RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab.
Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth.
Latest version: https://github.com/amkozlov/raxml-ng
Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml

System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 14-Jul-2021 22:08:05 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/2_msa/O14529_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529 --seed 2 --threads 9 --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 (9 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/2_msa/O14529_trimmed_msa.fasta
[00:00:00] Loaded alignment with 677 taxa and 1281 sites

WARNING: Sequences tr_B4MEZ8_B4MEZ8_DROVI_7244 and tr_D0Z7A1_D0Z7A1_DROVI_7244 are exactly identical!
WARNING: Sequences tr_V2XUM7_V2XUM7_MONRO_1381753 and tr_A0A0W0FH81_A0A0W0FH81_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A0D9RZP2_A0A0D9RZP2_CHLSB_60711 and tr_A0A2K6DG23_A0A2K6DG23_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A091EA95_A0A091EA95_CORBR_85066 and tr_A0A093PXX9_A0A093PXX9_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A091EA95_A0A091EA95_CORBR_85066 and tr_A0A093FZW8_A0A093FZW8_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A091EA95_A0A091EA95_CORBR_85066 and tr_A0A091IAG1_A0A091IAG1_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A091J8Q7_A0A091J8Q7_EGRGA_188379 and tr_A0A0A0A153_A0A0A0A153_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A226M6M5_A0A226M6M5_CALSU_9009 and tr_A0A226MCJ3_A0A226MCJ3_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2D0R1F5_A0A2D0R1F5_ICTPU_7998 and tr_A0A2D0R340_A0A2D0R340_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0T1V2_A0A2D0T1V2_ICTPU_7998 and tr_A0A2D0T278_A0A2D0T278_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 10

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/O14529/3_mltree/O14529.raxml.reduced.phy

Alignment comprises 1 partitions and 1281 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1281 / 1281
Gaps: 52.59 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 9 thread(s)

Parallel reduction/worker buffer size: 1 KB  / 0 KB

[00:00:00] Generating 20 random starting tree(s) with 677 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 143 / 11440
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -825714.420707] Initial branch length optimization
[00:00:04 -670142.821873] Model parameter optimization (eps = 10.000000)
[00:00:46 -667525.213483] AUTODETECT spr round 1 (radius: 5)
[00:01:58 -484651.229895] AUTODETECT spr round 2 (radius: 10)
[00:03:19 -377038.785628] AUTODETECT spr round 3 (radius: 15)
[00:04:52 -309934.701969] AUTODETECT spr round 4 (radius: 20)
[00:06:42 -296861.953984] AUTODETECT spr round 5 (radius: 25)
[00:08:56 -294338.688970] SPR radius for FAST iterations: 25 (autodetect)
[00:08:56 -294338.688970] Model parameter optimization (eps = 3.000000)
[00:09:33 -292947.295363] FAST spr round 1 (radius: 25)
[00:11:36 -263058.993435] FAST spr round 2 (radius: 25)
[00:13:10 -262178.067217] FAST spr round 3 (radius: 25)
[00:14:31 -262085.484485] FAST spr round 4 (radius: 25)
[00:15:36 -262075.983480] FAST spr round 5 (radius: 25)
[00:16:36 -262075.982820] Model parameter optimization (eps = 1.000000)
[00:16:48 -262072.418164] SLOW spr round 1 (radius: 5)
[00:18:17 -262019.789172] SLOW spr round 2 (radius: 5)
[00:19:43 -262016.588147] SLOW spr round 3 (radius: 5)
[00:21:05 -262016.585926] SLOW spr round 4 (radius: 10)
[00:22:35 -262015.442335] SLOW spr round 5 (radius: 5)
[00:24:22 -262015.441623] SLOW spr round 6 (radius: 10)
[00:26:06 -262015.441080] SLOW spr round 7 (radius: 15)
[00:28:44 -262013.739579] SLOW spr round 8 (radius: 5)
[00:30:37 -262013.739171] SLOW spr round 9 (radius: 10)
[00:32:27 -262013.738867] SLOW spr round 10 (radius: 15)
[00:35:04 -262013.738604] SLOW spr round 11 (radius: 20)
[00:38:59 -262013.738372] SLOW spr round 12 (radius: 25)
[00:43:17 -262013.738166] Model parameter optimization (eps = 0.100000)

[00:43:21] ML tree search #1, logLikelihood: -262013.674439

[00:43:21 -819203.517431] Initial branch length optimization
[00:43:24 -659972.647098] Model parameter optimization (eps = 10.000000)
[00:44:09 -657475.849407] AUTODETECT spr round 1 (radius: 5)
[00:45:22 -476637.534904] AUTODETECT spr round 2 (radius: 10)
[00:46:44 -376010.449900] AUTODETECT spr round 3 (radius: 15)
[00:48:18 -304496.771734] AUTODETECT spr round 4 (radius: 20)
[00:50:08 -292334.684359] AUTODETECT spr round 5 (radius: 25)
[00:52:31 -292019.443404] SPR radius for FAST iterations: 25 (autodetect)
[00:52:31 -292019.443404] Model parameter optimization (eps = 3.000000)
[00:53:23 -290550.560853] FAST spr round 1 (radius: 25)
[00:55:36 -263546.344652] FAST spr round 2 (radius: 25)
[00:57:08 -262446.857503] FAST spr round 3 (radius: 25)
[00:58:28 -262182.642955] FAST spr round 4 (radius: 25)
[00:59:39 -262142.239571] FAST spr round 5 (radius: 25)
[01:00:39 -262141.929218] FAST spr round 6 (radius: 25)
[01:01:37 -262141.917877] Model parameter optimization (eps = 1.000000)
[01:01:56 -262120.746821] SLOW spr round 1 (radius: 5)
[01:03:26 -262059.323374] SLOW spr round 2 (radius: 5)
[01:04:53 -262052.488611] SLOW spr round 3 (radius: 5)
[01:06:16 -262052.474757] SLOW spr round 4 (radius: 10)
[01:07:46 -262050.663865] SLOW spr round 5 (radius: 5)
[01:09:33 -262050.661646] SLOW spr round 6 (radius: 10)
[01:11:18 -262050.661562] SLOW spr round 7 (radius: 15)
[01:13:59 -262048.593057] SLOW spr round 8 (radius: 5)
[01:15:52 -262047.945397] SLOW spr round 9 (radius: 5)
[01:17:30 -262047.941836] SLOW spr round 10 (radius: 10)
[01:19:07 -262047.940209] SLOW spr round 11 (radius: 15)
[01:21:52 -262046.053491] SLOW spr round 12 (radius: 5)
[01:23:46 -262044.816803] SLOW spr round 13 (radius: 5)
[01:25:24 -262043.809222] SLOW spr round 14 (radius: 5)
[01:26:54 -262043.808059] SLOW spr round 15 (radius: 10)
[01:28:27 -262043.807531] SLOW spr round 16 (radius: 15)
[01:31:14 -262043.807274] SLOW spr round 17 (radius: 20)
[01:35:12 -262043.807145] SLOW spr round 18 (radius: 25)
[01:39:36 -262043.807078] Model parameter optimization (eps = 0.100000)

