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 02-Jul-2021 16:27:49 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/2_msa/Q9Y2Z4_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4 --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/Q9Y2Z4/2_msa/Q9Y2Z4_trimmed_msa.fasta
[00:00:00] Loaded alignment with 914 taxa and 481 sites

WARNING: Sequences tr_J3K6A2_J3K6A2_COCIM_246410 and tr_A0A0J6YIW9_A0A0J6YIW9_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B8N9I8_B8N9I8_ASPFN_332952 and tr_A0A1S9DZC8_A0A1S9DZC8_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_C6H230_C6H230_AJECH_544712 and tr_F0U4I3_F0U4I3_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_A2QIC2_A2QIC2_ASPNC_425011 and tr_G3Y8W1_G3Y8W1_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QIC2_A2QIC2_ASPNC_425011 and tr_A0A319AH97_A0A319AH97_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_H9H3M7_H9H3M7_MACMU_9544 and tr_G7PHL0_G7PHL0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_G7X7J6_G7X7J6_ASPKW_1033177 and tr_A0A146FHR0_A0A146FHR0_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G7X7J6_G7X7J6_ASPKW_1033177 and tr_A0A317UY82_A0A317UY82_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_A2WQF7_A2WQF7_ORYSI_39946 and tr_A0A0D9Y964_A0A0D9Y964_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A2WQF7_A2WQF7_ORYSI_39946 and tr_Q943W5_Q943W5_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_G2Y941_G2Y941_BOTF4_999810 and tr_M7UNG0_M7UNG0_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_A0A0D2XB08_A0A0D2XB08_FUSO4_426428 and tr_N4TVE2_N4TVE2_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_A0A0D2XB08_A0A0D2XB08_FUSO4_426428 and tr_X0CZN3_X0CZN3_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_A0A0D2XB08_A0A0D2XB08_FUSO4_426428 and tr_A0A2H3SRJ1_A0A2H3SRJ1_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_A0A096NBK8_A0A096NBK8_PAPAN_9555 and tr_A0A2K5N519_A0A2K5N519_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A094END2_A0A094END2_9PEZI_1420912 and tr_A0A1B8GHA9_A0A1B8GHA9_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0F8V361_A0A0F8V361_9EURO_308745 and tr_A0A2T5M6A6_A0A2T5M6A6_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_I1RB39_I1RB39_GIBZE_229533 and tr_A0A2T4H988_A0A2T4H988_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_A0A1S4B6Z5_A0A1S4B6Z5_TOBAC_4097 and tr_A0A1U7VEC2_A0A1U7VEC2_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A2N5SYD2_A0A2N5SYD2_9BASI_200324 and tr_A0A2N5W2Z1_A0A2N5W2Z1_9BASI_200324 are exactly identical!
WARNING: Duplicate sequences found: 20

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/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.reduced.phy

Alignment comprises 1 partitions and 481 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 481 / 481
Gaps: 12.59 %
Invariant sites: 0.83 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.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 914 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 69 / 5520
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -764141.612006] Initial branch length optimization
[00:00:03 -663109.589715] Model parameter optimization (eps = 10.000000)
[00:00:27 -660845.557299] AUTODETECT spr round 1 (radius: 5)
[00:01:58 -488487.506098] AUTODETECT spr round 2 (radius: 10)
[00:03:48 -351484.715549] AUTODETECT spr round 3 (radius: 15)
[00:05:39 -319465.102336] AUTODETECT spr round 4 (radius: 20)
[00:07:58 -312583.940943] AUTODETECT spr round 5 (radius: 25)
[00:10:44 -312478.183744] SPR radius for FAST iterations: 25 (autodetect)
[00:10:44 -312478.183744] Model parameter optimization (eps = 3.000000)
[00:11:01 -312232.151877] FAST spr round 1 (radius: 25)
[00:13:19 -287680.856847] FAST spr round 2 (radius: 25)
[00:15:06 -286767.108130] FAST spr round 3 (radius: 25)
[00:16:41 -286662.955349] FAST spr round 4 (radius: 25)
[00:18:06 -286644.476009] FAST spr round 5 (radius: 25)
[00:19:25 -286640.289575] FAST spr round 6 (radius: 25)
[00:20:42 -286640.288923] Model parameter optimization (eps = 1.000000)
[00:20:55 -286632.559561] SLOW spr round 1 (radius: 5)
[00:22:46 -286564.753117] SLOW spr round 2 (radius: 5)
[00:24:32 -286545.813693] SLOW spr round 3 (radius: 5)
[00:26:12 -286535.400057] SLOW spr round 4 (radius: 5)
[00:27:44 -286533.093857] SLOW spr round 5 (radius: 5)
[00:29:11 -286533.093824] SLOW spr round 6 (radius: 10)
[00:30:53 -286531.566094] SLOW spr round 7 (radius: 5)
[00:32:53 -286531.565725] SLOW spr round 8 (radius: 10)
[00:34:47 -286530.959687] SLOW spr round 9 (radius: 5)
[00:36:46 -286529.949538] SLOW spr round 10 (radius: 5)
[00:38:32 -286529.949347] SLOW spr round 11 (radius: 10)
[00:40:15 -286529.949346] SLOW spr round 12 (radius: 15)
[00:42:59 -286529.949345] SLOW spr round 13 (radius: 20)
[00:46:45 -286529.949345] SLOW spr round 14 (radius: 25)
[00:51:34 -286529.949345] Model parameter optimization (eps = 0.100000)

