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

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

RAxML-NG was called at 05-Jul-2021 09:07:05 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/2_msa/P28331_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/3_mltree/P28331 --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/P28331/2_msa/P28331_trimmed_msa.fasta
[00:00:00] Loaded alignment with 965 taxa and 724 sites

WARNING: Sequences tr_J3K7X3_J3K7X3_COCIM_246410 and tr_E9CT39_E9CT39_COCPS_443226 are exactly identical!
WARNING: Sequences tr_J3K7X3_J3K7X3_COCIM_246410 and tr_A0A0J6Y6P2_A0A0J6Y6P2_COCIT_404692 are exactly identical!
WARNING: Sequences tr_G3SIX0_G3SIX0_GORGO_9595 and sp_P28331_NDUS1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_C6HGM0_C6HGM0_AJECH_544712 and tr_F0UQT3_F0UQT3_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_A0A0E0GSQ9_A0A0E0GSQ9_ORYNI_4536 and tr_A0A0E0P0E8_A0A0E0P0E8_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0GSQ9_A0A0E0GSQ9_ORYNI_4536 and tr_A0A0D3FN80_A0A0D3FN80_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A2QUU8_A2QUU8_ASPNC_425011 and tr_G3XLW3_G3XLW3_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QUU8_A2QUU8_ASPNC_425011 and tr_A0A319AKH2_A0A319AKH2_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_A0A1D5Q8E8_A0A1D5Q8E8_MACMU_9544 and tr_A0A096MZ14_A0A096MZ14_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q8E8_A0A1D5Q8E8_MACMU_9544 and tr_A0A0D9RCY6_A0A0D9RCY6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_W7M790_W7M790_GIBM7_334819 and tr_A0A0D2XVH5_A0A0D2XVH5_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_W7M790_W7M790_GIBM7_334819 and tr_X0CSL3_X0CSL3_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_W7M790_W7M790_GIBM7_334819 and tr_A0A2H3T0N6_A0A2H3T0N6_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_W7M790_W7M790_GIBM7_334819 and tr_A0A2H3HFN3_A0A2H3HFN3_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_F2PQE2_F2PQE2_TRIEC_559882 and tr_A0A059JAY8_A0A059JAY8_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L0P7K0_L0P7K0_PNEJ8_1209962 and tr_A0A0W4ZMH3_A0A0W4ZMH3_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_A0A015IXY5_A0A015IXY5_9GLOM_1432141 and tr_U9THL3_U9THL3_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A094EK38_A0A094EK38_9PEZI_1420912 and tr_A0A1B8GR73_A0A1B8GR73_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A100IMF6_A0A100IMF6_ASPNG_5061 and tr_A0A1L9NGG3_A0A1L9NGG3_ASPTU_767770 are exactly identical!
WARNING: Duplicate sequences found: 19

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/P28331/3_mltree/P28331.raxml.reduced.phy

Alignment comprises 1 partitions and 724 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 724 / 724
Gaps: 9.59 %
Invariant sites: 1.10 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/3_mltree/P28331.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 965 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 104 / 8320
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -813727.769726] Initial branch length optimization
[00:00:04 -688958.262717] Model parameter optimization (eps = 10.000000)
[00:00:38 -687716.819127] AUTODETECT spr round 1 (radius: 5)
[00:02:33 -502764.274405] AUTODETECT spr round 2 (radius: 10)
[00:04:39 -370617.083023] AUTODETECT spr round 3 (radius: 15)
[00:06:57 -327545.929369] AUTODETECT spr round 4 (radius: 20)
[00:09:41 -284615.215968] AUTODETECT spr round 5 (radius: 25)
[00:13:13 -276327.457040] SPR radius for FAST iterations: 25 (autodetect)
[00:13:13 -276327.457040] Model parameter optimization (eps = 3.000000)
[00:13:40 -276067.195072] FAST spr round 1 (radius: 25)
[00:16:04 -239793.487576] FAST spr round 2 (radius: 25)
[00:18:03 -238494.089492] FAST spr round 3 (radius: 25)
[00:19:48 -238370.981197] FAST spr round 4 (radius: 25)
[00:21:26 -238350.590245] FAST spr round 5 (radius: 25)
[00:22:59 -238347.442755] FAST spr round 6 (radius: 25)
[00:24:27 -238347.441310] Model parameter optimization (eps = 1.000000)
[00:24:42 -238344.595942] SLOW spr round 1 (radius: 5)
[00:26:40 -238299.039832] SLOW spr round 2 (radius: 5)
[00:28:33 -238294.838843] SLOW spr round 3 (radius: 5)
[00:30:21 -238294.835935] SLOW spr round 4 (radius: 10)
[00:32:17 -238294.834846] SLOW spr round 5 (radius: 15)
[00:35:22 -238294.834438] SLOW spr round 6 (radius: 20)
[00:39:40 -238294.834282] SLOW spr round 7 (radius: 25)
[00:44:49 -238294.834220] Model parameter optimization (eps = 0.100000)

[00:44:55] ML tree search #1, logLikelihood: -238294.831167

[00:44:55 -810575.051755] Initial branch length optimization
[00:45:00 -688281.251079] Model parameter optimization (eps = 10.000000)
[00:45:25 -687131.390925] AUTODETECT spr round 1 (radius: 5)
[00:47:20 -486889.545980] AUTODETECT spr round 2 (radius: 10)
[00:49:30 -367929.516725] AUTODETECT spr round 3 (radius: 15)
[00:51:47 -310936.300964] AUTODETECT spr round 4 (radius: 20)
[00:54:53 -279902.432131] AUTODETECT spr round 5 (radius: 25)
[00:57:29 -273518.071238] SPR radius for FAST iterations: 25 (autodetect)
[00:57:29 -273518.071238] Model parameter optimization (eps = 3.000000)
[00:57:44 -273332.464683] FAST spr round 1 (radius: 25)
[01:00:05 -239236.826539] FAST spr round 2 (radius: 25)
[01:01:59 -238474.231370] FAST spr round 3 (radius: 25)
[01:03:40 -238390.371034] FAST spr round 4 (radius: 25)
[01:05:16 -238377.164895] FAST spr round 5 (radius: 25)
[01:06:49 -238377.164328] Model parameter optimization (eps = 1.000000)
[01:07:06 -238369.692202] SLOW spr round 1 (radius: 5)
[01:09:03 -238293.356275] SLOW spr round 2 (radius: 5)
[01:11:00 -238277.269116] SLOW spr round 3 (radius: 5)
[01:12:52 -238277.268075] SLOW spr round 4 (radius: 10)
[01:14:49 -238275.725509] SLOW spr round 5 (radius: 5)
[01:17:06 -238271.300301] SLOW spr round 6 (radius: 5)
[01:19:10 -238271.267754] SLOW spr round 7 (radius: 10)
[01:21:15 -238271.267101] SLOW spr round 8 (radius: 15)
[01:24:17 -238271.267043] SLOW spr round 9 (radius: 20)
[01:28:35 -238271.267024] SLOW spr round 10 (radius: 25)
[01:33:51 -238271.267011] Model parameter optimization (eps = 0.100000)