[01:39:55] ML tree search #2, logLikelihood: -262041.114554

[01:39:55 -831499.238351] Initial branch length optimization
[01:39:58 -665089.044824] Model parameter optimization (eps = 10.000000)
[01:40:48 -662719.949087] AUTODETECT spr round 1 (radius: 5)
[01:42:03 -494946.974831] AUTODETECT spr round 2 (radius: 10)
[01:43:27 -367724.797878] AUTODETECT spr round 3 (radius: 15)
[01:44:57 -313115.804941] AUTODETECT spr round 4 (radius: 20)
[01:46:53 -295609.934991] AUTODETECT spr round 5 (radius: 25)
[01:48:50 -290559.523800] SPR radius for FAST iterations: 25 (autodetect)
[01:48:50 -290559.523800] Model parameter optimization (eps = 3.000000)
[01:49:31 -289014.877451] FAST spr round 1 (radius: 25)
[01:51:45 -263175.871149] FAST spr round 2 (radius: 25)
[01:53:21 -262189.832195] FAST spr round 3 (radius: 25)
[01:54:44 -262137.520620] FAST spr round 4 (radius: 25)
[01:55:53 -262129.333014] FAST spr round 5 (radius: 25)
[01:56:57 -262124.754696] FAST spr round 6 (radius: 25)
[01:57:56 -262124.746369] Model parameter optimization (eps = 1.000000)
[01:58:12 -262109.695003] SLOW spr round 1 (radius: 5)
[01:59:43 -262049.686162] SLOW spr round 2 (radius: 5)
[02:01:10 -262042.702457] SLOW spr round 3 (radius: 5)
[02:02:33 -262040.632325] SLOW spr round 4 (radius: 5)
[02:03:56 -262038.851532] SLOW spr round 5 (radius: 5)
[02:05:21 -262037.098834] SLOW spr round 6 (radius: 5)
[02:06:43 -262037.097238] SLOW spr round 7 (radius: 10)
[02:08:14 -262036.998349] SLOW spr round 8 (radius: 15)
[02:11:07 -262035.568624] SLOW spr round 9 (radius: 5)
[02:13:01 -262034.433998] SLOW spr round 10 (radius: 5)
[02:14:38 -262034.430560] SLOW spr round 11 (radius: 10)
[02:16:17 -262034.352739] SLOW spr round 12 (radius: 15)
[02:19:03 -262034.342532] SLOW spr round 13 (radius: 20)
[02:23:03 -262034.040948] SLOW spr round 14 (radius: 5)
[02:25:02 -262030.193591] SLOW spr round 15 (radius: 5)
[02:26:46 -262023.507225] SLOW spr round 16 (radius: 5)
[02:28:18 -262021.408389] SLOW spr round 17 (radius: 5)
[02:29:44 -262021.407363] SLOW spr round 18 (radius: 10)
[02:31:16 -262021.406542] SLOW spr round 19 (radius: 15)
[02:34:04 -262021.405858] SLOW spr round 20 (radius: 20)
[02:37:58 -262021.405273] SLOW spr round 21 (radius: 25)
[02:42:29 -262021.404764] Model parameter optimization (eps = 0.100000)

[02:42:36] ML tree search #3, logLikelihood: -262021.329993

[02:42:36 -829059.624033] Initial branch length optimization
[02:42:40 -667584.071405] Model parameter optimization (eps = 10.000000)
[02:43:21 -665284.911658] AUTODETECT spr round 1 (radius: 5)
[02:44:34 -474694.484584] AUTODETECT spr round 2 (radius: 10)
[02:45:56 -365370.112180] AUTODETECT spr round 3 (radius: 15)
[02:47:29 -308230.607144] AUTODETECT spr round 4 (radius: 20)
[02:49:20 -289887.222079] AUTODETECT spr round 5 (radius: 25)
[02:51:34 -288218.091646] SPR radius for FAST iterations: 25 (autodetect)
[02:51:34 -288218.091646] Model parameter optimization (eps = 3.000000)
[02:52:10 -286400.099977] FAST spr round 1 (radius: 25)
[02:54:14 -262737.262140] FAST spr round 2 (radius: 25)
[02:55:52 -262009.927180] FAST spr round 3 (radius: 25)
[02:57:13 -261949.178111] FAST spr round 4 (radius: 25)
[02:58:17 -261945.624001] FAST spr round 5 (radius: 25)
[02:59:19 -261943.499434] FAST spr round 6 (radius: 25)
[03:00:18 -261943.498214] Model parameter optimization (eps = 1.000000)
[03:00:38 -261921.436326] SLOW spr round 1 (radius: 5)
[03:02:09 -261886.684572] SLOW spr round 2 (radius: 5)
[03:03:37 -261879.107117] SLOW spr round 3 (radius: 5)
[03:05:00 -261878.107075] SLOW spr round 4 (radius: 5)
[03:06:22 -261878.104972] SLOW spr round 5 (radius: 10)
[03:07:51 -261871.763979] SLOW spr round 6 (radius: 5)
[03:09:40 -261862.987209] SLOW spr round 7 (radius: 5)
[03:11:14 -261862.986136] SLOW spr round 8 (radius: 10)
[03:12:47 -261862.985956] SLOW spr round 9 (radius: 15)
[03:15:20 -261860.551347] SLOW spr round 10 (radius: 5)
[03:17:12 -261860.107294] SLOW spr round 11 (radius: 5)
[03:18:49 -261860.107227] SLOW spr round 12 (radius: 10)
[03:20:23 -261860.107185] SLOW spr round 13 (radius: 15)
[03:22:55 -261860.107153] SLOW spr round 14 (radius: 20)
[03:26:30 -261858.181965] SLOW spr round 15 (radius: 5)
[03:28:26 -261857.677278] SLOW spr round 16 (radius: 5)
[03:30:05 -261857.677265] SLOW spr round 17 (radius: 10)
[03:31:40 -261857.677255] SLOW spr round 18 (radius: 15)
[03:34:10 -261857.677247] SLOW spr round 19 (radius: 20)
[03:37:46 -261857.677240] SLOW spr round 20 (radius: 25)
[03:41:56 -261857.677235] Model parameter optimization (eps = 0.100000)

[03:42:07] ML tree search #4, logLikelihood: -261857.354407

[03:42:07 -819025.073599] Initial branch length optimization
[03:42:10 -660264.497772] Model parameter optimization (eps = 10.000000)
[03:42:45 -658003.364997] AUTODETECT spr round 1 (radius: 5)
[03:43:58 -489277.053694] AUTODETECT spr round 2 (radius: 10)
[03:45:18 -381119.315444] AUTODETECT spr round 3 (radius: 15)
[03:46:53 -316311.190890] AUTODETECT spr round 4 (radius: 20)
[03:48:34 -297583.457119] AUTODETECT spr round 5 (radius: 25)
[03:50:40 -295154.935776] SPR radius for FAST iterations: 25 (autodetect)
[03:50:40 -295154.935776] Model parameter optimization (eps = 3.000000)
[03:51:24 -293711.970182] FAST spr round 1 (radius: 25)
[03:53:32 -263320.275900] FAST spr round 2 (radius: 25)
[03:55:06 -262179.110703] FAST spr round 3 (radius: 25)
[03:56:24 -262123.089961] FAST spr round 4 (radius: 25)
[03:57:30 -262115.609503] FAST spr round 5 (radius: 25)
[03:58:32 -262109.685100] FAST spr round 6 (radius: 25)
[03:59:31 -262109.684712] Model parameter optimization (eps = 1.000000)
[03:59:45 -262093.275173] SLOW spr round 1 (radius: 5)
[04:01:16 -262039.640277] SLOW spr round 2 (radius: 5)
[04:02:42 -262028.265342] SLOW spr round 3 (radius: 5)
[04:04:05 -262027.485690] SLOW spr round 4 (radius: 5)
[04:05:26 -262027.485567] SLOW spr round 5 (radius: 10)
[04:06:56 -262025.398587] SLOW spr round 6 (radius: 5)
[04:08:44 -262024.399238] SLOW spr round 7 (radius: 5)
[04:10:17 -262024.397854] SLOW spr round 8 (radius: 10)
[04:11:53 -262024.397094] SLOW spr round 9 (radius: 15)
[04:14:38 -262022.639741] SLOW spr round 10 (radius: 5)
[04:16:30 -262022.639520] SLOW spr round 11 (radius: 10)
[04:18:21 -262022.639385] SLOW spr round 12 (radius: 15)
[04:21:00 -262022.639284] SLOW spr round 13 (radius: 20)
[04:25:15 -262021.473744] SLOW spr round 14 (radius: 5)
[04:27:10 -262021.473414] SLOW spr round 15 (radius: 10)
[04:29:06 -262021.473346] SLOW spr round 16 (radius: 15)
[04:31:44 -262021.473330] SLOW spr round 17 (radius: 20)
[04:35:59 -262021.473321] SLOW spr round 18 (radius: 25)
[04:40:51 -262021.473317] Model parameter optimization (eps = 0.100000)