[00:51:45] ML tree search #1, logLikelihood: -286527.926958

[00:51:45 -764910.184912] Initial branch length optimization
[00:51:48 -662874.205834] Model parameter optimization (eps = 10.000000)
[00:52:13 -660335.276562] AUTODETECT spr round 1 (radius: 5)
[00:53:43 -498113.459790] AUTODETECT spr round 2 (radius: 10)
[00:55:29 -387448.557683] AUTODETECT spr round 3 (radius: 15)
[00:57:20 -335349.533360] AUTODETECT spr round 4 (radius: 20)
[00:59:24 -320257.257920] AUTODETECT spr round 5 (radius: 25)
[01:01:51 -316974.958606] SPR radius for FAST iterations: 25 (autodetect)
[01:01:51 -316974.958606] Model parameter optimization (eps = 3.000000)
[01:02:06 -316641.776219] FAST spr round 1 (radius: 25)
[01:04:26 -287821.618689] FAST spr round 2 (radius: 25)
[01:06:10 -286743.802686] FAST spr round 3 (radius: 25)
[01:07:43 -286649.827957] FAST spr round 4 (radius: 25)
[01:09:08 -286624.518297] FAST spr round 5 (radius: 25)
[01:10:26 -286618.076012] FAST spr round 6 (radius: 25)
[01:11:42 -286618.075455] Model parameter optimization (eps = 1.000000)
[01:11:54 -286609.505142] SLOW spr round 1 (radius: 5)
[01:13:43 -286549.627978] SLOW spr round 2 (radius: 5)
[01:15:29 -286545.350822] SLOW spr round 3 (radius: 5)
[01:17:09 -286544.853054] SLOW spr round 4 (radius: 5)
[01:18:50 -286544.057071] SLOW spr round 5 (radius: 5)
[01:20:29 -286544.056782] SLOW spr round 6 (radius: 10)
[01:22:13 -286539.093240] SLOW spr round 7 (radius: 5)
[01:24:14 -286536.813816] SLOW spr round 8 (radius: 5)
[01:26:04 -286536.813798] SLOW spr round 9 (radius: 10)
[01:27:49 -286536.813797] SLOW spr round 10 (radius: 15)
[01:30:38 -286536.554881] SLOW spr round 11 (radius: 5)
[01:32:45 -286536.519075] SLOW spr round 12 (radius: 10)
[01:34:43 -286536.474302] SLOW spr round 13 (radius: 15)
[01:37:20 -286536.473909] SLOW spr round 14 (radius: 20)
[01:41:19 -286536.473900] SLOW spr round 15 (radius: 25)
[01:46:13 -286536.473900] Model parameter optimization (eps = 0.100000)

[01:46:20] ML tree search #2, logLikelihood: -286536.168101

[01:46:21 -762916.409664] Initial branch length optimization
[01:46:25 -663319.982869] Model parameter optimization (eps = 10.000000)
[01:46:56 -660963.989403] AUTODETECT spr round 1 (radius: 5)
[01:48:26 -488692.181511] AUTODETECT spr round 2 (radius: 10)
[01:50:13 -373442.031904] AUTODETECT spr round 3 (radius: 15)
[01:51:58 -329197.788160] AUTODETECT spr round 4 (radius: 20)
[01:53:53 -320795.062177] AUTODETECT spr round 5 (radius: 25)
[01:56:05 -317305.998460] SPR radius for FAST iterations: 25 (autodetect)
[01:56:05 -317305.998460] Model parameter optimization (eps = 3.000000)
[01:56:21 -317044.317537] FAST spr round 1 (radius: 25)
[01:58:40 -287486.763346] FAST spr round 2 (radius: 25)
[02:00:29 -286747.270773] FAST spr round 3 (radius: 25)
[02:02:02 -286663.768074] FAST spr round 4 (radius: 25)
[02:03:25 -286648.967726] FAST spr round 5 (radius: 25)
[02:04:47 -286636.707909] FAST spr round 6 (radius: 25)
[02:06:04 -286632.182268] FAST spr round 7 (radius: 25)
[02:07:18 -286632.182200] Model parameter optimization (eps = 1.000000)
[02:07:32 -286621.732759] SLOW spr round 1 (radius: 5)
[02:09:26 -286560.602440] SLOW spr round 2 (radius: 5)
[02:11:12 -286553.502792] SLOW spr round 3 (radius: 5)
[02:12:51 -286553.502443] SLOW spr round 4 (radius: 10)
[02:14:34 -286550.645526] SLOW spr round 5 (radius: 5)
[02:16:36 -286550.644952] SLOW spr round 6 (radius: 10)
[02:18:31 -286550.644941] SLOW spr round 7 (radius: 15)
[02:21:11 -286550.644940] SLOW spr round 8 (radius: 20)
[02:24:52 -286550.644940] SLOW spr round 9 (radius: 25)
[02:29:31 -286550.644940] Model parameter optimization (eps = 0.100000)

[02:29:35] ML tree search #3, logLikelihood: -286550.613045

[02:29:36 -760908.192929] Initial branch length optimization
[02:29:39 -658773.246734] Model parameter optimization (eps = 10.000000)
[02:30:04 -656293.387577] AUTODETECT spr round 1 (radius: 5)
[02:31:34 -497889.487502] AUTODETECT spr round 2 (radius: 10)
[02:33:21 -376181.691089] AUTODETECT spr round 3 (radius: 15)
[02:35:02 -340293.349995] AUTODETECT spr round 4 (radius: 20)
[02:36:54 -328982.538952] AUTODETECT spr round 5 (radius: 25)
[02:39:12 -315439.312036] SPR radius for FAST iterations: 25 (autodetect)
[02:39:12 -315439.312036] Model parameter optimization (eps = 3.000000)
[02:39:26 -315051.857854] FAST spr round 1 (radius: 25)
[02:41:41 -288140.066392] FAST spr round 2 (radius: 25)
[02:43:24 -286767.713477] FAST spr round 3 (radius: 25)
[02:44:57 -286662.825259] FAST spr round 4 (radius: 25)
[02:46:21 -286646.190940] FAST spr round 5 (radius: 25)
[02:47:39 -286642.550236] FAST spr round 6 (radius: 25)
[02:48:54 -286639.906002] FAST spr round 7 (radius: 25)
[02:50:08 -286639.905931] Model parameter optimization (eps = 1.000000)
[02:50:24 -286629.932742] SLOW spr round 1 (radius: 5)
[02:52:15 -286544.157990] SLOW spr round 2 (radius: 5)
[02:53:58 -286536.606231] SLOW spr round 3 (radius: 5)
[02:55:37 -286536.606196] SLOW spr round 4 (radius: 10)
[02:57:19 -286536.606195] SLOW spr round 5 (radius: 15)
[03:00:05 -286536.606194] SLOW spr round 6 (radius: 20)
[03:03:45 -286536.606194] SLOW spr round 7 (radius: 25)
[03:08:23 -286536.606194] Model parameter optimization (eps = 0.100000)

