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

System: Intel(R) Xeon(R) CPU E5-2690 v4 @ 2.60GHz, 28 cores, 251 GB RAM

RAxML-NG was called at 07-Jul-2021 20:17:53 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/2_msa/O00763_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763 --seed 2 --threads 7 --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 (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/2_msa/O00763_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 1982 sites

WARNING: Sequences tr_J3KHU6_J3KHU6_COCIM_246410 and tr_A0A0J6Y260_A0A0J6Y260_COCIT_404692 are exactly identical!
WARNING: Sequences tr_A0A179UY61_A0A179UY61_BLAGS_559298 and tr_C5G6W5_C5G6W5_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_K7C855_K7C855_PANTR_9598 and tr_A0A2R9CIJ8_A0A2R9CIJ8_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9FWX4_F9FWX4_FUSOF_660025 and tr_N4UIT4_N4UIT4_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9FWX4_F9FWX4_FUSOF_660025 and tr_X0D1I0_X0D1I0_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FWX4_F9FWX4_FUSOF_660025 and tr_A0A2H3T5X6_A0A2H3T5X6_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9FWX4_F9FWX4_FUSOF_660025 and tr_A0A2H3HKY0_A0A2H3HKY0_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_Q2TZI7_Q2TZI7_ASPOR_510516 and tr_A0A1S9DDM6_A0A1S9DDM6_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A2QZ87_A2QZ87_ASPNC_425011 and tr_G3XVD5_G3XVD5_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QZ87_A2QZ87_ASPNC_425011 and tr_A0A319AFZ7_A0A319AFZ7_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_F7HHF7_F7HHF7_MACMU_9544 and tr_G7PUJ1_G7PUJ1_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7HHF7_F7HHF7_MACMU_9544 and tr_A0A0D9R188_A0A0D9R188_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7HHF7_F7HHF7_MACMU_9544 and tr_A0A2K6E1M4_A0A2K6E1M4_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7HHF7_F7HHF7_MACMU_9544 and tr_A0A2K5XXS3_A0A2K5XXS3_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G7XHM5_G7XHM5_ASPKW_1033177 and tr_A0A146FY76_A0A146FY76_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_A2Y2U1_A2Y2U1_ORYSI_39946 and sp_B9FK36_ACC2_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F4NUF3_F4NUF3_BATDJ_684364 and tr_A0A177WCV0_A0A177WCV0_BATDE_403673 are exactly identical!
WARNING: Sequences tr_I1QTS0_I1QTS0_ORYGL_4538 and tr_A0A0D3HCS4_A0A0D3HCS4_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_F2SK61_F2SK61_TRIRC_559305 and tr_A0A178EQZ7_A0A178EQZ7_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_U5H9T3_U5H9T3_USTV1_683840 and tr_A0A2X0PFF3_A0A2X0PFF3_9BASI_796604 are exactly identical!
WARNING: Sequences tr_V2XQN0_V2XQN0_MONRO_1381753 and tr_A0A0W0GA19_A0A0W0GA19_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A094E656_A0A094E656_9PEZI_1420912 and tr_A0A1B8GUF9_A0A1B8GUF9_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0W8CQT3_A0A0W8CQT3_PHYNI_4790 and tr_W2H9P1_W2H9P1_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A0V1CQK8_A0A0V1CQK8_TRIBR_45882 and tr_A0A0V0VAN3_A0A0V0VAN3_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CQK8_A0A0V1CQK8_TRIBR_45882 and tr_A0A0V0TY21_A0A0V0TY21_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A100IPK8_A0A100IPK8_ASPNG_5061 and tr_A0A1L9MUR7_A0A1L9MUR7_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A0A226NBG3_A0A226NBG3_CALSU_9009 and tr_A0A226PG63_A0A226PG63_COLVI_9014 are exactly identical!
WARNING: Duplicate sequences found: 27

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/O00763/3_mltree/O00763.raxml.reduced.phy

Alignment comprises 1 partitions and 1982 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1982 / 1982
Gaps: 3.86 %
Invariant sites: 1.36 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 7 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 284 / 22720
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -2676151.285544] Initial branch length optimization
[00:00:10 -2242073.762183] Model parameter optimization (eps = 10.000000)
[00:01:12 -2240060.386067] AUTODETECT spr round 1 (radius: 5)
[00:05:52 -1478349.433850] AUTODETECT spr round 2 (radius: 10)
[00:10:39 -1095890.775400] AUTODETECT spr round 3 (radius: 15)
[00:16:15 -905234.327506] AUTODETECT spr round 4 (radius: 20)
[00:22:47 -795268.221835] AUTODETECT spr round 5 (radius: 25)
[00:29:15 -769595.292397] SPR radius for FAST iterations: 25 (autodetect)
[00:29:15 -769595.292397] Model parameter optimization (eps = 3.000000)
[00:29:27 -769585.456716] FAST spr round 1 (radius: 25)
[00:34:32 -645667.227866] FAST spr round 2 (radius: 25)
[00:38:19 -642458.458128] FAST spr round 3 (radius: 25)
[00:41:54 -642253.705703] FAST spr round 4 (radius: 25)
[00:44:59 -642193.183951] FAST spr round 5 (radius: 25)
[00:47:31 -642193.182175] Model parameter optimization (eps = 1.000000)
[00:47:55 -641845.637431] SLOW spr round 1 (radius: 5)
[00:52:18 -641703.405225] SLOW spr round 2 (radius: 5)
[00:56:12 -641698.283444] SLOW spr round 3 (radius: 5)
[00:59:53 -641698.283347] SLOW spr round 4 (radius: 10)
[01:03:52 -641679.752344] SLOW spr round 5 (radius: 5)
[01:08:58 -641670.120552] SLOW spr round 6 (radius: 5)
[01:13:15 -641670.120469] SLOW spr round 7 (radius: 10)
[01:17:13 -641670.120452] SLOW spr round 8 (radius: 15)
[01:23:38 -641670.120444] SLOW spr round 9 (radius: 20)
[01:33:52 -641670.120440] SLOW spr round 10 (radius: 25)
[01:45:55 -641670.120437] Model parameter optimization (eps = 0.100000)