[04:41:05] ML tree search #5, logLikelihood: -262020.848048

[04:41:05 -814794.921251] Initial branch length optimization
[04:41:08 -659253.298913] Model parameter optimization (eps = 10.000000)
[04:41:39 -656748.915273] AUTODETECT spr round 1 (radius: 5)
[04:42:53 -482765.995070] AUTODETECT spr round 2 (radius: 10)
[04:44:14 -379297.047660] AUTODETECT spr round 3 (radius: 15)
[04:45:48 -319640.297259] AUTODETECT spr round 4 (radius: 20)
[04:47:47 -307339.840546] AUTODETECT spr round 5 (radius: 25)
[04:49:58 -299772.995975] SPR radius for FAST iterations: 25 (autodetect)
[04:49:58 -299772.995975] Model parameter optimization (eps = 3.000000)
[04:50:43 -298578.178732] FAST spr round 1 (radius: 25)
[04:52:55 -264051.864090] FAST spr round 2 (radius: 25)
[04:54:32 -262309.679477] FAST spr round 3 (radius: 25)
[04:55:53 -262185.950875] FAST spr round 4 (radius: 25)
[04:57:00 -262171.887602] FAST spr round 5 (radius: 25)
[04:58:01 -262171.257450] FAST spr round 6 (radius: 25)
[04:59:00 -262171.040937] FAST spr round 7 (radius: 25)
[04:59:58 -262171.040150] Model parameter optimization (eps = 1.000000)
[05:00:19 -262124.609797] SLOW spr round 1 (radius: 5)
[05:01:52 -262032.297371] SLOW spr round 2 (radius: 5)
[05:03:19 -262023.934050] SLOW spr round 3 (radius: 5)
[05:04:43 -262021.719794] SLOW spr round 4 (radius: 5)
[05:06:05 -262021.719549] SLOW spr round 5 (radius: 10)
[05:07:35 -262021.065015] SLOW spr round 6 (radius: 5)
[05:09:23 -262019.785571] SLOW spr round 7 (radius: 5)
[05:10:58 -262019.782966] SLOW spr round 8 (radius: 10)
[05:12:34 -262019.781585] SLOW spr round 9 (radius: 15)
[05:15:15 -262017.959563] SLOW spr round 10 (radius: 5)
[05:17:08 -262017.956381] SLOW spr round 11 (radius: 10)
[05:18:59 -262017.955162] SLOW spr round 12 (radius: 15)
[05:21:34 -262017.954678] SLOW spr round 13 (radius: 20)
[05:25:33 -262017.954482] SLOW spr round 14 (radius: 25)
[05:30:01 -262017.954402] Model parameter optimization (eps = 0.100000)

[05:30:10] ML tree search #6, logLikelihood: -262017.557089

[05:30:10 -824769.597070] Initial branch length optimization
[05:30:14 -666724.568222] Model parameter optimization (eps = 10.000000)
[05:30:55 -664277.080778] AUTODETECT spr round 1 (radius: 5)
[05:32:08 -478291.664102] AUTODETECT spr round 2 (radius: 10)
[05:33:28 -362753.307384] AUTODETECT spr round 3 (radius: 15)
[05:35:02 -299968.498871] AUTODETECT spr round 4 (radius: 20)
[05:36:44 -283238.540508] AUTODETECT spr round 5 (radius: 25)
[05:38:51 -281559.582638] SPR radius for FAST iterations: 25 (autodetect)
[05:38:51 -281559.582638] Model parameter optimization (eps = 3.000000)
[05:39:35 -280173.852174] FAST spr round 1 (radius: 25)
[05:41:34 -263012.065220] FAST spr round 2 (radius: 25)
[05:43:02 -262186.942585] FAST spr round 3 (radius: 25)
[05:44:20 -262134.751610] FAST spr round 4 (radius: 25)
[05:45:26 -262128.909941] FAST spr round 5 (radius: 25)
[05:46:27 -262128.832360] Model parameter optimization (eps = 1.000000)
[05:46:44 -262120.556758] SLOW spr round 1 (radius: 5)
[05:48:15 -262072.481926] SLOW spr round 2 (radius: 5)
[05:49:40 -262069.620988] SLOW spr round 3 (radius: 5)
[05:51:02 -262069.602723] SLOW spr round 4 (radius: 10)
[05:52:32 -262066.370851] SLOW spr round 5 (radius: 5)
[05:54:19 -262066.369860] SLOW spr round 6 (radius: 10)
[05:56:03 -262066.369057] SLOW spr round 7 (radius: 15)
[05:58:42 -262064.748183] SLOW spr round 8 (radius: 5)
[06:00:35 -262064.747545] SLOW spr round 9 (radius: 10)
[06:02:25 -262064.746994] SLOW spr round 10 (radius: 15)
[06:05:02 -262064.746496] SLOW spr round 11 (radius: 20)
[06:09:03 -262063.294245] SLOW spr round 12 (radius: 5)
[06:10:59 -262063.271688] SLOW spr round 13 (radius: 10)
[06:12:53 -262063.271454] SLOW spr round 14 (radius: 15)
[06:15:29 -262063.271241] SLOW spr round 15 (radius: 20)
[06:19:31 -262063.271046] SLOW spr round 16 (radius: 25)
[06:23:56 -262063.270868] Model parameter optimization (eps = 0.100000)