[03:08:33] ML tree search #4, logLikelihood: -286536.385578

[03:08:33 -765003.041660] Initial branch length optimization
[03:08:36 -662189.166836] Model parameter optimization (eps = 10.000000)
[03:09:00 -660004.816962] AUTODETECT spr round 1 (radius: 5)
[03:10:31 -491052.203019] AUTODETECT spr round 2 (radius: 10)
[03:12:22 -369475.062712] AUTODETECT spr round 3 (radius: 15)
[03:14:17 -321024.033397] AUTODETECT spr round 4 (radius: 20)
[03:16:33 -316544.808233] AUTODETECT spr round 5 (radius: 25)
[03:18:58 -315735.200377] SPR radius for FAST iterations: 25 (autodetect)
[03:18:58 -315735.200377] Model parameter optimization (eps = 3.000000)
[03:19:02 -315732.619869] FAST spr round 1 (radius: 25)
[03:21:22 -287703.531962] FAST spr round 2 (radius: 25)
[03:23:08 -286906.086572] FAST spr round 3 (radius: 25)
[03:24:30 -286834.702120] FAST spr round 4 (radius: 25)
[03:25:34 -286829.842948] FAST spr round 5 (radius: 25)
[03:26:36 -286827.967336] FAST spr round 6 (radius: 25)
[03:27:37 -286827.967321] Model parameter optimization (eps = 1.000000)
[03:27:47 -286645.443144] SLOW spr round 1 (radius: 5)
[03:29:16 -286558.153127] SLOW spr round 2 (radius: 5)
[03:30:38 -286542.562017] SLOW spr round 3 (radius: 5)
[03:31:55 -286542.526547] SLOW spr round 4 (radius: 10)
[03:33:15 -286540.183804] SLOW spr round 5 (radius: 5)
[03:34:53 -286537.083083] SLOW spr round 6 (radius: 5)
[03:36:17 -286536.410101] SLOW spr round 7 (radius: 5)
[03:37:36 -286536.410047] SLOW spr round 8 (radius: 10)
[03:38:56 -286534.882857] SLOW spr round 9 (radius: 5)
[03:40:30 -286534.881951] SLOW spr round 10 (radius: 10)
[03:41:58 -286534.881939] SLOW spr round 11 (radius: 15)
[03:44:01 -286534.881938] SLOW spr round 12 (radius: 20)
[03:47:09 -286534.881938] SLOW spr round 13 (radius: 25)
[03:51:08 -286534.881938] Model parameter optimization (eps = 0.100000)

[03:51:22] ML tree search #5, logLikelihood: -286529.280687

[03:51:22 -762284.567644] Initial branch length optimization
[03:51:25 -660935.423127] Model parameter optimization (eps = 10.000000)
[03:51:48 -658462.119202] AUTODETECT spr round 1 (radius: 5)
[03:53:02 -486587.401749] AUTODETECT spr round 2 (radius: 10)
[03:54:29 -370014.128319] AUTODETECT spr round 3 (radius: 15)
[03:55:59 -327718.774076] AUTODETECT spr round 4 (radius: 20)
[03:57:41 -318122.305383] AUTODETECT spr round 5 (radius: 25)
[03:59:39 -316646.921253] SPR radius for FAST iterations: 25 (autodetect)
[03:59:39 -316646.921253] Model parameter optimization (eps = 3.000000)
[03:59:54 -316216.392598] FAST spr round 1 (radius: 25)
[04:01:49 -287944.593131] FAST spr round 2 (radius: 25)
[04:03:30 -286746.508700] FAST spr round 3 (radius: 25)
[04:04:59 -286664.053050] FAST spr round 4 (radius: 25)
[04:06:20 -286652.329566] FAST spr round 5 (radius: 25)
[04:07:39 -286648.614016] FAST spr round 6 (radius: 25)
[04:08:55 -286643.223382] FAST spr round 7 (radius: 25)
[04:10:11 -286643.223304] Model parameter optimization (eps = 1.000000)
[04:10:21 -286637.950939] SLOW spr round 1 (radius: 5)
[04:12:07 -286569.045357] SLOW spr round 2 (radius: 5)
[04:13:50 -286556.216387] SLOW spr round 3 (radius: 5)
[04:15:24 -286555.544954] SLOW spr round 4 (radius: 5)
[04:16:55 -286555.544952] SLOW spr round 5 (radius: 10)
[04:18:29 -286555.544951] SLOW spr round 6 (radius: 15)
[04:21:02 -286555.544951] SLOW spr round 7 (radius: 20)
[04:24:20 -286555.544951] SLOW spr round 8 (radius: 25)
[04:28:32 -286555.544950] Model parameter optimization (eps = 0.100000)

[04:28:39] ML tree search #6, logLikelihood: -286555.266618

[04:28:39 -765620.046999] Initial branch length optimization
[04:28:42 -664136.890103] Model parameter optimization (eps = 10.000000)
[04:29:10 -661826.555678] AUTODETECT spr round 1 (radius: 5)
[04:30:34 -494559.369747] AUTODETECT spr round 2 (radius: 10)
[04:32:14 -384238.448448] AUTODETECT spr round 3 (radius: 15)
[04:34:04 -340271.855515] AUTODETECT spr round 4 (radius: 20)
[04:36:00 -324526.372069] AUTODETECT spr round 5 (radius: 25)
[04:38:34 -322280.212477] SPR radius for FAST iterations: 25 (autodetect)
[04:38:34 -322280.212477] Model parameter optimization (eps = 3.000000)
[04:38:53 -322086.594065] FAST spr round 1 (radius: 25)
[04:41:13 -287816.600328] FAST spr round 2 (radius: 25)
[04:43:00 -286745.736195] FAST spr round 3 (radius: 25)
[04:44:33 -286654.764172] FAST spr round 4 (radius: 25)
[04:45:53 -286650.768972] FAST spr round 5 (radius: 25)
[04:47:16 -286650.756848] Model parameter optimization (eps = 1.000000)
[04:47:30 -286647.208077] SLOW spr round 1 (radius: 5)
[04:49:20 -286560.652695] SLOW spr round 2 (radius: 5)
[04:51:05 -286548.567675] SLOW spr round 3 (radius: 5)
[04:52:43 -286548.567622] SLOW spr round 4 (radius: 10)
[04:54:25 -286548.567621] SLOW spr round 5 (radius: 15)
[04:57:15 -286548.567621] SLOW spr round 6 (radius: 20)
[05:00:55 -286548.192017] SLOW spr round 7 (radius: 5)
[05:03:02 -286548.191544] SLOW spr round 8 (radius: 10)
[05:04:55 -286548.191530] SLOW spr round 9 (radius: 15)
[05:07:29 -286548.191529] SLOW spr round 10 (radius: 20)
[05:11:28 -286548.191529] SLOW spr round 11 (radius: 25)
[05:16:01 -286548.191528] Model parameter optimization (eps = 0.100000)

