70649.574064] AUTODETECT spr round 4 (radius: 20)
[03:23:55 -66280.955562] AUTODETECT spr round 5 (radius: 25)
[03:27:50 -61918.905227] SPR radius for FAST iterations: 25 (autodetect)
[03:27:50 -61918.905227] Model parameter optimization (eps = 3.000000)
[03:28:11 -61840.741074] FAST spr round 1 (radius: 25)
[03:31:09 -52164.076047] FAST spr round 2 (radius: 25)
[03:33:18 -50880.542596] FAST spr round 3 (radius: 25)
[03:35:13 -50683.903688] FAST spr round 4 (radius: 25)
[03:37:03 -50656.354903] FAST spr round 5 (radius: 25)
[03:38:40 -50656.354661] Model parameter optimization (eps = 1.000000)
[03:39:05 -50627.804734] SLOW spr round 1 (radius: 5)
[03:41:17 -50605.711299] SLOW spr round 2 (radius: 5)
[03:43:24 -50601.699755] SLOW spr round 3 (radius: 5)
[03:45:29 -50599.246171] SLOW spr round 4 (radius: 5)
[03:47:29 -50598.225496] SLOW spr round 5 (radius: 5)
[03:49:29 -50598.225189] SLOW spr round 6 (radius: 10)
[03:51:29 -50595.411785] SLOW spr round 7 (radius: 5)
[03:54:02 -50591.350440] SLOW spr round 8 (radius: 5)
[03:56:14 -50591.348104] SLOW spr round 9 (radius: 10)
[03:58:17 -50591.238434] SLOW spr round 10 (radius: 5)
[04:00:43 -50591.238100] SLOW spr round 11 (radius: 10)
[04:02:54 -50591.237796] SLOW spr round 12 (radius: 15)
[04:05:42 -50587.940986] SLOW spr round 13 (radius: 5)
[04:08:20 -50586.076933] SLOW spr round 14 (radius: 5)
[04:10:38 -50585.925845] SLOW spr round 15 (radius: 5)
[04:12:47 -50585.924747] SLOW spr round 16 (radius: 10)
[04:14:51 -50585.924072] SLOW spr round 17 (radius: 15)
[04:17:49 -50585.923586] SLOW spr round 18 (radius: 20)
[04:21:26 -50585.923241] SLOW spr round 19 (radius: 25)
[04:26:07 -50585.922999] Model parameter optimization (eps = 0.100000)