[01:46:05] ML tree search #1, logLikelihood: -641670.074796

[01:46:05 -2644281.583972] Initial branch length optimization
[01:46:16 -2221122.688884] Model parameter optimization (eps = 10.000000)
[01:47:41 -2219302.668242] AUTODETECT spr round 1 (radius: 5)
[01:52:49 -1444733.246152] AUTODETECT spr round 2 (radius: 10)
[01:57:27 -1112255.954820] AUTODETECT spr round 3 (radius: 15)
[02:03:12 -888270.388063] AUTODETECT spr round 4 (radius: 20)
[02:09:08 -791509.167573] AUTODETECT spr round 5 (radius: 25)
[02:17:17 -760849.970052] SPR radius for FAST iterations: 25 (autodetect)
[02:17:17 -760849.970052] Model parameter optimization (eps = 3.000000)
[02:17:29 -760840.342861] FAST spr round 1 (radius: 25)
[02:22:39 -645071.460374] FAST spr round 2 (radius: 25)
[02:26:19 -642304.538900] FAST spr round 3 (radius: 25)
[02:29:39 -642123.299272] FAST spr round 4 (radius: 25)
[02:32:12 -642123.299177] Model parameter optimization (eps = 1.000000)
[02:32:34 -641790.724783] SLOW spr round 1 (radius: 5)
[02:36:55 -641683.705780] SLOW spr round 2 (radius: 5)
[02:40:41 -641679.229879] SLOW spr round 3 (radius: 5)
[02:46:02 -641679.218336] SLOW spr round 4 (radius: 10)
[02:50:58 -641679.217133] SLOW spr round 5 (radius: 15)
[02:57:29 -641679.215966] SLOW spr round 6 (radius: 20)
[03:07:37 -641679.215729] SLOW spr round 7 (radius: 25)
[03:19:34 -641679.215672] Model parameter optimization (eps = 0.100000)

[03:19:42] ML tree search #2, logLikelihood: -641679.183342

[03:19:42 -2667765.941495] Initial branch length optimization
[03:19:52 -2231643.398746] Model parameter optimization (eps = 10.000000)
[03:21:04 -2229968.890103] AUTODETECT spr round 1 (radius: 5)
[03:25:38 -1461314.847658] AUTODETECT spr round 2 (radius: 10)
[03:30:15 -1140021.331497] AUTODETECT spr round 3 (radius: 15)
[03:36:29 -935850.573583] AUTODETECT spr round 4 (radius: 20)
[03:42:48 -839678.741825] AUTODETECT spr round 5 (radius: 25)
[03:50:31 -776328.576263] SPR radius for FAST iterations: 25 (autodetect)
[03:50:31 -776328.576263] Model parameter optimization (eps = 3.000000)
[03:51:05 -775920.758167] FAST spr round 1 (radius: 25)
[03:56:18 -646758.208166] FAST spr round 2 (radius: 25)
[04:00:16 -642061.384775] FAST spr round 3 (radius: 25)
[04:03:37 -641913.951068] FAST spr round 4 (radius: 25)
[04:06:23 -641888.881440] FAST spr round 5 (radius: 25)
[04:08:59 -641885.796212] FAST spr round 6 (radius: 25)
[04:11:32 -641885.796114] Model parameter optimization (eps = 1.000000)
[04:11:52 -641879.085991] SLOW spr round 1 (radius: 5)
[04:16:10 -641695.563988] SLOW spr round 2 (radius: 5)
[04:20:06 -641681.068146] SLOW spr round 3 (radius: 5)
[04:23:48 -641681.068027] SLOW spr round 4 (radius: 10)
[04:27:46 -641681.067937] SLOW spr round 5 (radius: 15)
[04:34:31 -641681.067861] SLOW spr round 6 (radius: 20)
[04:45:06 -641681.067792] SLOW spr round 7 (radius: 25)
[04:57:53 -641681.067729] Model parameter optimization (eps = 0.100000)

[04:58:06] ML tree search #3, logLikelihood: -641681.031541

[04:58:06 -2657086.835908] Initial branch length optimization
[04:58:15 -2234538.125359] Model parameter optimization (eps = 10.000000)
[04:59:42 -2232789.711185] AUTODETECT spr round 1 (radius: 5)
[05:04:40 -1476351.229054] AUTODETECT spr round 2 (radius: 10)
[05:09:38 -1079563.487098] AUTODETECT spr round 3 (radius: 15)
[05:15:11 -911237.958669] AUTODETECT spr round 4 (radius: 20)
[05:21:36 -821685.929968] AUTODETECT spr round 5 (radius: 25)
[05:28:47 -776262.539251] SPR radius for FAST iterations: 25 (autodetect)
[05:28:47 -776262.539251] Model parameter optimization (eps = 3.000000)
[05:29:21 -775837.455998] FAST spr round 1 (radius: 25)
[05:34:45 -646540.465954] FAST spr round 2 (radius: 25)
[05:38:34 -642232.600776] FAST spr round 3 (radius: 25)
[05:41:50 -641895.464592] FAST spr round 4 (radius: 25)
[05:44:39 -641886.030627] FAST spr round 5 (radius: 25)
[05:47:22 -641880.867635] FAST spr round 6 (radius: 25)
[05:49:59 -641880.855728] Model parameter optimization (eps = 1.000000)
[05:50:16 -641878.865494] SLOW spr round 1 (radius: 5)
[05:54:25 -641715.274233] SLOW spr round 2 (radius: 5)
[05:58:23 -641710.101080] SLOW spr round 3 (radius: 5)
[06:02:22 -641706.157808] SLOW spr round 4 (radius: 5)
[06:06:16 -641703.204492] SLOW spr round 5 (radius: 5)
[06:10:09 -641703.204439] SLOW spr round 6 (radius: 10)
[06:14:19 -641703.204387] SLOW spr round 7 (radius: 15)
[06:21:23 -641703.204336] SLOW spr round 8 (radius: 20)
[06:32:20 -641703.204284] SLOW spr round 9 (radius: 25)
[06:45:17 -641703.204233] Model parameter optimization (eps = 0.100000)