[01:34:06] ML tree search #2, logLikelihood: -238269.840130

[01:34:06 -811836.987174] Initial branch length optimization
[01:34:09 -686142.306098] Model parameter optimization (eps = 10.000000)
[01:34:42 -684967.567766] AUTODETECT spr round 1 (radius: 5)
[01:36:35 -487538.827362] AUTODETECT spr round 2 (radius: 10)
[01:38:41 -360865.921962] AUTODETECT spr round 3 (radius: 15)
[01:41:04 -301778.037803] AUTODETECT spr round 4 (radius: 20)
[01:44:18 -274303.551868] AUTODETECT spr round 5 (radius: 25)
[01:47:28 -269179.305279] SPR radius for FAST iterations: 25 (autodetect)
[01:47:28 -269179.305279] Model parameter optimization (eps = 3.000000)
[01:47:52 -268934.276995] FAST spr round 1 (radius: 25)
[01:50:22 -240315.213624] FAST spr round 2 (radius: 25)
[01:52:22 -238511.317446] FAST spr round 3 (radius: 25)
[01:54:09 -238401.230036] FAST spr round 4 (radius: 25)
[01:55:48 -238370.092516] FAST spr round 5 (radius: 25)
[01:57:19 -238364.423198] FAST spr round 6 (radius: 25)
[01:58:47 -238364.423049] Model parameter optimization (eps = 1.000000)
[01:59:05 -238351.198027] SLOW spr round 1 (radius: 5)
[02:00:59 -238303.621434] SLOW spr round 2 (radius: 5)
[02:02:49 -238303.169151] SLOW spr round 3 (radius: 5)
[02:04:39 -238303.168842] SLOW spr round 4 (radius: 10)
[02:06:39 -238303.168688] SLOW spr round 5 (radius: 15)
[02:09:44 -238303.168580] SLOW spr round 6 (radius: 20)
[02:13:57 -238303.168497] SLOW spr round 7 (radius: 25)
[02:19:05 -238303.168433] Model parameter optimization (eps = 0.100000)

[02:19:15] ML tree search #3, logLikelihood: -238302.745628

[02:19:15 -818970.381887] Initial branch length optimization
[02:19:19 -691545.606894] Model parameter optimization (eps = 10.000000)
[02:19:52 -690390.809917] AUTODETECT spr round 1 (radius: 5)
[02:21:43 -491020.883367] AUTODETECT spr round 2 (radius: 10)
[02:23:50 -367610.612448] AUTODETECT spr round 3 (radius: 15)
[02:26:10 -307895.723738] AUTODETECT spr round 4 (radius: 20)
[02:29:00 -284871.846827] AUTODETECT spr round 5 (radius: 25)
[02:31:52 -281116.580570] SPR radius for FAST iterations: 25 (autodetect)
[02:31:52 -281116.580570] Model parameter optimization (eps = 3.000000)
[02:32:12 -280868.675865] FAST spr round 1 (radius: 25)
[02:34:40 -239351.281603] FAST spr round 2 (radius: 25)
[02:36:36 -238437.320984] FAST spr round 3 (radius: 25)
[02:38:21 -238364.324748] FAST spr round 4 (radius: 25)
[02:39:53 -238352.070695] FAST spr round 5 (radius: 25)
[02:41:10 -238345.661261] FAST spr round 6 (radius: 25)
[02:42:26 -238345.637252] Model parameter optimization (eps = 1.000000)
[02:42:38 -238343.483956] SLOW spr round 1 (radius: 5)
[02:44:17 -238311.090061] SLOW spr round 2 (radius: 5)
[02:45:54 -238303.513046] SLOW spr round 3 (radius: 5)
[02:47:29 -238301.725065] SLOW spr round 4 (radius: 5)
[02:49:03 -238301.724968] SLOW spr round 5 (radius: 10)
[02:50:46 -238294.891903] SLOW spr round 6 (radius: 5)
[02:52:53 -238294.317061] SLOW spr round 7 (radius: 5)
[02:54:38 -238294.316914] SLOW spr round 8 (radius: 10)
[02:56:22 -238294.316896] SLOW spr round 9 (radius: 15)
[02:59:00 -238294.316888] SLOW spr round 10 (radius: 20)
[03:02:43 -238294.316883] SLOW spr round 11 (radius: 25)
[03:07:17 -238294.316879] Model parameter optimization (eps = 0.100000)