[06:24:03] ML tree search #7, logLikelihood: -262063.074407

[06:24:03 -824181.234948] Initial branch length optimization
[06:24:07 -665932.950946] Model parameter optimization (eps = 10.000000)
[06:24:47 -663428.513680] AUTODETECT spr round 1 (radius: 5)
[06:25:59 -489767.009091] AUTODETECT spr round 2 (radius: 10)
[06:27:19 -381173.021416] AUTODETECT spr round 3 (radius: 15)
[06:28:53 -309052.783109] AUTODETECT spr round 4 (radius: 20)
[06:30:40 -297102.745962] AUTODETECT spr round 5 (radius: 25)
[06:32:40 -294699.652288] SPR radius for FAST iterations: 25 (autodetect)
[06:32:40 -294699.652288] Model parameter optimization (eps = 3.000000)
[06:33:25 -293086.025069] FAST spr round 1 (radius: 25)
[06:35:29 -263262.136528] FAST spr round 2 (radius: 25)
[06:37:02 -262156.779144] FAST spr round 3 (radius: 25)
[06:38:21 -262120.618638] FAST spr round 4 (radius: 25)
[06:39:29 -262110.594714] FAST spr round 5 (radius: 25)
[06:40:30 -262110.585803] Model parameter optimization (eps = 1.000000)
[06:40:50 -262080.599459] SLOW spr round 1 (radius: 5)
[06:42:18 -262034.193259] SLOW spr round 2 (radius: 5)
[06:43:43 -262031.609492] SLOW spr round 3 (radius: 5)
[06:45:06 -262031.570477] SLOW spr round 4 (radius: 10)
[06:46:37 -262027.121633] SLOW spr round 5 (radius: 5)
[06:48:25 -262027.121332] SLOW spr round 6 (radius: 10)
[06:50:10 -262027.121170] SLOW spr round 7 (radius: 15)
[06:52:51 -262026.001191] SLOW spr round 8 (radius: 5)
[06:54:45 -262025.641157] SLOW spr round 9 (radius: 5)
[06:56:23 -262025.640974] SLOW spr round 10 (radius: 10)
[06:58:01 -262025.640811] SLOW spr round 11 (radius: 15)
[07:00:45 -262025.640656] SLOW spr round 12 (radius: 20)
[07:04:42 -262025.435600] SLOW spr round 13 (radius: 5)
[07:06:40 -262021.950746] SLOW spr round 14 (radius: 5)
[07:08:22 -262018.612397] SLOW spr round 15 (radius: 5)
[07:09:53 -262018.609228] SLOW spr round 16 (radius: 10)
[07:11:27 -262018.607346] SLOW spr round 17 (radius: 15)
[07:14:15 -262018.606074] SLOW spr round 18 (radius: 20)
[07:18:12 -262018.605108] SLOW spr round 19 (radius: 25)
[07:22:33 -262018.604309] Model parameter optimization (eps = 0.100000)

[07:22:43] ML tree search #8, logLikelihood: -262018.066255

[07:22:43 -823042.518354] Initial branch length optimization
[07:22:47 -666616.396756] Model parameter optimization (eps = 10.000000)
[07:23:25 -663900.879320] AUTODETECT spr round 1 (radius: 5)
[07:24:37 -475518.686974] AUTODETECT spr round 2 (radius: 10)
[07:25:57 -376127.462639] AUTODETECT spr round 3 (radius: 15)
[07:27:28 -322940.499401] AUTODETECT spr round 4 (radius: 20)
[07:29:19 -297239.510284] AUTODETECT spr round 5 (radius: 25)
[07:31:24 -287264.701374] SPR radius for FAST iterations: 25 (autodetect)
[07:31:24 -287264.701374] Model parameter optimization (eps = 3.000000)
[07:32:10 -285968.119034] FAST spr round 1 (radius: 25)
[07:34:15 -263201.552033] FAST spr round 2 (radius: 25)
[07:35:48 -262169.130257] FAST spr round 3 (radius: 25)
[07:37:07 -262105.214387] FAST spr round 4 (radius: 25)
[07:38:15 -262093.904628] FAST spr round 5 (radius: 25)
[07:39:15 -262093.776249] FAST spr round 6 (radius: 25)
[07:40:15 -262093.774108] Model parameter optimization (eps = 1.000000)
[07:40:31 -262089.483817] SLOW spr round 1 (radius: 5)
[07:41:59 -262036.849054] SLOW spr round 2 (radius: 5)
[07:43:25 -262035.843131] SLOW spr round 3 (radius: 5)
[07:44:48 -262035.841285] SLOW spr round 4 (radius: 10)
[07:46:18 -262035.644726] SLOW spr round 5 (radius: 5)
[07:48:07 -262030.356389] SLOW spr round 6 (radius: 5)
[07:49:44 -262029.824448] SLOW spr round 7 (radius: 5)
[07:51:12 -262029.824197] SLOW spr round 8 (radius: 10)
[07:52:46 -262029.823993] SLOW spr round 9 (radius: 15)
[07:55:31 -262028.282733] SLOW spr round 10 (radius: 5)
[07:57:24 -262028.282591] SLOW spr round 11 (radius: 10)
[07:59:15 -262028.282565] SLOW spr round 12 (radius: 15)
[08:01:51 -262028.282544] SLOW spr round 13 (radius: 20)
[08:05:52 -262028.282526] SLOW spr round 14 (radius: 25)
[08:10:31 -262028.282509] Model parameter optimization (eps = 0.100000)

[08:10:39] ML tree search #9, logLikelihood: -262027.797030

[08:10:39 -827313.841809] Initial branch length optimization
[08:10:43 -667052.407264] Model parameter optimization (eps = 10.000000)
[08:11:23 -664404.281751] AUTODETECT spr round 1 (radius: 5)
[08:12:36 -492221.503163] AUTODETECT spr round 2 (radius: 10)
[08:13:59 -378039.726284] AUTODETECT spr round 3 (radius: 15)
[08:15:39 -330008.927493] AUTODETECT spr round 4 (radius: 20)
[08:17:30 -305400.842085] AUTODETECT spr round 5 (radius: 25)
[08:19:38 -298384.578204] SPR radius for FAST iterations: 25 (autodetect)
[08:19:38 -298384.578204] Model parameter optimization (eps = 3.000000)
[08:20:20 -296499.390688] FAST spr round 1 (radius: 25)
[08:22:31 -263059.647392] FAST spr round 2 (radius: 25)
[08:24:08 -262134.288972] FAST spr round 3 (radius: 25)
[08:25:29 -262086.409652] FAST spr round 4 (radius: 25)
[08:26:36 -262080.312218] FAST spr round 5 (radius: 25)
[08:27:36 -262080.243497] Model parameter optimization (eps = 1.000000)
[08:27:51 -262072.733375] SLOW spr round 1 (radius: 5)
[08:29:23 -262026.003970] SLOW spr round 2 (radius: 5)
[08:30:50 -262022.859112] SLOW spr round 3 (radius: 5)
[08:32:13 -262022.857601] SLOW spr round 4 (radius: 10)
[08:33:43 -262020.790957] SLOW spr round 5 (radius: 5)
[08:35:32 -262020.127341] SLOW spr round 6 (radius: 5)
[08:37:08 -262020.123938] SLOW spr round 7 (radius: 10)
[08:38:44 -262020.123138] SLOW spr round 8 (radius: 15)
[08:41:23 -262018.405392] SLOW spr round 9 (radius: 5)
[08:43:20 -262016.734036] SLOW spr round 10 (radius: 5)
[08:44:59 -262016.732591] SLOW spr round 11 (radius: 10)
[08:46:38 -262016.691850] SLOW spr round 12 (radius: 15)
[08:49:16 -262016.691647] SLOW spr round 13 (radius: 20)
[08:53:08 -262016.691471] SLOW spr round 14 (radius: 25)
[08:57:35 -262016.691311] Model parameter optimization (eps = 0.100000)