[04:26:13] [worker #0] ML tree search #5, logLikelihood: -50585.830777

[04:26:13 -171989.148018] Initial branch length optimization
[04:26:16 -144179.538120] Model parameter optimization (eps = 10.000000)
[04:26:49 -143984.403174] AUTODETECT spr round 1 (radius: 5)
[04:29:07 -105001.784092] AUTODETECT spr round 2 (radius: 10)
[04:31:40 -81499.675021] AUTODETECT spr round 3 (radius: 15)
[04:34:25 -72004.693785] AUTODETECT spr round 4 (radius: 20)
[04:37:22 -62552.837589] AUTODETECT spr round 5 (radius: 25)
[04:40:39 -60198.876045] SPR radius for FAST iterations: 25 (autodetect)
[04:40:39 -60198.876045] Model parameter optimization (eps = 3.000000)
[04:41:03 -60139.201477] FAST spr round 1 (radius: 25)
[04:43:59 -51089.305961] FAST spr round 2 (radius: 25)
[04:45:25] [worker #1] ML tree search #6, logLikelihood: -50661.615183
[04:46:05 -50708.708993] FAST spr round 3 (radius: 25)
[04:48:02 -50657.743845] FAST spr round 4 (radius: 25)
[04:49:52 -50650.530256] FAST spr round 5 (radius: 25)
[04:51:34 -50650.529387] Model parameter optimization (eps = 1.000000)
[04:51:54 -50615.388834] SLOW spr round 1 (radius: 5)
[04:54:09 -50605.682774] SLOW spr round 2 (radius: 5)
[04:56:19 -50603.770299] SLOW spr round 3 (radius: 5)
[04:58:23 -50603.769710] SLOW spr round 4 (radius: 10)
[05:00:28 -50600.591756] SLOW spr round 5 (radius: 5)
[05:03:05 -50596.927930] SLOW spr round 6 (radius: 5)
[05:05:24 -50590.452832] SLOW spr round 7 (radius: 5)
[05:07:33 -50590.450718] SLOW spr round 8 (radius: 10)
[05:09:37 -50589.162279] SLOW spr round 9 (radius: 5)
[05:12:08 -50588.816154] SLOW spr round 10 (radius: 5)
[05:14:23 -50588.816118] SLOW spr round 11 (radius: 10)
[05:16:31 -50585.606303] SLOW spr round 12 (radius: 5)
[05:19:04 -50584.787484] SLOW spr round 13 (radius: 5)
[05:21:21 -50584.566754] SLOW spr round 14 (radius: 5)
[05:23:30 -50584.566674] SLOW spr round 15 (radius: 10)
[05:25:35 -50584.566673] SLOW spr round 16 (radius: 15)
[05:28:32 -50584.566673] SLOW spr round 17 (radius: 20)
[05:31:57 -50581.468798] SLOW spr round 18 (radius: 5)
[05:34:38 -50579.178081] SLOW spr round 19 (radius: 5)
[05:36:59 -50579.177865] SLOW spr round 20 (radius: 10)
[05:39:10 -50576.513543] SLOW spr round 21 (radius: 5)
[05:41:40 -50576.479053] SLOW spr round 22 (radius: 10)
[05:43:56 -50575.782601] SLOW spr round 23 (radius: 5)
[05:46:25 -50569.706026] SLOW spr round 24 (radius: 5)
[05:48:41 -50569.705833] SLOW spr round 25 (radius: 10)
[05:50:47 -50569.705829] SLOW spr round 26 (radius: 15)
[05:53:39 -50569.705829] SLOW spr round 27 (radius: 20)
[05:57:03 -50569.705829] SLOW spr round 28 (radius: 25)
[06:01:18 -50569.705829] Model parameter optimization (eps = 0.100000)

[06:01:28] [worker #0] ML tree search #7, logLikelihood: -50569.524306

[06:01:28 -171976.495952] Initial branch length optimization
[06:01:32 -143924.338191] Model parameter optimization (eps = 10.000000)
[06:02:01 -143763.889700] AUTODETECT spr round 1 (radius: 5)
[06:03:22] [worker #1] ML tree search #8, logLikelihood: -50577.933555
[06:04:16 -104220.242965] AUTODETECT spr round 2 (radius: 10)
[06:06:54 -80812.456339] AUTODETECT spr round 3 (radius: 15)
[06:09:42 -69351.261839] AUTODETECT spr round 4 (radius: 20)
[06:13:01 -59953.639268] AUTODETECT spr round 5 (radius: 25)
[06:16:36 -58888.701481] SPR radius for FAST iterations: 25 (autodetect)
[06:16:36 -58888.701481] Model parameter optimization (eps = 3.000000)
[06:17:01 -58813.038127] FAST spr round 1 (radius: 25)
[06:19:48 -51138.006300] FAST spr round 2 (radius: 25)
[06:21:59 -50734.653736] FAST spr round 3 (radius: 25)
[06:23:56 -50684.797268] FAST spr round 4 (radius: 25)
[06:25:45 -50670.327964] FAST spr round 5 (radius: 25)
[06:27:28 -50670.311618] Model parameter optimization (eps = 1.000000)
[06:27:47 -50625.666354] SLOW spr round 1 (radius: 5)
[06:30:05 -50591.180495] SLOW spr round 2 (radius: 5)
[06:32:15 -50588.093166] SLOW spr round 3 (radius: 5)
[06:34:18 -50588.092226] SLOW spr round 4 (radius: 10)
[06:36:21 -50585.028896] SLOW spr round 5 (radius: 5)
[06:38:58 -50574.894903] SLOW spr round 6 (radius: 5)
[06:41:16 -50574.760827] SLOW spr round 7 (radius: 5)
[06:43:25 -50574.760722] SLOW spr round 8 (radius: 10)
[06:45:28 -50574.381550] SLOW spr round 9 (radius: 5)
[06:48:01 -50573.429558] SLOW spr round 10 (radius: 5)
[06:50:17 -50573.429557] SLOW spr round 11 (radius: 10)
[06:52:24 -50569.640620] SLOW spr round 12 (radius: 5)
[06:54:56 -50569.316801] SLOW spr round 13 (radius: 5)
[06:57:12 -50569.316704] SLOW spr round 14 (radius: 10)
[06:59:17 -50569.316703] SLOW spr round 15 (radius: 15)
[07:02:13 -50565.853257] SLOW spr round 16 (radius: 5)
[07:04:49 -50565.432875] SLOW spr round 17 (radius: 5)
[07:07:09 -50565.432874] SLOW spr round 18 (radius: 10)
[07:09:17 -50565.432874] SLOW spr round 19 (radius: 15)
[07:12:10 -50565.432871] SLOW spr round 20 (radius: 20)
[07:13:41] [worker #1] ML tree search #10, logLikelihood: -50584.416904
[07:15:51 -50565.432871] SLOW spr round 21 (radius: 25)
[07:20:18 -50565.432871] Model parameter optimization (eps = 0.100000)