[03:07:20] ML tree search #4, logLikelihood: -238294.289849

[03:07:20 -815951.673431] Initial branch length optimization
[03:07:24 -688745.986237] Model parameter optimization (eps = 10.000000)
[03:07:53 -687531.493851] AUTODETECT spr round 1 (radius: 5)
[03:09:31 -491657.621835] AUTODETECT spr round 2 (radius: 10)
[03:11:23 -361167.439528] AUTODETECT spr round 3 (radius: 15)
[03:13:19 -301597.777375] AUTODETECT spr round 4 (radius: 20)
[03:15:39 -278853.125179] AUTODETECT spr round 5 (radius: 25)
[03:18:09 -275789.228332] SPR radius for FAST iterations: 25 (autodetect)
[03:18:09 -275789.228332] Model parameter optimization (eps = 3.000000)
[03:18:27 -275467.322204] FAST spr round 1 (radius: 25)
[03:20:37 -240224.129696] FAST spr round 2 (radius: 25)
[03:22:21 -238566.718596] FAST spr round 3 (radius: 25)
[03:23:56 -238386.441133] FAST spr round 4 (radius: 25)
[03:25:17 -238377.412625] FAST spr round 5 (radius: 25)
[03:26:35 -238372.287684] FAST spr round 6 (radius: 25)
[03:27:51 -238371.781707] FAST spr round 7 (radius: 25)
[03:29:07 -238363.867051] FAST spr round 8 (radius: 25)
[03:30:21 -238363.866143] Model parameter optimization (eps = 1.000000)
[03:30:36 -238360.477862] SLOW spr round 1 (radius: 5)
[03:32:15 -238299.259007] SLOW spr round 2 (radius: 5)
[03:33:52 -238291.530413] SLOW spr round 3 (radius: 5)
[03:35:27 -238288.929271] SLOW spr round 4 (radius: 5)
[03:37:02 -238288.929008] SLOW spr round 5 (radius: 10)
[03:38:44 -238287.944608] SLOW spr round 6 (radius: 5)
[03:40:43 -238287.684418] SLOW spr round 7 (radius: 5)
[03:42:30 -238286.855226] SLOW spr round 8 (radius: 5)
[03:44:09 -238286.854134] SLOW spr round 9 (radius: 10)
[03:45:52 -238286.853979] SLOW spr round 10 (radius: 15)
[03:48:33 -238286.853952] SLOW spr round 11 (radius: 20)
[03:52:21 -238286.853943] SLOW spr round 12 (radius: 25)
[03:57:01 -238286.853937] Model parameter optimization (eps = 0.100000)

[03:57:05] ML tree search #5, logLikelihood: -238286.815740

[03:57:05 -813221.164704] Initial branch length optimization
[03:57:09 -691633.877853] Model parameter optimization (eps = 10.000000)
[03:57:31 -690355.264504] AUTODETECT spr round 1 (radius: 5)
[03:59:11 -484134.598022] AUTODETECT spr round 2 (radius: 10)
[04:01:01 -363478.637568] AUTODETECT spr round 3 (radius: 15)
[04:03:01 -294763.720493] AUTODETECT spr round 4 (radius: 20)
[04:05:22 -277401.215261] AUTODETECT spr round 5 (radius: 25)
[04:07:58 -274777.435231] SPR radius for FAST iterations: 25 (autodetect)
[04:07:58 -274777.435231] Model parameter optimization (eps = 3.000000)
[04:08:25 -274503.748107] FAST spr round 1 (radius: 25)
[04:10:41 -240028.133818] FAST spr round 2 (radius: 25)
[04:12:33 -238591.780075] FAST spr round 3 (radius: 25)
[04:14:11 -238394.879072] FAST spr round 4 (radius: 25)
[04:15:35 -238364.341417] FAST spr round 5 (radius: 25)
[04:16:54 -238348.936616] FAST spr round 6 (radius: 25)
[04:18:08 -238348.935819] Model parameter optimization (eps = 1.000000)
[04:18:19 -238347.806621] SLOW spr round 1 (radius: 5)
[04:19:58 -238317.158985] SLOW spr round 2 (radius: 5)
[04:21:33 -238316.146939] SLOW spr round 3 (radius: 5)
[04:23:18 -238316.146834] SLOW spr round 4 (radius: 10)
[04:25:16 -238312.571883] SLOW spr round 5 (radius: 5)
[04:27:31 -238312.570676] SLOW spr round 6 (radius: 10)
[04:29:38 -238312.570533] SLOW spr round 7 (radius: 15)
[04:32:32 -238312.570497] SLOW spr round 8 (radius: 20)
[04:36:40 -238312.570480] SLOW spr round 9 (radius: 25)
[04:41:43 -238312.570468] Model parameter optimization (eps = 0.100000)

[04:41:47] ML tree search #6, logLikelihood: -238312.508979

[04:41:47 -809304.922005] Initial branch length optimization
[04:41:52 -688457.675934] Model parameter optimization (eps = 10.000000)
[04:42:19 -687325.329473] AUTODETECT spr round 1 (radius: 5)
[04:44:11 -493394.159266] AUTODETECT spr round 2 (radius: 10)
[04:46:17 -350747.409479] AUTODETECT spr round 3 (radius: 15)
[04:48:25 -283316.415910] AUTODETECT spr round 4 (radius: 20)
[04:50:54 -268429.611110] AUTODETECT spr round 5 (radius: 25)
[04:53:33 -267152.630470] SPR radius for FAST iterations: 25 (autodetect)
[04:53:33 -267152.630470] Model parameter optimization (eps = 3.000000)
[04:53:55 -266898.689694] FAST spr round 1 (radius: 25)
[04:56:21 -240571.045319] FAST spr round 2 (radius: 25)
[04:58:17 -238449.234245] FAST spr round 3 (radius: 25)
[05:00:03 -238373.252508] FAST spr round 4 (radius: 25)
[05:01:34 -238371.984162] FAST spr round 5 (radius: 25)
[05:03:07 -238358.162739] FAST spr round 6 (radius: 25)
[05:04:34 -238358.162300] Model parameter optimization (eps = 1.000000)
[05:04:49 -238353.092222] SLOW spr round 1 (radius: 5)
[05:06:44 -238301.011813] SLOW spr round 2 (radius: 5)
[05:08:35 -238297.555651] SLOW spr round 3 (radius: 5)
[05:10:23 -238294.145876] SLOW spr round 4 (radius: 5)
[05:12:09 -238294.145304] SLOW spr round 5 (radius: 10)
[05:14:05 -238294.144876] SLOW spr round 6 (radius: 15)
[05:17:05 -238294.144545] SLOW spr round 7 (radius: 20)
[05:21:16 -238294.144285] SLOW spr round 8 (radius: 25)
[05:26:20 -238294.144080] Model parameter optimization (eps = 0.100000)

