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 05-Jul-2021 09:19:50 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/2_msa/Q6S545_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545 --seed 2 --threads 3 --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 (3 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/2_msa/Q6S545_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1000 taxa and 132 sites

WARNING: Sequences tr_A0A0J9YUH2_A0A0J9YUH2_MOUSE_10090 and tr_A0A0J9YUZ3_A0A0J9YUZ3_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_A0A1B0GRY3_A0A1B0GRY3_MOUSE_10090 and tr_A5H0M4_A5H0M4_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_D3Z1P8_D3Z1P8_MOUSE_10090 and tr_E9Q637_E9Q637_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_D3Z1P8_D3Z1P8_MOUSE_10090 and tr_Q8C646_Q8C646_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_G3SDY7_G3SDY7_GORGO_9595 and sp_Q9BXX2_AN30B_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3SF15_G3SF15_GORGO_9595 and tr_A0A2I3SVD9_A0A2I3SVD9_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3SF15_G3SF15_GORGO_9595 and sp_Q92527_ANKR7_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3SF15_G3SF15_GORGO_9595 and tr_A0A2R8ZJB4_A0A2R8ZJB4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A2DYJ2_A2DYJ2_TRIVA_5722 and tr_A2H6U0_A2H6U0_TRIVA_5722 are exactly identical!
WARNING: Sequences tr_H2NA10_H2NA10_PONAB_9601 and sp_Q9UPS8_ANR26_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_B8NP47_B8NP47_ASPFN_332952 and tr_Q2UN28_Q2UN28_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8NP47_B8NP47_ASPFN_332952 and tr_A0A1S9D6L7_A0A1S9D6L7_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_B8NQZ3_B8NQZ3_ASPFN_332952 and tr_A0A1S9DSF0_A0A1S9DSF0_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A2I3RV68_A0A2I3RV68_PANTR_9598 and tr_H2QXB0_H2QXB0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I3TX65_A0A2I3TX65_PANTR_9598 and tr_A0A2R9B0Y1_A0A2R9B0Y1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2Q1R5_H2Q1R5_PANTR_9598 and tr_A0A2R9CCJ6_A0A2R9CCJ6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2Q911_H2Q911_PANTR_9598 and tr_H2R3T8_H2R3T8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_H2QW47_H2QW47_PANTR_9598 and sp_A5A3E0_POTEF_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2QW47_H2QW47_PANTR_9598 and sp_Q6S8J3_POTEE_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2QW47_H2QW47_PANTR_9598 and tr_A0A2R9BFN4_A0A2R9BFN4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9G1X8_F9G1X8_FUSOF_660025 and tr_A0A2H3TE96_A0A2H3TE96_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9G1X8_F9G1X8_FUSOF_660025 and tr_A0A2H3GZR6_A0A2H3GZR6_FUSOX_327505 are exactly identical!
WARNING: Sequences sp_A0A0A6YYL3_POTEB_HUMAN_9606 and sp_H3BUK9_POTB2_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_P0CG38_POTEI_HUMAN_9606 and sp_P0CG39_POTEJ_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_Q5SQ80_A20A2_HUMAN_9606 and sp_Q5VUR7_A20A3_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_Q6S545_POTEH_HUMAN_9606 and sp_Q6S5H5_POTEG_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_Q2UGY0_Q2UGY0_ASPOR_510516 and tr_A0A1S9DZ77_A0A1S9DZ77_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A1D5QJP5_A0A1D5QJP5_MACMU_9544 and tr_A0A2K6BGE0_A0A2K6BGE0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6YRT5_F6YRT5_MACMU_9544 and tr_A0A2K6BMD6_A0A2K6BMD6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7EQ89_F7EQ89_MACMU_9544 and tr_A0A2K6DX39_A0A2K6DX39_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7PWC3_G7PWC3_MACFA_9541 and tr_A0A2K6C8C2_A0A2K6C8C2_MACNE_9545 are exactly identical!
WARNING: Sequences tr_W2QWB3_W2QWB3_PHYPN_761204 and tr_W2KB29_W2KB29_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A096MVX0_A0A096MVX0_PAPAN_9555 and tr_A0A2K5KKK9_A0A2K5KKK9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A0D9RFY7_A0A0D9RFY7_CHLSB_60711 and tr_A0A2K6BC05_A0A2K6BC05_MACNE_9545 are exactly identical!
WARNING: Duplicate sequences found: 34

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/Q6S545/3_mltree/Q6S545.raxml.reduced.phy

Alignment comprises 1 partitions and 132 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 132 / 132
Gaps: 7.20 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.rba

