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

System: Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM

RAxML-NG was called at 09-Jul-2021 11:51:13 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/2_msa/Q9UBT2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/2_msa/Q9UBT2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 565 sites

WARNING: Sequences tr_B2VT99_B2VT99_PYRTR_426418 and tr_A0A317BES0_A0A317BES0_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_H2NYD3_H2NYD3_PONAB_9601 and tr_A0A2R9AE16_A0A2R9AE16_PANPA_9597 are exactly identical!
WARNING: Sequences tr_B8N857_B8N857_ASPFN_332952 and tr_A0A1S9DY91_A0A1S9DY91_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_H2QG08_H2QG08_PANTR_9598 and sp_Q9UBT2_SAE2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2QG08_H2QG08_PANTR_9598 and tr_A0A0D9QX54_A0A0D9QX54_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F9F539_F9F539_FUSOF_660025 and tr_X0DRS7_X0DRS7_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_A0A0E0I2Z0_A0A0E0I2Z0_ORYNI_4536 and tr_B8B839_B8B839_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0I2Z0_A0A0E0I2Z0_ORYNI_4536 and tr_A0A0E0QAI4_A0A0E0QAI4_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0I2Z0_A0A0E0I2Z0_ORYNI_4536 and tr_A0A0D3GSX8_A0A0D3GSX8_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0I2Z0_A0A0E0I2Z0_ORYNI_4536 and tr_A0A0E0AM05_A0A0E0AM05_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A2QVB1_A2QVB1_ASPNC_425011 and tr_G3YBP4_G3YBP4_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QVB1_A2QVB1_ASPNC_425011 and tr_A0A319A724_A0A319A724_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_G7XB30_G7XB30_ASPKW_1033177 and tr_A0A146F7E6_A0A146F7E6_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_V2YIQ3_V2YIQ3_MONRO_1381753 and tr_A0A0W0FUL2_A0A0W0FUL2_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_W2RC93_W2RC93_PHYPN_761204 and tr_A0A0W8C7E7_A0A0W8C7E7_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_A0A094ETN7_A0A094ETN7_9PEZI_1420912 and tr_A0A1B8GEK8_A0A1B8GEK8_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0A1PEL5_A0A0A1PEL5_9FUNG_58291 and tr_A0A367JF97_A0A367JF97_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A1S3J3I5_A0A1S3J3I5_LINUN_7574 and tr_A0A1S3J4Q2_A0A1S3J4Q2_LINUN_7574 are exactly identical!
WARNING: Sequences tr_A0A2K6AFV2_A0A2K6AFV2_MANLE_9568 and tr_A0A2R9AKJ2_A0A2R9AKJ2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2U4BTP4_A0A2U4BTP4_TURTR_9739 and tr_A0A2Y9P8E1_A0A2Y9P8E1_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4BTP4_A0A2U4BTP4_TURTR_9739 and tr_A0A2Y9FMF5_A0A2Y9FMF5_PHYCD_9755 are exactly identical!
WARNING: Duplicate sequences found: 21

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.reduced.phy

Alignment comprises 1 partitions and 565 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 565 / 565
Gaps: 9.70 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.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 / 81 / 6480
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -886682.864671] Initial branch length optimization
[00:00:04 -763609.879564] Model parameter optimization (eps = 10.000000)
[00:00:39 -762768.970934] AUTODETECT spr round 1 (radius: 5)
[00:02:39 -573223.091525] AUTODETECT spr round 2 (radius: 10)
[00:04:58 -441648.743973] AUTODETECT spr round 3 (radius: 15)
[00:07:27 -379756.495403] AUTODETECT spr round 4 (radius: 20)
[00:10:17 -355366.399937] AUTODETECT spr round 5 (radius: 25)
[00:13:39 -351491.561633] SPR radius for FAST iterations: 25 (autodetect)
[00:13:39 -351491.561633] Model parameter optimization (eps = 3.000000)
[00:13:57 -351357.750944] FAST spr round 1 (radius: 25)
[00:17:04 -311904.527998] FAST spr round 2 (radius: 25)
[00:19:16 -310430.201548] FAST spr round 3 (radius: 25)
[00:21:17 -310297.429678] FAST spr round 4 (radius: 25)
[00:23:02 -310266.216785] FAST spr round 5 (radius: 25)
[00:24:42 -310266.216752] Model parameter optimization (eps = 1.000000)
[00:24:47 -310265.940883] SLOW spr round 1 (radius: 5)
[00:27:10 -310203.004364] SLOW spr round 2 (radius: 5)
[00:29:27 -310189.527748] SLOW spr round 3 (radius: 5)
[00:31:34 -310189.527710] SLOW spr round 4 (radius: 10)
[00:33:42 -310188.531867] SLOW spr round 5 (radius: 5)
[00:36:14 -310186.192042] SLOW spr round 6 (radius: 5)
[00:38:29 -310186.192028] SLOW spr round 7 (radius: 10)
[00:40:39 -310186.192027] SLOW spr round 8 (radius: 15)
[00:43:51 -310186.192026] SLOW spr round 9 (radius: 20)
[00:48:31 -310186.192025] SLOW spr round 10 (radius: 25)
[00:54:26 -310186.192024] Model parameter optimization (eps = 0.100000)