[07:20:26] [worker #0] ML tree search #9, logLikelihood: -50565.323200

[07:20:26 -171803.045937] Initial branch length optimization
[07:20:30 -144277.327970] Model parameter optimization (eps = 10.000000)
[07:20:58 -144076.571192] AUTODETECT spr round 1 (radius: 5)
[07:23:15 -105269.612727] AUTODETECT spr round 2 (radius: 10)
[07:25:50 -81560.180520] AUTODETECT spr round 3 (radius: 15)
[07:28:36 -68986.197412] AUTODETECT spr round 4 (radius: 20)
[07:31:32 -66826.817431] AUTODETECT spr round 5 (radius: 25)
[07:34:54 -66545.497628] SPR radius for FAST iterations: 25 (autodetect)
[07:34:54 -66545.497628] Model parameter optimization (eps = 3.000000)
[07:35:19 -66473.943045] FAST spr round 1 (radius: 25)
[07:38:17 -55539.519025] FAST spr round 2 (radius: 25)
[07:40:39 -51137.526544] FAST spr round 3 (radius: 25)
[07:42:37 -50727.677183] FAST spr round 4 (radius: 25)
[07:44:26 -50694.737703] FAST spr round 5 (radius: 25)
[07:46:09 -50687.267627] FAST spr round 6 (radius: 25)
[07:47:50 -50683.855965] FAST spr round 7 (radius: 25)
[07:49:27 -50683.855373] Model parameter optimization (eps = 1.000000)
[07:49:42 -50679.312233] SLOW spr round 1 (radius: 5)
[07:51:57 -50654.032278] SLOW spr round 2 (radius: 5)
[07:54:03 -50651.009411] SLOW spr round 3 (radius: 5)
[07:56:03 -50651.008950] SLOW spr round 4 (radius: 10)
[07:58:07 -50649.265650] SLOW spr round 5 (radius: 5)
[08:00:41 -50645.657685] SLOW spr round 6 (radius: 5)
[08:02:55 -50645.657678] SLOW spr round 7 (radius: 10)
[08:05:02 -50645.500534] SLOW spr round 8 (radius: 5)
[08:07:32 -50645.017001] SLOW spr round 9 (radius: 5)
[08:09:45 -50645.016804] SLOW spr round 10 (radius: 10)
[08:11:50 -50645.016803] SLOW spr round 11 (radius: 15)
[08:14:54 -50644.159920] SLOW spr round 12 (radius: 5)
[08:17:34 -50642.566597] SLOW spr round 13 (radius: 5)
[08:19:55 -50640.983821] SLOW spr round 14 (radius: 5)
[08:22:04 -50640.911817] SLOW spr round 15 (radius: 10)
[08:24:06 -50640.673512] SLOW spr round 16 (radius: 5)
[08:26:26] [worker #1] ML tree search #12, logLikelihood: -50603.524324
[08:26:35 -50640.673395] SLOW spr round 17 (radius: 10)
[08:28:48 -50639.996198] SLOW spr round 18 (radius: 5)
[08:31:14 -50639.995708] SLOW spr round 19 (radius: 10)
[08:33:27 -50639.091910] SLOW spr round 20 (radius: 5)
[08:35:55 -50637.821545] SLOW spr round 21 (radius: 5)
[08:38:08 -50637.821531] SLOW spr round 22 (radius: 10)
[08:40:13 -50637.746007] SLOW spr round 23 (radius: 15)
[08:43:16 -50637.736335] SLOW spr round 24 (radius: 20)
[08:47:25 -50637.728361] SLOW spr round 25 (radius: 25)
[08:52:54 -50637.509926] SLOW spr round 26 (radius: 5)
[08:55:34 -50637.505072] SLOW spr round 27 (radius: 10)
[08:58:00 -50637.501911] SLOW spr round 28 (radius: 15)
[09:00:55 -50637.499968] SLOW spr round 29 (radius: 20)
[09:05:11 -50637.475062] SLOW spr round 30 (radius: 25)
[09:10:37 -50637.474793] Model parameter optimization (eps = 0.100000)