[08:57:40] ML tree search #10, logLikelihood: -262016.664414

[08:57:40 -818789.784508] Initial branch length optimization
[08:57:43 -663570.479430] Model parameter optimization (eps = 10.000000)
[08:58:26 -660981.689744] AUTODETECT spr round 1 (radius: 5)
[08:59:40 -472987.247731] AUTODETECT spr round 2 (radius: 10)
[09:01:00 -373535.641622] AUTODETECT spr round 3 (radius: 15)
[09:02:34 -311427.473903] AUTODETECT spr round 4 (radius: 20)
[09:04:18 -299136.097212] AUTODETECT spr round 5 (radius: 25)
[09:06:21 -294840.245429] SPR radius for FAST iterations: 25 (autodetect)
[09:06:21 -294840.245429] Model parameter optimization (eps = 3.000000)
[09:07:13 -293456.837360] FAST spr round 1 (radius: 25)
[09:09:20 -263437.428850] FAST spr round 2 (radius: 25)
[09:10:56 -262154.069882] FAST spr round 3 (radius: 25)
[09:12:17 -262083.017429] FAST spr round 4 (radius: 25)
[09:13:22 -262079.766007] FAST spr round 5 (radius: 25)
[09:14:22 -262079.765196] Model parameter optimization (eps = 1.000000)
[09:14:39 -262075.948946] SLOW spr round 1 (radius: 5)
[09:16:09 -262044.019788] SLOW spr round 2 (radius: 5)
[09:17:35 -262038.243796] SLOW spr round 3 (radius: 5)
[09:18:59 -262037.838301] SLOW spr round 4 (radius: 5)
[09:20:22 -262034.886718] SLOW spr round 5 (radius: 5)
[09:21:46 -262029.931507] SLOW spr round 6 (radius: 5)
[09:23:08 -262029.931064] SLOW spr round 7 (radius: 10)
[09:24:38 -262027.094735] SLOW spr round 8 (radius: 5)
[09:26:26 -262027.092071] SLOW spr round 9 (radius: 10)
[09:28:12 -262027.091624] SLOW spr round 10 (radius: 15)
[09:30:48 -262025.331924] SLOW spr round 11 (radius: 5)
[09:32:41 -262025.331713] SLOW spr round 12 (radius: 10)
[09:34:33 -262025.331550] SLOW spr round 13 (radius: 15)
[09:37:07 -262025.331407] SLOW spr round 14 (radius: 20)
[09:41:07 -262024.692849] SLOW spr round 15 (radius: 5)
[09:43:04 -262024.690282] SLOW spr round 16 (radius: 10)
[09:45:00 -262024.689290] SLOW spr round 17 (radius: 15)
[09:47:34 -262024.688862] SLOW spr round 18 (radius: 20)
[09:51:34 -262024.688655] SLOW spr round 19 (radius: 25)
[09:56:12 -262024.688538] Model parameter optimization (eps = 0.100000)

[09:56:16] ML tree search #11, logLikelihood: -262024.662544

[09:56:16 -826477.008921] Initial branch length optimization
[09:56:20 -668171.667462] Model parameter optimization (eps = 10.000000)
[09:56:58 -665404.045329] AUTODETECT spr round 1 (radius: 5)
[09:58:10 -480344.923734] AUTODETECT spr round 2 (radius: 10)
[09:59:30 -370804.099605] AUTODETECT spr round 3 (radius: 15)
[10:01:01 -302949.856619] AUTODETECT spr round 4 (radius: 20)
[10:02:50 -292983.120136] AUTODETECT spr round 5 (radius: 25)
[10:05:03 -289584.344346] SPR radius for FAST iterations: 25 (autodetect)
[10:05:03 -289584.344346] Model parameter optimization (eps = 3.000000)
[10:05:43 -287835.403447] FAST spr round 1 (radius: 25)
[10:07:40 -263145.120409] FAST spr round 2 (radius: 25)
[10:09:14 -262237.382955] FAST spr round 3 (radius: 25)
[10:10:35 -262125.813773] FAST spr round 4 (radius: 25)
[10:11:43 -262109.245428] FAST spr round 5 (radius: 25)
[10:12:44 -262109.245075] Model parameter optimization (eps = 1.000000)
[10:13:00 -262100.103895] SLOW spr round 1 (radius: 5)
[10:14:32 -262048.587332] SLOW spr round 2 (radius: 5)
[10:16:00 -262041.788958] SLOW spr round 3 (radius: 5)
[10:17:23 -262041.629212] SLOW spr round 4 (radius: 5)
[10:18:46 -262041.628014] SLOW spr round 5 (radius: 10)
[10:20:16 -262037.869275] SLOW spr round 6 (radius: 5)
[10:22:05 -262037.592156] SLOW spr round 7 (radius: 5)
[10:23:40 -262037.590422] SLOW spr round 8 (radius: 10)
[10:25:15 -262037.490724] SLOW spr round 9 (radius: 15)
[10:27:58 -262036.423782] SLOW spr round 10 (radius: 5)
[10:29:53 -262034.805216] SLOW spr round 11 (radius: 5)
[10:31:32 -262033.567004] SLOW spr round 12 (radius: 5)
[10:33:02 -262033.564332] SLOW spr round 13 (radius: 10)
[10:34:34 -262033.563995] SLOW spr round 14 (radius: 15)
[10:37:19 -262033.563953] SLOW spr round 15 (radius: 20)
[10:41:27 -262033.563947] SLOW spr round 16 (radius: 25)
[10:45:56 -262031.983156] SLOW spr round 17 (radius: 5)
[10:47:53 -262031.835380] SLOW spr round 18 (radius: 5)
[10:49:34 -262031.810696] SLOW spr round 19 (radius: 10)
[10:51:13 -262031.808303] SLOW spr round 20 (radius: 15)
[10:53:52 -262031.807382] SLOW spr round 21 (radius: 20)
[10:58:02 -262031.807013] SLOW spr round 22 (radius: 25)
[11:02:31 -262031.806858] Model parameter optimization (eps = 0.100000)

[11:02:50] ML tree search #12, logLikelihood: -262030.694143

[11:02:50 -830307.424811] Initial branch length optimization
[11:02:54 -668740.123993] Model parameter optimization (eps = 10.000000)
[11:03:41 -666222.565084] AUTODETECT spr round 1 (radius: 5)
[11:04:54 -485530.782191] AUTODETECT spr round 2 (radius: 10)
[11:06:22 -376916.544039] AUTODETECT spr round 3 (radius: 15)
[11:07:56 -327371.159683] AUTODETECT spr round 4 (radius: 20)
[11:09:58 -299193.166362] AUTODETECT spr round 5 (radius: 25)
[11:12:43 -296453.960226] SPR radius for FAST iterations: 25 (autodetect)
[11:12:43 -296453.960226] Model parameter optimization (eps = 3.000000)
[11:13:28 -294672.462095] FAST spr round 1 (radius: 25)
[11:15:36 -263111.381517] FAST spr round 2 (radius: 25)
[11:17:09 -262170.743976] FAST spr round 3 (radius: 25)
[11:18:31 -262104.236101] FAST spr round 4 (radius: 25)
[11:19:36 -262094.306071] FAST spr round 5 (radius: 25)
[11:20:38 -262093.813639] FAST spr round 6 (radius: 25)
[11:21:36 -262093.812392] Model parameter optimization (eps = 1.000000)
[11:21:52 -262081.468641] SLOW spr round 1 (radius: 5)
[11:23:22 -262034.298844] SLOW spr round 2 (radius: 5)
[11:24:50 -262028.208314] SLOW spr round 3 (radius: 5)
[11:26:13 -262028.159946] SLOW spr round 4 (radius: 10)
[11:27:43 -262025.799742] SLOW spr round 5 (radius: 5)
[11:29:31 -262025.787961] SLOW spr round 6 (radius: 10)
[11:31:18 -262025.336921] SLOW spr round 7 (radius: 5)
[11:33:03 -262025.336588] SLOW spr round 8 (radius: 10)
[11:34:47 -262025.258274] SLOW spr round 9 (radius: 15)
[11:37:31 -262025.251246] SLOW spr round 10 (radius: 20)
[11:41:41 -262024.706126] SLOW spr round 11 (radius: 5)
[11:43:38 -262023.818892] SLOW spr round 12 (radius: 5)
[11:45:18 -262023.816092] SLOW spr round 13 (radius: 10)
[11:46:59 -262023.815472] SLOW spr round 14 (radius: 15)
[11:49:44 -262023.815290] SLOW spr round 15 (radius: 20)
[11:53:53 -262023.815195] SLOW spr round 16 (radius: 25)
[11:58:25 -262023.815121] Model parameter optimization (eps = 0.100000)