[00:54:35] ML tree search #1, logLikelihood: -310185.778024

[00:54:35 -889555.350059] Initial branch length optimization
[00:54:38 -766153.232240] Model parameter optimization (eps = 10.000000)
[00:55:22 -765328.649425] AUTODETECT spr round 1 (radius: 5)
[00:57:24 -563444.640078] AUTODETECT spr round 2 (radius: 10)
[00:59:42 -433826.998548] AUTODETECT spr round 3 (radius: 15)
[01:02:10 -386226.291752] AUTODETECT spr round 4 (radius: 20)
[01:05:06 -355760.044734] AUTODETECT spr round 5 (radius: 25)
[01:08:26 -351519.801165] SPR radius for FAST iterations: 25 (autodetect)
[01:08:26 -351519.801165] Model parameter optimization (eps = 3.000000)
[01:08:46 -351416.137473] FAST spr round 1 (radius: 25)
[01:11:45 -311700.153760] FAST spr round 2 (radius: 25)
[01:14:01 -310360.644711] FAST spr round 3 (radius: 25)
[01:16:06 -310280.946900] FAST spr round 4 (radius: 25)
[01:17:57 -310253.990941] FAST spr round 5 (radius: 25)
[01:19:39 -310251.584583] FAST spr round 6 (radius: 25)
[01:21:18 -310251.582380] Model parameter optimization (eps = 1.000000)
[01:21:33 -310247.679628] SLOW spr round 1 (radius: 5)
[01:23:55 -310174.455238] SLOW spr round 2 (radius: 5)
[01:26:08 -310172.667580] SLOW spr round 3 (radius: 5)
[01:28:16 -310172.194749] SLOW spr round 4 (radius: 5)
[01:30:22 -310172.194682] SLOW spr round 5 (radius: 10)
[01:32:34 -310171.912318] SLOW spr round 6 (radius: 5)
[01:35:11 -310171.912192] SLOW spr round 7 (radius: 10)
[01:37:35 -310171.550913] SLOW spr round 8 (radius: 5)
[01:40:08 -310170.871803] SLOW spr round 9 (radius: 5)
[01:42:25 -310170.871800] SLOW spr round 10 (radius: 10)
[01:44:39 -310170.483148] SLOW spr round 11 (radius: 5)
[01:47:15 -310169.655133] SLOW spr round 12 (radius: 5)
[01:49:34 -310169.654118] SLOW spr round 13 (radius: 10)
[01:51:51 -310167.480957] SLOW spr round 14 (radius: 5)
[01:54:27 -310167.480891] SLOW spr round 15 (radius: 10)
[01:56:49 -310167.480873] SLOW spr round 16 (radius: 15)
[02:00:06 -310167.480868] SLOW spr round 17 (radius: 20)
[02:05:13 -310167.480866] SLOW spr round 18 (radius: 25)
[02:11:28 -310167.480865] Model parameter optimization (eps = 0.100000)

[02:11:34] ML tree search #2, logLikelihood: -310167.400554

[02:11:34 -887907.432753] Initial branch length optimization
[02:11:37 -765028.313432] Model parameter optimization (eps = 10.000000)
[02:12:09 -764207.101083] AUTODETECT spr round 1 (radius: 5)
[02:14:10 -575202.807448] AUTODETECT spr round 2 (radius: 10)
[02:16:27 -433950.509729] AUTODETECT spr round 3 (radius: 15)
[02:18:53 -382091.806067] AUTODETECT spr round 4 (radius: 20)
[02:21:44 -353663.470219] AUTODETECT spr round 5 (radius: 25)
[02:24:57 -349868.100883] SPR radius for FAST iterations: 25 (autodetect)
[02:24:58 -349868.100883] Model parameter optimization (eps = 3.000000)
[02:25:14 -349717.181462] FAST spr round 1 (radius: 25)
[02:28:19 -311635.790935] FAST spr round 2 (radius: 25)
[02:30:35 -310397.998726] FAST spr round 3 (radius: 25)
[02:32:34 -310280.712849] FAST spr round 4 (radius: 25)
[02:34:22 -310262.574615] FAST spr round 5 (radius: 25)
[02:36:02 -310261.110224] FAST spr round 6 (radius: 25)
[02:37:41 -310261.110221] Model parameter optimization (eps = 1.000000)
[02:37:54 -310258.109223] SLOW spr round 1 (radius: 5)
[02:40:10 -310203.831559] SLOW spr round 2 (radius: 5)
[02:42:15 -310203.040931] SLOW spr round 3 (radius: 5)
[02:44:19 -310203.040916] SLOW spr round 4 (radius: 10)
[02:46:30 -310202.303032] SLOW spr round 5 (radius: 5)
[02:49:06 -310200.704861] SLOW spr round 6 (radius: 5)
[02:51:26 -310196.661570] SLOW spr round 7 (radius: 5)
[02:53:38 -310196.052927] SLOW spr round 8 (radius: 5)
[02:55:46 -310196.051547] SLOW spr round 9 (radius: 10)
[02:57:58 -310195.623407] SLOW spr round 10 (radius: 5)
[03:00:33 -310195.623133] SLOW spr round 11 (radius: 10)
[03:02:58 -310195.623116] SLOW spr round 12 (radius: 15)
[03:06:18 -310195.623109] SLOW spr round 13 (radius: 20)
[03:11:19 -310195.623105] SLOW spr round 14 (radius: 25)
[03:17:32 -310195.623102] Model parameter optimization (eps = 0.100000)

[03:17:40] ML tree search #3, logLikelihood: -310195.385841

[03:17:40 -886892.515980] Initial branch length optimization
[03:17:43 -763055.712278] Model parameter optimization (eps = 10.000000)
[03:18:15 -762385.001865] AUTODETECT spr round 1 (radius: 5)
[03:20:18 -576684.990318] AUTODETECT spr round 2 (radius: 10)
[03:22:37 -423842.872936] AUTODETECT spr round 3 (radius: 15)
[03:25:11 -362643.014700] AUTODETECT spr round 4 (radius: 20)
[03:28:02 -344190.638542] AUTODETECT spr round 5 (radius: 25)
[03:31:03 -338829.959187] SPR radius for FAST iterations: 25 (autodetect)
[03:31:04 -338829.959187] Model parameter optimization (eps = 3.000000)
[03:31:23 -338505.614845] FAST spr round 1 (radius: 25)
[03:34:27 -311249.388572] FAST spr round 2 (radius: 25)
[03:36:48 -310373.063463] FAST spr round 3 (radius: 25)
[03:38:50 -310325.485615] FAST spr round 4 (radius: 25)
[03:40:35 -310312.067872] FAST spr round 5 (radius: 25)
[03:42:15 -310312.067803] Model parameter optimization (eps = 1.000000)
[03:42:31 -310294.125037] SLOW spr round 1 (radius: 5)
[03:44:53 -310215.780263] SLOW spr round 2 (radius: 5)
[03:47:05 -310207.472480] SLOW spr round 3 (radius: 5)
[03:49:17 -310203.954947] SLOW spr round 4 (radius: 5)
[03:51:23 -310203.953916] SLOW spr round 5 (radius: 10)
[03:53:33 -310199.856231] SLOW spr round 6 (radius: 5)
[03:56:06 -310197.357201] SLOW spr round 7 (radius: 5)
[03:58:21 -310197.357181] SLOW spr round 8 (radius: 10)
[04:00:35 -310194.674767] SLOW spr round 9 (radius: 5)
[04:03:09 -310188.151560] SLOW spr round 10 (radius: 5)
[04:05:22 -310188.151482] SLOW spr round 11 (radius: 10)
[04:07:35 -310188.151481] SLOW spr round 12 (radius: 15)
[04:10:59 -310188.151480] SLOW spr round 13 (radius: 20)
[04:16:11 -310188.151479] SLOW spr round 14 (radius: 25)
[04:22:25 -310188.151478] Model parameter optimization (eps = 0.100000)