Parallelization scheme autoconfig: 3 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 1000 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 132 / 10560
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -245006.726280] Initial branch length optimization
[00:00:03 -209167.667694] Model parameter optimization (eps = 10.000000)
[00:00:35 -208850.416609] AUTODETECT spr round 1 (radius: 5)
[00:02:47 -168698.413301] AUTODETECT spr round 2 (radius: 10)
[00:05:15 -141077.883268] AUTODETECT spr round 3 (radius: 15)
[00:07:59 -129373.701556] AUTODETECT spr round 4 (radius: 20)
[00:11:05 -124830.615224] AUTODETECT spr round 5 (radius: 25)
[00:14:35 -123379.726438] SPR radius for FAST iterations: 25 (autodetect)
[00:14:35 -123379.726438] Model parameter optimization (eps = 3.000000)
[00:14:41 -123378.727827] FAST spr round 1 (radius: 25)
[00:19:27 -115878.274431] FAST spr round 2 (radius: 25)
[00:23:00 -115143.519123] FAST spr round 3 (radius: 25)
[00:25:50 -115036.934685] FAST spr round 4 (radius: 25)
[00:28:20 -114998.741230] FAST spr round 5 (radius: 25)
[00:30:30 -114996.265291] FAST spr round 6 (radius: 25)
[00:32:32 -114996.263438] Model parameter optimization (eps = 1.000000)
[00:32:37 -114996.224419] SLOW spr round 1 (radius: 5)
[00:35:19 -114963.639538] SLOW spr round 2 (radius: 5)
[00:38:04 -114962.100653] SLOW spr round 3 (radius: 5)
[00:40:29 -114962.099167] SLOW spr round 4 (radius: 10)
[00:43:02 -114955.137137] SLOW spr round 5 (radius: 5)
[00:45:54 -114952.756273] SLOW spr round 6 (radius: 5)
[00:48:37 -114952.236450] SLOW spr round 7 (radius: 5)
[00:51:09 -114948.982945] SLOW spr round 8 (radius: 5)
[00:53:42 -114948.982573] SLOW spr round 9 (radius: 10)
[00:56:11 -114947.961464] SLOW spr round 10 (radius: 5)
[00:59:16 -114944.792798] SLOW spr round 11 (radius: 5)
[01:02:01 -114944.792770] SLOW spr round 12 (radius: 10)
[01:04:47 -114944.490474] SLOW spr round 13 (radius: 5)
[01:07:43 -114944.264239] SLOW spr round 14 (radius: 5)
[01:10:17 -114943.957606] SLOW spr round 15 (radius: 5)
[01:12:43 -114943.957602] SLOW spr round 16 (radius: 10)
[01:15:13 -114943.957601] SLOW spr round 17 (radius: 15)
[01:19:42 -114938.693696] SLOW spr round 18 (radius: 5)
[01:23:28 -114931.913440] SLOW spr round 19 (radius: 5)
[01:26:14 -114926.109021] SLOW spr round 20 (radius: 5)
[01:28:43 -114925.843559] SLOW spr round 21 (radius: 5)
[01:31:13 -114923.003475] SLOW spr round 22 (radius: 5)
[01:33:35 -114923.003008] SLOW spr round 23 (radius: 10)
[01:36:01 -114922.059433] SLOW spr round 24 (radius: 5)
[01:38:50 -114922.059021] SLOW spr round 25 (radius: 10)
[01:41:38 -114921.247140] SLOW spr round 26 (radius: 5)
[01:44:33 -114920.670129] SLOW spr round 27 (radius: 5)
[01:47:18 -114920.670080] SLOW spr round 28 (radius: 10)
[01:50:01 -114917.963013] SLOW spr round 29 (radius: 5)
[01:53:08 -114915.838312] SLOW spr round 30 (radius: 5)
[01:55:53 -114915.837949] SLOW spr round 31 (radius: 10)
[01:58:28 -114915.837943] SLOW spr round 32 (radius: 15)
[02:02:46 -114913.689734] SLOW spr round 33 (radius: 5)
[02:05:42 -114913.350735] SLOW spr round 34 (radius: 5)
[02:08:19 -114912.851395] SLOW spr round 35 (radius: 5)
[02:10:47 -114912.851341] SLOW spr round 36 (radius: 10)
[02:13:15 -114912.851339] SLOW spr round 37 (radius: 15)
[02:17:38 -114912.851339] SLOW spr round 38 (radius: 20)
[02:23:02 -114912.143587] SLOW spr round 39 (radius: 5)
[02:26:00 -114912.143063] SLOW spr round 40 (radius: 10)
[02:29:02 -114911.200129] SLOW spr round 41 (radius: 5)
[02:31:46 -114911.162209] SLOW spr round 42 (radius: 10)
[02:34:28 -114911.161967] SLOW spr round 43 (radius: 15)
[02:38:36 -114910.960208] SLOW spr round 44 (radius: 5)
[02:40:12] [worker #2] ML tree search #3, logLikelihood: -114962.474117
[02:41:29 -114910.691049] SLOW spr round 45 (radius: 5)
[02:44:05 -114910.657856] SLOW spr round 46 (radius: 10)
[02:46:39 -114910.657775] SLOW spr round 47 (radius: 15)
[02:50:52 -114910.657769] SLOW spr round 48 (radius: 20)
[02:56:16 -114910.657768] SLOW spr round 49 (radius: 25)
[03:02:20 -114908.176628] SLOW spr round 50 (radius: 5)
[03:05:33 -114903.680809] SLOW spr round 51 (radius: 5)
[03:08:28 -114900.975404] SLOW spr round 52 (radius: 5)