[05:16:08] ML tree search #7, logLikelihood: -286547.873114

[05:16:09 -762648.713479] Initial branch length optimization
[05:16:11 -661757.809958] Model parameter optimization (eps = 10.000000)
[05:16:51 -659243.207511] AUTODETECT spr round 1 (radius: 5)
[05:18:18 -494396.452692] AUTODETECT spr round 2 (radius: 10)
[05:19:58 -383402.718732] AUTODETECT spr round 3 (radius: 15)
[05:21:46 -325921.577949] AUTODETECT spr round 4 (radius: 20)
[05:23:46 -314996.833476] AUTODETECT spr round 5 (radius: 25)
[05:26:23 -313868.527015] SPR radius for FAST iterations: 25 (autodetect)
[05:26:23 -313868.527015] Model parameter optimization (eps = 3.000000)
[05:26:41 -313552.918315] FAST spr round 1 (radius: 25)
[05:28:58 -287833.147554] FAST spr round 2 (radius: 25)
[05:30:46 -286750.841906] FAST spr round 3 (radius: 25)
[05:32:17 -286683.608260] FAST spr round 4 (radius: 25)
[05:33:37 -286672.512373] FAST spr round 5 (radius: 25)
[05:34:55 -286671.844006] FAST spr round 6 (radius: 25)
[05:36:10 -286671.843898] Model parameter optimization (eps = 1.000000)
[05:36:22 -286664.980916] SLOW spr round 1 (radius: 5)
[05:38:14 -286607.127675] SLOW spr round 2 (radius: 5)
[05:39:58 -286596.819090] SLOW spr round 3 (radius: 5)
[05:41:38 -286596.296933] SLOW spr round 4 (radius: 5)
[05:43:17 -286596.296931] SLOW spr round 5 (radius: 10)
[05:45:01 -286588.897399] SLOW spr round 6 (radius: 5)
[05:47:01 -286584.296213] SLOW spr round 7 (radius: 5)
[05:48:49 -286583.864194] SLOW spr round 8 (radius: 5)
[05:50:30 -286583.864181] SLOW spr round 9 (radius: 10)
[05:52:13 -286583.682549] SLOW spr round 10 (radius: 5)
[05:54:12 -286583.591778] SLOW spr round 11 (radius: 10)
[05:56:05 -286583.591769] SLOW spr round 12 (radius: 15)
[05:58:42 -286583.420314] SLOW spr round 13 (radius: 5)
[06:00:48 -286577.858705] SLOW spr round 14 (radius: 5)
[06:02:39 -286575.615731] SLOW spr round 15 (radius: 5)
[06:04:21 -286575.615575] SLOW spr round 16 (radius: 10)
[06:06:06 -286575.615574] SLOW spr round 17 (radius: 15)
[06:08:52 -286575.615573] SLOW spr round 18 (radius: 20)
[06:12:33 -286575.615573] SLOW spr round 19 (radius: 25)
[06:16:52 -286575.615573] Model parameter optimization (eps = 0.100000)

[06:16:58] ML tree search #8, logLikelihood: -286575.502486

[06:16:58 -764793.102146] Initial branch length optimization
[06:17:00 -664974.595700] Model parameter optimization (eps = 10.000000)
[06:17:30 -662689.743385] AUTODETECT spr round 1 (radius: 5)
[06:18:45 -499649.860466] AUTODETECT spr round 2 (radius: 10)
[06:20:19 -374742.164032] AUTODETECT spr round 3 (radius: 15)
[06:21:52 -332563.579469] AUTODETECT spr round 4 (radius: 20)
[06:23:30 -321196.484213] AUTODETECT spr round 5 (radius: 25)
[06:25:18 -317137.443484] SPR radius for FAST iterations: 25 (autodetect)
[06:25:18 -317137.443484] Model parameter optimization (eps = 3.000000)
[06:25:22 -317135.891059] FAST spr round 1 (radius: 25)
[06:27:16 -288352.450946] FAST spr round 2 (radius: 25)
[06:28:42 -287195.819434] FAST spr round 3 (radius: 25)
[06:30:00 -287074.854931] FAST spr round 4 (radius: 25)
[06:31:09 -287049.114608] FAST spr round 5 (radius: 25)
[06:32:15 -287040.974287] FAST spr round 6 (radius: 25)
[06:33:19 -287040.974177] Model parameter optimization (eps = 1.000000)
[06:33:33 -286684.694169] SLOW spr round 1 (radius: 5)
[06:35:06 -286578.815338] SLOW spr round 2 (radius: 5)
[06:36:34 -286554.144234] SLOW spr round 3 (radius: 5)
[06:38:00 -286546.498492] SLOW spr round 4 (radius: 5)
[06:39:23 -286546.241718] SLOW spr round 5 (radius: 5)
[06:40:45 -286546.241568] SLOW spr round 6 (radius: 10)
[06:42:12 -286544.714079] SLOW spr round 7 (radius: 5)
[06:44:16 -286544.713620] SLOW spr round 8 (radius: 10)
[06:46:01 -286544.678111] SLOW spr round 9 (radius: 15)
[06:48:28 -286544.677971] SLOW spr round 10 (radius: 20)
[06:52:03 -286540.604909] SLOW spr round 11 (radius: 5)
[06:54:02 -286538.508413] SLOW spr round 12 (radius: 5)
[06:55:46 -286537.994068] SLOW spr round 13 (radius: 5)
[06:57:20 -286537.817341] SLOW spr round 14 (radius: 5)
[06:58:50 -286537.817333] SLOW spr round 15 (radius: 10)
[07:00:24 -286537.817332] SLOW spr round 16 (radius: 15)
[07:03:00 -286537.817332] SLOW spr round 17 (radius: 20)
[07:06:29 -286537.817332] SLOW spr round 18 (radius: 25)
[07:10:57 -286537.817331] Model parameter optimization (eps = 0.100000)

[07:11:09] ML tree search #9, logLikelihood: -286536.500511

[07:11:09 -762613.394877] Initial branch length optimization
[07:11:12 -661768.121299] Model parameter optimization (eps = 10.000000)
[07:11:33 -659267.534486] AUTODETECT spr round 1 (radius: 5)
[07:12:57 -497855.899739] AUTODETECT spr round 2 (radius: 10)
[07:14:34 -390917.714156] AUTODETECT spr round 3 (radius: 15)
[07:16:21 -351573.456091] AUTODETECT spr round 4 (radius: 20)
[07:18:16 -335693.178690] AUTODETECT spr round 5 (radius: 25)
[07:20:27 -326037.964555] SPR radius for FAST iterations: 25 (autodetect)
[07:20:27 -326037.964555] Model parameter optimization (eps = 3.000000)
[07:20:33 -326034.520201] FAST spr round 1 (radius: 25)
[07:22:40 -288066.746883] FAST spr round 2 (radius: 25)
[07:24:21 -287080.077801] FAST spr round 3 (radius: 25)
[07:25:53 -286963.503116] FAST spr round 4 (radius: 25)
[07:27:10 -286958.857909] FAST spr round 5 (radius: 25)
[07:28:23 -286958.857883] Model parameter optimization (eps = 1.000000)
[07:28:27 -286958.846466] SLOW spr round 1 (radius: 5)
[07:30:13 -286892.171308] SLOW spr round 2 (radius: 5)
[07:31:49 -286883.599919] SLOW spr round 3 (radius: 5)
[07:33:21 -286883.599036] SLOW spr round 4 (radius: 10)
[07:34:57 -286883.599026] SLOW spr round 5 (radius: 15)
[07:37:34 -286883.599025] SLOW spr round 6 (radius: 20)
[07:41:02 -286883.599025] SLOW spr round 7 (radius: 25)
[07:45:34 -286883.599025] Model parameter optimization (eps = 0.100000)