[11:58:34] ML tree search #13, logLikelihood: -262023.218805

[11:58:34 -826979.389796] Initial branch length optimization
[11:58:37 -673947.875969] Model parameter optimization (eps = 10.000000)
[11:59:19 -671068.513647] AUTODETECT spr round 1 (radius: 5)
[12:00:31 -499925.012178] AUTODETECT spr round 2 (radius: 10)
[12:01:54 -385063.990048] AUTODETECT spr round 3 (radius: 15)
[12:03:25 -319225.041734] AUTODETECT spr round 4 (radius: 20)
[12:05:18 -293938.348833] AUTODETECT spr round 5 (radius: 25)
[12:07:28 -289217.343254] SPR radius for FAST iterations: 25 (autodetect)
[12:07:28 -289217.343254] Model parameter optimization (eps = 3.000000)
[12:08:15 -287603.493990] FAST spr round 1 (radius: 25)
[12:10:21 -263006.114424] FAST spr round 2 (radius: 25)
[12:11:59 -262151.959215] FAST spr round 3 (radius: 25)
[12:13:17 -262090.134515] FAST spr round 4 (radius: 25)
[12:14:22 -262087.069636] FAST spr round 5 (radius: 25)
[12:15:22 -262087.057170] Model parameter optimization (eps = 1.000000)
[12:15:36 -262069.453927] SLOW spr round 1 (radius: 5)
[12:17:08 -262027.579390] SLOW spr round 2 (radius: 5)
[12:18:32 -262021.430561] SLOW spr round 3 (radius: 5)
[12:19:55 -262021.428842] SLOW spr round 4 (radius: 10)
[12:21:25 -262021.428471] SLOW spr round 5 (radius: 15)
[12:24:19 -262020.398162] SLOW spr round 6 (radius: 5)
[12:26:12 -262020.023743] SLOW spr round 7 (radius: 5)
[12:27:50 -262020.023554] SLOW spr round 8 (radius: 10)
[12:29:28 -262020.023411] SLOW spr round 9 (radius: 15)
[12:32:13 -262020.023292] SLOW spr round 10 (radius: 20)
[12:36:15 -262020.023190] SLOW spr round 11 (radius: 25)
[12:40:56 -262020.023102] Model parameter optimization (eps = 0.100000)

[12:41:00] ML tree search #14, logLikelihood: -262019.966231

[12:41:00 -829855.392603] Initial branch length optimization
[12:41:03 -667976.858316] Model parameter optimization (eps = 10.000000)
[12:41:53 -665237.768464] AUTODETECT spr round 1 (radius: 5)
[12:43:06 -511445.027742] AUTODETECT spr round 2 (radius: 10)
[12:44:29 -379463.779838] AUTODETECT spr round 3 (radius: 15)
[12:46:02 -331109.098170] AUTODETECT spr round 4 (radius: 20)
[12:47:48 -303873.141113] AUTODETECT spr round 5 (radius: 25)
[12:49:51 -299418.448266] SPR radius for FAST iterations: 25 (autodetect)
[12:49:51 -299418.448266] Model parameter optimization (eps = 3.000000)
[12:50:48 -297446.163512] FAST spr round 1 (radius: 25)
[12:53:00 -263384.565013] FAST spr round 2 (radius: 25)
[12:54:41 -262239.200125] FAST spr round 3 (radius: 25)
[12:56:01 -262133.294712] FAST spr round 4 (radius: 25)
[12:57:05 -262126.574710] FAST spr round 5 (radius: 25)
[12:58:06 -262123.627092] FAST spr round 6 (radius: 25)
[12:59:05 -262122.003411] FAST spr round 7 (radius: 25)
[13:00:03 -262121.988826] Model parameter optimization (eps = 1.000000)
[13:00:33 -262089.632134] SLOW spr round 1 (radius: 5)
[13:02:01 -262037.806239] SLOW spr round 2 (radius: 5)
[13:03:26 -262034.911346] SLOW spr round 3 (radius: 5)
[13:04:50 -262034.910403] SLOW spr round 4 (radius: 10)
[13:06:19 -262034.910291] SLOW spr round 5 (radius: 15)
[13:09:08 -262034.910241] SLOW spr round 6 (radius: 20)
[13:13:04 -262034.910202] SLOW spr round 7 (radius: 25)
[13:17:38 -262033.368349] SLOW spr round 8 (radius: 5)
[13:19:39 -262032.705957] SLOW spr round 9 (radius: 5)
[13:21:21 -262032.705729] SLOW spr round 10 (radius: 10)
[13:23:02 -262032.705525] SLOW spr round 11 (radius: 15)
[13:25:42 -262032.705340] SLOW spr round 12 (radius: 20)
[13:29:45 -262032.705171] SLOW spr round 13 (radius: 25)
[13:34:19 -262032.705018] Model parameter optimization (eps = 0.100000)