[03:11:08 -114900.975211] SLOW spr round 53 (radius: 10)
[03:13:49 -114900.975210] SLOW spr round 54 (radius: 15)
[03:18:22 -114900.948950] SLOW spr round 55 (radius: 20)
[03:23:49 -114900.948896] SLOW spr round 56 (radius: 25)
[03:30:22 -114900.948895] Model parameter optimization (eps = 0.100000)

[03:30:24] [worker #0] ML tree search #1, logLikelihood: -114900.948838

[03:30:24 -246147.797687] Initial branch length optimization
[03:30:27 -209623.154271] Model parameter optimization (eps = 10.000000)
[03:31:11 -209328.265132] AUTODETECT spr round 1 (radius: 5)
[03:33:31 -169050.806501] AUTODETECT spr round 2 (radius: 10)
[03:36:12 -141508.109498] AUTODETECT spr round 3 (radius: 15)
[03:39:09 -131454.575373] AUTODETECT spr round 4 (radius: 20)
[03:42:22 -128892.558123] AUTODETECT spr round 5 (radius: 25)
[03:46:05 -127541.040607] SPR radius for FAST iterations: 25 (autodetect)
[03:46:05 -127541.040607] Model parameter optimization (eps = 3.000000)
[03:46:21 -127388.067111] FAST spr round 1 (radius: 25)
[03:51:11 -116520.067027] FAST spr round 2 (radius: 25)
[03:54:34 -115529.578834] FAST spr round 3 (radius: 25)
[03:57:06 -115312.559413] FAST spr round 4 (radius: 25)
[03:59:22 -115273.006980] FAST spr round 5 (radius: 25)
[04:01:30 -115012.473128] FAST spr round 6 (radius: 25)
[04:03:32 -114998.948984] FAST spr round 7 (radius: 25)
[04:05:34 -114996.782816] FAST spr round 8 (radius: 25)
[04:07:39 -114996.056485] FAST spr round 9 (radius: 25)
[04:09:41 -114996.055345] Model parameter optimization (eps = 1.000000)
[04:09:53 -114988.340345] SLOW spr round 1 (radius: 5)
[04:12:36 -114939.294900] SLOW spr round 2 (radius: 5)
[04:15:13 -114938.182450] SLOW spr round 3 (radius: 5)
[04:17:49 -114935.533356] SLOW spr round 4 (radius: 5)
[04:20:14 -114935.532993] SLOW spr round 5 (radius: 10)
[04:22:52 -114918.024196] SLOW spr round 6 (radius: 5)
[04:25:52 -114911.385972] SLOW spr round 7 (radius: 5)
[04:28:36 -114909.317239] SLOW spr round 8 (radius: 5)
[04:31:11 -114909.317151] SLOW spr round 9 (radius: 10)
[04:33:46 -114907.827782] SLOW spr round 10 (radius: 5)
[04:36:41 -114906.859139] SLOW spr round 11 (radius: 5)
[04:39:14 -114906.859104] SLOW spr round 12 (radius: 10)
[04:41:47 -114904.514217] SLOW spr round 13 (radius: 5)
[04:44:34 -114904.513683] SLOW spr round 14 (radius: 10)
[04:47:21 -114903.983604] SLOW spr round 15 (radius: 5)
[04:50:12 -114903.897998] SLOW spr round 16 (radius: 10)
[04:53:06 -114903.573766] SLOW spr round 17 (radius: 5)
[04:55:56 -114903.105012] SLOW spr round 18 (radius: 5)
[04:58:40 -114903.105001] SLOW spr round 19 (radius: 10)
[05:01:13 -114903.105001] SLOW spr round 20 (radius: 15)
[05:05:17 -114903.105001] SLOW spr round 21 (radius: 20)
[05:10:44 -114896.589657] SLOW spr round 22 (radius: 5)
[05:13:45 -114892.028063] SLOW spr round 23 (radius: 5)
[05:16:21 -114892.027585] SLOW spr round 24 (radius: 10)
[05:19:04 -114892.027503] SLOW spr round 25 (radius: 15)
[05:23:29 -114891.937986] SLOW spr round 26 (radius: 20)
[05:29:17 -114891.487457] SLOW spr round 27 (radius: 5)
[05:32:34 -114886.626516] SLOW spr round 28 (radius: 5)
[05:35:28 -114886.626359] SLOW spr round 29 (radius: 10)
[05:38:21 -114885.583385] SLOW spr round 30 (radius: 5)
[05:41:23 -114885.052282] SLOW spr round 31 (radius: 5)
[05:41:57] [worker #1] ML tree search #2, logLikelihood: -115073.388143
[05:44:14 -114885.052275] SLOW spr round 32 (radius: 10)
[05:47:21 -114885.052275] SLOW spr round 33 (radius: 15)
[05:51:51 -114885.052275] SLOW spr round 34 (radius: 20)
[05:57:40 -114884.935876] SLOW spr round 35 (radius: 5)
[06:00:55 -114884.614803] SLOW spr round 36 (radius: 5)
[06:03:51 -114884.614747] SLOW spr round 37 (radius: 10)
[06:06:42 -114884.614743] SLOW spr round 38 (radius: 15)
[06:11:11 -114884.587217] SLOW spr round 39 (radius: 20)
[06:17:04 -114884.583921] SLOW spr round 40 (radius: 25)
[06:23:52 -114869.293413] SLOW spr round 41 (radius: 5)
[06:27:13 -114869.277133] SLOW spr round 42 (radius: 10)
[06:30:37 -114869.277105] SLOW spr round 43 (radius: 15)
[06:35:00 -114869.277101] SLOW spr round 44 (radius: 20)
[06:41:05 -114869.277100] SLOW spr round 45 (radius: 25)
[06:47:47 -114869.277099] Model parameter optimization (eps = 0.100000)