[05:26:33] ML tree search #7, logLikelihood: -238292.264281

[05:26:34 -818601.825961] Initial branch length optimization
[05:26:38 -689368.911043] Model parameter optimization (eps = 10.000000)
[05:27:04 -688086.608211] AUTODETECT spr round 1 (radius: 5)
[05:28:54 -499568.652663] AUTODETECT spr round 2 (radius: 10)
[05:30:53 -387880.162589] AUTODETECT spr round 3 (radius: 15)
[05:33:08 -333153.602826] AUTODETECT spr round 4 (radius: 20)
[05:35:39 -295483.890465] AUTODETECT spr round 5 (radius: 25)
[05:38:41 -278192.849121] SPR radius for FAST iterations: 25 (autodetect)
[05:38:41 -278192.849121] Model parameter optimization (eps = 3.000000)
[05:38:45 -278192.412023] FAST spr round 1 (radius: 25)
[05:41:11 -239662.702111] FAST spr round 2 (radius: 25)
[05:43:07 -238752.008278] FAST spr round 3 (radius: 25)
[05:44:46 -238686.415727] FAST spr round 4 (radius: 25)
[05:46:17 -238673.795690] FAST spr round 5 (radius: 25)
[05:47:44 -238671.531577] FAST spr round 6 (radius: 25)
[05:49:09 -238671.531529] Model parameter optimization (eps = 1.000000)
[05:49:35 -238394.582511] SLOW spr round 1 (radius: 5)
[05:51:23 -238305.449464] SLOW spr round 2 (radius: 5)
[05:53:12 -238296.512801] SLOW spr round 3 (radius: 5)
[05:54:57 -238296.511714] SLOW spr round 4 (radius: 10)
[05:56:52 -238291.612409] SLOW spr round 5 (radius: 5)
[05:59:04 -238290.581758] SLOW spr round 6 (radius: 5)
[06:01:03 -238290.581249] SLOW spr round 7 (radius: 10)
[06:03:00 -238290.581216] SLOW spr round 8 (radius: 15)
[06:05:54 -238290.581208] SLOW spr round 9 (radius: 20)
[06:10:01 -238290.581204] SLOW spr round 10 (radius: 25)
[06:15:02 -238290.581201] Model parameter optimization (eps = 0.100000)

[06:15:13] ML tree search #8, logLikelihood: -238289.648754

[06:15:13 -816864.618525] Initial branch length optimization
[06:15:18 -689009.738803] Model parameter optimization (eps = 10.000000)
[06:15:49 -687791.697943] AUTODETECT spr round 1 (radius: 5)
[06:17:37 -492665.048157] AUTODETECT spr round 2 (radius: 10)
[06:19:37 -367502.578870] AUTODETECT spr round 3 (radius: 15)
[06:21:49 -305750.692512] AUTODETECT spr round 4 (radius: 20)
[06:24:18 -282975.767224] AUTODETECT spr round 5 (radius: 25)
[06:27:11 -274342.483384] SPR radius for FAST iterations: 25 (autodetect)
[06:27:11 -274342.483384] Model parameter optimization (eps = 3.000000)
[06:27:29 -274148.128440] FAST spr round 1 (radius: 25)
[06:29:57 -239786.372358] FAST spr round 2 (radius: 25)
[06:31:51 -238496.769705] FAST spr round 3 (radius: 25)
[06:33:30 -238418.331019] FAST spr round 4 (radius: 25)
[06:35:02 -238393.132257] FAST spr round 5 (radius: 25)
[06:36:29 -238385.806213] FAST spr round 6 (radius: 25)
[06:37:55 -238378.586360] FAST spr round 7 (radius: 25)
[06:39:17 -238376.911049] FAST spr round 8 (radius: 25)
[06:40:39 -238376.910466] Model parameter optimization (eps = 1.000000)
[06:40:54 -238359.234763] SLOW spr round 1 (radius: 5)
[06:42:47 -238291.300544] SLOW spr round 2 (radius: 5)
[06:44:33 -238286.953367] SLOW spr round 3 (radius: 5)
[06:46:18 -238286.508051] SLOW spr round 4 (radius: 5)
[06:48:02 -238286.507996] SLOW spr round 5 (radius: 10)
[06:49:55 -238286.253978] SLOW spr round 6 (radius: 5)
[06:52:06 -238285.942927] SLOW spr round 7 (radius: 5)
[06:54:03 -238285.941956] SLOW spr round 8 (radius: 10)
[06:56:00 -238285.941903] SLOW spr round 9 (radius: 15)
[06:58:55 -238285.941890] SLOW spr round 10 (radius: 20)
[07:03:09 -238285.941881] SLOW spr round 11 (radius: 25)
[07:08:21 -238285.941873] Model parameter optimization (eps = 0.100000)

[07:08:36] ML tree search #9, logLikelihood: -238281.706668

[07:08:36 -813075.294909] Initial branch length optimization
[07:08:41 -687436.776609] Model parameter optimization (eps = 10.000000)
[07:09:09 -686255.018430] AUTODETECT spr round 1 (radius: 5)
[07:10:58 -485620.871324] AUTODETECT spr round 2 (radius: 10)
[07:13:00 -377313.168679] AUTODETECT spr round 3 (radius: 15)
[07:15:22 -300067.501442] AUTODETECT spr round 4 (radius: 20)
[07:18:30 -280990.106391] AUTODETECT spr round 5 (radius: 25)
[07:21:53 -273857.288548] SPR radius for FAST iterations: 25 (autodetect)
[07:21:53 -273857.288548] Model parameter optimization (eps = 3.000000)
[07:22:22 -273641.485488] FAST spr round 1 (radius: 25)
[07:24:42 -239845.594353] FAST spr round 2 (radius: 25)
[07:26:34 -238796.574793] FAST spr round 3 (radius: 25)
[07:28:16 -238523.854887] FAST spr round 4 (radius: 25)
[07:29:48 -238395.802333] FAST spr round 5 (radius: 25)
[07:31:15 -238375.723955] FAST spr round 6 (radius: 25)
[07:32:38 -238375.723228] Model parameter optimization (eps = 1.000000)
[07:32:50 -238367.220992] SLOW spr round 1 (radius: 5)
[07:34:43 -238296.625484] SLOW spr round 2 (radius: 5)
[07:36:30 -238291.904201] SLOW spr round 3 (radius: 5)
[07:38:16 -238290.437279] SLOW spr round 4 (radius: 5)
[07:40:00 -238290.437077] SLOW spr round 5 (radius: 10)
[07:41:53 -238283.225344] SLOW spr round 6 (radius: 5)
[07:44:03 -238283.224001] SLOW spr round 7 (radius: 10)
[07:46:09 -238281.116524] SLOW spr round 8 (radius: 5)
[07:48:17 -238281.113171] SLOW spr round 9 (radius: 10)
[07:50:21 -238280.998989] SLOW spr round 10 (radius: 5)
[07:52:29 -238280.840412] SLOW spr round 11 (radius: 5)
[07:54:25 -238279.874912] SLOW spr round 12 (radius: 5)
[07:56:16 -238275.655373] SLOW spr round 13 (radius: 5)
[07:58:02 -238275.654772] SLOW spr round 14 (radius: 10)
[07:59:55 -238275.654682] SLOW spr round 15 (radius: 15)
[08:02:54 -238275.593081] SLOW spr round 16 (radius: 20)
[08:07:05 -238275.589159] SLOW spr round 17 (radius: 25)
[08:12:11 -238275.586338] Model parameter optimization (eps = 0.100000)