[13:34:32] ML tree search #15, logLikelihood: -262032.573565

[13:34:32 -824837.223745] Initial branch length optimization
[13:34:36 -666134.175891] Model parameter optimization (eps = 10.000000)
[13:35:17 -663747.615198] AUTODETECT spr round 1 (radius: 5)
[13:36:30 -483218.655068] AUTODETECT spr round 2 (radius: 10)
[13:37:52 -373042.254795] AUTODETECT spr round 3 (radius: 15)
[13:39:28 -301700.416163] AUTODETECT spr round 4 (radius: 20)
[13:41:16 -290465.841662] AUTODETECT spr round 5 (radius: 25)
[13:43:36 -287585.253848] SPR radius for FAST iterations: 25 (autodetect)
[13:43:36 -287585.253848] Model parameter optimization (eps = 3.000000)
[13:44:24 -286217.913067] FAST spr round 1 (radius: 25)
[13:46:31 -263287.763885] FAST spr round 2 (radius: 25)
[13:48:08 -262194.048209] FAST spr round 3 (radius: 25)
[13:49:28 -262135.874107] FAST spr round 4 (radius: 25)
[13:50:33 -262131.749871] FAST spr round 5 (radius: 25)
[13:51:34 -262130.243210] FAST spr round 6 (radius: 25)
[13:52:33 -262130.017749] FAST spr round 7 (radius: 25)
[13:53:31 -262130.017734] Model parameter optimization (eps = 1.000000)
[13:53:49 -262106.297141] SLOW spr round 1 (radius: 5)
[13:55:20 -262041.172960] SLOW spr round 2 (radius: 5)
[13:56:46 -262035.465754] SLOW spr round 3 (radius: 5)
[13:58:08 -262035.424991] SLOW spr round 4 (radius: 10)
[13:59:39 -262032.330098] SLOW spr round 5 (radius: 5)
[14:01:28 -262032.089154] SLOW spr round 6 (radius: 5)
[14:03:03 -262031.984004] SLOW spr round 7 (radius: 5)
[14:04:31 -262031.981258] SLOW spr round 8 (radius: 10)
[14:06:03 -262031.979917] SLOW spr round 9 (radius: 15)
[14:08:56 -262030.596308] SLOW spr round 10 (radius: 5)
[14:10:49 -262030.112837] SLOW spr round 11 (radius: 5)
[14:12:26 -262030.088515] SLOW spr round 12 (radius: 10)
[14:14:04 -262030.086168] SLOW spr round 13 (radius: 15)
[14:16:51 -262030.085273] SLOW spr round 14 (radius: 20)
[14:20:51 -262029.461540] SLOW spr round 15 (radius: 5)
[14:22:47 -262029.461182] SLOW spr round 16 (radius: 10)
[14:24:42 -262029.461086] SLOW spr round 17 (radius: 15)
[14:27:23 -262029.461044] SLOW spr round 18 (radius: 20)
[14:31:25 -262029.461022] SLOW spr round 19 (radius: 25)
[14:35:47 -262029.461007] Model parameter optimization (eps = 0.100000)

[14:36:05] ML tree search #16, logLikelihood: -262028.765922

[14:36:05 -822747.383067] Initial branch length optimization
[14:36:10 -664550.491532] Model parameter optimization (eps = 10.000000)
[14:36:49 -661955.162618] AUTODETECT spr round 1 (radius: 5)
[14:38:02 -481182.961932] AUTODETECT spr round 2 (radius: 10)
[14:39:24 -373871.663633] AUTODETECT spr round 3 (radius: 15)
[14:41:02 -320515.855432] AUTODETECT spr round 4 (radius: 20)
[14:43:07 -300271.820034] AUTODETECT spr round 5 (radius: 25)
[14:45:21 -295581.747282] SPR radius for FAST iterations: 25 (autodetect)
[14:45:21 -295581.747282] Model parameter optimization (eps = 3.000000)
[14:46:09 -293938.827721] FAST spr round 1 (radius: 25)
[14:48:08 -263823.404651] FAST spr round 2 (radius: 25)
[14:49:43 -262350.510793] FAST spr round 3 (radius: 25)
[14:51:00 -262276.536280] FAST spr round 4 (radius: 25)
[14:52:06 -262263.903570] FAST spr round 5 (radius: 25)
[14:53:07 -262263.890795] Model parameter optimization (eps = 1.000000)
[14:53:26 -262246.883476] SLOW spr round 1 (radius: 5)
[14:54:54 -262222.831660] SLOW spr round 2 (radius: 5)
[14:56:20 -262218.314128] SLOW spr round 3 (radius: 5)
[14:57:46 -262195.892136] SLOW spr round 4 (radius: 5)
[14:59:14 -262086.254517] SLOW spr round 5 (radius: 5)
[15:00:37 -262079.319702] SLOW spr round 6 (radius: 5)
[15:01:59 -262079.318486] SLOW spr round 7 (radius: 10)
[15:03:29 -262077.688664] SLOW spr round 8 (radius: 5)
[15:05:17 -262077.687915] SLOW spr round 9 (radius: 10)
[15:07:04 -262077.687708] SLOW spr round 10 (radius: 15)
[15:09:38 -262076.253779] SLOW spr round 11 (radius: 5)
[15:11:31 -262076.253642] SLOW spr round 12 (radius: 10)
[15:13:23 -262076.253548] SLOW spr round 13 (radius: 15)
[15:15:56 -262076.101514] SLOW spr round 14 (radius: 5)
[15:17:50 -262076.098583] SLOW spr round 15 (radius: 10)
[15:19:42 -262076.097431] SLOW spr round 16 (radius: 15)
[15:22:16 -262076.096942] SLOW spr round 17 (radius: 20)
[15:26:03 -262076.096707] SLOW spr round 18 (radius: 25)
[15:30:26 -262074.694985] SLOW spr round 19 (radius: 5)
[15:32:24 -262074.666850] SLOW spr round 20 (radius: 10)
[15:34:23 -262074.666393] SLOW spr round 21 (radius: 15)
[15:36:56 -262074.666238] SLOW spr round 22 (radius: 20)
[15:40:45 -262074.666148] SLOW spr round 23 (radius: 25)
[15:45:07 -262074.666073] Model parameter optimization (eps = 0.100000)

[15:45:19] ML tree search #17, logLikelihood: -262074.119055

[15:45:20 -830687.269036] Initial branch length optimization
[15:45:23 -669259.774705] Model parameter optimization (eps = 10.000000)
[15:46:08 -666598.005375] AUTODETECT spr round 1 (radius: 5)
[15:47:21 -489588.311865] AUTODETECT spr round 2 (radius: 10)
[15:48:45 -372860.225222] AUTODETECT spr round 3 (radius: 15)
[15:50:23 -301558.311038] AUTODETECT spr round 4 (radius: 20)
[15:52:12 -292455.492535] AUTODETECT spr round 5 (radius: 25)
[15:54:29 -291670.031423] SPR radius for FAST iterations: 25 (autodetect)
[15:54:29 -291670.031423] Model parameter optimization (eps = 3.000000)
[15:55:13 -290021.108267] FAST spr round 1 (radius: 25)
[15:57:25 -263026.039093] FAST spr round 2 (radius: 25)
[15:59:04 -262218.863250] FAST spr round 3 (radius: 25)
[16:00:26 -262127.981957] FAST spr round 4 (radius: 25)
[16:01:32 -262113.379228] FAST spr round 5 (radius: 25)
[16:02:34 -262107.632856] FAST spr round 6 (radius: 25)
[16:03:32 -262107.632836] Model parameter optimization (eps = 1.000000)
[16:03:45 -262093.671793] SLOW spr round 1 (radius: 5)
[16:05:15 -262041.869817] SLOW spr round 2 (radius: 5)
[16:06:39 -262040.433197] SLOW spr round 3 (radius: 5)
[16:08:02 -262040.430122] SLOW spr round 4 (radius: 10)
[16:09:32 -262038.599473] SLOW spr round 5 (radius: 5)
[16:11:20 -262038.591451] SLOW spr round 6 (radius: 10)
[16:13:06 -262038.460479] SLOW spr round 7 (radius: 5)
[16:14:51 -262038.459955] SLOW spr round 8 (radius: 10)
[16:16:35 -262036.857644] SLOW spr round 9 (radius: 5)
[16:18:20 -262036.856247] SLOW spr round 10 (radius: 10)
[16:20:04 -262036.827116] SLOW spr round 11 (radius: 15)
[16:22:45 -262036.827082] SLOW spr round 12 (radius: 20)
[16:26:50 -262035.160291] SLOW spr round 13 (radius: 5)
[16:28:51 -262027.018711] SLOW spr round 14 (radius: 5)
[16:30:33 -262025.525216] SLOW spr round 15 (radius: 5)
[16:32:05 -262025.524558] SLOW spr round 16 (radius: 10)
[16:33:38 -262025.524214] SLOW spr round 17 (radius: 15)
[16:36:22 -262025.523971] SLOW spr round 18 (radius: 20)
[16:40:19 -262025.523784] SLOW spr round 19 (radius: 25)
[16:44:47 -262025.523640] Model parameter optimization (eps = 0.100000)