[07:45:37] ML tree search #10, logLikelihood: -286883.597149

[07:45:37 -766929.927484] Initial branch length optimization
[07:45:40 -664356.921237] Model parameter optimization (eps = 10.000000)
[07:46:05 -662050.033104] AUTODETECT spr round 1 (radius: 5)
[07:47:30 -493396.268693] AUTODETECT spr round 2 (radius: 10)
[07:49:16 -388017.027123] AUTODETECT spr round 3 (radius: 15)
[07:51:02 -342337.994892] AUTODETECT spr round 4 (radius: 20)
[07:53:13 -319776.272395] AUTODETECT spr round 5 (radius: 25)
[07:55:15 -319031.804022] SPR radius for FAST iterations: 25 (autodetect)
[07:55:15 -319031.804022] Model parameter optimization (eps = 3.000000)
[07:55:33 -318809.696927] FAST spr round 1 (radius: 25)
[07:57:40 -288287.907361] FAST spr round 2 (radius: 25)
[07:59:20 -286746.019703] FAST spr round 3 (radius: 25)
[08:00:45 -286677.315576] FAST spr round 4 (radius: 25)
[08:02:02 -286663.038852] FAST spr round 5 (radius: 25)
[08:03:14 -286663.015619] Model parameter optimization (eps = 1.000000)
[08:03:26 -286661.040499] SLOW spr round 1 (radius: 5)
[08:05:10 -286585.802942] SLOW spr round 2 (radius: 5)
[08:06:48 -286574.463894] SLOW spr round 3 (radius: 5)
[08:08:22 -286570.566170] SLOW spr round 4 (radius: 5)
[08:09:55 -286570.565763] SLOW spr round 5 (radius: 10)
[08:11:29 -286565.628027] SLOW spr round 6 (radius: 5)
[08:13:23 -286565.625982] SLOW spr round 7 (radius: 10)
[08:15:06 -286565.625907] SLOW spr round 8 (radius: 15)
[08:17:29 -286563.320866] SLOW spr round 9 (radius: 5)
[08:19:24 -286560.315684] SLOW spr round 10 (radius: 5)
[08:21:05 -286560.221678] SLOW spr round 11 (radius: 10)
[08:22:42 -286560.220419] SLOW spr round 12 (radius: 15)
[08:25:11 -286560.220348] SLOW spr round 13 (radius: 20)
[08:28:38 -286560.220344] SLOW spr round 14 (radius: 25)
[08:33:05 -286559.198647] SLOW spr round 15 (radius: 5)
[08:35:02 -286559.198567] SLOW spr round 16 (radius: 10)
[08:36:55 -286559.198564] SLOW spr round 17 (radius: 15)
[08:39:17 -286559.198564] SLOW spr round 18 (radius: 20)
[08:42:48 -286559.198563] SLOW spr round 19 (radius: 25)
[08:47:12 -286559.198563] Model parameter optimization (eps = 0.100000)

[08:47:25] ML tree search #11, logLikelihood: -286549.952365

[08:47:25 -763061.239953] Initial branch length optimization
[08:47:27 -662414.132458] Model parameter optimization (eps = 10.000000)
[08:47:51 -659975.885963] AUTODETECT spr round 1 (radius: 5)
[08:49:14 -497191.256283] AUTODETECT spr round 2 (radius: 10)
[08:50:57 -380620.840636] AUTODETECT spr round 3 (radius: 15)
[08:52:37 -334340.554771] AUTODETECT spr round 4 (radius: 20)
[08:54:27 -319689.069755] AUTODETECT spr round 5 (radius: 25)
[08:56:26 -318190.485814] SPR radius for FAST iterations: 25 (autodetect)
[08:56:26 -318190.485814] Model parameter optimization (eps = 3.000000)
[08:56:39 -317819.780353] FAST spr round 1 (radius: 25)
[08:58:39 -287724.729163] FAST spr round 2 (radius: 25)
[09:00:13 -286728.940413] FAST spr round 3 (radius: 25)
[09:01:35 -286661.137750] FAST spr round 4 (radius: 25)
[09:02:48 -286659.474605] FAST spr round 5 (radius: 25)
[09:03:59 -286650.075412] FAST spr round 6 (radius: 25)
[09:05:08 -286650.075061] Model parameter optimization (eps = 1.000000)
[09:05:18 -286648.931653] SLOW spr round 1 (radius: 5)
[09:06:58 -286553.581073] SLOW spr round 2 (radius: 5)
[09:08:32 -286548.203932] SLOW spr round 3 (radius: 5)
[09:10:00 -286548.203893] SLOW spr round 4 (radius: 10)
[09:11:33 -286546.676268] SLOW spr round 5 (radius: 5)
[09:13:23 -286546.675778] SLOW spr round 6 (radius: 10)
[09:15:08 -286546.675776] SLOW spr round 7 (radius: 15)
[09:18:09 -286546.675776] SLOW spr round 8 (radius: 20)
[09:21:33 -286546.675776] SLOW spr round 9 (radius: 25)
[09:25:39 -286546.675775] Model parameter optimization (eps = 0.100000)