[09:11:05] [worker #0] ML tree search #11, logLikelihood: -50617.628931

[09:11:05 -172335.496401] Initial branch length optimization
[09:11:08 -144329.616145] Model parameter optimization (eps = 10.000000)
[09:11:41 -144143.152476] AUTODETECT spr round 1 (radius: 5)
[09:14:00 -103464.601703] AUTODETECT spr round 2 (radius: 10)
[09:16:32 -82241.811049] AUTODETECT spr round 3 (radius: 15)
[09:19:05 -71502.190734] AUTODETECT spr round 4 (radius: 20)
[09:22:12 -66619.522686] AUTODETECT spr round 5 (radius: 25)
[09:25:42 -65506.975298] SPR radius for FAST iterations: 25 (autodetect)
[09:25:42 -65506.975298] Model parameter optimization (eps = 3.000000)
[09:26:03 -65407.964304] FAST spr round 1 (radius: 25)
[09:28:53 -58083.510275] FAST spr round 2 (radius: 25)
[09:31:03 -57515.808318] FAST spr round 3 (radius: 25)
[09:33:07 -55632.130506] FAST spr round 4 (radius: 25)
[09:35:11 -51893.238964] FAST spr round 5 (radius: 25)
[09:37:06 -50755.760487] FAST spr round 6 (radius: 25)
[09:38:55 -50636.816567] FAST spr round 7 (radius: 25)
[09:40:40 -50621.178583] FAST spr round 8 (radius: 25)
[09:42:18 -50619.927522] FAST spr round 9 (radius: 25)
[09:43:55 -50619.204848] FAST spr round 10 (radius: 25)
[09:45:33 -50619.204759] Model parameter optimization (eps = 1.000000)
[09:45:55 -50592.923060] SLOW spr round 1 (radius: 5)
[09:48:07 -50587.235414] SLOW spr round 2 (radius: 5)
[09:50:13 -50581.638269] SLOW spr round 3 (radius: 5)
[09:50:29] [worker #1] ML tree search #14, logLikelihood: -50626.489145
[09:52:16 -50581.532659] SLOW spr round 4 (radius: 5)
[09:54:17 -50581.532608] SLOW spr round 5 (radius: 10)
[09:56:21 -50579.139490] SLOW spr round 6 (radius: 5)
[09:58:56 -50574.443960] SLOW spr round 7 (radius: 5)
[10:01:11 -50574.440513] SLOW spr round 8 (radius: 10)
[10:03:17 -50573.125154] SLOW spr round 9 (radius: 5)
[10:05:47 -50573.125121] SLOW spr round 10 (radius: 10)
[10:08:01 -50572.701216] SLOW spr round 11 (radius: 5)
[10:10:28 -50572.701101] SLOW spr round 12 (radius: 10)
[10:12:41 -50572.355638] SLOW spr round 13 (radius: 5)
[10:15:09 -50572.355599] SLOW spr round 14 (radius: 10)
[10:17:22 -50572.355599] SLOW spr round 15 (radius: 15)
[10:20:11 -50563.438381] SLOW spr round 16 (radius: 5)
[10:22:45 -50563.437410] SLOW spr round 17 (radius: 10)
[10:25:05 -50563.437379] SLOW spr round 18 (radius: 15)
[10:27:51 -50563.437378] SLOW spr round 19 (radius: 20)
[10:31:28 -50563.437378] SLOW spr round 20 (radius: 25)
[10:35:51 -50563.437378] Model parameter optimization (eps = 0.100000)