[04:22:31] ML tree search #4, logLikelihood: -310188.098685

[04:22:31 -889313.497173] Initial branch length optimization
[04:22:34 -763498.898970] Model parameter optimization (eps = 10.000000)
[04:23:01 -762707.631849] AUTODETECT spr round 1 (radius: 5)
[04:25:04 -579530.442967] AUTODETECT spr round 2 (radius: 10)
[04:27:20 -448641.585155] AUTODETECT spr round 3 (radius: 15)
[04:29:48 -389089.950959] AUTODETECT spr round 4 (radius: 20)
[04:32:59 -352771.314122] AUTODETECT spr round 5 (radius: 25)
[04:36:24 -349313.547989] SPR radius for FAST iterations: 25 (autodetect)
[04:36:24 -349313.547989] Model parameter optimization (eps = 3.000000)
[04:36:44 -349189.485923] FAST spr round 1 (radius: 25)
[04:39:46 -311878.162843] FAST spr round 2 (radius: 25)
[04:42:02 -310325.211228] FAST spr round 3 (radius: 25)
[04:44:03 -310274.617105] FAST spr round 4 (radius: 25)
[04:45:50 -310271.401072] FAST spr round 5 (radius: 25)
[04:47:33 -310271.400115] Model parameter optimization (eps = 1.000000)
[04:47:49 -310266.048961] SLOW spr round 1 (radius: 5)
[04:50:11 -310188.534635] SLOW spr round 2 (radius: 5)
[04:52:27 -310178.995869] SLOW spr round 3 (radius: 5)
[05:07:23 -310178.995717] SLOW spr round 4 (radius: 10)
[05:09:34 -310178.921893] SLOW spr round 5 (radius: 15)
[05:13:02 -310178.921379] SLOW spr round 6 (radius: 20)
[05:18:06 -310178.921247] SLOW spr round 7 (radius: 25)
[05:28:23 -310178.921212] Model parameter optimization (eps = 0.100000)

[05:28:31] ML tree search #5, logLikelihood: -310178.836499

[05:28:31 -888699.495470] Initial branch length optimization
[05:28:35 -766768.512732] Model parameter optimization (eps = 10.000000)
[05:29:01 -765997.170019] AUTODETECT spr round 1 (radius: 5)
[05:31:05 -571022.641269] AUTODETECT spr round 2 (radius: 10)
[05:33:29 -427153.053757] AUTODETECT spr round 3 (radius: 15)
[05:36:03 -374952.314537] AUTODETECT spr round 4 (radius: 20)
[05:39:01 -355439.158951] AUTODETECT spr round 5 (radius: 25)
[05:42:24 -352905.193592] SPR radius for FAST iterations: 25 (autodetect)
[05:42:24 -352905.193592] Model parameter optimization (eps = 3.000000)
[05:42:43 -352798.347156] FAST spr round 1 (radius: 25)
[05:45:49 -312307.073488] FAST spr round 2 (radius: 25)
[05:48:08 -310406.183938] FAST spr round 3 (radius: 25)
[05:50:09 -310289.669851] FAST spr round 4 (radius: 25)
[05:51:58 -310278.113926] FAST spr round 5 (radius: 25)
[05:53:40 -310278.113889] Model parameter optimization (eps = 1.000000)
[05:53:51 -310273.629639] SLOW spr round 1 (radius: 5)
[05:56:12 -310195.736801] SLOW spr round 2 (radius: 5)
[05:58:27 -310184.488104] SLOW spr round 3 (radius: 5)
[06:00:37 -310184.487974] SLOW spr round 4 (radius: 10)
[06:11:37 -310184.487926] SLOW spr round 5 (radius: 15)
[06:15:08 -310184.487903] SLOW spr round 6 (radius: 20)
[06:20:23 -310184.487889] SLOW spr round 7 (radius: 25)
[06:26:44 -310184.487880] Model parameter optimization (eps = 0.100000)

[06:26:50] ML tree search #6, logLikelihood: -310184.419691

[06:26:50 -891228.652209] Initial branch length optimization
[06:26:53 -767053.027831] Model parameter optimization (eps = 10.000000)
[06:27:21 -766277.415947] AUTODETECT spr round 1 (radius: 5)
[06:29:26 -575627.660402] AUTODETECT spr round 2 (radius: 10)
[06:31:46 -446603.092827] AUTODETECT spr round 3 (radius: 15)
[06:34:21 -374329.982834] AUTODETECT spr round 4 (radius: 20)
[06:37:31 -354527.104445] AUTODETECT spr round 5 (radius: 25)
[06:41:02 -346488.675384] SPR radius for FAST iterations: 25 (autodetect)
[06:41:02 -346488.675384] Model parameter optimization (eps = 3.000000)
[06:41:20 -346411.934243] FAST spr round 1 (radius: 25)
[06:50:23 -311777.211204] FAST spr round 2 (radius: 25)
[06:52:49 -310375.242744] FAST spr round 3 (radius: 25)
[06:56:11 -310280.245040] FAST spr round 4 (radius: 25)
[06:58:25 -310246.523523] FAST spr round 5 (radius: 25)
[07:00:10 -310246.083441] FAST spr round 6 (radius: 25)
[07:01:53 -310246.083354] Model parameter optimization (eps = 1.000000)
[07:02:08 -310236.424018] SLOW spr round 1 (radius: 5)
[07:04:27 -310181.137158] SLOW spr round 2 (radius: 5)
[07:09:31 -310176.424359] SLOW spr round 3 (radius: 5)
[07:17:52 -310176.424198] SLOW spr round 4 (radius: 10)
[07:22:21 -310175.421018] SLOW spr round 5 (radius: 5)
[07:24:57 -310170.607179] SLOW spr round 6 (radius: 5)
[07:27:15 -310170.524556] SLOW spr round 7 (radius: 10)
[07:29:30 -310170.524280] SLOW spr round 8 (radius: 15)
[07:32:50 -310170.524139] SLOW spr round 9 (radius: 20)
[07:37:51 -310170.524030] SLOW spr round 10 (radius: 25)
[08:01:50 -310170.523945] Model parameter optimization (eps = 0.100000)