[09:25:46] ML tree search #12, logLikelihood: -286546.417244

[09:25:46 -765970.255490] Initial branch length optimization
[09:25:49 -661667.008714] Model parameter optimization (eps = 10.000000)
[09:26:16 -659301.685642] AUTODETECT spr round 1 (radius: 5)
[09:27:36 -493451.684196] AUTODETECT spr round 2 (radius: 10)
[09:29:14 -378409.674165] AUTODETECT spr round 3 (radius: 15)
[09:30:46 -343195.700622] AUTODETECT spr round 4 (radius: 20)
[09:32:34 -324771.410666] AUTODETECT spr round 5 (radius: 25)
[09:34:40 -319647.844521] SPR radius for FAST iterations: 25 (autodetect)
[09:34:40 -319647.844521] Model parameter optimization (eps = 3.000000)
[09:34:51 -319311.015886] FAST spr round 1 (radius: 25)
[09:36:57 -287779.252914] FAST spr round 2 (radius: 25)
[09:38:35 -286775.106718] FAST spr round 3 (radius: 25)
[09:40:03 -286653.957647] FAST spr round 4 (radius: 25)
[09:41:21 -286632.963518] FAST spr round 5 (radius: 25)
[09:42:31 -286632.089747] FAST spr round 6 (radius: 25)
[09:43:40 -286632.089603] Model parameter optimization (eps = 1.000000)
[09:43:44 -286631.957614] SLOW spr round 1 (radius: 5)
[09:45:24 -286584.054471] SLOW spr round 2 (radius: 5)
[09:46:59 -286564.859191] SLOW spr round 3 (radius: 5)
[09:48:29 -286559.044253] SLOW spr round 4 (radius: 5)
[09:49:57 -286559.042741] SLOW spr round 5 (radius: 10)
[09:51:29 -286553.653133] SLOW spr round 6 (radius: 5)
[09:53:19 -286552.237453] SLOW spr round 7 (radius: 5)
[09:54:56 -286551.595101] SLOW spr round 8 (radius: 5)
[09:56:28 -286551.595065] SLOW spr round 9 (radius: 10)
[09:58:01 -286549.765076] SLOW spr round 10 (radius: 5)
[09:59:49 -286549.764684] SLOW spr round 11 (radius: 10)
[10:01:31 -286549.764684] SLOW spr round 12 (radius: 15)
[10:03:58 -286549.764684] SLOW spr round 13 (radius: 20)
[10:07:21 -286549.764684] SLOW spr round 14 (radius: 25)
[10:11:40 -286549.764683] Model parameter optimization (eps = 0.100000)

[10:11:48] ML tree search #13, logLikelihood: -286544.692987

[10:11:48 -765231.954237] Initial branch length optimization
[10:11:50 -664172.081139] Model parameter optimization (eps = 10.000000)
[10:12:13 -661763.123266] AUTODETECT spr round 1 (radius: 5)
[10:13:31 -494217.416052] AUTODETECT spr round 2 (radius: 10)
[10:15:14 -388171.225730] AUTODETECT spr round 3 (radius: 15)
[10:16:51 -327693.878014] AUTODETECT spr round 4 (radius: 20)
[10:18:41 -315618.894132] AUTODETECT spr round 5 (radius: 25)
[10:20:41 -315059.620151] SPR radius for FAST iterations: 25 (autodetect)
[10:20:41 -315059.620151] Model parameter optimization (eps = 3.000000)
[10:20:44 -315058.392557] FAST spr round 1 (radius: 25)
[10:22:41 -287859.261512] FAST spr round 2 (radius: 25)
[10:24:13 -286920.339131] FAST spr round 3 (radius: 25)
[10:25:35 -286845.039702] FAST spr round 4 (radius: 25)
[10:26:43 -286843.438039] FAST spr round 5 (radius: 25)
[10:27:49 -286843.437637] Model parameter optimization (eps = 1.000000)
[10:28:01 -286637.828690] SLOW spr round 1 (radius: 5)
[10:29:35 -286557.873677] SLOW spr round 2 (radius: 5)
[10:31:03 -286547.778857] SLOW spr round 3 (radius: 5)
[10:32:27 -286545.362569] SLOW spr round 4 (radius: 5)
[10:33:50 -286542.666652] SLOW spr round 5 (radius: 5)
[10:35:13 -286540.784221] SLOW spr round 6 (radius: 5)
[10:36:45 -286539.835493] SLOW spr round 7 (radius: 5)
[10:38:07 -286539.835359] SLOW spr round 8 (radius: 10)
[10:39:33 -286538.307699] SLOW spr round 9 (radius: 5)
[10:41:14 -286538.307326] SLOW spr round 10 (radius: 10)
[10:42:49 -286538.307325] SLOW spr round 11 (radius: 15)
[10:45:00 -286538.307325] SLOW spr round 12 (radius: 20)
[10:48:11 -286534.120697] SLOW spr round 13 (radius: 5)
[10:49:58 -286534.119208] SLOW spr round 14 (radius: 10)
[10:51:40 -286534.119077] SLOW spr round 15 (radius: 15)
[10:53:50 -286534.119066] SLOW spr round 16 (radius: 20)
[10:57:02 -286534.119065] SLOW spr round 17 (radius: 25)
[11:01:03 -286534.119065] Model parameter optimization (eps = 0.100000)

[11:01:10] ML tree search #14, logLikelihood: -286533.964424

[11:01:10 -764931.529418] Initial branch length optimization
[11:01:12 -665325.008682] Model parameter optimization (eps = 10.000000)
[11:01:32 -662978.329487] AUTODETECT spr round 1 (radius: 5)
[11:02:50 -501599.552544] AUTODETECT spr round 2 (radius: 10)
[11:04:24 -392016.993367] AUTODETECT spr round 3 (radius: 15)
[11:06:06 -359916.035339] AUTODETECT spr round 4 (radius: 20)
[11:07:54 -327878.933007] AUTODETECT spr round 5 (radius: 25)
[11:10:02 -322821.805991] SPR radius for FAST iterations: 25 (autodetect)
[11:10:02 -322821.805991] Model parameter optimization (eps = 3.000000)
[11:10:06 -322819.333419] FAST spr round 1 (radius: 25)
[11:12:07 -287970.444271] FAST spr round 2 (radius: 25)
[11:13:38 -286968.781835] FAST spr round 3 (radius: 25)
[11:14:59 -286876.078197] FAST spr round 4 (radius: 25)
[11:16:07 -286872.633537] FAST spr round 5 (radius: 25)
[11:17:13 -286872.633441] Model parameter optimization (eps = 1.000000)
[11:17:17 -286872.199647] SLOW spr round 1 (radius: 5)
[11:18:52 -286815.582543] SLOW spr round 2 (radius: 5)
[11:20:20 -286808.921558] SLOW spr round 3 (radius: 5)
[11:21:46 -286808.921466] SLOW spr round 4 (radius: 10)
[11:23:16 -286808.921450] SLOW spr round 5 (radius: 15)
[11:25:44 -286808.921445] SLOW spr round 6 (radius: 20)
[11:29:04 -286808.921443] SLOW spr round 7 (radius: 25)
[11:33:27 -286808.921443] Model parameter optimization (eps = 0.100000)