[16:44:57] ML tree search #18, logLikelihood: -262025.162500

[16:44:57 -827285.524995] Initial branch length optimization
[16:45:01 -672670.852439] Model parameter optimization (eps = 10.000000)
[16:45:41 -670026.915904] AUTODETECT spr round 1 (radius: 5)
[16:46:53 -489615.993901] AUTODETECT spr round 2 (radius: 10)
[16:48:15 -386811.559386] AUTODETECT spr round 3 (radius: 15)
[16:49:51 -322386.343040] AUTODETECT spr round 4 (radius: 20)
[16:51:51 -293616.934643] AUTODETECT spr round 5 (radius: 25)
[16:54:10 -292079.629420] SPR radius for FAST iterations: 25 (autodetect)
[16:54:10 -292079.629420] Model parameter optimization (eps = 3.000000)
[16:54:54 -290448.503642] FAST spr round 1 (radius: 25)
[16:56:56 -263388.814406] FAST spr round 2 (radius: 25)
[16:58:29 -262202.614936] FAST spr round 3 (radius: 25)
[16:59:47 -262121.486189] FAST spr round 4 (radius: 25)
[17:00:55 -262109.954578] FAST spr round 5 (radius: 25)
[17:01:56 -262106.591665] FAST spr round 6 (radius: 25)
[17:02:55 -262106.588720] Model parameter optimization (eps = 1.000000)
[17:03:08 -262099.449293] SLOW spr round 1 (radius: 5)
[17:04:37 -262034.931298] SLOW spr round 2 (radius: 5)
[17:06:00 -262034.117519] SLOW spr round 3 (radius: 5)
[17:07:22 -262034.115524] SLOW spr round 4 (radius: 10)
[17:08:53 -262033.024070] SLOW spr round 5 (radius: 5)
[17:10:42 -262031.891454] SLOW spr round 6 (radius: 5)
[17:12:18 -262031.891185] SLOW spr round 7 (radius: 10)
[17:13:54 -262031.890982] SLOW spr round 8 (radius: 15)
[17:16:44 -262030.445975] SLOW spr round 9 (radius: 5)
[17:18:36 -262030.445739] SLOW spr round 10 (radius: 10)
[17:20:28 -262030.445548] SLOW spr round 11 (radius: 15)
[17:23:10 -262030.445363] SLOW spr round 12 (radius: 20)
[17:27:18 -262029.529192] SLOW spr round 13 (radius: 5)
[17:29:15 -262027.116776] SLOW spr round 14 (radius: 5)
[17:30:57 -262023.767682] SLOW spr round 15 (radius: 5)
[17:32:30 -262023.093670] SLOW spr round 16 (radius: 5)
[17:33:56 -262023.092620] SLOW spr round 17 (radius: 10)
[17:35:28 -262023.091746] SLOW spr round 18 (radius: 15)
[17:38:22 -262023.090960] SLOW spr round 19 (radius: 20)
[17:42:25 -262023.090252] SLOW spr round 20 (radius: 25)
[17:46:58 -262023.089613] Model parameter optimization (eps = 0.100000)

[17:47:05] ML tree search #19, logLikelihood: -262022.734039

[17:47:06 -826929.504164] Initial branch length optimization
[17:47:09 -663794.759644] Model parameter optimization (eps = 10.000000)
[17:47:47 -661306.163969] AUTODETECT spr round 1 (radius: 5)
[17:49:00 -479498.824006] AUTODETECT spr round 2 (radius: 10)
[17:50:22 -374900.866098] AUTODETECT spr round 3 (radius: 15)
[17:51:54 -325961.648425] AUTODETECT spr round 4 (radius: 20)
[17:53:48 -291469.474907] AUTODETECT spr round 5 (radius: 25)
[17:56:07 -288249.097892] SPR radius for FAST iterations: 25 (autodetect)
[17:56:07 -288249.097892] Model parameter optimization (eps = 3.000000)
[17:56:48 -286702.693059] FAST spr round 1 (radius: 25)
[17:58:54 -263010.644596] FAST spr round 2 (radius: 25)
[18:00:29 -262185.985300] FAST spr round 3 (radius: 25)
[18:01:50 -262115.083824] FAST spr round 4 (radius: 25)
[18:02:57 -262080.555715] FAST spr round 5 (radius: 25)
[18:03:59 -262075.510661] FAST spr round 6 (radius: 25)
[18:04:59 -262072.280288] FAST spr round 7 (radius: 25)
[18:05:57 -262072.278401] Model parameter optimization (eps = 1.000000)
[18:06:10 -262068.986447] SLOW spr round 1 (radius: 5)
[18:07:38 -262036.241949] SLOW spr round 2 (radius: 5)
[18:09:04 -262031.220948] SLOW spr round 3 (radius: 5)
[18:10:26 -262031.220039] SLOW spr round 4 (radius: 10)
[18:11:56 -262030.498687] SLOW spr round 5 (radius: 5)
[18:13:44 -262030.497857] SLOW spr round 6 (radius: 10)
[18:15:30 -262030.373870] SLOW spr round 7 (radius: 5)
[18:17:15 -262030.373369] SLOW spr round 8 (radius: 10)
[18:18:58 -262030.373207] SLOW spr round 9 (radius: 15)
[18:21:37 -262028.363229] SLOW spr round 10 (radius: 5)
[18:23:31 -262028.360417] SLOW spr round 11 (radius: 10)
[18:25:23 -262028.360067] SLOW spr round 12 (radius: 15)
[18:27:59 -262028.091247] SLOW spr round 13 (radius: 5)
[18:29:53 -262027.797903] SLOW spr round 14 (radius: 5)
[18:31:30 -262027.797738] SLOW spr round 15 (radius: 10)
[18:33:09 -262027.797574] SLOW spr round 16 (radius: 15)
[18:35:49 -262027.797409] SLOW spr round 17 (radius: 20)
[18:39:41 -262026.606046] SLOW spr round 18 (radius: 5)
[18:41:37 -262026.355506] SLOW spr round 19 (radius: 5)
[18:43:17 -262026.329467] SLOW spr round 20 (radius: 10)
[18:44:58 -262026.328265] SLOW spr round 21 (radius: 15)
[18:47:37 -262026.327374] SLOW spr round 22 (radius: 20)
[18:51:28 -262026.326684] SLOW spr round 23 (radius: 25)
[18:55:56 -262026.326270] Model parameter optimization (eps = 0.100000)

[18:56:08] ML tree search #20, logLikelihood: -262025.984442


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.161719,1.545328) (0.062977,1.805074) (0.285068,0.393657) (0.490236,1.069269) 
   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: -261857.354407

AIC score: 526428.708813 / AICc score: 4212040.708813 / BIC score: 533424.581595
Free parameters (model + branch lengths): 1357

WARNING: Number of free parameters (K=1357) is larger than alignment size (n=1281).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 42 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O14529/3_mltree/O14529.raxml.log

Analysis started: 14-Jul-2021 22:08:05 / finished: 15-Jul-2021 17:04:13

Elapsed time: 68168.362 seconds

Consumed energy: 6371.383 Wh (= 32 km in an electric car, or 159 km with an e-scooter!)