[08:01:59] ML tree search #7, logLikelihood: -310170.336041

[08:01:59 -888410.716440] Initial branch length optimization
[08:02:04 -763164.969866] Model parameter optimization (eps = 10.000000)
[08:02:44 -762347.658844] AUTODETECT spr round 1 (radius: 5)
[08:04:50 -576633.005778] AUTODETECT spr round 2 (radius: 10)
[08:07:02 -458380.905759] AUTODETECT spr round 3 (radius: 15)
[08:09:31 -396030.766822] AUTODETECT spr round 4 (radius: 20)
[08:12:32 -359608.585541] AUTODETECT spr round 5 (radius: 25)
[08:15:49 -354410.414456] SPR radius for FAST iterations: 25 (autodetect)
[08:15:49 -354410.414456] Model parameter optimization (eps = 3.000000)
[08:16:07 -354337.226037] FAST spr round 1 (radius: 25)
[08:19:01 -311851.942480] FAST spr round 2 (radius: 25)
[08:21:07 -310464.391985] FAST spr round 3 (radius: 25)
[08:23:00 -310337.395236] FAST spr round 4 (radius: 25)
[08:24:48 -310287.713424] FAST spr round 5 (radius: 25)
[08:26:23 -310285.224043] FAST spr round 6 (radius: 25)
[08:27:56 -310285.224016] Model parameter optimization (eps = 1.000000)
[08:28:04 -310282.840406] SLOW spr round 1 (radius: 5)
[08:30:18 -310197.814456] SLOW spr round 2 (radius: 5)
[08:32:23 -310191.021429] SLOW spr round 3 (radius: 5)
[08:34:25 -310190.417754] SLOW spr round 4 (radius: 5)
[08:36:25 -310190.417726] SLOW spr round 5 (radius: 10)
[08:38:28 -310186.975570] SLOW spr round 6 (radius: 5)
[08:40:56 -310186.975566] SLOW spr round 7 (radius: 10)
[08:43:10 -310186.975564] SLOW spr round 8 (radius: 15)
[08:46:17 -310186.975563] SLOW spr round 9 (radius: 20)
[08:50:57 -310186.975562] SLOW spr round 10 (radius: 25)
[08:56:42 -310186.975561] Model parameter optimization (eps = 0.100000)

[08:56:50] ML tree search #8, logLikelihood: -310186.751557

[08:56:51 -891681.702062] Initial branch length optimization
[08:56:54 -763035.682066] Model parameter optimization (eps = 10.000000)
[08:57:18 -762235.826024] AUTODETECT spr round 1 (radius: 5)
[08:59:14 -570214.737345] AUTODETECT spr round 2 (radius: 10)
[09:01:27 -439167.331441] AUTODETECT spr round 3 (radius: 15)
[09:03:55 -371634.655853] AUTODETECT spr round 4 (radius: 20)
[09:06:33 -348429.884121] AUTODETECT spr round 5 (radius: 25)
[09:09:28 -346506.306350] SPR radius for FAST iterations: 25 (autodetect)
[09:09:28 -346506.306350] Model parameter optimization (eps = 3.000000)
[09:09:44 -346425.372668] FAST spr round 1 (radius: 25)
[09:12:41 -311558.020898] FAST spr round 2 (radius: 25)
[09:14:56 -310464.321958] FAST spr round 3 (radius: 25)
[09:16:46 -310358.825795] FAST spr round 4 (radius: 25)
[09:18:27 -310341.038573] FAST spr round 5 (radius: 25)
[09:20:04 -310341.037989] Model parameter optimization (eps = 1.000000)
[09:20:19 -310338.769910] SLOW spr round 1 (radius: 5)
[09:22:44 -310226.700589] SLOW spr round 2 (radius: 5)
[09:25:01 -310214.156019] SLOW spr round 3 (radius: 5)
[09:27:07 -310211.136575] SLOW spr round 4 (radius: 5)
[09:29:06 -310211.136169] SLOW spr round 5 (radius: 10)
[09:31:12 -310201.603381] SLOW spr round 6 (radius: 5)
[09:33:44 -310193.601664] SLOW spr round 7 (radius: 5)
[09:35:55 -310193.601524] SLOW spr round 8 (radius: 10)
[09:38:05 -310193.410450] SLOW spr round 9 (radius: 5)
[09:40:34 -310193.409712] SLOW spr round 10 (radius: 10)
[09:42:52 -310193.409712] SLOW spr round 11 (radius: 15)
[09:46:01 -310193.409711] SLOW spr round 12 (radius: 20)
[09:50:50 -310193.409710] SLOW spr round 13 (radius: 25)
[09:56:52 -310193.409709] Model parameter optimization (eps = 0.100000)