[11:33:46] ML tree search #15, logLikelihood: -286559.712002

[11:33:46 -764691.181044] Initial branch length optimization
[11:33:49 -664096.313854] Model parameter optimization (eps = 10.000000)
[11:34:13 -661643.469562] AUTODETECT spr round 1 (radius: 5)
[11:35:30 -496544.778364] AUTODETECT spr round 2 (radius: 10)
[11:36:59 -364839.360773] AUTODETECT spr round 3 (radius: 15)
[11:38:33 -320670.299167] AUTODETECT spr round 4 (radius: 20)
[11:40:24 -313614.423744] AUTODETECT spr round 5 (radius: 25)
[11:42:27 -313394.270845] SPR radius for FAST iterations: 25 (autodetect)
[11:42:27 -313394.270845] Model parameter optimization (eps = 3.000000)
[11:42:40 -313220.247336] FAST spr round 1 (radius: 25)
[11:44:36 -287575.569326] FAST spr round 2 (radius: 25)
[11:46:04 -286726.885957] FAST spr round 3 (radius: 25)
[11:47:25 -286646.475398] FAST spr round 4 (radius: 25)
[11:48:34 -286639.101298] FAST spr round 5 (radius: 25)
[11:49:40 -286639.101278] Model parameter optimization (eps = 1.000000)
[11:49:50 -286631.602817] SLOW spr round 1 (radius: 5)
[11:51:23 -286563.813630] SLOW spr round 2 (radius: 5)
[11:52:51 -286549.410208] SLOW spr round 3 (radius: 5)
[11:54:18 -286541.981417] SLOW spr round 4 (radius: 5)
[11:55:41 -286541.981069] SLOW spr round 5 (radius: 10)
[11:57:07 -286539.774718] SLOW spr round 6 (radius: 5)
[11:58:49 -286537.741779] SLOW spr round 7 (radius: 5)
[12:00:19 -286537.741417] SLOW spr round 8 (radius: 10)
[12:01:48 -286537.684939] SLOW spr round 9 (radius: 15)
[12:04:06 -286537.684297] SLOW spr round 10 (radius: 20)
[12:07:15 -286533.218945] SLOW spr round 11 (radius: 5)
[12:09:03 -286532.337766] SLOW spr round 12 (radius: 5)
[12:10:37 -286532.337486] SLOW spr round 13 (radius: 10)
[12:12:07 -286532.337479] SLOW spr round 14 (radius: 15)
[12:14:21 -286532.337479] SLOW spr round 15 (radius: 20)
[12:17:30 -286532.337478] SLOW spr round 16 (radius: 25)
[12:21:28 -286532.337478] Model parameter optimization (eps = 0.100000)

[12:21:34] ML tree search #16, logLikelihood: -286531.989155

[12:21:34 -761343.972250] Initial branch length optimization
[12:21:36 -661793.790484] Model parameter optimization (eps = 10.000000)
[12:21:58 -659460.103741] AUTODETECT spr round 1 (radius: 5)
[12:23:15 -492777.637756] AUTODETECT spr round 2 (radius: 10)
[12:24:47 -380839.716142] AUTODETECT spr round 3 (radius: 15)
[12:26:21 -344651.185351] AUTODETECT spr round 4 (radius: 20)
[12:28:10 -317685.593792] AUTODETECT spr round 5 (radius: 25)
[12:30:15 -316355.788712] SPR radius for FAST iterations: 25 (autodetect)
[12:30:15 -316355.788712] Model parameter optimization (eps = 3.000000)
[12:30:18 -316353.856591] FAST spr round 1 (radius: 25)
[12:32:14 -288036.134024] FAST spr round 2 (radius: 25)
[12:33:44 -287015.076986] FAST spr round 3 (radius: 25)
[12:35:04 -286907.023906] FAST spr round 4 (radius: 25)
[12:36:13 -286897.074143] FAST spr round 5 (radius: 25)
[12:37:20 -286893.478941] FAST spr round 6 (radius: 25)
[12:38:25 -286893.478523] Model parameter optimization (eps = 1.000000)
[12:38:29 -286893.471193] SLOW spr round 1 (radius: 5)
[12:40:03 -286787.366587] SLOW spr round 2 (radius: 5)
[12:41:34 -286774.273212] SLOW spr round 3 (radius: 5)
[12:42:58 -286774.272742] SLOW spr round 4 (radius: 10)
[12:44:26 -286773.656192] SLOW spr round 5 (radius: 5)
[12:46:08 -286769.717046] SLOW spr round 6 (radius: 5)
[12:47:40 -286766.376144] SLOW spr round 7 (radius: 5)
[12:49:07 -286766.249627] SLOW spr round 8 (radius: 5)
[12:50:31 -286766.249622] SLOW spr round 9 (radius: 10)
[12:51:58 -286766.249621] SLOW spr round 10 (radius: 15)
[12:54:20 -286766.249621] SLOW spr round 11 (radius: 20)
[12:57:29 -286766.249621] SLOW spr round 12 (radius: 25)
[13:01:29 -286766.249620] Model parameter optimization (eps = 0.100000)

[13:01:40] ML tree search #17, logLikelihood: -286553.054570

[13:01:40 -760718.558166] Initial branch length optimization
[13:01:42 -660204.762147] Model parameter optimization (eps = 10.000000)
[13:02:02 -657877.047494] AUTODETECT spr round 1 (radius: 5)
[13:03:19 -501128.629584] AUTODETECT spr round 2 (radius: 10)
[13:04:54 -376219.457390] AUTODETECT spr round 3 (radius: 15)
[13:06:32 -327785.511970] AUTODETECT spr round 4 (radius: 20)
[13:08:19 -318702.170886] AUTODETECT spr round 5 (radius: 25)
[13:10:15 -318334.845131] SPR radius for FAST iterations: 25 (autodetect)
[13:10:15 -318334.845131] Model parameter optimization (eps = 3.000000)
[13:10:32 -318023.110738] FAST spr round 1 (radius: 25)
[13:12:33 -287751.810008] FAST spr round 2 (radius: 25)
[13:14:01 -286681.329783] FAST spr round 3 (radius: 25)
[13:15:19 -286611.691225] FAST spr round 4 (radius: 25)
[13:16:29 -286605.399476] FAST spr round 5 (radius: 25)
[13:17:41 -286602.042874] FAST spr round 6 (radius: 25)
[13:18:48 -286602.042807] Model parameter optimization (eps = 1.000000)
[13:18:59 -286593.886570] SLOW spr round 1 (radius: 5)
[13:20:34 -286541.603111] SLOW spr round 2 (radius: 5)
[13:22:05 -286533.368306] SLOW spr round 3 (radius: 5)
[13:23:31 -286532.494470] SLOW spr round 4 (radius: 5)
[13:24:56 -286532.494420] SLOW spr round 5 (radius: 10)
[13:26:23 -286532.494420] SLOW spr round 6 (radius: 15)
[13:28:45 -286532.494419] SLOW spr round 7 (radius: 20)
[13:31:54 -286532.494419] SLOW spr round 8 (radius: 25)
[13:35:57 -286532.494419] Model parameter optimization (eps = 0.100000)