[06:45:33] ML tree search #4, logLikelihood: -641702.966411

[06:45:33 -2640704.022390] Initial branch length optimization
[06:45:43 -2213110.983317] Model parameter optimization (eps = 10.000000)
[06:47:01 -2211344.973606] AUTODETECT spr round 1 (radius: 5)
[06:51:59 -1493000.609664] AUTODETECT spr round 2 (radius: 10)
[06:57:06 -1106520.983420] AUTODETECT spr round 3 (radius: 15)
[07:02:44 -904736.160170] AUTODETECT spr round 4 (radius: 20)
[07:08:44 -794872.695333] AUTODETECT spr round 5 (radius: 25)
[07:15:34 -768912.109741] SPR radius for FAST iterations: 25 (autodetect)
[07:15:34 -768912.109741] Model parameter optimization (eps = 3.000000)
[07:16:10 -768547.925981] FAST spr round 1 (radius: 25)
[07:21:31 -645257.155767] FAST spr round 2 (radius: 25)
[07:25:32 -642328.204268] FAST spr round 3 (radius: 25)
[07:29:03 -641900.024181] FAST spr round 4 (radius: 25)
[07:31:52 -641860.235540] FAST spr round 5 (radius: 25)
[07:34:28 -641860.234781] Model parameter optimization (eps = 1.000000)
[07:34:50 -641844.185440] SLOW spr round 1 (radius: 5)
[07:38:55 -641704.538425] SLOW spr round 2 (radius: 5)
[07:42:40 -641703.816229] SLOW spr round 3 (radius: 5)
[07:46:20 -641703.816103] SLOW spr round 4 (radius: 10)
[07:50:18 -641693.478726] SLOW spr round 5 (radius: 5)
[07:55:24 -641686.095887] SLOW spr round 6 (radius: 5)
[07:59:43 -641683.051700] SLOW spr round 7 (radius: 5)
[08:03:38 -641683.051642] SLOW spr round 8 (radius: 10)
[08:07:38 -641683.051585] SLOW spr round 9 (radius: 15)
[08:14:18 -641683.051529] SLOW spr round 10 (radius: 20)
[08:24:43 -641683.051473] SLOW spr round 11 (radius: 25)
[08:37:10 -641683.051417] Model parameter optimization (eps = 0.100000)

[08:37:17] ML tree search #5, logLikelihood: -641683.014257

[08:37:17 -2654594.751931] Initial branch length optimization
[08:37:28 -2226762.555209] Model parameter optimization (eps = 10.000000)
[08:38:32 -2225045.402588] AUTODETECT spr round 1 (radius: 5)
[08:43:06 -1469902.044993] AUTODETECT spr round 2 (radius: 10)
[08:48:11 -1097942.087170] AUTODETECT spr round 3 (radius: 15)
[08:53:42 -910021.010843] AUTODETECT spr round 4 (radius: 20)
[08:59:13 -834535.397629] AUTODETECT spr round 5 (radius: 25)
[09:06:18 -804600.504699] SPR radius for FAST iterations: 25 (autodetect)
[09:06:18 -804600.504699] Model parameter optimization (eps = 3.000000)
[09:07:17 -804143.992206] FAST spr round 1 (radius: 25)
[09:12:44 -657606.058157] FAST spr round 2 (radius: 25)
[09:16:38 -642838.534226] FAST spr round 3 (radius: 25)
[09:19:55 -641997.963268] FAST spr round 4 (radius: 25)
[09:22:48 -641824.407204] FAST spr round 5 (radius: 25)
[09:25:23 -641824.404058] Model parameter optimization (eps = 1.000000)
[09:25:33 -641823.203561] SLOW spr round 1 (radius: 5)
[09:29:38 -641697.258279] SLOW spr round 2 (radius: 5)
[09:33:22 -641697.053527] SLOW spr round 3 (radius: 5)
[09:37:01 -641697.052690] SLOW spr round 4 (radius: 10)
[09:40:56 -641697.052424] SLOW spr round 5 (radius: 15)
[09:47:46 -641694.147578] SLOW spr round 6 (radius: 5)
[09:53:04 -641693.329763] SLOW spr round 7 (radius: 5)
[09:57:31 -641693.329582] SLOW spr round 8 (radius: 10)
[10:01:36 -641693.329544] SLOW spr round 9 (radius: 15)
[10:08:11 -641693.329531] SLOW spr round 10 (radius: 20)
[10:19:05 -641693.329526] SLOW spr round 11 (radius: 25)
[10:31:29 -641693.329522] Model parameter optimization (eps = 0.100000)

[10:31:35] ML tree search #6, logLikelihood: -641693.323918

[10:31:35 -2655183.116166] Initial branch length optimization
[10:31:46 -2237089.270000] Model parameter optimization (eps = 10.000000)
[10:33:02 -2235310.991378] AUTODETECT spr round 1 (radius: 5)
[10:37:36 -1463172.913993] AUTODETECT spr round 2 (radius: 10)
[10:42:17 -1060893.755477] AUTODETECT spr round 3 (radius: 15)
[10:47:29 -926528.035829] AUTODETECT spr round 4 (radius: 20)
[10:53:29 -812307.219103] AUTODETECT spr round 5 (radius: 25)
[10:59:55 -773791.896666] SPR radius for FAST iterations: 25 (autodetect)
[10:59:55 -773791.896666] Model parameter optimization (eps = 3.000000)
[11:00:07 -773782.159945] FAST spr round 1 (radius: 25)
[11:05:24 -646484.336849] FAST spr round 2 (radius: 25)
[11:09:10 -642334.664748] FAST spr round 3 (radius: 25)
[11:12:31 -642224.044750] FAST spr round 4 (radius: 25)
[11:15:10 -642220.857931] FAST spr round 5 (radius: 25)
[11:17:43 -642220.857026] Model parameter optimization (eps = 1.000000)
[11:18:07 -641862.110540] SLOW spr round 1 (radius: 5)
[11:22:30 -641703.121318] SLOW spr round 2 (radius: 5)
[11:26:20 -641699.435608] SLOW spr round 3 (radius: 5)
[11:30:02 -641699.256568] SLOW spr round 4 (radius: 5)
[11:33:41 -641699.255347] SLOW spr round 5 (radius: 10)
[11:37:39 -641692.834278] SLOW spr round 6 (radius: 5)
[11:42:42 -641689.528295] SLOW spr round 7 (radius: 5)
[11:47:00 -641689.526927] SLOW spr round 8 (radius: 10)
[11:51:03 -641689.525710] SLOW spr round 9 (radius: 15)
[11:57:42 -641689.524762] SLOW spr round 10 (radius: 20)
[12:08:34 -641689.524682] SLOW spr round 11 (radius: 25)
[12:21:02 -641689.524623] Model parameter optimization (eps = 0.100000)