[09:56:59] ML tree search #9, logLikelihood: -310193.106181

[09:56:59 -891388.855947] Initial branch length optimization
[09:57:05 -767878.957161] Model parameter optimization (eps = 10.000000)
[09:57:30 -767110.157813] AUTODETECT spr round 1 (radius: 5)
[09:59:28 -570354.094852] AUTODETECT spr round 2 (radius: 10)
[10:01:47 -419678.459109] AUTODETECT spr round 3 (radius: 15)
[10:04:18 -363838.786780] AUTODETECT spr round 4 (radius: 20)
[10:07:21 -342952.918594] AUTODETECT spr round 5 (radius: 25)
[10:10:46 -342447.666344] SPR radius for FAST iterations: 25 (autodetect)
[10:10:46 -342447.666344] Model parameter optimization (eps = 3.000000)
[10:11:05 -342349.307167] FAST spr round 1 (radius: 25)
[10:14:04 -311826.700348] FAST spr round 2 (radius: 25)
[10:16:14 -310453.485223] FAST spr round 3 (radius: 25)
[10:18:12 -310289.986953] FAST spr round 4 (radius: 25)
[10:20:01 -310254.378356] FAST spr round 5 (radius: 25)
[10:21:36 -310254.378271] Model parameter optimization (eps = 1.000000)
[10:21:43 -310253.864886] SLOW spr round 1 (radius: 5)
[10:23:59 -310184.193933] SLOW spr round 2 (radius: 5)
[10:26:06 -310180.596402] SLOW spr round 3 (radius: 5)
[10:28:08 -310180.363398] SLOW spr round 4 (radius: 5)
[10:30:10 -310178.714082] SLOW spr round 5 (radius: 5)
[10:32:07 -310178.714064] SLOW spr round 6 (radius: 10)
[10:34:09 -310178.714048] SLOW spr round 7 (radius: 15)
[10:37:30 -310178.714034] SLOW spr round 8 (radius: 20)
[10:42:20 -310178.714023] SLOW spr round 9 (radius: 25)
[10:48:29 -310178.714013] Model parameter optimization (eps = 0.100000)

[10:48:34] ML tree search #10, logLikelihood: -310178.671809

[10:48:34 -890481.619793] Initial branch length optimization
[10:48:37 -766036.483083] Model parameter optimization (eps = 10.000000)
[10:49:07 -765196.988229] AUTODETECT spr round 1 (radius: 5)
[10:51:17 -561955.182696] AUTODETECT spr round 2 (radius: 10)
[10:53:42 -435393.990104] AUTODETECT spr round 3 (radius: 15)
[10:56:18 -385063.396400] AUTODETECT spr round 4 (radius: 20)
[10:59:30 -357914.233941] AUTODETECT spr round 5 (radius: 25)
[11:03:19 -349105.549410] SPR radius for FAST iterations: 25 (autodetect)
[11:03:19 -349105.549410] Model parameter optimization (eps = 3.000000)
[11:03:25 -349103.035041] FAST spr round 1 (radius: 25)
[11:06:46 -311981.977587] FAST spr round 2 (radius: 25)
[11:09:13 -310571.614253] FAST spr round 3 (radius: 25)
[11:11:22 -310460.059071] FAST spr round 4 (radius: 25)
[11:13:23 -310413.099300] FAST spr round 5 (radius: 25)
[11:15:11 -310407.320901] FAST spr round 6 (radius: 25)
[11:16:56 -310405.671408] FAST spr round 7 (radius: 25)
[11:18:36 -310405.671350] Model parameter optimization (eps = 1.000000)
[11:18:51 -310275.519165] SLOW spr round 1 (radius: 5)
[11:20:58 -310199.305241] SLOW spr round 2 (radius: 5)
[11:23:04 -310190.263469] SLOW spr round 3 (radius: 5)
[11:25:05 -310188.981406] SLOW spr round 4 (radius: 5)
[11:27:03 -310188.980700] SLOW spr round 5 (radius: 10)
[11:29:05 -310187.614224] SLOW spr round 6 (radius: 5)
[11:31:32 -310184.920015] SLOW spr round 7 (radius: 5)
[11:33:43 -310184.919991] SLOW spr round 8 (radius: 10)
[11:35:50 -310184.919982] SLOW spr round 9 (radius: 15)
[11:39:05 -310184.919974] SLOW spr round 10 (radius: 20)
[11:43:54 -310184.919968] SLOW spr round 11 (radius: 25)
[11:50:04 -310184.919962] Model parameter optimization (eps = 0.100000)

[11:50:12] ML tree search #11, logLikelihood: -310184.319786

[11:50:12 -892501.535655] Initial branch length optimization
[11:50:15 -766086.352199] Model parameter optimization (eps = 10.000000)
[11:50:44 -765283.581137] AUTODETECT spr round 1 (radius: 5)
[11:52:42 -576250.627881] AUTODETECT spr round 2 (radius: 10)
[11:54:56 -432900.752374] AUTODETECT spr round 3 (radius: 15)
[11:57:18 -376289.588358] AUTODETECT spr round 4 (radius: 20)
[12:00:08 -347776.309118] AUTODETECT spr round 5 (radius: 25)
[12:03:20 -344994.525475] SPR radius for FAST iterations: 25 (autodetect)
[12:03:20 -344994.525475] Model parameter optimization (eps = 3.000000)
[12:03:37 -344883.972196] FAST spr round 1 (radius: 25)
[12:06:41 -312449.935376] FAST spr round 2 (radius: 25)
[12:08:55 -310693.203691] FAST spr round 3 (radius: 25)
[12:10:51 -310311.932085] FAST spr round 4 (radius: 25)
[12:12:34 -310284.569189] FAST spr round 5 (radius: 25)
[12:14:13 -310273.988344] FAST spr round 6 (radius: 25)
[12:15:48 -310270.418165] FAST spr round 7 (radius: 25)
[12:17:23 -310270.418108] Model parameter optimization (eps = 1.000000)
[12:17:38 -310267.381097] SLOW spr round 1 (radius: 5)
[12:19:52 -310208.559687] SLOW spr round 2 (radius: 5)
[12:21:58 -310202.578377] SLOW spr round 3 (radius: 5)
[12:24:00 -310197.705342] SLOW spr round 4 (radius: 5)
[12:26:00 -310196.800415] SLOW spr round 5 (radius: 5)
[12:28:01 -310194.508377] SLOW spr round 6 (radius: 5)
[12:30:01 -310194.507247] SLOW spr round 7 (radius: 10)
[12:32:07 -310192.786703] SLOW spr round 8 (radius: 5)
[12:34:37 -310192.779723] SLOW spr round 9 (radius: 10)
[12:36:54 -310192.778769] SLOW spr round 10 (radius: 15)
[12:40:11 -310192.777947] SLOW spr round 11 (radius: 20)
[12:45:21 -310192.777241] SLOW spr round 12 (radius: 25)
[12:51:55 -310192.776634] Model parameter optimization (eps = 0.100000)