[08:12:15] ML tree search #10, logLikelihood: -238275.556031

[08:12:16 -812738.977270] Initial branch length optimization
[08:12:19 -686621.759434] Model parameter optimization (eps = 10.000000)
[08:12:49 -685326.823824] AUTODETECT spr round 1 (radius: 5)
[08:14:38 -500577.439757] AUTODETECT spr round 2 (radius: 10)
[08:16:38 -369131.988320] AUTODETECT spr round 3 (radius: 15)
[08:18:51 -305449.344967] AUTODETECT spr round 4 (radius: 20)
[08:21:33 -280268.250504] AUTODETECT spr round 5 (radius: 25)
[08:24:21 -275404.781313] SPR radius for FAST iterations: 25 (autodetect)
[08:24:21 -275404.781313] Model parameter optimization (eps = 3.000000)
[08:24:41 -275137.520223] FAST spr round 1 (radius: 25)
[08:27:08 -239631.398364] FAST spr round 2 (radius: 25)
[08:28:58 -238423.436609] FAST spr round 3 (radius: 25)
[08:30:35 -238363.380864] FAST spr round 4 (radius: 25)
[08:32:04 -238356.695810] FAST spr round 5 (radius: 25)
[08:33:28 -238356.695103] Model parameter optimization (eps = 1.000000)
[08:33:43 -238349.810148] SLOW spr round 1 (radius: 5)
[08:35:36 -238305.285581] SLOW spr round 2 (radius: 5)
[08:37:24 -238299.937919] SLOW spr round 3 (radius: 5)
[08:39:10 -238294.776992] SLOW spr round 4 (radius: 5)
[08:40:56 -238294.776655] SLOW spr round 5 (radius: 10)
[08:42:48 -238294.776541] SLOW spr round 6 (radius: 15)
[08:45:45 -238293.477098] SLOW spr round 7 (radius: 5)
[08:48:03 -238293.416910] SLOW spr round 8 (radius: 10)
[08:50:13 -238293.416863] SLOW spr round 9 (radius: 15)
[08:53:01 -238293.416825] SLOW spr round 10 (radius: 20)
[08:57:13 -238293.416790] SLOW spr round 11 (radius: 25)
[09:02:18 -238293.416757] Model parameter optimization (eps = 0.100000)

[09:02:32] ML tree search #11, logLikelihood: -238291.932289

[09:02:32 -813533.700748] Initial branch length optimization
[09:02:36 -688141.051091] Model parameter optimization (eps = 10.000000)
[09:03:02 -686998.794666] AUTODETECT spr round 1 (radius: 5)
[09:04:49 -480665.897849] AUTODETECT spr round 2 (radius: 10)
[09:06:53 -356749.391442] AUTODETECT spr round 3 (radius: 15)
[09:09:01 -307207.463982] AUTODETECT spr round 4 (radius: 20)
[09:11:39 -281588.828258] AUTODETECT spr round 5 (radius: 25)
[09:14:09 -278769.513807] SPR radius for FAST iterations: 25 (autodetect)
[09:14:09 -278769.513807] Model parameter optimization (eps = 3.000000)
[09:14:31 -278533.924977] FAST spr round 1 (radius: 25)
[09:16:54 -240115.221204] FAST spr round 2 (radius: 25)
[09:18:45 -238419.432489] FAST spr round 3 (radius: 25)
[09:20:24 -238353.828213] FAST spr round 4 (radius: 25)
[09:21:53 -238347.427107] FAST spr round 5 (radius: 25)
[09:23:18 -238346.927284] FAST spr round 6 (radius: 25)
[09:24:41 -238346.926424] Model parameter optimization (eps = 1.000000)
[09:24:55 -238343.112677] SLOW spr round 1 (radius: 5)
[09:26:46 -238297.543489] SLOW spr round 2 (radius: 5)
[09:28:33 -238291.019159] SLOW spr round 3 (radius: 5)
[09:30:21 -238285.808889] SLOW spr round 4 (radius: 5)
[09:32:06 -238285.799031] SLOW spr round 5 (radius: 10)
[09:33:59 -238284.053987] SLOW spr round 6 (radius: 5)
[09:36:12 -238280.065387] SLOW spr round 7 (radius: 5)
[09:38:08 -238280.065122] SLOW spr round 8 (radius: 10)
[09:40:04 -238280.065044] SLOW spr round 9 (radius: 15)
[09:43:00 -238280.065017] SLOW spr round 10 (radius: 20)
[09:47:11 -238280.065005] SLOW spr round 11 (radius: 25)
[09:52:21 -238280.064998] Model parameter optimization (eps = 0.100000)