[12:21:10] ML tree search #7, logLikelihood: -641689.455902

[12:21:10 -2627681.883198] Initial branch length optimization
[12:21:20 -2215997.049599] Model parameter optimization (eps = 10.000000)
[12:22:25 -2214217.290260] AUTODETECT spr round 1 (radius: 5)
[12:26:53 -1492471.041672] AUTODETECT spr round 2 (radius: 10)
[12:31:46 -1128580.020280] AUTODETECT spr round 3 (radius: 15)
[12:37:29 -893859.131194] AUTODETECT spr round 4 (radius: 20)
[12:44:14 -798124.722345] AUTODETECT spr round 5 (radius: 25)
[12:53:52 -768162.663565] SPR radius for FAST iterations: 25 (autodetect)
[12:53:52 -768162.663565] Model parameter optimization (eps = 3.000000)
[12:54:24 -767783.757686] FAST spr round 1 (radius: 25)
[12:59:32 -646719.422591] FAST spr round 2 (radius: 25)
[13:03:13 -642201.713521] FAST spr round 3 (radius: 25)
[13:06:35 -641995.163927] FAST spr round 4 (radius: 25)
[13:09:25 -641962.990117] FAST spr round 5 (radius: 25)
[13:12:09 -641945.759902] FAST spr round 6 (radius: 25)
[13:14:46 -641945.759847] Model parameter optimization (eps = 1.000000)
[13:15:04 -641939.683443] SLOW spr round 1 (radius: 5)
[13:19:16 -641693.261459] SLOW spr round 2 (radius: 5)
[13:23:07 -641688.480633] SLOW spr round 3 (radius: 5)
[13:26:52 -641688.479093] SLOW spr round 4 (radius: 10)
[13:30:54 -641682.728082] SLOW spr round 5 (radius: 5)
[13:36:05 -641679.832092] SLOW spr round 6 (radius: 5)
[13:40:26 -641679.830969] SLOW spr round 7 (radius: 10)
[13:44:33 -641679.830823] SLOW spr round 8 (radius: 15)
[13:51:08 -641679.830818] SLOW spr round 9 (radius: 20)
[14:01:40 -641679.830815] SLOW spr round 10 (radius: 25)
[14:14:14 -641679.830813] Model parameter optimization (eps = 0.100000)

[14:14:28] ML tree search #8, logLikelihood: -641679.108122

[14:14:28 -2658086.775467] Initial branch length optimization
[14:14:43 -2230606.860785] Model parameter optimization (eps = 10.000000)
[14:15:50 -2228834.557614] AUTODETECT spr round 1 (radius: 5)
[14:20:34 -1459376.439317] AUTODETECT spr round 2 (radius: 10)
[14:25:30 -1091571.675872] AUTODETECT spr round 3 (radius: 15)
[14:31:18 -894032.494560] AUTODETECT spr round 4 (radius: 20)
[14:37:32 -797620.964320] AUTODETECT spr round 5 (radius: 25)
[14:44:16 -771114.100184] SPR radius for FAST iterations: 25 (autodetect)
[14:44:16 -771114.100184] Model parameter optimization (eps = 3.000000)
[14:45:05 -770727.651621] FAST spr round 1 (radius: 25)
[14:50:39 -646095.516143] FAST spr round 2 (radius: 25)
[14:54:35 -642197.062030] FAST spr round 3 (radius: 25)
[14:57:50 -641899.476813] FAST spr round 4 (radius: 25)
[15:00:55 -641895.983704] FAST spr round 5 (radius: 25)
[15:03:48 -641895.983627] Model parameter optimization (eps = 1.000000)
[15:04:11 -641873.025375] SLOW spr round 1 (radius: 5)
[15:08:50 -641698.219444] SLOW spr round 2 (radius: 5)
[15:13:06 -641682.254822] SLOW spr round 3 (radius: 5)
[15:16:58 -641675.352717] SLOW spr round 4 (radius: 5)
[15:21:00 -641674.388928] SLOW spr round 5 (radius: 5)
[15:24:52 -641674.388770] SLOW spr round 6 (radius: 10)
[15:28:47 -641674.388691] SLOW spr round 7 (radius: 15)
[15:35:27 -641669.743778] SLOW spr round 8 (radius: 5)
[15:40:44 -641669.337396] SLOW spr round 9 (radius: 5)
[15:45:10 -641669.337250] SLOW spr round 10 (radius: 10)
[15:49:12 -641669.337172] SLOW spr round 11 (radius: 15)
[15:55:35 -641669.337109] SLOW spr round 12 (radius: 20)
[16:06:00 -641669.337049] SLOW spr round 13 (radius: 25)
[16:18:15 -641669.336992] Model parameter optimization (eps = 0.100000)

[16:18:24] ML tree search #9, logLikelihood: -641669.285794

[16:18:24 -2639393.313041] Initial branch length optimization
[16:18:34 -2224767.161078] Model parameter optimization (eps = 10.000000)
[16:20:04 -2222932.584562] AUTODETECT spr round 1 (radius: 5)
[16:24:40 -1476807.339216] AUTODETECT spr round 2 (radius: 10)
[16:29:30 -1094153.606831] AUTODETECT spr round 3 (radius: 15)
[16:34:54 -890067.441344] AUTODETECT spr round 4 (radius: 20)
[16:41:44 -794974.060987] AUTODETECT spr round 5 (radius: 25)
[16:49:15 -759254.466088] SPR radius for FAST iterations: 25 (autodetect)
[16:49:15 -759254.466088] Model parameter optimization (eps = 3.000000)
[16:49:29 -759244.174038] FAST spr round 1 (radius: 25)
[16:54:49 -646879.524423] FAST spr round 2 (radius: 25)
[16:58:44 -642526.434862] FAST spr round 3 (radius: 25)
[17:02:10 -642200.746549] FAST spr round 4 (radius: 25)
[17:05:00 -642188.090343] FAST spr round 5 (radius: 25)
[17:07:37 -642188.090275] Model parameter optimization (eps = 1.000000)
[17:08:01 -641877.105012] SLOW spr round 1 (radius: 5)
[17:12:26 -641699.627897] SLOW spr round 2 (radius: 5)
[17:16:29 -641691.762304] SLOW spr round 3 (radius: 5)
[17:20:16 -641691.755319] SLOW spr round 4 (radius: 10)
[17:24:16 -641689.246341] SLOW spr round 5 (radius: 5)
[17:29:28 -641681.750628] SLOW spr round 6 (radius: 5)
[17:33:51 -641678.702321] SLOW spr round 7 (radius: 5)
[17:37:49 -641678.702148] SLOW spr round 8 (radius: 10)
[17:41:53 -641678.702020] SLOW spr round 9 (radius: 15)
[17:48:44 -641678.701917] SLOW spr round 10 (radius: 20)
[17:59:58 -641678.701829] SLOW spr round 11 (radius: 25)
[18:12:45 -641678.701752] Model parameter optimization (eps = 0.100000)