[12:52:04] ML tree search #12, logLikelihood: -310192.258230

[12:52:04 -887238.081798] Initial branch length optimization
[12:52:07 -762902.501259] Model parameter optimization (eps = 10.000000)
[12:52:32 -762127.543157] AUTODETECT spr round 1 (radius: 5)
[12:54:30 -576393.682494] AUTODETECT spr round 2 (radius: 10)
[12:56:41 -450363.891495] AUTODETECT spr round 3 (radius: 15)
[12:59:11 -378154.770699] AUTODETECT spr round 4 (radius: 20)
[13:02:07 -353521.543400] AUTODETECT spr round 5 (radius: 25)
[13:05:12 -349319.353642] SPR radius for FAST iterations: 25 (autodetect)
[13:05:12 -349319.353642] Model parameter optimization (eps = 3.000000)
[13:05:29 -349195.345856] FAST spr round 1 (radius: 25)
[13:08:23 -311520.540807] FAST spr round 2 (radius: 25)
[13:10:37 -310428.072561] FAST spr round 3 (radius: 25)
[13:12:32 -310311.267127] FAST spr round 4 (radius: 25)
[13:14:10 -310303.508794] FAST spr round 5 (radius: 25)
[13:15:46 -310303.508210] Model parameter optimization (eps = 1.000000)
[13:15:58 -310301.731397] SLOW spr round 1 (radius: 5)
[13:18:15 -310209.075524] SLOW spr round 2 (radius: 5)
[13:20:28 -310188.667931] SLOW spr round 3 (radius: 5)
[13:22:34 -310187.067641] SLOW spr round 4 (radius: 5)
[13:24:35 -310187.067579] SLOW spr round 5 (radius: 10)
[13:26:41 -310184.668778] SLOW spr round 6 (radius: 5)
[13:29:13 -310184.667050] SLOW spr round 7 (radius: 10)
[13:31:32 -310184.666398] SLOW spr round 8 (radius: 15)
[13:34:43 -310184.666223] SLOW spr round 9 (radius: 20)
[13:39:34 -310184.666159] SLOW spr round 10 (radius: 25)
[13:45:40 -310184.666136] Model parameter optimization (eps = 0.100000)

[13:45:48] ML tree search #13, logLikelihood: -310184.018227

[13:45:48 -890654.023786] Initial branch length optimization
[13:45:51 -765853.105885] Model parameter optimization (eps = 10.000000)
[13:46:18 -764933.405474] AUTODETECT spr round 1 (radius: 5)
[13:48:17 -581875.247336] AUTODETECT spr round 2 (radius: 10)
[13:50:30 -453704.057481] AUTODETECT spr round 3 (radius: 15)
[13:52:52 -372544.218218] AUTODETECT spr round 4 (radius: 20)
[13:55:53 -350091.031014] AUTODETECT spr round 5 (radius: 25)
[13:59:31 -346746.607369] SPR radius for FAST iterations: 25 (autodetect)
[13:59:31 -346746.607369] Model parameter optimization (eps = 3.000000)
[13:59:49 -346591.698174] FAST spr round 1 (radius: 25)
[14:02:53 -311487.711899] FAST spr round 2 (radius: 25)
[14:05:09 -310360.055356] FAST spr round 3 (radius: 25)
[14:07:06 -310277.755695] FAST spr round 4 (radius: 25)
[14:08:49 -310263.968812] FAST spr round 5 (radius: 25)
[14:10:24 -310259.944465] FAST spr round 6 (radius: 25)
[14:11:57 -310259.804511] FAST spr round 7 (radius: 25)
[14:13:28 -310259.803744] Model parameter optimization (eps = 1.000000)
[14:13:42 -310252.874043] SLOW spr round 1 (radius: 5)
[14:15:55 -310173.641785] SLOW spr round 2 (radius: 5)
[14:17:57 -310172.079390] SLOW spr round 3 (radius: 5)
[14:19:57 -310172.079331] SLOW spr round 4 (radius: 10)
[14:22:01 -310170.047132] SLOW spr round 5 (radius: 5)
[14:24:30 -310166.654522] SLOW spr round 6 (radius: 5)
[14:26:40 -310166.654475] SLOW spr round 7 (radius: 10)
[14:28:46 -310166.654456] SLOW spr round 8 (radius: 15)
[14:31:58 -310166.654440] SLOW spr round 9 (radius: 20)
[14:36:46 -310166.654427] SLOW spr round 10 (radius: 25)
[14:42:47 -310166.654415] Model parameter optimization (eps = 0.100000)

[14:42:52] ML tree search #14, logLikelihood: -310166.617597

[14:42:52 -892791.058681] Initial branch length optimization
[14:42:55 -769000.875917] Model parameter optimization (eps = 10.000000)
[14:43:37 -768150.531305] AUTODETECT spr round 1 (radius: 5)
[14:45:36 -574480.605128] AUTODETECT spr round 2 (radius: 10)
[14:47:52 -436227.051888] AUTODETECT spr round 3 (radius: 15)
[14:50:12 -375316.149213] AUTODETECT spr round 4 (radius: 20)
[14:52:56 -356051.943851] AUTODETECT spr round 5 (radius: 25)
[14:56:10 -352426.340812] SPR radius for FAST iterations: 25 (autodetect)
[14:56:10 -352426.340812] Model parameter optimization (eps = 3.000000)
[14:56:30 -352263.349335] FAST spr round 1 (radius: 25)
[14:59:28 -311765.565977] FAST spr round 2 (radius: 25)
[15:01:40 -310415.171228] FAST spr round 3 (radius: 25)
[15:03:37 -310287.500696] FAST spr round 4 (radius: 25)
[15:05:27 -310259.250139] FAST spr round 5 (radius: 25)
[15:07:06 -310255.738122] FAST spr round 6 (radius: 25)
[15:08:41 -310254.461326] FAST spr round 7 (radius: 25)
[15:10:18 -310254.460996] Model parameter optimization (eps = 1.000000)
[15:10:32 -310253.255416] SLOW spr round 1 (radius: 5)
[15:12:52 -310197.638151] SLOW spr round 2 (radius: 5)
[15:15:15 -310185.936412] SLOW spr round 3 (radius: 5)
[15:17:21 -310181.879347] SLOW spr round 4 (radius: 5)
[15:19:22 -310181.879264] SLOW spr round 5 (radius: 10)
[15:21:42 -310181.879244] SLOW spr round 6 (radius: 15)
[15:25:15 -310181.879230] SLOW spr round 7 (radius: 20)
[15:30:15 -310181.879219] SLOW spr round 8 (radius: 25)
[15:36:37 -310181.879210] Model parameter optimization (eps = 0.100000)