[09:52:25] ML tree search #12, logLikelihood: -238280.030469

[09:52:25 -817319.161656] Initial branch length optimization
[09:52:29 -690262.593218] Model parameter optimization (eps = 10.000000)
[09:53:08 -689098.850530] AUTODETECT spr round 1 (radius: 5)
[09:54:54 -490949.981961] AUTODETECT spr round 2 (radius: 10)
[09:56:53 -374651.130278] AUTODETECT spr round 3 (radius: 15)
[09:59:20 -306960.110325] AUTODETECT spr round 4 (radius: 20)
[10:02:24 -275432.894430] AUTODETECT spr round 5 (radius: 25)
[10:05:18 -272839.106985] SPR radius for FAST iterations: 25 (autodetect)
[10:05:18 -272839.106985] Model parameter optimization (eps = 3.000000)
[10:05:38 -272558.706049] FAST spr round 1 (radius: 25)
[10:07:57 -240214.620281] FAST spr round 2 (radius: 25)
[10:09:45 -238637.118376] FAST spr round 3 (radius: 25)
[10:11:24 -238378.068533] FAST spr round 4 (radius: 25)
[10:12:53 -238335.002081] FAST spr round 5 (radius: 25)
[10:14:15 -238333.886670] FAST spr round 6 (radius: 25)
[10:15:36 -238333.456592] FAST spr round 7 (radius: 25)
[10:16:55 -238333.455203] Model parameter optimization (eps = 1.000000)
[10:17:07 -238331.330570] SLOW spr round 1 (radius: 5)
[10:18:53 -238299.176773] SLOW spr round 2 (radius: 5)
[10:20:38 -238296.228840] SLOW spr round 3 (radius: 5)
[10:22:22 -238293.506553] SLOW spr round 4 (radius: 5)
[10:24:04 -238293.506508] SLOW spr round 5 (radius: 10)
[10:25:54 -238293.506492] SLOW spr round 6 (radius: 15)
[10:28:47 -238293.506478] SLOW spr round 7 (radius: 20)
[10:32:47 -238293.506463] SLOW spr round 8 (radius: 25)
[10:37:48 -238293.506449] Model parameter optimization (eps = 0.100000)

[10:37:52] ML tree search #13, logLikelihood: -238293.425649

[10:37:52 -813306.618897] Initial branch length optimization
[10:37:57 -688479.065933] Model parameter optimization (eps = 10.000000)
[10:38:32 -687311.784083] AUTODETECT spr round 1 (radius: 5)
[10:40:17 -492119.257393] AUTODETECT spr round 2 (radius: 10)
[10:42:16 -365063.470735] AUTODETECT spr round 3 (radius: 15)
[10:44:21 -300336.948241] AUTODETECT spr round 4 (radius: 20)
[10:46:54 -280706.832469] AUTODETECT spr round 5 (radius: 25)
[10:49:25 -277372.016132] SPR radius for FAST iterations: 25 (autodetect)
[10:49:25 -277372.016132] Model parameter optimization (eps = 3.000000)
[10:49:45 -277127.800065] FAST spr round 1 (radius: 25)
[10:52:13 -240214.032860] FAST spr round 2 (radius: 25)
[10:54:05 -238520.839539] FAST spr round 3 (radius: 25)
[10:55:44 -238406.134779] FAST spr round 4 (radius: 25)
[10:57:13 -238385.648989] FAST spr round 5 (radius: 25)
[10:58:36 -238382.040509] FAST spr round 6 (radius: 25)
[10:59:59 -238378.156048] FAST spr round 7 (radius: 25)
[11:01:19 -238378.155687] Model parameter optimization (eps = 1.000000)
[11:01:32 -238365.621120] SLOW spr round 1 (radius: 5)
[11:03:20 -238304.668335] SLOW spr round 2 (radius: 5)
[11:05:07 -238291.458790] SLOW spr round 3 (radius: 5)
[11:06:51 -238290.100077] SLOW spr round 4 (radius: 5)
[11:08:38 -238286.587387] SLOW spr round 5 (radius: 5)
[11:10:20 -238286.585960] SLOW spr round 6 (radius: 10)
[11:12:10 -238286.400069] SLOW spr round 7 (radius: 5)
[11:14:19 -238286.256804] SLOW spr round 8 (radius: 5)
[11:16:12 -238286.255503] SLOW spr round 9 (radius: 10)
[11:18:06 -238286.255209] SLOW spr round 10 (radius: 15)
[11:20:55 -238286.255143] SLOW spr round 11 (radius: 20)
[11:25:01 -238286.255128] SLOW spr round 12 (radius: 25)
[11:30:02 -238286.255124] Model parameter optimization (eps = 0.100000)

[11:30:15] ML tree search #14, logLikelihood: -238285.247520

[11:30:15 -818672.871655] Initial branch length optimization
[11:30:19 -693389.505285] Model parameter optimization (eps = 10.000000)
[11:30:46 -692137.222391] AUTODETECT spr round 1 (radius: 5)
[11:32:35 -500005.092093] AUTODETECT spr round 2 (radius: 10)
[11:34:31 -380300.008594] AUTODETECT spr round 3 (radius: 15)
[11:36:46 -310228.350308] AUTODETECT spr round 4 (radius: 20)
[11:39:34 -280462.043962] AUTODETECT spr round 5 (radius: 25)
[11:42:29 -273548.071588] SPR radius for FAST iterations: 25 (autodetect)
[11:42:29 -273548.071588] Model parameter optimization (eps = 3.000000)
[11:42:50 -273326.561684] FAST spr round 1 (radius: 25)
[11:45:17 -241046.356456] FAST spr round 2 (radius: 25)
[11:47:10 -238697.415502] FAST spr round 3 (radius: 25)
[11:48:52 -238404.801768] FAST spr round 4 (radius: 25)
[11:50:23 -238373.140062] FAST spr round 5 (radius: 25)
[11:51:46 -238373.138975] Model parameter optimization (eps = 1.000000)
[11:51:58 -238361.838291] SLOW spr round 1 (radius: 5)
[11:53:48 -238316.365634] SLOW spr round 2 (radius: 5)
[11:55:35 -238305.944916] SLOW spr round 3 (radius: 5)
[11:57:17 -238305.077934] SLOW spr round 4 (radius: 5)
[11:58:59 -238305.077825] SLOW spr round 5 (radius: 10)
[12:00:52 -238298.115198] SLOW spr round 6 (radius: 5)
[12:03:01 -238294.520411] SLOW spr round 7 (radius: 5)
[12:04:57 -238290.285567] SLOW spr round 8 (radius: 5)
[12:06:44 -238290.281469] SLOW spr round 9 (radius: 10)
[12:08:36 -238290.280420] SLOW spr round 10 (radius: 15)
[12:11:31 -238290.279894] SLOW spr round 11 (radius: 20)
[12:15:41 -238290.279527] SLOW spr round 12 (radius: 25)
[12:20:46 -238290.279247] Model parameter optimization (eps = 0.100000)