[06:47:54] [worker #0] ML tree search #4, logLikelihood: -114869.165176

[06:47:54 -245465.008421] Initial branch length optimization
[06:47:56 -209555.851284] Model parameter optimization (eps = 10.000000)
[06:48:26 -209261.626139] AUTODETECT spr round 1 (radius: 5)
[06:50:45 -167276.945080] AUTODETECT spr round 2 (radius: 10)
[06:53:17 -139245.231450] AUTODETECT spr round 3 (radius: 15)
[06:56:04 -126955.572329] AUTODETECT spr round 4 (radius: 20)
[06:59:08 -124737.953481] AUTODETECT spr round 5 (radius: 25)
[07:02:35 -123082.966654] SPR radius for FAST iterations: 25 (autodetect)
[07:02:35 -123082.966654] Model parameter optimization (eps = 3.000000)
[07:02:41 -123081.211857] FAST spr round 1 (radius: 25)
[07:07:11 -116162.536656] FAST spr round 2 (radius: 25)
[07:10:45 -115619.429329] FAST spr round 3 (radius: 25)
[07:13:44 -115495.408637] FAST spr round 4 (radius: 25)
[07:16:28 -115455.637609] FAST spr round 5 (radius: 25)
[07:18:56 -115437.798335] FAST spr round 6 (radius: 25)
[07:21:18 -115430.001569] FAST spr round 7 (radius: 25)
[07:23:29 -115427.790553] FAST spr round 8 (radius: 25)
[07:25:35 -115427.790478] Model parameter optimization (eps = 1.000000)
[07:25:40 -115427.392872] SLOW spr round 1 (radius: 5)
[07:28:27 -115390.336764] SLOW spr round 2 (radius: 5)
[07:31:06 -115373.988421] SLOW spr round 3 (radius: 5)
[07:33:44 -115361.151023] SLOW spr round 4 (radius: 5)
[07:36:16 -115355.807439] SLOW spr round 5 (radius: 5)
[07:38:47 -115355.807389] SLOW spr round 6 (radius: 10)
[07:41:30 -115350.438756] SLOW spr round 7 (radius: 5)
[07:44:34 -115346.754354] SLOW spr round 8 (radius: 5)
[07:47:22 -115345.904282] SLOW spr round 9 (radius: 5)
[07:50:01 -115342.687326] SLOW spr round 10 (radius: 5)
[07:52:33 -115342.687316] SLOW spr round 11 (radius: 10)
[07:55:12 -115332.048261] SLOW spr round 12 (radius: 5)
[07:58:08 -115330.158423] SLOW spr round 13 (radius: 5)
[07:59:27] [worker #2] ML tree search #6, logLikelihood: -115188.579703
[08:00:49 -115330.158034] SLOW spr round 14 (radius: 10)
[08:03:33 -115327.655307] SLOW spr round 15 (radius: 5)
[08:06:26 -115327.036739] SLOW spr round 16 (radius: 5)
[08:09:05 -115327.036674] SLOW spr round 17 (radius: 10)
[08:11:47 -115325.770012] SLOW spr round 18 (radius: 5)
[08:14:42 -115325.763198] SLOW spr round 19 (radius: 10)
[08:17:39 -115321.693459] SLOW spr round 20 (radius: 5)
[08:20:31 -115321.651957] SLOW spr round 21 (radius: 10)
[08:23:25 -115321.464865] SLOW spr round 22 (radius: 5)
[08:26:17 -115321.464777] SLOW spr round 23 (radius: 10)
[08:29:11 -115321.464776] SLOW spr round 24 (radius: 15)
[08:33:26 -115313.422837] SLOW spr round 25 (radius: 5)
[08:36:31 -115309.759882] SLOW spr round 26 (radius: 5)
[08:39:17 -115307.671867] SLOW spr round 27 (radius: 5)
[08:41:52 -115307.615339] SLOW spr round 28 (radius: 10)
[08:44:34 -115304.323166] SLOW spr round 29 (radius: 5)
[08:47:31 -115303.768431] SLOW spr round 30 (radius: 5)
[08:50:11 -115303.768375] SLOW spr round 31 (radius: 10)
[08:52:54 -115303.768375] SLOW spr round 32 (radius: 15)
[08:57:16 -115302.501657] SLOW spr round 33 (radius: 5)
[09:00:18 -115301.930527] SLOW spr round 34 (radius: 5)
[09:03:01 -115301.930444] SLOW spr round 35 (radius: 10)
[09:05:47 -115301.930439] SLOW spr round 36 (radius: 15)
[09:10:04 -115301.930438] SLOW spr round 37 (radius: 20)
[09:15:17 -115297.010822] SLOW spr round 38 (radius: 5)
[09:18:26 -115295.985725] SLOW spr round 39 (radius: 5)
[09:21:13 -115295.985587] SLOW spr round 40 (radius: 10)
[09:24:01 -115295.985581] SLOW spr round 41 (radius: 15)
[09:28:17 -115295.547099] SLOW spr round 42 (radius: 5)
[09:31:19 -115295.416707] SLOW spr round 43 (radius: 5)
[09:34:02 -115295.416160] SLOW spr round 44 (radius: 10)
[09:36:47 -115295.295582] SLOW spr round 45 (radius: 5)
[09:39:43 -115294.739371] SLOW spr round 46 (radius: 5)
[09:42:23 -115294.739360] SLOW spr round 47 (radius: 10)
[09:45:06 -115293.958669] SLOW spr round 48 (radius: 5)
[09:48:04 -115291.625589] SLOW spr round 49 (radius: 5)
[09:50:46 -115290.600757] SLOW spr round 50 (radius: 5)
[09:53:18 -115290.600250] SLOW spr round 51 (radius: 10)
[09:55:55 -115290.090747] SLOW spr round 52 (radius: 5)
[09:58:50 -115289.066528] SLOW spr round 53 (radius: 5)
[10:01:30 -115289.065273] SLOW spr round 54 (radius: 10)
[10:04:12 -115289.065258] SLOW spr round 55 (radius: 15)
[10:08:31 -115289.065257] SLOW spr round 56 (radius: 20)
[10:13:42 -115284.840890] SLOW spr round 57 (radius: 5)
[10:16:48 -115284.040214] SLOW spr round 58 (radius: 5)
[10:19:35 -115283.566837] SLOW spr round 59 (radius: 5)
[10:22:10 -115283.565533] SLOW spr round 60 (radius: 10)
[10:24:50 -115282.613929] SLOW spr round 61 (radius: 5)
[10:27:44 -115282.613664] SLOW spr round 62 (radius: 10)
[10:30:41 -115282.613651] SLOW spr round 63 (radius: 15)
[10:34:34 -115282.613651] SLOW spr round 64 (radius: 20)
[10:39:19 -115282.613650] SLOW spr round 65 (radius: 25)
[10:44:24 -115263.204795] SLOW spr round 66 (radius: 5)
[10:47:18 -115155.096396] SLOW spr round 67 (radius: 5)
[10:49:52 -115151.759183] SLOW spr round 68 (radius: 5)
[10:52:14 -115148.102927] SLOW spr round 69 (radius: 5)
[10:54:27 -115147.994581] SLOW spr round 70 (radius: 5)
[10:56:35 -115147.994436] SLOW spr round 71 (radius: 10)
[10:58:49 -115147.260785] SLOW spr round 72 (radius: 5)
[11:01:24 -115146.828805] SLOW spr round 73 (radius: 5)
[11:04:06 -115145.624881] SLOW spr round 74 (radius: 5)
[11:06:45 -115145.508845] SLOW spr round 75 (radius: 5)
[11:09:17 -115145.508379] SLOW spr round 76 (radius: 10)
[11:11:56 -115143.189461] SLOW spr round 77 (radius: 5)
[11:14:56 -115142.068193] SLOW spr round 78 (radius: 5)
[11:15:02] [worker #1] ML tree search #5, logLikelihood: -114767.356248
[11:17:39 -115142.068122] SLOW spr round 79 (radius: 10)
[11:20:23 -115142.068122] SLOW spr round 80 (radius: 15)
[11:24:47 -115142.068122] SLOW spr round 81 (radius: 20)
[11:30:01 -115140.584988] SLOW spr round 82 (radius: 5)
[11:33:10 -115140.163516] SLOW spr round 83 (radius: 5)
[11:35:56 -115140.163298] SLOW spr round 84 (radius: 10)
[11:38:49 -115140.163296] SLOW spr round 85 (radius: 15)
[11:43:11 -115140.163296] SLOW spr round 86 (radius: 20)
[11:48:24 -115140.163296] SLOW spr round 87 (radius: 25)
[11:54:08 -115014.801210] SLOW spr round 88 (radius: 5)
[11:57:17 -115010.547607] SLOW spr round 89 (radius: 5)
[12:00:05 -115010.547578] SLOW spr round 90 (radius: 10)
[12:02:54 -115010.547578] SLOW spr round 91 (radius: 15)
[12:07:19 -115010.547578] SLOW spr round 92 (radius: 20)
[12:13:13 -115007.968802] SLOW spr round 93 (radius: 5)
[12:16:17 -115007.968797] SLOW spr round 94 (radius: 10)
[12:19:32 -115007.968797] SLOW spr round 95 (radius: 15)
[12:23:41 -115007.968797] SLOW spr round 96 (radius: 20)
[12:28:56 -115007.968797] SLOW spr round 97 (radius: 25)
[12:34:34 -115007.968797] Model parameter optimization (eps = 0.100000)