[15:36:46] ML tree search #15, logLikelihood: -310181.641088

[15:36:46 -886730.484667] Initial branch length optimization
[15:36:49 -760501.183668] Model parameter optimization (eps = 10.000000)
[15:37:18 -759686.952333] AUTODETECT spr round 1 (radius: 5)
[15:39:26 -581312.854509] AUTODETECT spr round 2 (radius: 10)
[15:41:53 -436195.806610] AUTODETECT spr round 3 (radius: 15)
[15:44:31 -364468.779401] AUTODETECT spr round 4 (radius: 20)
[15:47:07 -348487.634755] AUTODETECT spr round 5 (radius: 25)
[15:50:16 -346372.610037] SPR radius for FAST iterations: 25 (autodetect)
[15:50:16 -346372.610037] Model parameter optimization (eps = 3.000000)
[15:50:34 -346324.138465] FAST spr round 1 (radius: 25)
[15:53:47 -311871.741446] FAST spr round 2 (radius: 25)
[15:56:19 -310361.870768] FAST spr round 3 (radius: 25)
[15:58:20 -310280.552492] FAST spr round 4 (radius: 25)
[16:00:07 -310256.801918] FAST spr round 5 (radius: 25)
[16:01:44 -310256.800835] Model parameter optimization (eps = 1.000000)
[16:01:58 -310255.195155] SLOW spr round 1 (radius: 5)
[16:04:14 -310200.455884] SLOW spr round 2 (radius: 5)
[16:06:36 -310187.835545] SLOW spr round 3 (radius: 5)
[16:08:41 -310186.940017] SLOW spr round 4 (radius: 5)
[16:10:45 -310186.939982] SLOW spr round 5 (radius: 10)
[16:12:54 -310186.284926] SLOW spr round 6 (radius: 5)
[16:15:28 -310182.848068] SLOW spr round 7 (radius: 5)
[16:17:45 -310177.780107] SLOW spr round 8 (radius: 5)
[16:19:53 -310177.779869] SLOW spr round 9 (radius: 10)
[16:21:58 -310177.779834] SLOW spr round 10 (radius: 15)
[16:25:12 -310177.779821] SLOW spr round 11 (radius: 20)
[16:29:56 -310177.779815] SLOW spr round 12 (radius: 25)
[16:35:57 -310177.779812] Model parameter optimization (eps = 0.100000)

[16:36:07] ML tree search #16, logLikelihood: -310177.657858

[16:36:07 -892579.382775] Initial branch length optimization
[16:36:10 -765176.712346] Model parameter optimization (eps = 10.000000)
[16:36:41 -764346.281200] AUTODETECT spr round 1 (radius: 5)
[16:38:45 -577456.781593] AUTODETECT spr round 2 (radius: 10)
[16:41:12 -429274.178035] AUTODETECT spr round 3 (radius: 15)
[16:43:54 -383168.404156] AUTODETECT spr round 4 (radius: 20)
[16:46:52 -355561.940643] AUTODETECT spr round 5 (radius: 25)
[16:49:55 -350109.069155] SPR radius for FAST iterations: 25 (autodetect)
[16:49:55 -350109.069155] Model parameter optimization (eps = 3.000000)
[16:50:11 -349997.558615] FAST spr round 1 (radius: 25)
[16:53:05 -311448.775048] FAST spr round 2 (radius: 25)
[16:55:16 -310430.726065] FAST spr round 3 (radius: 25)
[16:57:12 -310321.693488] FAST spr round 4 (radius: 25)
[16:58:58 -310292.381913] FAST spr round 5 (radius: 25)
[17:00:37 -310289.932178] FAST spr round 6 (radius: 25)
[17:02:13 -310289.932076] Model parameter optimization (eps = 1.000000)
[17:02:27 -310285.579123] SLOW spr round 1 (radius: 5)
[17:04:47 -310202.077011] SLOW spr round 2 (radius: 5)
[17:06:57 -310192.535984] SLOW spr round 3 (radius: 5)
[17:08:57 -310189.402534] SLOW spr round 4 (radius: 5)
[17:11:00 -310189.402423] SLOW spr round 5 (radius: 10)
[17:13:14 -310189.402419] SLOW spr round 6 (radius: 15)
[17:16:38 -310189.402417] SLOW spr round 7 (radius: 20)
[17:21:32 -310189.402416] SLOW spr round 8 (radius: 25)
[17:27:59 -310189.402414] Model parameter optimization (eps = 0.100000)