[10:36:00] [worker #0] ML tree search #13, logLikelihood: -50563.392979

[10:36:00 -171319.348506] Initial branch length optimization
[10:36:03 -144420.260880] Model parameter optimization (eps = 10.000000)
[10:36:33 -144219.967287] AUTODETECT spr round 1 (radius: 5)
[10:38:52 -105106.163503] AUTODETECT spr round 2 (radius: 10)
[10:41:24 -85294.627722] AUTODETECT spr round 3 (radius: 15)
[10:44:11 -72712.672851] AUTODETECT spr round 4 (radius: 20)
[10:47:34 -63732.100674] AUTODETECT spr round 5 (radius: 25)
[10:50:49 -62515.573423] SPR radius for FAST iterations: 25 (autodetect)
[10:50:49 -62515.573423] Model parameter optimization (eps = 3.000000)
[10:50:54 -62514.427885] FAST spr round 1 (radius: 25)
[10:53:51 -54543.030943] FAST spr round 2 (radius: 25)
[10:56:09 -53092.516850] FAST spr round 3 (radius: 25)
[10:58:16 -51157.255149] FAST spr round 4 (radius: 25)
[11:00:01 -50756.705369] FAST spr round 5 (radius: 25)
[11:01:48 -50711.870903] FAST spr round 6 (radius: 25)
[11:03:28 -50709.963684] FAST spr round 7 (radius: 25)
[11:05:06 -50709.963283] Model parameter optimization (eps = 1.000000)
[11:05:20 -50660.785542] SLOW spr round 1 (radius: 5)
[11:07:34 -50648.140396] SLOW spr round 2 (radius: 5)
[11:09:48 -50644.251774] SLOW spr round 3 (radius: 5)
[11:11:55 -50643.140332] SLOW spr round 4 (radius: 5)
[11:13:58 -50643.140078] SLOW spr round 5 (radius: 10)
[11:16:05 -50638.429502] SLOW spr round 6 (radius: 5)
[11:18:45 -50626.157930] SLOW spr round 7 (radius: 5)
[11:21:02 -50624.874123] SLOW spr round 8 (radius: 5)
[11:23:13 -50623.783599] SLOW spr round 9 (radius: 5)
[11:25:17 -50623.783290] SLOW spr round 10 (radius: 10)
[11:27:21 -50623.489357] SLOW spr round 11 (radius: 5)
[11:29:56 -50620.984752] SLOW spr round 12 (radius: 5)
[11:32:14 -50619.659725] SLOW spr round 13 (radius: 5)
[11:34:22 -50617.599543] SLOW spr round 14 (radius: 5)
[11:36:26 -50617.599542] SLOW spr round 15 (radius: 10)
[11:38:28 -50617.484392] SLOW spr round 16 (radius: 5)
[11:41:03 -50615.318555] SLOW spr round 17 (radius: 5)
[11:43:18 -50615.318536] SLOW spr round 18 (radius: 10)
[11:44:12] [worker #1] ML tree search #16, logLikelihood: -50558.552606
[11:45:24 -50615.318536] SLOW spr round 19 (radius: 15)
[11:48:27 -50615.318536] SLOW spr round 20 (radius: 20)
[11:52:28 -50615.318536] SLOW spr round 21 (radius: 25)
[11:57:27 -50615.039127] SLOW spr round 22 (radius: 5)
[12:00:05 -50614.873970] SLOW spr round 23 (radius: 5)
[12:02:25 -50614.873522] SLOW spr round 24 (radius: 10)
[12:04:32 -50614.873515] SLOW spr round 25 (radius: 15)
[12:07:32 -50614.873515] SLOW spr round 26 (radius: 20)
[12:11:37 -50614.873515] SLOW spr round 27 (radius: 25)
[12:16:38 -50614.873515] Model parameter optimization (eps = 0.100000)