[12:34:39] [worker #0] ML tree search #7, logLikelihood: -115007.869506

[12:34:40 -245024.023138] Initial branch length optimization
[12:34:42 -209138.322502] Model parameter optimization (eps = 10.000000)
[12:35:26 -208836.515098] AUTODETECT spr round 1 (radius: 5)
[12:37:52 -168852.035407] AUTODETECT spr round 2 (radius: 10)
[12:40:50 -141035.402416] AUTODETECT spr round 3 (radius: 15)
[12:43:55 -130144.548062] AUTODETECT spr round 4 (radius: 20)
[12:47:29 -126972.824180] AUTODETECT spr round 5 (radius: 25)
[12:51:24 -125209.712573] SPR radius for FAST iterations: 25 (autodetect)
[12:51:24 -125209.712573] Model parameter optimization (eps = 3.000000)
[12:51:42 -125037.110986] FAST spr round 1 (radius: 25)
[12:56:39 -117353.394764] FAST spr round 2 (radius: 25)
[13:00:29 -116496.645725] FAST spr round 3 (radius: 25)
[13:03:34 -116218.811047] FAST spr round 4 (radius: 25)
[13:06:09 -116020.005326] FAST spr round 5 (radius: 25)
[13:08:40 -115997.785496] FAST spr round 6 (radius: 25)
[13:10:59 -115994.685875] FAST spr round 7 (radius: 25)
[13:13:13 -115993.927164] FAST spr round 8 (radius: 25)
[13:15:26 -115993.926559] Model parameter optimization (eps = 1.000000)
[13:15:38 -115989.423099] SLOW spr round 1 (radius: 5)
[13:18:37 -115957.218964] SLOW spr round 2 (radius: 5)
[13:21:30 -115951.056892] SLOW spr round 3 (radius: 5)
[13:24:12 -115951.055555] SLOW spr round 4 (radius: 10)
[13:27:02 -115945.743409] SLOW spr round 5 (radius: 5)
[13:30:18 -115944.648576] SLOW spr round 6 (radius: 5)
[13:33:14 -115944.648521] SLOW spr round 7 (radius: 10)
[13:36:10 -115944.044555] SLOW spr round 8 (radius: 5)
[13:39:22 -115943.711345] SLOW spr round 9 (radius: 5)
[13:42:19 -115941.889151] SLOW spr round 10 (radius: 5)
[13:45:05 -115941.888534] SLOW spr round 11 (radius: 10)
[13:47:55 -115941.525778] SLOW spr round 12 (radius: 5)
[13:51:06 -115941.525645] SLOW spr round 13 (radius: 10)
[13:54:16 -115941.525643] SLOW spr round 14 (radius: 15)
[13:58:39 -115940.987140] SLOW spr round 15 (radius: 5)
[14:01:55 -115940.987095] SLOW spr round 16 (radius: 10)
[14:05:14 -115940.987069] SLOW spr round 17 (radius: 15)
[14:09:33 -115940.787402] SLOW spr round 18 (radius: 5)
[14:12:52 -115938.923488] SLOW spr round 19 (radius: 5)
[14:15:50 -115938.923262] SLOW spr round 20 (radius: 10)
[14:18:48 -115938.923258] SLOW spr round 21 (radius: 15)
[14:19:49] [worker #2] ML tree search #9, logLikelihood: -114683.165514
[14:23:19 -115938.750715] SLOW spr round 22 (radius: 5)
[14:26:37 -115937.287660] SLOW spr round 23 (radius: 5)
[14:29:35 -115937.287613] SLOW spr round 24 (radius: 10)
[14:32:34 -115931.026706] SLOW spr round 25 (radius: 5)
[14:35:44 -115928.095425] SLOW spr round 26 (radius: 5)
[14:38:35 -115927.452383] SLOW spr round 27 (radius: 5)
[14:41:18 -115927.452326] SLOW spr round 28 (radius: 10)
[14:44:06 -115925.660916] SLOW spr round 29 (radius: 5)
[14:47:14 -115925.660840] SLOW spr round 30 (radius: 10)
[14:50:22 -115925.660839] SLOW spr round 31 (radius: 15)
[14:54:37 -115925.660839] SLOW spr round 32 (radius: 20)
[15:00:12 -115922.436468] SLOW spr round 33 (radius: 5)
[15:03:34 -115919.957489] SLOW spr round 34 (radius: 5)
[15:06:34 -115919.957156] SLOW spr round 35 (radius: 10)
[15:09:32 -115917.267876] SLOW spr round 36 (radius: 5)
[15:12:40 -115912.159981] SLOW spr round 37 (radius: 5)
[15:15:32 -115910.865571] SLOW spr round 38 (radius: 5)
[15:18:15 -115910.865557] SLOW spr round 39 (radius: 10)
[15:21:01 -115910.865556] SLOW spr round 40 (radius: 15)
[15:25:35 -115910.865555] SLOW spr round 41 (radius: 20)
[15:31:07 -115908.265756] SLOW spr round 42 (radius: 5)
[15:34:27 -115906.653805] SLOW spr round 43 (radius: 5)
[15:37:26 -115906.653511] SLOW spr round 44 (radius: 10)
[15:40:26 -115904.418247] SLOW spr round 45 (radius: 5)
[15:43:10 -115904.017864] SLOW spr round 46 (radius: 5)
[15:45:29 -115901.698588] SLOW spr round 47 (radius: 5)
[15:47:57 -115901.698159] SLOW spr round 48 (radius: 10)
[15:50:33 -115900.851700] SLOW spr round 49 (radius: 5)
[15:53:31 -115899.859403] SLOW spr round 50 (radius: 5)
[15:56:13 -115899.845792] SLOW spr round 51 (radius: 10)
[15:58:55 -115899.478690] SLOW spr round 52 (radius: 5)
[16:01:52 -115899.477922] SLOW spr round 53 (radius: 10)
[16:04:47 -115899.477913] SLOW spr round 54 (radius: 15)
[16:08:46 -115899.477912] SLOW spr round 55 (radius: 20)
[16:13:58 -115899.477912] SLOW spr round 56 (radius: 25)
[16:19:47 -115897.590575] SLOW spr round 57 (radius: 5)
[16:22:59 -115820.715094] SLOW spr round 58 (radius: 5)
[16:25:53 -115768.623204] SLOW spr round 59 (radius: 5)
[16:28:45 -115768.622862] SLOW spr round 60 (radius: 10)
[16:31:31 -115768.622857] SLOW spr round 61 (radius: 15)
[16:35:58 -115768.622856] SLOW spr round 62 (radius: 20)
[16:41:26 -115766.749564] SLOW spr round 63 (radius: 5)
[16:44:43 -115766.114064] SLOW spr round 64 (radius: 5)
[16:47:49 -115691.479221] SLOW spr round 65 (radius: 5)
[16:50:36 -115691.479157] SLOW spr round 66 (radius: 10)
[16:53:26 -115691.479156] SLOW spr round 67 (radius: 15)
[16:57:57 -115691.479155] SLOW spr round 68 (radius: 20)
[17:03:29 -115691.479155] SLOW spr round 69 (radius: 25)
[17:09:43 -115691.479154] Model parameter optimization (eps = 0.100000)