[17:28:06] ML tree search #17, logLikelihood: -310189.275744

[17:28:06 -887404.116808] Initial branch length optimization
[17:28:10 -764313.454877] Model parameter optimization (eps = 10.000000)
[17:28:37 -763581.259702] AUTODETECT spr round 1 (radius: 5)
[17:30:36 -562238.447174] AUTODETECT spr round 2 (radius: 10)
[17:32:54 -450494.030867] AUTODETECT spr round 3 (radius: 15)
[17:35:31 -374767.468780] AUTODETECT spr round 4 (radius: 20)
[17:38:40 -348544.161083] AUTODETECT spr round 5 (radius: 25)
[17:42:21 -345432.123852] SPR radius for FAST iterations: 25 (autodetect)
[17:42:21 -345432.123852] Model parameter optimization (eps = 3.000000)
[17:42:28 -345428.757897] FAST spr round 1 (radius: 25)
[17:45:33 -311566.243230] FAST spr round 2 (radius: 25)
[17:47:48 -310465.965550] FAST spr round 3 (radius: 25)
[17:52:23 -310391.034152] FAST spr round 4 (radius: 25)
[17:54:04 -310374.431569] FAST spr round 5 (radius: 25)
[17:55:40 -310368.344242] FAST spr round 6 (radius: 25)
[17:58:34 -310366.726117] FAST spr round 7 (radius: 25)
[18:00:06 -310366.726036] Model parameter optimization (eps = 1.000000)
[18:00:22 -310251.400374] SLOW spr round 1 (radius: 5)
[18:07:15 -310195.505413] SLOW spr round 2 (radius: 5)
[18:11:33 -310180.549190] SLOW spr round 3 (radius: 5)
[18:13:39 -310180.437140] SLOW spr round 4 (radius: 5)
[18:15:41 -310180.437031] SLOW spr round 5 (radius: 10)
[18:20:47 -310180.437003] SLOW spr round 6 (radius: 15)
[18:46:18 -310180.436986] SLOW spr round 7 (radius: 20)
[26:46:49 -310180.436976] SLOW spr round 8 (radius: 25)
[26:52:51 -310180.436970] Model parameter optimization (eps = 0.100000)

[26:53:00] ML tree search #18, logLikelihood: -310180.252557

[26:53:00 -886755.937202] Initial branch length optimization
[26:53:03 -763765.844580] Model parameter optimization (eps = 10.000000)
[26:53:29 -762992.630190] AUTODETECT spr round 1 (radius: 5)
[26:55:33 -575594.252074] AUTODETECT spr round 2 (radius: 10)
[26:57:46 -454146.506145] AUTODETECT spr round 3 (radius: 15)
[27:06:08 -387978.654153] AUTODETECT spr round 4 (radius: 20)
[27:09:03 -354478.155339] AUTODETECT spr round 5 (radius: 25)
[27:12:17 -348892.900354] SPR radius for FAST iterations: 25 (autodetect)
[27:12:17 -348892.900354] Model parameter optimization (eps = 3.000000)
[27:12:35 -348812.599221] FAST spr round 1 (radius: 25)
[27:15:34 -311487.762889] FAST spr round 2 (radius: 25)
[27:17:46 -310388.985284] FAST spr round 3 (radius: 25)
[27:19:49 -310324.458375] FAST spr round 4 (radius: 25)
[27:21:44 -310306.863996] FAST spr round 5 (radius: 25)
[27:23:28 -310305.301307] FAST spr round 6 (radius: 25)
[27:25:12 -310305.301304] Model parameter optimization (eps = 1.000000)
[27:25:31 -310302.215384] SLOW spr round 1 (radius: 5)
[27:27:55 -310217.377961] SLOW spr round 2 (radius: 5)
[27:30:14 -310196.608211] SLOW spr round 3 (radius: 5)
[27:32:25 -310190.948521] SLOW spr round 4 (radius: 5)
[27:34:33 -310190.947262] SLOW spr round 5 (radius: 10)
[27:36:47 -310186.570424] SLOW spr round 6 (radius: 5)
[27:39:24 -310186.569557] SLOW spr round 7 (radius: 10)
[27:41:49 -310186.569037] SLOW spr round 8 (radius: 15)
[27:45:14 -310186.568598] SLOW spr round 9 (radius: 20)
[27:50:26 -310186.568223] SLOW spr round 10 (radius: 25)
[27:56:53 -310186.567902] Model parameter optimization (eps = 0.100000)

[27:57:01] ML tree search #19, logLikelihood: -310186.309283

[27:57:01 -889821.708564] Initial branch length optimization
[27:57:05 -765123.650121] Model parameter optimization (eps = 10.000000)
[27:57:33 -764289.770664] AUTODETECT spr round 1 (radius: 5)
[27:59:42 -567693.971509] AUTODETECT spr round 2 (radius: 10)
[28:02:06 -432911.297862] AUTODETECT spr round 3 (radius: 15)
[28:04:40 -370131.788167] AUTODETECT spr round 4 (radius: 20)
[28:07:42 -347918.880489] AUTODETECT spr round 5 (radius: 25)
[28:11:17 -345195.159983] SPR radius for FAST iterations: 25 (autodetect)
[28:11:17 -345195.159983] Model parameter optimization (eps = 3.000000)
[28:11:31 -345028.292075] FAST spr round 1 (radius: 25)
[28:14:45 -311318.578206] FAST spr round 2 (radius: 25)
[28:17:10 -310392.907005] FAST spr round 3 (radius: 25)
[28:19:10 -310339.472447] FAST spr round 4 (radius: 25)
[28:20:58 -310325.224539] FAST spr round 5 (radius: 25)
[28:22:41 -310325.223624] Model parameter optimization (eps = 1.000000)
[28:22:57 -310306.770808] SLOW spr round 1 (radius: 5)
[28:25:22 -310208.491917] SLOW spr round 2 (radius: 5)
[28:27:37 -310194.069967] SLOW spr round 3 (radius: 5)
[28:29:46 -310192.152183] SLOW spr round 4 (radius: 5)
[28:31:54 -310189.357657] SLOW spr round 5 (radius: 5)
[28:34:00 -310189.357620] SLOW spr round 6 (radius: 10)
[28:36:12 -310189.357609] SLOW spr round 7 (radius: 15)
[28:39:38 -310189.357604] SLOW spr round 8 (radius: 20)
[33:00:59 -310189.357601] SLOW spr round 9 (radius: 25)
[33:07:04 -310189.357600] Model parameter optimization (eps = 0.100000)

[33:07:13] ML tree search #20, logLikelihood: -310188.967721


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.198523,0.217364) (0.229037,0.397811) (0.257311,0.902790) (0.315130,2.010085) 
   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: -310166.617597

AIC score: 624343.235194 / AICc score: 8668403.235194 / BIC score: 633038.570785
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=565).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 47 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9UBT2/3_mltree/Q9UBT2.raxml.log

Analysis started: 09-Jul-2021 11:51:13 / finished: 10-Jul-2021 20:58:27

Elapsed time: 119233.896 seconds