[13:36:03] ML tree search #18, logLikelihood: -286532.402999

[13:36:03 -758149.547470] Initial branch length optimization
[13:36:05 -657631.619388] Model parameter optimization (eps = 10.000000)
[13:36:23 -655307.943187] AUTODETECT spr round 1 (radius: 5)
[13:37:42 -501274.224146] AUTODETECT spr round 2 (radius: 10)
[13:39:16 -386479.834012] AUTODETECT spr round 3 (radius: 15)
[13:40:54 -327485.275108] AUTODETECT spr round 4 (radius: 20)
[13:42:49 -317143.193358] AUTODETECT spr round 5 (radius: 25)
[13:44:53 -316725.930937] SPR radius for FAST iterations: 25 (autodetect)
[13:44:53 -316725.930937] Model parameter optimization (eps = 3.000000)
[13:45:06 -316423.475962] FAST spr round 1 (radius: 25)
[13:47:07 -287774.610913] FAST spr round 2 (radius: 25)
[13:48:41 -286761.995861] FAST spr round 3 (radius: 25)
[13:50:02 -286666.518214] FAST spr round 4 (radius: 25)
[13:51:12 -286664.287836] FAST spr round 5 (radius: 25)
[13:52:20 -286662.064975] FAST spr round 6 (radius: 25)
[13:53:26 -286662.064968] Model parameter optimization (eps = 1.000000)
[13:53:29 -286661.955544] SLOW spr round 1 (radius: 5)
[13:55:03 -286575.476351] SLOW spr round 2 (radius: 5)
[13:56:31 -286568.324939] SLOW spr round 3 (radius: 5)
[13:57:56 -286567.191571] SLOW spr round 4 (radius: 5)
[13:59:19 -286567.191499] SLOW spr round 5 (radius: 10)
[14:00:47 -286565.663910] SLOW spr round 6 (radius: 5)
[14:02:30 -286565.663490] SLOW spr round 7 (radius: 10)
[14:04:08 -286565.663490] SLOW spr round 8 (radius: 15)
[14:06:37 -286564.886719] SLOW spr round 9 (radius: 5)
[14:09:04 -286564.615679] SLOW spr round 10 (radius: 5)
[14:10:36 -286564.613892] SLOW spr round 11 (radius: 10)
[14:12:06 -286564.613584] SLOW spr round 12 (radius: 15)
[14:14:22 -286564.613526] SLOW spr round 13 (radius: 20)
[14:17:29 -286564.613515] SLOW spr round 14 (radius: 25)
[14:21:22 -286564.102689] SLOW spr round 15 (radius: 5)
[14:23:10 -286564.038365] SLOW spr round 16 (radius: 10)
[14:24:54 -286564.038353] SLOW spr round 17 (radius: 15)
[14:27:05 -286564.038351] SLOW spr round 18 (radius: 20)
[14:30:18 -286564.038351] SLOW spr round 19 (radius: 25)
[14:34:10 -286564.038351] Model parameter optimization (eps = 0.100000)

[14:34:13] ML tree search #19, logLikelihood: -286564.007820

[14:34:13 -764151.117399] Initial branch length optimization
[14:34:16 -661310.402939] Model parameter optimization (eps = 10.000000)
[14:34:34 -658972.626834] AUTODETECT spr round 1 (radius: 5)
[14:35:50 -501241.343325] AUTODETECT spr round 2 (radius: 10)
[14:37:27 -370334.775323] AUTODETECT spr round 3 (radius: 15)
[14:39:04 -319821.282570] AUTODETECT spr round 4 (radius: 20)
[14:40:52 -313340.559219] AUTODETECT spr round 5 (radius: 25)
[14:43:07 -310433.704072] SPR radius for FAST iterations: 25 (autodetect)
[14:43:07 -310433.704072] Model parameter optimization (eps = 3.000000)
[14:43:10 -310431.196041] FAST spr round 1 (radius: 25)
[14:45:06 -287947.862994] FAST spr round 2 (radius: 25)
[14:46:36 -287022.671314] FAST spr round 3 (radius: 25)
[14:47:57 -286912.067295] FAST spr round 4 (radius: 25)
[14:49:07 -286896.355510] FAST spr round 5 (radius: 25)
[14:50:13 -286896.355414] Model parameter optimization (eps = 1.000000)
[14:50:27 -286650.996337] SLOW spr round 1 (radius: 5)
[14:52:01 -286567.104390] SLOW spr round 2 (radius: 5)
[14:53:28 -286562.242657] SLOW spr round 3 (radius: 5)
[14:54:50 -286560.684135] SLOW spr round 4 (radius: 5)
[14:56:12 -286558.321488] SLOW spr round 5 (radius: 5)
[14:57:34 -286558.321317] SLOW spr round 6 (radius: 10)
[14:59:00 -286556.793721] SLOW spr round 7 (radius: 5)
[15:00:42 -286556.793299] SLOW spr round 8 (radius: 10)
[15:02:17 -286556.368672] SLOW spr round 9 (radius: 5)
[15:03:56 -286553.007405] SLOW spr round 10 (radius: 5)
[15:05:25 -286553.007405] SLOW spr round 11 (radius: 10)
[15:06:54 -286551.848711] SLOW spr round 12 (radius: 5)
[15:08:35 -286548.459495] SLOW spr round 13 (radius: 5)
[15:10:06 -286548.115280] SLOW spr round 14 (radius: 5)
[15:11:31 -286548.115030] SLOW spr round 15 (radius: 10)
[15:13:01 -286547.709266] SLOW spr round 16 (radius: 5)
[15:14:49 -286547.707470] SLOW spr round 17 (radius: 10)
[15:16:28 -286547.707432] SLOW spr round 18 (radius: 15)
[15:18:49 -286547.707431] SLOW spr round 19 (radius: 20)
[15:22:15 -286547.707431] SLOW spr round 20 (radius: 25)
[15:26:26 -286547.707431] Model parameter optimization (eps = 0.100000)

[15:26:33] ML tree search #20, logLikelihood: -286546.493088


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.155956,0.274200) (0.233593,0.418025) (0.263227,0.795868) (0.347224,1.872265) 
   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: -286527.926958

AIC score: 576717.853916 / AICc score: 7285501.853916 / BIC score: 584363.866887
Free parameters (model + branch lengths): 1831

WARNING: Number of free parameters (K=1831) is larger than alignment size (n=481).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 27 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y2Z4/3_mltree/Q9Y2Z4.raxml.log

Analysis started: 02-Jul-2021 16:27:49 / finished: 03-Jul-2021 07:54:23

Elapsed time: 55593.571 seconds

Consumed energy: 4937.170 Wh (= 25 km in an electric car, or 123 km with an e-scooter!)