[12:20:50] ML tree search #15, logLikelihood: -238290.268657

[12:20:50 -814914.992344] Initial branch length optimization
[12:20:55 -688015.384431] Model parameter optimization (eps = 10.000000)
[12:21:25 -686783.269127] AUTODETECT spr round 1 (radius: 5)
[12:23:12 -488157.590887] AUTODETECT spr round 2 (radius: 10)
[12:25:09 -367658.948722] AUTODETECT spr round 3 (radius: 15)
[12:27:16 -307100.337129] AUTODETECT spr round 4 (radius: 20)
[12:30:01 -281736.232724] AUTODETECT spr round 5 (radius: 25)
[12:32:52 -272335.948153] SPR radius for FAST iterations: 25 (autodetect)
[12:32:52 -272335.948153] Model parameter optimization (eps = 3.000000)
[12:33:12 -272089.859091] FAST spr round 1 (radius: 25)
[12:35:32 -239870.463310] FAST spr round 2 (radius: 25)
[12:37:24 -238459.558223] FAST spr round 3 (radius: 25)
[12:39:02 -238368.602524] FAST spr round 4 (radius: 25)
[12:40:30 -238352.607159] FAST spr round 5 (radius: 25)
[12:41:52 -238352.593982] Model parameter optimization (eps = 1.000000)
[12:42:06 -238345.683082] SLOW spr round 1 (radius: 5)
[12:43:58 -238306.410657] SLOW spr round 2 (radius: 5)
[12:45:47 -238286.068794] SLOW spr round 3 (radius: 5)
[12:47:31 -238283.227738] SLOW spr round 4 (radius: 5)
[12:49:13 -238283.227726] SLOW spr round 5 (radius: 10)
[12:51:02 -238283.139701] SLOW spr round 6 (radius: 15)
[12:53:52 -238283.139261] SLOW spr round 7 (radius: 20)
[12:57:49 -238283.139244] SLOW spr round 8 (radius: 25)
[13:02:46 -238283.139240] Model parameter optimization (eps = 0.100000)

[13:02:54] ML tree search #16, logLikelihood: -238282.845323

[13:02:54 -808499.587272] Initial branch length optimization
[13:02:59 -686020.778725] Model parameter optimization (eps = 10.000000)
[13:03:32 -684872.155529] AUTODETECT spr round 1 (radius: 5)
[13:05:19 -498542.958783] AUTODETECT spr round 2 (radius: 10)
[13:07:18 -378217.221888] AUTODETECT spr round 3 (radius: 15)
[13:09:33 -319024.802676] AUTODETECT spr round 4 (radius: 20)
[13:12:41 -290785.481180] AUTODETECT spr round 5 (radius: 25)
[13:16:06 -280604.748420] SPR radius for FAST iterations: 25 (autodetect)
[13:16:06 -280604.748420] Model parameter optimization (eps = 3.000000)
[13:16:25 -280359.257613] FAST spr round 1 (radius: 25)
[13:18:49 -240292.908216] FAST spr round 2 (radius: 25)
[13:20:39 -238546.899575] FAST spr round 3 (radius: 25)
[13:22:15 -238391.491895] FAST spr round 4 (radius: 25)
[13:23:43 -238380.008066] FAST spr round 5 (radius: 25)
[13:25:05 -238378.726076] FAST spr round 6 (radius: 25)
[13:26:26 -238378.725286] Model parameter optimization (eps = 1.000000)
[13:26:40 -238372.007404] SLOW spr round 1 (radius: 5)
[13:28:27 -238317.474647] SLOW spr round 2 (radius: 5)
[13:30:14 -238297.855522] SLOW spr round 3 (radius: 5)
[13:31:58 -238295.968999] SLOW spr round 4 (radius: 5)
[13:33:40 -238295.968280] SLOW spr round 5 (radius: 10)
[13:35:30 -238295.967805] SLOW spr round 6 (radius: 15)
[13:38:22 -238295.967432] SLOW spr round 7 (radius: 20)
[13:42:22 -238295.967138] SLOW spr round 8 (radius: 25)
[13:47:17 -238295.966906] Model parameter optimization (eps = 0.100000)

[13:47:36] ML tree search #17, logLikelihood: -238293.745724

[13:47:36 -811538.882958] Initial branch length optimization
[13:47:40 -686362.591527] Model parameter optimization (eps = 10.000000)
[13:48:05 -685197.914278] AUTODETECT spr round 1 (radius: 5)
[13:49:51 -496159.791876] AUTODETECT spr round 2 (radius: 10)
[13:51:51 -373479.527598] AUTODETECT spr round 3 (radius: 15)
[13:54:05 -303621.513888] AUTODETECT spr round 4 (radius: 20)
[13:57:15 -277292.430879] AUTODETECT spr round 5 (radius: 25)
[13:59:40 -272565.201461] SPR radius for FAST iterations: 25 (autodetect)
[13:59:40 -272565.201461] Model parameter optimization (eps = 3.000000)
[13:59:52 -272298.916214] FAST spr round 1 (radius: 25)
[14:01:50 -239979.763664] FAST spr round 2 (radius: 25)
[14:03:27 -238516.127535] FAST spr round 3 (radius: 25)
[14:04:55 -238393.045632] FAST spr round 4 (radius: 25)
[14:06:10 -238385.512194] FAST spr round 5 (radius: 25)
[14:07:22 -238385.511792] Model parameter optimization (eps = 1.000000)
[14:07:33 -238378.221006] SLOW spr round 1 (radius: 5)
[14:09:09 -238303.354051] SLOW spr round 2 (radius: 5)
[14:10:42 -238286.133927] SLOW spr round 3 (radius: 5)
[14:12:12 -238286.132934] SLOW spr round 4 (radius: 10)
[14:13:48 -238286.132480] SLOW spr round 5 (radius: 15)
[14:16:20 -238285.715533] SLOW spr round 6 (radius: 5)
[14:18:19 -238285.714828] SLOW spr round 7 (radius: 10)
[14:20:10 -238285.714772] SLOW spr round 8 (radius: 15)
[14:22:35 -238285.714744] SLOW spr round 9 (radius: 20)
[14:26:12 -238285.714727] SLOW spr round 10 (radius: 25)
[14:30:33 -238285.714715] Model parameter optimization (eps = 0.100000)