[12:16:46] [worker #0] ML tree search #15, logLikelihood: -50614.703888

[12:16:46 -171431.435142] Initial branch length optimization
[12:16:49 -143890.060240] Model parameter optimization (eps = 10.000000)
[12:17:17 -143697.395106] AUTODETECT spr round 1 (radius: 5)
[12:19:35 -106538.729833] AUTODETECT spr round 2 (radius: 10)
[12:22:07 -86307.107084] AUTODETECT spr round 3 (radius: 15)
[12:24:53 -75157.502524] AUTODETECT spr round 4 (radius: 20)
[12:28:15 -64685.326823] AUTODETECT spr round 5 (radius: 25)
[12:31:19 -61317.317949] SPR radius for FAST iterations: 25 (autodetect)
[12:31:19 -61317.317949] Model parameter optimization (eps = 3.000000)
[12:31:38 -61264.886263] FAST spr round 1 (radius: 25)
[12:34:27 -52155.841421] FAST spr round 2 (radius: 25)
[12:36:35 -51560.306251] FAST spr round 3 (radius: 25)
[12:38:30 -51509.160223] FAST spr round 4 (radius: 25)
[12:40:14 -51503.760579] FAST spr round 5 (radius: 25)
[12:41:53 -51501.258879] FAST spr round 6 (radius: 25)
[12:43:32 -51500.203569] FAST spr round 7 (radius: 25)
[12:45:09 -51500.203400] Model parameter optimization (eps = 1.000000)
[12:45:33 -51484.770210] SLOW spr round 1 (radius: 5)
[12:47:43 -51469.216838] SLOW spr round 2 (radius: 5)
[12:49:51 -51463.808909] SLOW spr round 3 (radius: 5)
[12:51:52 -51463.808590] SLOW spr round 4 (radius: 10)
[12:53:56 -51455.883247] SLOW spr round 5 (radius: 5)
[12:56:29 -51454.409440] SLOW spr round 6 (radius: 5)
[12:56:58] [worker #1] ML tree search #18, logLikelihood: -50590.775505
[12:58:46 -51454.409152] SLOW spr round 7 (radius: 10)
[13:00:53 -51453.513414] SLOW spr round 8 (radius: 5)
[13:03:24 -51453.513090] SLOW spr round 9 (radius: 10)
[13:05:39 -51452.813253] SLOW spr round 10 (radius: 5)
[13:08:09 -51452.813037] SLOW spr round 11 (radius: 10)
[13:10:23 -51452.812818] SLOW spr round 12 (radius: 15)
[13:13:14 -51451.485931] SLOW spr round 13 (radius: 5)
[13:15:52 -51451.449990] SLOW spr round 14 (radius: 10)
[13:18:13 -51451.389547] SLOW spr round 15 (radius: 15)
[13:21:01 -51451.388929] SLOW spr round 16 (radius: 20)
[13:24:48 -51448.138063] SLOW spr round 17 (radius: 5)
[13:27:33 -51445.041491] SLOW spr round 18 (radius: 5)
[13:29:56 -51445.040845] SLOW spr round 19 (radius: 10)
[13:32:05 -51445.013436] SLOW spr round 20 (radius: 15)
[13:35:00 -51445.013083] SLOW spr round 21 (radius: 20)
[13:38:43 -51445.013079] SLOW spr round 22 (radius: 25)
[13:43:06 -51445.013077] Model parameter optimization (eps = 0.100000)