[17:09:50] [worker #0] ML tree search #10, logLikelihood: -115691.448164

[17:09:50 -246337.387509] Initial branch length optimization
[17:09:53 -209721.759263] Model parameter optimization (eps = 10.000000)
[17:10:24 -209424.270226] AUTODETECT spr round 1 (radius: 5)
[17:13:00 -168835.978409] AUTODETECT spr round 2 (radius: 10)
[17:15:56 -142286.611998] AUTODETECT spr round 3 (radius: 15)
[17:19:10 -131433.020720] AUTODETECT spr round 4 (radius: 20)
[17:22:31 -125910.288087] AUTODETECT spr round 5 (radius: 25)
[17:26:13 -123233.019907] SPR radius for FAST iterations: 25 (autodetect)
[17:26:13 -123233.019907] Model parameter optimization (eps = 3.000000)
[17:26:37 -123038.603609] FAST spr round 1 (radius: 25)
[17:31:34 -115632.897397] FAST spr round 2 (radius: 25)
[17:35:20 -115154.012019] FAST spr round 3 (radius: 25)
[17:38:24 -114906.890287] FAST spr round 4 (radius: 25)
[17:41:10 -114887.299344] FAST spr round 5 (radius: 25)
[17:43:37 -114884.097832] FAST spr round 6 (radius: 25)
[17:45:56 -114884.097754] Model parameter optimization (eps = 1.000000)
[17:46:18 -114879.605831] SLOW spr round 1 (radius: 5)
[17:49:23 -114834.410376] SLOW spr round 2 (radius: 5)
[17:52:19 -114829.776635] SLOW spr round 3 (radius: 5)
[17:55:12 -114825.052033] SLOW spr round 4 (radius: 5)
[17:58:01 -114820.108598] SLOW spr round 5 (radius: 5)
[18:00:51 -114818.572936] SLOW spr round 6 (radius: 5)
[18:03:33 -114818.572799] SLOW spr round 7 (radius: 10)
[18:06:28 -114810.731111] SLOW spr round 8 (radius: 5)
[18:09:50 -114807.486536] SLOW spr round 9 (radius: 5)
[18:12:50 -114807.486357] SLOW spr round 10 (radius: 10)
[18:15:50 -114806.706014] SLOW spr round 11 (radius: 5)
[18:19:02 -114806.705741] SLOW spr round 12 (radius: 10)
[18:22:17 -114806.640444] SLOW spr round 13 (radius: 15)
[18:27:02 -114804.738619] SLOW spr round 14 (radius: 5)
[18:30:30 -114795.884567] SLOW spr round 15 (radius: 5)
[18:33:30 -114795.884220] SLOW spr round 16 (radius: 10)
[18:36:30 -114795.884216] SLOW spr round 17 (radius: 15)
[18:41:21 -114793.876865] SLOW spr round 18 (radius: 5)
[18:44:45 -114793.668365] SLOW spr round 19 (radius: 5)
[18:47:43 -114793.668146] SLOW spr round 20 (radius: 10)
[18:50:42 -114793.537474] SLOW spr round 21 (radius: 5)
[18:53:52 -114793.536758] SLOW spr round 22 (radius: 10)
[18:57:03 -114793.536687] SLOW spr round 23 (radius: 15)
[19:01:39 -114793.536670] SLOW spr round 24 (radius: 20)
[19:05:30] [worker #1] ML tree search #8, logLikelihood: -114937.722703
[19:07:57 -114791.706696] SLOW spr round 25 (radius: 5)
[19:11:18 -114791.706346] SLOW spr round 26 (radius: 10)
[19:14:50 -114790.154191] SLOW spr round 27 (radius: 5)
[19:18:05 -114784.517439] SLOW spr round 28 (radius: 5)
[19:21:06 -114779.737565] SLOW spr round 29 (radius: 5)
[19:24:01 -114775.345695] SLOW spr round 30 (radius: 5)
[19:26:55 -114774.319641] SLOW spr round 31 (radius: 5)
[19:29:35 -114774.317860] SLOW spr round 32 (radius: 10)
[19:32:24 -114774.301832] SLOW spr round 33 (radius: 15)
[19:37:26 -114771.920299] SLOW spr round 34 (radius: 5)
[19:40:52 -114770.259616] SLOW spr round 35 (radius: 5)
[19:43:54 -114770.259002] SLOW spr round 36 (radius: 10)
[19:46:56 -114770.026228] SLOW spr round 37 (radius: 5)
[19:50:08 -114770.025973] SLOW spr round 38 (radius: 10)
[19:53:15 -114770.025971] SLOW spr round 39 (radius: 15)
[19:57:36 -114768.252329] SLOW spr round 40 (radius: 5)
[20:00:49 -114765.060353] SLOW spr round 41 (radius: 5)
[20:03:44 -114763.291602] SLOW spr round 42 (radius: 5)
[20:06:29 -114761.166522] SLOW spr round 43 (radius: 5)
[20:09:06 -114761.053459] SLOW spr round 44 (radius: 5)
[20:11:39 -114761.053186] SLOW spr round 45 (radius: 10)
[20:14:17 -114761.053175] SLOW spr round 46 (radius: 15)
[20:18:56 -114761.053175] SLOW spr round 47 (radius: 20)
[20:24:46 -114761.053174] SLOW spr round 48 (radius: 25)
[20:31:23 -114760.181707] SLOW spr round 49 (radius: 5)
[20:34:33 -114760.181654] SLOW spr round 50 (radius: 10)
[20:37:52 -114760.181653] SLOW spr round 51 (radius: 15)
[20:42:08 -114760.181653] SLOW spr round 52 (radius: 20)
[20:48:08 -114760.181652] SLOW spr round 53 (radius: 25)
[20:54:50 -114759.405401] SLOW spr round 54 (radius: 5)
[20:58:01 -114758.810737] SLOW spr round 55 (radius: 5)
[21:01:30 -114758.809843] SLOW spr round 56 (radius: 10)
[21:05:01 -114758.809839] SLOW spr round 57 (radius: 15)
[21:09:25 -114758.809839] SLOW spr round 58 (radius: 20)
[21:15:20 -114758.809838] SLOW spr round 59 (radius: 25)
[21:21:57 -114758.809838] Model parameter optimization (eps = 0.100000)