[18:12:57] ML tree search #10, logLikelihood: -641678.477610

[18:12:57 -2645901.195983] Initial branch length optimization
[18:13:06 -2228445.970018] Model parameter optimization (eps = 10.000000)
[18:14:06 -2226665.296559] AUTODETECT spr round 1 (radius: 5)
[18:18:55 -1469820.944108] AUTODETECT spr round 2 (radius: 10)
[18:23:56 -1054981.848776] AUTODETECT spr round 3 (radius: 15)
[18:29:24 -882535.442714] AUTODETECT spr round 4 (radius: 20)
[18:35:53 -791324.485632] AUTODETECT spr round 5 (radius: 25)
[18:43:47 -771287.165117] SPR radius for FAST iterations: 25 (autodetect)
[18:43:47 -771287.165117] Model parameter optimization (eps = 3.000000)
[18:44:21 -770941.361029] FAST spr round 1 (radius: 25)
[18:49:52 -648434.192757] FAST spr round 2 (radius: 25)
[18:54:03 -643397.056502] FAST spr round 3 (radius: 25)
[18:57:44 -641877.160327] FAST spr round 4 (radius: 25)
[19:00:36 -641867.167951] FAST spr round 5 (radius: 25)
[19:03:13 -641867.167943] Model parameter optimization (eps = 1.000000)
[19:03:37 -641855.227446] SLOW spr round 1 (radius: 5)
[19:08:07 -641696.990959] SLOW spr round 2 (radius: 5)
[19:12:03 -641692.214651] SLOW spr round 3 (radius: 5)
[19:16:02 -641692.198954] SLOW spr round 4 (radius: 10)
[19:20:32 -641676.511005] SLOW spr round 5 (radius: 5)
[19:26:15 -641673.054433] SLOW spr round 6 (radius: 5)
[19:31:09 -641673.054313] SLOW spr round 7 (radius: 10)
[19:35:55 -641673.054246] SLOW spr round 8 (radius: 15)
[19:43:12 -641673.054201] SLOW spr round 9 (radius: 20)
[19:54:32 -641673.054172] SLOW spr round 10 (radius: 25)
[20:08:04 -641673.054152] Model parameter optimization (eps = 0.100000)

[20:08:15] ML tree search #11, logLikelihood: -641672.998447

[20:08:15 -2646332.182613] Initial branch length optimization
[20:08:26 -2216592.452888] Model parameter optimization (eps = 10.000000)
[20:09:37 -2214771.353245] AUTODETECT spr round 1 (radius: 5)
[20:15:06 -1480925.336119] AUTODETECT spr round 2 (radius: 10)
[20:21:20 -1081783.269599] AUTODETECT spr round 3 (radius: 15)
[20:27:51 -910929.888126] AUTODETECT spr round 4 (radius: 20)
[20:34:40 -831405.995838] AUTODETECT spr round 5 (radius: 25)
[20:42:25 -785650.668219] SPR radius for FAST iterations: 25 (autodetect)
[20:42:25 -785650.668219] Model parameter optimization (eps = 3.000000)
[20:43:09 -785215.926457] FAST spr round 1 (radius: 25)
[20:49:32 -648181.461755] FAST spr round 2 (radius: 25)
[20:54:01 -642090.225397] FAST spr round 3 (radius: 25)
[20:58:10 -641875.988866] FAST spr round 4 (radius: 25)
[21:01:34 -641859.414840] FAST spr round 5 (radius: 25)
[21:04:48 -641859.414765] Model parameter optimization (eps = 1.000000)
[21:04:58 -641858.919506] SLOW spr round 1 (radius: 5)
[21:09:55 -641745.285806] SLOW spr round 2 (radius: 5)
[21:14:41 -641730.773192] SLOW spr round 3 (radius: 5)
[21:19:19 -641727.911690] SLOW spr round 4 (radius: 5)
[21:23:55 -641727.761236] SLOW spr round 5 (radius: 5)
[21:28:31 -641727.760847] SLOW spr round 6 (radius: 10)
[21:33:32 -641712.908611] SLOW spr round 7 (radius: 5)
[21:39:21 -641709.949593] SLOW spr round 8 (radius: 5)
[21:44:39 -641709.949530] SLOW spr round 9 (radius: 10)
[21:49:43 -641707.378524] SLOW spr round 10 (radius: 5)
[21:55:19 -641699.797485] SLOW spr round 11 (radius: 5)
[22:00:06 -641696.747195] SLOW spr round 12 (radius: 5)
[22:04:29 -641696.747194] SLOW spr round 13 (radius: 10)
[22:09:01 -641696.747193] SLOW spr round 14 (radius: 15)
[22:16:39 -641696.747193] SLOW spr round 15 (radius: 20)
[22:27:31 -641696.747193] SLOW spr round 16 (radius: 25)
[22:40:58 -641696.747192] Model parameter optimization (eps = 0.100000)