[13:43:14] [worker #0] ML tree search #17, logLikelihood: -51444.873046

[13:43:15 -171885.020209] Initial branch length optimization
[13:43:17 -144317.212590] Model parameter optimization (eps = 10.000000)
[13:44:18 -144154.667509] AUTODETECT spr round 1 (radius: 5)
[13:46:37 -105687.156478] AUTODETECT spr round 2 (radius: 10)
[13:49:12 -83297.024682] AUTODETECT spr round 3 (radius: 15)
[13:51:57 -71564.211958] AUTODETECT spr round 4 (radius: 20)
[13:54:33] [worker #1] ML tree search #20, logLikelihood: -50575.553278
[13:55:03 -66407.050103] AUTODETECT spr round 5 (radius: 25)
[13:58:12 -60450.201099] SPR radius for FAST iterations: 25 (autodetect)
[13:58:12 -60450.201099] Model parameter optimization (eps = 3.000000)
[13:58:36 -60347.474162] FAST spr round 1 (radius: 25)
[14:01:22 -51463.744524] FAST spr round 2 (radius: 25)
[14:03:32 -50983.954316] FAST spr round 3 (radius: 25)
[14:05:29 -50913.958866] FAST spr round 4 (radius: 25)
[14:07:20 -50709.268817] FAST spr round 5 (radius: 25)
[14:09:01 -50624.945581] FAST spr round 6 (radius: 25)
[14:10:39 -50622.779766] FAST spr round 7 (radius: 25)
[14:12:14 -50622.779641] Model parameter optimization (eps = 1.000000)
[14:12:31 -50592.336332] SLOW spr round 1 (radius: 5)
[14:14:42 -50561.902175] SLOW spr round 2 (radius: 5)
[14:16:48 -50559.988893] SLOW spr round 3 (radius: 5)
[14:18:49 -50559.841112] SLOW spr round 4 (radius: 5)
[14:20:48 -50559.841063] SLOW spr round 5 (radius: 10)
[14:22:48 -50556.888892] SLOW spr round 6 (radius: 5)
[14:25:16 -50556.888829] SLOW spr round 7 (radius: 10)
[14:27:28 -50555.947832] SLOW spr round 8 (radius: 5)
[14:29:55 -50550.314238] SLOW spr round 9 (radius: 5)
[14:32:10 -50548.577140] SLOW spr round 10 (radius: 5)
[14:34:15 -50548.577100] SLOW spr round 11 (radius: 10)
[14:36:16 -50548.577100] SLOW spr round 12 (radius: 15)
[14:39:14 -50548.266510] SLOW spr round 13 (radius: 5)
[14:41:49 -50548.266500] SLOW spr round 14 (radius: 10)
[14:44:07 -50548.266500] SLOW spr round 15 (radius: 15)
[14:46:55 -50548.266500] SLOW spr round 16 (radius: 20)
[14:50:44 -50548.266500] SLOW spr round 17 (radius: 25)
[14:55:24 -50548.193476] Model parameter optimization (eps = 0.100000)

[14:55:30] [worker #0] ML tree search #19, logLikelihood: -50548.133987


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.320615,0.280788) (0.245013,0.483768) (0.278329,1.344621) (0.156043,2.673618) 
   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: -50548.133987

AIC score: 105106.267974 / AICc score: 8149166.267974 / BIC score: 110728.330169
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=122).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 157 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q6P4F2/3_mltree/Q6P4F2.raxml.log

Analysis started: 01-Jul-2021 12:14:47 / finished: 02-Jul-2021 03:10:17

Elapsed time: 53730.786 seconds