[14:30:46] ML tree search #18, logLikelihood: -238284.321586

[14:30:46 -815906.049563] Initial branch length optimization
[14:30:50 -691211.722352] Model parameter optimization (eps = 10.000000)
[14:31:13 -690047.900112] AUTODETECT spr round 1 (radius: 5)
[14:32:48 -490059.590225] AUTODETECT spr round 2 (radius: 10)
[14:34:29 -371730.158056] AUTODETECT spr round 3 (radius: 15)
[14:36:18 -311921.927273] AUTODETECT spr round 4 (radius: 20)
[14:39:02 -278581.007677] AUTODETECT spr round 5 (radius: 25)
[14:41:54 -272939.184818] SPR radius for FAST iterations: 25 (autodetect)
[14:41:54 -272939.184818] Model parameter optimization (eps = 3.000000)
[14:42:11 -272681.791921] FAST spr round 1 (radius: 25)
[14:44:16 -239397.376367] FAST spr round 2 (radius: 25)
[14:45:53 -238425.780263] FAST spr round 3 (radius: 25)
[14:47:20 -238378.371369] FAST spr round 4 (radius: 25)
[14:48:36 -238372.746955] FAST spr round 5 (radius: 25)
[14:49:48 -238372.746166] Model parameter optimization (eps = 1.000000)
[14:50:02 -238368.204374] SLOW spr round 1 (radius: 5)
[14:51:37 -238321.595454] SLOW spr round 2 (radius: 5)
[14:53:23 -238294.834754] SLOW spr round 3 (radius: 5)
[14:55:14 -238289.054565] SLOW spr round 4 (radius: 5)
[14:57:01 -238289.054058] SLOW spr round 5 (radius: 10)
[14:58:56 -238284.039369] SLOW spr round 6 (radius: 5)
[15:01:13 -238282.193804] SLOW spr round 7 (radius: 5)
[15:03:12 -238282.193364] SLOW spr round 8 (radius: 10)
[15:05:10 -238282.193205] SLOW spr round 9 (radius: 15)
[15:08:09 -238280.760002] SLOW spr round 10 (radius: 5)
[15:10:30 -238280.723625] SLOW spr round 11 (radius: 10)
[15:12:43 -238280.605873] SLOW spr round 12 (radius: 5)
[15:14:56 -238279.998616] SLOW spr round 13 (radius: 5)
[15:16:54 -238279.998526] SLOW spr round 14 (radius: 10)
[15:18:52 -238279.998486] SLOW spr round 15 (radius: 15)
[15:21:51 -238279.998466] SLOW spr round 16 (radius: 20)
[15:26:03 -238279.998453] SLOW spr round 17 (radius: 25)
[15:31:16 -238279.998444] Model parameter optimization (eps = 0.100000)

[15:31:27] ML tree search #19, logLikelihood: -238278.980799

[15:31:28 -807029.485859] Initial branch length optimization
[15:31:31 -685644.944665] Model parameter optimization (eps = 10.000000)
[15:32:06 -684488.511456] AUTODETECT spr round 1 (radius: 5)
[15:34:00 -481949.925846] AUTODETECT spr round 2 (radius: 10)
[15:36:08 -367347.267260] AUTODETECT spr round 3 (radius: 15)
[15:38:27 -318561.155904] AUTODETECT spr round 4 (radius: 20)
[15:41:14 -286488.927512] AUTODETECT spr round 5 (radius: 25)
[15:44:09 -274720.593993] SPR radius for FAST iterations: 25 (autodetect)
[15:44:09 -274720.593993] Model parameter optimization (eps = 3.000000)
[15:44:33 -274559.012315] FAST spr round 1 (radius: 25)
[15:46:56 -241430.706706] FAST spr round 2 (radius: 25)
[15:48:56 -238769.628079] FAST spr round 3 (radius: 25)
[15:50:42 -238408.799848] FAST spr round 4 (radius: 25)
[15:52:14 -238392.851387] FAST spr round 5 (radius: 25)
[15:53:42 -238392.810462] Model parameter optimization (eps = 1.000000)
[15:53:58 -238380.510671] SLOW spr round 1 (radius: 5)
[15:55:52 -238323.407227] SLOW spr round 2 (radius: 5)
[15:57:42 -238315.585679] SLOW spr round 3 (radius: 5)
[15:59:26 -238305.461525] SLOW spr round 4 (radius: 5)
[16:00:56 -238303.530774] SLOW spr round 5 (radius: 5)
[16:02:26 -238303.530311] SLOW spr round 6 (radius: 10)
[16:04:03 -238299.816866] SLOW spr round 7 (radius: 5)
[16:05:55 -238290.151277] SLOW spr round 8 (radius: 5)
[16:07:34 -238290.150756] SLOW spr round 9 (radius: 10)
[16:09:13 -238290.150587] SLOW spr round 10 (radius: 15)
[16:11:42 -238290.150473] SLOW spr round 11 (radius: 20)
[16:15:15 -238290.150386] SLOW spr round 12 (radius: 25)
[16:19:31 -238290.150317] Model parameter optimization (eps = 0.100000)

[16:19:39] ML tree search #20, logLikelihood: -238289.484069


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.252959,0.354982) (0.325584,0.620043) (0.251116,1.022296) (0.170342,2.651223) 
   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: -238269.840130

AIC score: 480405.680260 / AICc score: 7957249.680260 / BIC score: 489268.082021
Free parameters (model + branch lengths): 1933

WARNING: Number of free parameters (K=1933) is larger than alignment size (n=724).
         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/P28331/3_mltree/P28331.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/3_mltree/P28331.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/3_mltree/P28331.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P28331/3_mltree/P28331.raxml.log

Analysis started: 05-Jul-2021 09:07:05 / finished: 06-Jul-2021 01:26:45

Elapsed time: 58779.425 seconds

Consumed energy: 4313.368 Wh (= 22 km in an electric car, or 108 km with an e-scooter!)