[22:41:04] ML tree search #12, logLikelihood: -641696.739673

[22:41:04 -2643857.826385] Initial branch length optimization
[22:41:16 -2221923.443346] Model parameter optimization (eps = 10.000000)
[22:42:09 -2219978.188478] AUTODETECT spr round 1 (radius: 5)
[22:47:12 -1451699.403487] AUTODETECT spr round 2 (radius: 10)
[22:52:32 -1095967.499922] AUTODETECT spr round 3 (radius: 15)
[22:59:16 -910273.862708] AUTODETECT spr round 4 (radius: 20)
[23:06:41 -810812.519240] AUTODETECT spr round 5 (radius: 25)
[23:14:10 -755297.560465] SPR radius for FAST iterations: 25 (autodetect)
[23:14:10 -755297.560465] Model parameter optimization (eps = 3.000000)
[23:14:48 -754904.614216] FAST spr round 1 (radius: 25)
[23:19:53 -646481.384323] FAST spr round 2 (radius: 25)
[23:23:38 -642143.697705] FAST spr round 3 (radius: 25)
[23:27:05 -641963.644028] FAST spr round 4 (radius: 25)
[23:29:58 -641963.641310] Model parameter optimization (eps = 1.000000)
[23:30:17 -641949.388174] SLOW spr round 1 (radius: 5)
[23:34:56 -641722.098244] SLOW spr round 2 (radius: 5)
[23:39:09 -641713.753989] SLOW spr round 3 (radius: 5)
[23:43:15 -641713.753700] SLOW spr round 4 (radius: 10)
[23:47:57 -641704.651971] SLOW spr round 5 (radius: 5)
[23:53:39 -641700.544298] SLOW spr round 6 (radius: 5)
[23:58:20 -641700.544219] SLOW spr round 7 (radius: 10)
[24:02:35 -641698.034285] SLOW spr round 8 (radius: 5)
[24:10:02 -641690.526068] SLOW spr round 9 (radius: 5)
[24:15:17 -641687.483436] SLOW spr round 10 (radius: 5)
[24:19:23 -641687.483387] SLOW spr round 11 (radius: 10)
[24:23:37 -641687.483337] SLOW spr round 12 (radius: 15)
[24:30:34 -641687.483287] SLOW spr round 13 (radius: 20)
[24:42:00 -641687.483238] SLOW spr round 14 (radius: 25)
[24:54:41 -641687.483188] Model parameter optimization (eps = 0.100000)

[24:54:56] ML tree search #13, logLikelihood: -641687.234631

[24:54:56 -2634720.063752] Initial branch length optimization
[24:55:05 -2211322.723918] Model parameter optimization (eps = 10.000000)
[24:56:07 -2209613.494460] AUTODETECT spr round 1 (radius: 5)
[25:01:00 -1510187.156612] AUTODETECT spr round 2 (radius: 10)
[25:06:17 -1130483.092807] AUTODETECT spr round 3 (radius: 15)
[25:12:19 -878826.983162] AUTODETECT spr round 4 (radius: 20)
[25:20:05 -783785.631944] AUTODETECT spr round 5 (radius: 25)
[25:28:50 -761024.478986] SPR radius for FAST iterations: 25 (autodetect)
[25:28:50 -761024.478986] Model parameter optimization (eps = 3.000000)
[25:29:25 -760620.306350] FAST spr round 1 (radius: 25)
[25:35:08 -644427.148883] FAST spr round 2 (radius: 25)
[25:39:49 -642135.861974] FAST spr round 3 (radius: 25)
[25:43:23 -641850.806162] FAST spr round 4 (radius: 25)
[25:46:12 -641842.244705] FAST spr round 5 (radius: 25)
[25:48:59 -641842.244096] Model parameter optimization (eps = 1.000000)
[25:49:17 -641839.276263] SLOW spr round 1 (radius: 5)
[25:53:44 -641722.780500] SLOW spr round 2 (radius: 5)
[25:57:46 -641707.882881] SLOW spr round 3 (radius: 5)
[26:01:36 -641705.466173] SLOW spr round 4 (radius: 5)
[26:05:24 -641705.466161] SLOW spr round 5 (radius: 10)
[26:09:32 -641690.433695] SLOW spr round 6 (radius: 5)
[26:14:44 -641687.582703] SLOW spr round 7 (radius: 5)
[26:19:11 -641687.582595] SLOW spr round 8 (radius: 10)
[26:23:24 -641687.582530] SLOW spr round 9 (radius: 15)
[26:30:15 -641687.582472] SLOW spr round 10 (radius: 20)
[26:41:06 -641687.582415] SLOW spr round 11 (radius: 25)
[26:54:07 -641687.582359] Model parameter optimization (eps = 0.100000)

[26:54:21] ML tree search #14, logLikelihood: -641687.392313

[26:54:21 -2643011.511118] Initial branch length optimization
[26:54:30 -2223971.832158] Model parameter optimization (eps = 10.000000)
[26:55:48 -2222171.180241] AUTODETECT spr round 1 (radius: 5)
[27:00:56 -1489624.604164] AUTODETECT spr round 2 (radius: 10)
[27:06:34 -1067427.280830] AUTODETECT spr round 3 (radius: 15)
[27:12:18 -836104.445674] AUTODETECT spr round 4 (radius: 20)
[27:18:37 -743385.825065] AUTODETECT spr round 5 (radius: 25)
[27:25:38 -737095.837194] SPR radius for FAST iterations: 25 (autodetect)
[27:25:38 -737095.837194] Model parameter optimization (eps = 3.000000)
[27:26:17 -736751.109007] FAST spr round 1 (radius: 25)
[27:31:58 -644079.038330] FAST spr round 2 (radius: 25)
[27:36:10 -642069.813607] FAST spr round 3 (radius: 25)
[27:39:54 -641931.510924] FAST spr round 4 (radius: 25)
[27:42:54 -641919.540331] FAST spr round 5 (radius: 25)
[27:45:57 -641919.540257] Model parameter optimization (eps = 1.000000)
[27:46:21 -641916.416009] SLOW spr round 1 (radius: 5)
[27:50:56 -641698.280274] SLOW spr round 2 (radius: 5)
[27:55:14 -641686.782018] SLOW spr round 3 (radius: 5)
[27:59:21 -641686.781955] SLOW spr round 4 (radius: 10)
[28:03:31 -641680.597023] SLOW spr round 5 (radius: 5)
[28:08:50 -641677.054094] SLOW spr round 6 (radius: 5)
[28:13:27 -641677.054027] SLOW spr round 7 (radius: 10)
[28:17:49 -641677.053969] SLOW spr round 8 (radius: 15)
[28:24:40 -641677.053913] SLOW spr round 9 (radius: 20)
[28:35:40 -641677.053857] SLOW spr round 10 (radius: 25)
[28:48:22 -641677.053801] Model parameter optimization (eps = 0.100000)