[21:22:07] [worker #0] ML tree search #13, logLikelihood: -114758.281169

[21:22:07 -245519.926272] Initial branch length optimization
[21:22:11 -209025.399644] Model parameter optimization (eps = 10.000000)
[21:22:41 -208748.895582] AUTODETECT spr round 1 (radius: 5)
[21:25:05 -169064.252559] AUTODETECT spr round 2 (radius: 10)
[21:27:51 -141530.014500] AUTODETECT spr round 3 (radius: 15)
[21:30:59 -129015.929136] AUTODETECT spr round 4 (radius: 20)
[21:34:14 -125240.208824] AUTODETECT spr round 5 (radius: 25)
[21:37:33 -123995.505890] SPR radius for FAST iterations: 25 (autodetect)
[21:37:33 -123995.505890] Model parameter optimization (eps = 3.000000)
[21:38:00 -123830.836895] FAST spr round 1 (radius: 25)
[21:42:44 -115742.606545] FAST spr round 2 (radius: 25)
[21:46:16 -115011.125285] FAST spr round 3 (radius: 25)
[21:48:29] [worker #2] ML tree search #12, logLikelihood: -114976.829414
[21:49:06 -114897.224560] FAST spr round 4 (radius: 25)
[21:51:35 -114881.176957] FAST spr round 5 (radius: 25)
[21:53:53 -114868.500910] FAST spr round 6 (radius: 25)
[21:56:02 -114866.927420] FAST spr round 7 (radius: 25)
[21:58:08 -114866.926635] Model parameter optimization (eps = 1.000000)
[21:58:20 -114863.233516] SLOW spr round 1 (radius: 5)
[22:01:10 -114834.219035] SLOW spr round 2 (radius: 5)
[22:03:54 -114830.235466] SLOW spr round 3 (radius: 5)
[22:06:31 -114828.760223] SLOW spr round 4 (radius: 5)
[22:09:04 -114828.759360] SLOW spr round 5 (radius: 10)
[22:11:46 -114824.370315] SLOW spr round 6 (radius: 5)
[22:14:52 -114821.078619] SLOW spr round 7 (radius: 5)
[22:17:38 -114821.077716] SLOW spr round 8 (radius: 10)
[22:20:22 -114820.453421] SLOW spr round 9 (radius: 5)
[22:23:22 -114820.453278] SLOW spr round 10 (radius: 10)
[22:26:18 -114820.020559] SLOW spr round 11 (radius: 5)
[22:29:20 -114817.107873] SLOW spr round 12 (radius: 5)
[22:32:04 -114817.106739] SLOW spr round 13 (radius: 10)
[22:34:43 -114816.962591] SLOW spr round 14 (radius: 5)
[22:37:42 -114815.767587] SLOW spr round 15 (radius: 5)
[22:40:27 -114815.767345] SLOW spr round 16 (radius: 10)
[22:43:08 -114815.767341] SLOW spr round 17 (radius: 15)
[22:47:26 -114813.122272] SLOW spr round 18 (radius: 5)
[22:50:31 -114813.121911] SLOW spr round 19 (radius: 10)
[22:53:33 -114813.121904] SLOW spr round 20 (radius: 15)
[22:57:36 -114812.500033] SLOW spr round 21 (radius: 5)
[23:00:42 -114811.944234] SLOW spr round 22 (radius: 5)
[23:03:31 -114811.860422] SLOW spr round 23 (radius: 10)
[23:06:14 -114811.860130] SLOW spr round 24 (radius: 15)
[23:10:27 -114809.750360] SLOW spr round 25 (radius: 5)
[23:13:30 -114809.327217] SLOW spr round 26 (radius: 5)
[23:16:16 -114809.326929] SLOW spr round 27 (radius: 10)
[23:19:00 -114807.024255] SLOW spr round 28 (radius: 5)
[23:21:58 -114805.110747] SLOW spr round 29 (radius: 5)
[23:24:43 -114803.665596] SLOW spr round 30 (radius: 5)
[23:27:22 -114800.712521] SLOW spr round 31 (radius: 5)
[23:29:56 -114800.712416] SLOW spr round 32 (radius: 10)
[23:32:36 -114794.164833] SLOW spr round 33 (radius: 5)
[23:35:44 -114785.535089] SLOW spr round 34 (radius: 5)
[23:38:33 -114785.348398] SLOW spr round 35 (radius: 5)
[23:41:14 -114784.612532] SLOW spr round 36 (radius: 5)
[23:43:50 -114784.612525] SLOW spr round 37 (radius: 10)
[23:46:27 -114783.398193] SLOW spr round 38 (radius: 5)
[23:49:33 -114781.871402] SLOW spr round 39 (radius: 5)
[23:52:22 -114781.782058] SLOW spr round 40 (radius: 10)
[23:55:04 -114781.781879] SLOW spr round 41 (radius: 15)
[23:59:24 -114781.463195] SLOW spr round 42 (radius: 5)
[24:02:29 -114781.266602] SLOW spr round 43 (radius: 5)
[24:05:16 -114781.266599] SLOW spr round 44 (radius: 10)
[24:07:59 -114781.266599] SLOW spr round 45 (radius: 15)
[24:12:15 -114780.236795] SLOW spr round 46 (radius: 5)
[24:15:18 -114780.236791] SLOW spr round 47 (radius: 10)
[24:18:18 -114780.236791] SLOW spr round 48 (radius: 15)
[24:22:23 -114780.236790] SLOW spr round 49 (radius: 20)
[24:27:44 -114776.567063] SLOW spr round 50 (radius: 5)
[24:30:52 -114775.956094] SLOW spr round 51 (radius: 5)
[24:33:40 -114775.956067] SLOW spr round 52 (radius: 10)
[24:36:25 -114774.006834] SLOW spr round 53 (radius: 5)
[24:39:22 -114774.006525] SLOW spr round 54 (radius: 10)
[24:42:15 -114774.006518] SLOW spr round 55 (radius: 15)
[24:46:19 -114774.006517] SLOW spr round 56 (radius: 20)
[24:51:28 -114774.006517] SLOW spr round 57 (radius: 25)
[24:56:58 -114773.459785] SLOW spr round 58 (radius: 5)
[25:00:05 -114770.713522] SLOW spr round 59 (radius: 5)
[25:02:53 -114770.713514] SLOW spr round 60 (radius: 10)
[25:05:36 -114770.060576] SLOW spr round 61 (radius: 5)
[25:08:32 -114770.015292] SLOW spr round 62 (radius: 10)
[25:11:22 -114770.015286] SLOW spr round 63 (radius: 15)
[25:15:22 -114767.798765] SLOW spr round 64 (radius: 5)
[25:18:29 -114766.710210] SLOW spr round 65 (radius: 5)
[25:21:24 -114766.709726] SLOW spr round 66 (radius: 10)
[25:24:17 -114758.785251] SLOW spr round 67 (radius: 5)
[25:24:43] [worker #2] ML tree search #15, logLikelihood: -115006.000625
[25:27:32 -114757.939397] SLOW spr round 68 (radius: 5)
[25:30:27 -114757.939339] SLOW spr round 69 (radius: 10)
[25:33:15 -114757.939338] SLOW spr round 70 (radius: 15)
[25:37:38 -114757.939338] SLOW spr round 71 (radius: 20)
[25:43:05 -114751.501526] SLOW spr round 72 (radius: 5)
[25:45:59] [worker #1] ML tree search #11, logLikelihood: -114765.134189
[25:46:23 -114750.470839] SLOW spr round 73 (radius: 5)
[25:49:22 -114750.470756] SLOW spr round 74 (radius: 10)
[25:52:15 -114749.711136] SLOW spr round 75 (radius: 5)
[25:55:23 -114749.709182] SLOW spr round 76 (radius: 10)
[25:58:26 -114749.709019] SLOW spr round 77 (radius: 15)
[26:02:41 -114748.077060] SLOW spr round 78 (radius: 5)
[26:05:57 -114746.820829] SLOW spr round 79 (radius: 5)
[26:08:54 -114746.820821] SLOW spr round 80 (radius: 10)
[26:11:47 -114746.807453] SLOW spr round 81 (radius: 15)
[26:16:08 -114745.188181] SLOW spr round 82 (radius: 5)
[26:19:23 -114745.188162] SLOW spr round 83 (radius: 10)
[26:22:33 -114745.188161] SLOW spr round 84 (radius: 15)
[26:26:43 -114745.188161] SLOW spr round 85 (radius: 20)
[26:32:13 -114745.188161] SLOW spr round 86 (radius: 25)
[26:38:10 -114745.188161] Model parameter optimization (eps = 0.100000)