[28:48:40] ML tree search #15, logLikelihood: -641676.861721

[28:48:40 -2654596.720779] Initial branch length optimization
[28:48:50 -2230431.962021] Model parameter optimization (eps = 10.000000)
[28:49:57 -2228722.716619] AUTODETECT spr round 1 (radius: 5)
[28:55:17 -1501110.980592] AUTODETECT spr round 2 (radius: 10)
[29:01:03 -1096979.527638] AUTODETECT spr round 3 (radius: 15)
[29:07:27 -879702.554388] AUTODETECT spr round 4 (radius: 20)
[29:14:51 -773532.021766] AUTODETECT spr round 5 (radius: 25)
[29:24:00 -756160.430815] SPR radius for FAST iterations: 25 (autodetect)
[29:24:00 -756160.430815] Model parameter optimization (eps = 3.000000)
[29:24:43 -755808.344691] FAST spr round 1 (radius: 25)
[29:30:28 -645015.589569] FAST spr round 2 (radius: 25)
[29:34:41 -642295.849757] FAST spr round 3 (radius: 25)
[29:38:15 -641958.320662] FAST spr round 4 (radius: 25)
[29:41:11 -641951.584500] FAST spr round 5 (radius: 25)
[29:43:57 -641941.179250] FAST spr round 6 (radius: 25)
[29:46:39 -641933.186764] FAST spr round 7 (radius: 25)
[29:49:18 -641933.186526] Model parameter optimization (eps = 1.000000)
[29:49:39 -641921.929940] SLOW spr round 1 (radius: 5)
[29:53:57 -641698.107951] SLOW spr round 2 (radius: 5)
[29:58:14 -641681.668262] SLOW spr round 3 (radius: 5)
[30:02:27 -641677.355205] SLOW spr round 4 (radius: 5)
[30:06:43 -641677.355179] SLOW spr round 5 (radius: 10)
[30:10:59 -641677.355179] SLOW spr round 6 (radius: 15)
[30:17:56 -641673.601343] SLOW spr round 7 (radius: 5)
[30:23:26 -641673.600228] SLOW spr round 8 (radius: 10)
[30:28:24 -641673.600047] SLOW spr round 9 (radius: 15)
[30:35:23 -641673.600012] SLOW spr round 10 (radius: 20)
[30:46:15 -641673.600005] SLOW spr round 11 (radius: 25)
[30:59:10 -641673.600003] Model parameter optimization (eps = 0.100000)

[30:59:26] ML tree search #16, logLikelihood: -641673.419309

[30:59:27 -2651742.030227] Initial branch length optimization
[30:59:36 -2233446.775815] Model parameter optimization (eps = 10.000000)
[31:00:49 -2231558.017456] AUTODETECT spr round 1 (radius: 5)
[31:05:29 -1453645.471295] AUTODETECT spr round 2 (radius: 10)
[31:10:28 -1026939.432712] AUTODETECT spr round 3 (radius: 15)
[31:15:44 -828460.814617] AUTODETECT spr round 4 (radius: 20)
[31:21:35 -745977.961253] AUTODETECT spr round 5 (radius: 25)
[31:28:15 -736699.757667] SPR radius for FAST iterations: 25 (autodetect)
[31:28:15 -736699.757667] Model parameter optimization (eps = 3.000000)
[31:28:48 -736371.720821] FAST spr round 1 (radius: 25)
[31:33:45 -647181.400202] FAST spr round 2 (radius: 25)
[31:37:44 -642140.871463] FAST spr round 3 (radius: 25)
[31:40:55 -641883.979045] FAST spr round 4 (radius: 25)
[31:43:35 -641877.597315] FAST spr round 5 (radius: 25)
[31:46:09 -641877.597037] Model parameter optimization (eps = 1.000000)
[31:46:31 -641865.212522] SLOW spr round 1 (radius: 5)
[31:50:35 -641710.323972] SLOW spr round 2 (radius: 5)
[31:54:25 -641700.679790] SLOW spr round 3 (radius: 5)
[31:58:10 -641693.278751] SLOW spr round 4 (radius: 5)
[32:01:50 -641693.278730] SLOW spr round 5 (radius: 10)
[32:05:48 -641682.711478] SLOW spr round 6 (radius: 5)
[32:10:54 -641679.749260] SLOW spr round 7 (radius: 5)
[32:15:12 -641679.748873] SLOW spr round 8 (radius: 10)
[32:19:14 -641679.748796] SLOW spr round 9 (radius: 15)
[32:25:44 -641679.748754] SLOW spr round 10 (radius: 20)
[32:36:12 -641679.748750] SLOW spr round 11 (radius: 25)
[32:48:31 -641679.748749] Model parameter optimization (eps = 0.100000)

[32:48:40] ML tree search #17, logLikelihood: -641679.721963

[32:48:40 -2657157.406855] Initial branch length optimization
[32:48:51 -2232762.246274] Model parameter optimization (eps = 10.000000)
[32:50:00 -2230988.814150] AUTODETECT spr round 1 (radius: 5)
[32:54:36 -1515493.651242] AUTODETECT spr round 2 (radius: 10)
[32:59:36 -1081587.215918] AUTODETECT spr round 3 (radius: 15)
[33:05:10 -887506.829309] AUTODETECT spr round 4 (radius: 20)
[33:11:21 -759881.269278] AUTODETECT spr round 5 (radius: 25)
[33:18:21 -751742.567972] SPR radius for FAST iterations: 25 (autodetect)
[33:18:21 -751742.567972] Model parameter optimization (eps = 3.000000)
[33:18:57 -751376.949194] FAST spr round 1 (radius: 25)
[33:24:00 -646297.538699] FAST spr round 2 (radius: 25)
[33:27:42 -642207.355846] FAST spr round 3 (radius: 25)
[33:30:58 -641955.231288] FAST spr round 4 (radius: 25)
[33:33:49 -641922.051135] FAST spr round 5 (radius: 25)
[33:36:23 -641922.002150] Model parameter optimization (eps = 1.000000)
[33:36:31 -641921.374163] SLOW spr round 1 (radius: 5)
[33:40:51 -641701.036052] SLOW spr round 2 (radius: 5)
[33:44:42 -641693.756022] SLOW spr round 3 (radius: 5)
[33:48:25 -641693.755779] SLOW spr round 4 (radius: 10)
[33:52:20 -641691.787570] SLOW spr round 5 (radius: 5)
[33:57:27 -641686.762487] SLOW spr round 6 (radius: 5)
[34:01:48 -641685.315314] SLOW spr round 7 (radius: 5)
[34:05:47 -641682.276780] SLOW spr round 8 (radius: 5)
[34:09:33 -641682.276780] SLOW spr round 9 (radius: 10)
[34:13:28 -641682.276780] SLOW spr round 10 (radius: 15)
[34:20:15 -641678.171358] SLOW spr round 11 (radius: 5)
[34:25:34 -641678.169754] SLOW spr round 12 (radius: 10)
[34:30:04 -641678.169494] SLOW spr round 13 (radius: 15)
[34:36:21 -641678.169446] SLOW spr round 14 (radius: 20)
[34:47:09 -641678.169437] SLOW spr round 15 (radius: 25)
[34:59:29 -641678.169435] Model parameter optimization (eps = 0.100000)