[26:38:16] [worker #0] ML tree search #16, logLikelihood: -114745.115072

[26:38:16 -245773.569957] Initial branch length optimization
[26:38:19 -209381.995669] Model parameter optimization (eps = 10.000000)
[26:39:09 -208949.196497] AUTODETECT spr round 1 (radius: 5)
[26:41:42 -169697.940618] AUTODETECT spr round 2 (radius: 10)
[26:44:34 -142043.258368] AUTODETECT spr round 3 (radius: 15)
[26:47:29 -132959.055004] AUTODETECT spr round 4 (radius: 20)
[26:50:58 -125949.069026] AUTODETECT spr round 5 (radius: 25)
[26:54:38 -123848.817206] SPR radius for FAST iterations: 25 (autodetect)
[26:54:38 -123848.817206] Model parameter optimization (eps = 3.000000)
[26:54:44 -123848.061028] FAST spr round 1 (radius: 25)
[26:59:47 -116331.495009] FAST spr round 2 (radius: 25)
[27:03:43 -115752.529370] FAST spr round 3 (radius: 25)
[27:06:56 -115246.400286] FAST spr round 4 (radius: 25)
[27:09:42 -115184.917633] FAST spr round 5 (radius: 25)
[27:12:10 -115176.206866] FAST spr round 6 (radius: 25)
[27:14:29 -115173.606777] FAST spr round 7 (radius: 25)
[27:16:44 -115171.441053] FAST spr round 8 (radius: 25)
[27:18:58 -115170.908988] FAST spr round 9 (radius: 25)
[27:21:11 -115167.728064] FAST spr round 10 (radius: 25)
[27:23:27 -115160.811994] FAST spr round 11 (radius: 25)
[27:25:38 -115160.810445] Model parameter optimization (eps = 1.000000)
[27:26:01 -114994.429496] SLOW spr round 1 (radius: 5)
[27:28:53 -114947.330903] SLOW spr round 2 (radius: 5)
[27:31:40 -114931.743568] SLOW spr round 3 (radius: 5)
[27:34:24 -114929.683122] SLOW spr round 4 (radius: 5)
[27:37:03 -114929.682453] SLOW spr round 5 (radius: 10)
[27:39:51 -114913.560277] SLOW spr round 6 (radius: 5)
[27:43:06 -114898.535522] SLOW spr round 7 (radius: 5)
[27:46:03 -114891.209147] SLOW spr round 8 (radius: 5)
[27:48:52 -114885.562152] SLOW spr round 9 (radius: 5)
[27:51:32 -114885.562106] SLOW spr round 10 (radius: 10)
[27:54:18 -114879.144422] SLOW spr round 11 (radius: 5)
[27:57:30 -114877.856432] SLOW spr round 12 (radius: 5)
[28:00:22 -114877.855885] SLOW spr round 13 (radius: 10)
[28:03:12 -114877.855825] SLOW spr round 14 (radius: 15)
[28:08:05 -114873.302486] SLOW spr round 15 (radius: 5)
[28:11:22 -114872.982379] SLOW spr round 16 (radius: 5)
[28:14:22 -114872.701549] SLOW spr round 17 (radius: 5)
[28:17:08 -114872.701512] SLOW spr round 18 (radius: 10)
[28:19:54 -114872.701509] SLOW spr round 19 (radius: 15)
[28:24:51 -114872.131414] SLOW spr round 20 (radius: 5)
[28:28:04 -114871.023031] SLOW spr round 21 (radius: 5)
[28:30:58 -114871.023009] SLOW spr round 22 (radius: 10)
[28:33:49 -114870.745795] SLOW spr round 23 (radius: 5)
[28:36:54 -114870.745791] SLOW spr round 24 (radius: 10)
[28:39:56 -114870.745790] SLOW spr round 25 (radius: 15)
[28:44:34 -114870.325721] SLOW spr round 26 (radius: 5)
[28:47:50 -114868.445685] SLOW spr round 27 (radius: 5)
[28:50:47 -114867.980560] SLOW spr round 28 (radius: 5)
[28:53:32 -114867.979110] SLOW spr round 29 (radius: 10)
[28:56:16 -114867.979012] SLOW spr round 30 (radius: 15)
[29:01:07 -114867.225287] SLOW spr round 31 (radius: 5)
[29:04:24 -114863.335017] SLOW spr round 32 (radius: 5)
[29:07:18 -114863.334966] SLOW spr round 33 (radius: 10)
[29:10:09 -114863.334959] SLOW spr round 34 (radius: 15)
[29:14:55 -114863.148720] SLOW spr round 35 (radius: 5)
[29:18:09 -114859.724197] SLOW spr round 36 (radius: 5)
[29:21:07 -114859.270105] SLOW spr round 37 (radius: 5)
[29:23:53 -114859.269638] SLOW spr round 38 (radius: 10)
[29:26:37 -114859.269563] SLOW spr round 39 (radius: 15)
[29:31:15 -114855.507900] SLOW spr round 40 (radius: 5)
[29:34:18 -114855.467928] SLOW spr round 41 (radius: 10)
[29:37:22 -114855.467675] SLOW spr round 42 (radius: 15)
[29:41:40 -114855.415509] SLOW spr round 43 (radius: 20)
[29:47:00 -114844.751270] SLOW spr round 44 (radius: 5)
[29:50:08 -114714.332865] SLOW spr round 45 (radius: 5)
[29:52:56 -114712.318601] SLOW spr round 46 (radius: 5)
[29:55:32 -114712.317115] SLOW spr round 47 (radius: 10)
[29:58:08 -114712.316872] SLOW spr round 48 (radius: 15)
[30:02:38 -114707.799825] SLOW spr round 49 (radius: 5)
[30:05:38 -114707.720282] SLOW spr round 50 (radius: 10)
[30:08:37 -114707.720196] SLOW spr round 51 (radius: 15)
[30:12:48 -114707.720189] SLOW spr round 52 (radius: 20)
[30:17:57 -114707.720188] SLOW spr round 53 (radius: 25)
[30:23:20 -114706.239077] SLOW spr round 54 (radius: 5)
[30:26:27 -114705.666036] SLOW spr round 55 (radius: 5)
[30:29:14 -114704.624565] SLOW spr round 56 (radius: 5)
[30:31:50 -114704.624520] SLOW spr round 57 (radius: 10)
[30:34:25 -114703.298376] SLOW spr round 58 (radius: 5)
[30:37:18 -114702.815407] SLOW spr round 59 (radius: 5)
[30:39:58 -114702.815146] SLOW spr round 60 (radius: 10)
[30:42:37 -114702.611422] SLOW spr round 61 (radius: 5)
[30:45:30 -114702.610570] SLOW spr round 62 (radius: 10)
[30:48:20 -114702.610489] SLOW spr round 63 (radius: 15)
[30:52:36 -114702.610484] SLOW spr round 64 (radius: 20)
[30:57:57 -114702.610483] SLOW spr round 65 (radius: 25)
[31:03:21 -114702.193845] SLOW spr round 66 (radius: 5)
[31:06:46 -114702.193604] SLOW spr round 67 (radius: 10)
[31:09:55 -114702.193541] SLOW spr round 68 (radius: 15)
[31:12:00] [worker #2] ML tree search #18, logLikelihood: -114984.915767
[31:14:03 -114702.193519] SLOW spr round 69 (radius: 20)
[31:19:14 -114702.193511] SLOW spr round 70 (radius: 25)
[31:24:41 -114701.799003] SLOW spr round 71 (radius: 5)
[31:27:47 -114701.798971] SLOW spr round 72 (radius: 10)
[31:30:59 -114701.798970] SLOW spr round 73 (radius: 15)
[31:35:07 -114701.798969] SLOW spr round 74 (radius: 20)
[31:40:19 -114701.798969] SLOW spr round 75 (radius: 25)
[31:45:44 -114701.760042] Model parameter optimization (eps = 0.100000)

[31:45:52] [worker #0] ML tree search #19, logLikelihood: -114701.601818

[33:09:57] [worker #1] ML tree search #14, logLikelihood: -114909.793475
[39:34:39] [worker #1] ML tree search #17, logLikelihood: -114971.993547
[46:38:31] [worker #1] ML tree search #20, logLikelihood: -114821.161289

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.156780,0.355287) (0.199681,0.475967) (0.370925,0.939822) (0.272614,1.836491) 
   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: -114683.165514

AIC score: 233372.331027 / AICc score: 8261396.331027 / BIC score: 239146.583278
Free parameters (model + branch lengths): 2003

WARNING: Number of free parameters (K=2003) is larger than alignment size (n=132).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 4 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6S545/3_mltree/Q6S545.raxml.log

Analysis started: 05-Jul-2021 09:19:50 / finished: 07-Jul-2021 07:58:22

Elapsed time: 167911.879 seconds

Consumed energy: 10593.354 Wh (= 53 km in an electric car, or 265 km with an e-scooter!)