[34:59:35] ML tree search #18, logLikelihood: -641678.164618

[34:59:35 -2628373.969449] Initial branch length optimization
[34:59:45 -2206109.836660] Model parameter optimization (eps = 10.000000)
[35:00:50 -2204328.398581] AUTODETECT spr round 1 (radius: 5)
[35:05:28 -1454231.901913] AUTODETECT spr round 2 (radius: 10)
[35:10:16 -1068073.172033] AUTODETECT spr round 3 (radius: 15)
[35:15:28 -859054.694038] AUTODETECT spr round 4 (radius: 20)
[35:21:49 -788240.820580] AUTODETECT spr round 5 (radius: 25)
[35:28:34 -756743.609827] SPR radius for FAST iterations: 25 (autodetect)
[35:28:34 -756743.609827] Model parameter optimization (eps = 3.000000)
[35:29:08 -756402.926370] FAST spr round 1 (radius: 25)
[35:34:13 -645032.849673] FAST spr round 2 (radius: 25)
[35:38:02 -642069.815080] FAST spr round 3 (radius: 25)
[35:41:12 -641954.591664] FAST spr round 4 (radius: 25)
[35:43:57 -641924.405676] FAST spr round 5 (radius: 25)
[35:46:35 -641917.916615] FAST spr round 6 (radius: 25)
[35:49:08 -641916.580361] FAST spr round 7 (radius: 25)
[35:51:38 -641916.579461] Model parameter optimization (eps = 1.000000)
[35:51:59 -641902.757220] SLOW spr round 1 (radius: 5)
[35:55:59 -641707.802833] SLOW spr round 2 (radius: 5)
[35:59:50 -641700.753610] SLOW spr round 3 (radius: 5)
[36:03:38 -641690.835216] SLOW spr round 4 (radius: 5)
[36:07:20 -641680.118373] SLOW spr round 5 (radius: 5)
[36:11:01 -641680.118313] SLOW spr round 6 (radius: 10)
[36:15:03 -641670.599314] SLOW spr round 7 (radius: 5)
[36:20:09 -641670.524727] SLOW spr round 8 (radius: 10)
[36:24:30 -641670.524525] SLOW spr round 9 (radius: 15)
[36:30:52 -641670.524507] SLOW spr round 10 (radius: 20)
[36:41:24 -641670.524503] SLOW spr round 11 (radius: 25)
[36:53:44 -641670.524501] Model parameter optimization (eps = 0.100000)

[36:53:57] ML tree search #19, logLikelihood: -641670.330151

[36:53:58 -2658226.241493] Initial branch length optimization
[36:54:07 -2238954.726301] Model parameter optimization (eps = 10.000000)
[36:55:13 -2237160.677644] AUTODETECT spr round 1 (radius: 5)
[36:59:59 -1484845.432549] AUTODETECT spr round 2 (radius: 10)
[37:04:56 -1086542.906236] AUTODETECT spr round 3 (radius: 15)
[37:10:23 -873332.177170] AUTODETECT spr round 4 (radius: 20)
[37:16:22 -774297.037100] AUTODETECT spr round 5 (radius: 25)
[37:22:24 -760396.237916] SPR radius for FAST iterations: 25 (autodetect)
[37:22:24 -760396.237916] Model parameter optimization (eps = 3.000000)
[37:22:59 -760035.468143] FAST spr round 1 (radius: 25)
[37:27:57 -644960.724337] FAST spr round 2 (radius: 25)
[37:31:35 -642008.596727] FAST spr round 3 (radius: 25)
[37:34:44 -641884.671009] FAST spr round 4 (radius: 25)
[37:37:34 -641847.538994] FAST spr round 5 (radius: 25)
[37:40:12 -641844.219971] FAST spr round 6 (radius: 25)
[37:42:46 -641844.219914] Model parameter optimization (eps = 1.000000)
[37:43:03 -641832.946339] SLOW spr round 1 (radius: 5)
[37:47:23 -641721.497246] SLOW spr round 2 (radius: 5)
[37:51:26 -641710.577309] SLOW spr round 3 (radius: 5)
[37:55:12 -641709.129100] SLOW spr round 4 (radius: 5)
[37:58:53 -641709.129035] SLOW spr round 5 (radius: 10)
[38:02:55 -641703.274310] SLOW spr round 6 (radius: 5)
[38:08:04 -641700.036457] SLOW spr round 7 (radius: 5)
[38:12:26 -641700.036339] SLOW spr round 8 (radius: 10)
[38:16:34 -641700.036269] SLOW spr round 9 (radius: 15)
[38:23:11 -641700.036207] SLOW spr round 10 (radius: 20)
[38:33:45 -641700.036148] SLOW spr round 11 (radius: 25)
[38:46:14 -641700.036091] Model parameter optimization (eps = 0.100000)

[38:46:27] ML tree search #20, logLikelihood: -641699.920038


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.265306,0.302260) (0.306107,0.510220) (0.271364,1.149991) (0.157223,2.872108) 
   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: -641669.285794

AIC score: 1287348.571587 / AICc score: 9331408.571587 / BIC score: 1298560.254326
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1982).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O00763/3_mltree/O00763.raxml.log

Analysis started: 07-Jul-2021 20:17:53 / finished: 09-Jul-2021 11:04:20

Elapsed time: 139587.381 seconds

Consumed energy: 9346.526 Wh (= 47 km in an electric car, or 234 km with an e-scooter!)