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 30-Jun-2021 18:12:13 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/2_msa/Q96MI9_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9 --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/Q96MI9/2_msa/Q96MI9_trimmed_msa.fasta
[00:00:00] Loaded alignment with 914 taxa and 593 sites

WARNING: Sequences sp_E1C3P4_CBPC1_CHICK_9031 and tr_R9PXP2_R9PXP2_CHICK_9031 are exactly identical!
WARNING: Sequences tr_A0A2I2YS08_A0A2I2YS08_GORGO_9595 and tr_A0A2I3TGJ5_A0A2I3TGJ5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A1D5QCQ5_A0A1D5QCQ5_MACMU_9544 and tr_G7PSM2_G7PSM2_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5QCQ5_A0A1D5QCQ5_MACMU_9544 and tr_A0A096P1W5_A0A096P1W5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QCQ5_A0A1D5QCQ5_MACMU_9544 and tr_A0A0D9R547_A0A0D9R547_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1D5QCQ5_A0A1D5QCQ5_MACMU_9544 and tr_A0A2K6B573_A0A2K6B573_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GRB8_F7GRB8_MACMU_9544 and tr_A0A2I3M6C6_A0A2I3M6C6_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7GRB8_F7GRB8_MACMU_9544 and tr_A0A2K6BBV5_A0A2K6BBV5_MACNE_9545 are exactly identical!
WARNING: Sequences sp_E1B9D8_CBPC3_BOVIN_9913 and tr_G5E5V2_G5E5V2_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_W2REU5_W2REU5_PHYPN_761204 and tr_W2LEN1_W2LEN1_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A096NN36_A0A096NN36_PAPAN_9555 and tr_A0A2K6E6L9_A0A2K6E6L9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3M2S1_A0A2I3M2S1_PAPAN_9555 and tr_A0A2K5NT02_A0A2K5NT02_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3M2S1_A0A2I3M2S1_PAPAN_9555 and tr_A0A2K6E0F5_A0A2K6E0F5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3N1F1_A0A2I3N1F1_PAPAN_9555 and tr_A0A2K5YLF5_A0A2K5YLF5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2D0QX90_A0A2D0QX90_ICTPU_7998 and tr_A0A2D0QX93_A0A2D0QX93_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0QX90_A0A2D0QX90_ICTPU_7998 and tr_A0A2D0QXJ8_A0A2D0QXJ8_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0SBN0_A0A2D0SBN0_ICTPU_7998 and tr_A0A2D0SBN3_A0A2D0SBN3_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 17

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/Q96MI9/3_mltree/Q96MI9.raxml.reduced.phy

Alignment comprises 1 partitions and 593 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 593 / 593
Gaps: 25.82 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.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 / 85 / 6800
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -803647.855908] Initial branch length optimization
[00:00:04 -673841.235877] Model parameter optimization (eps = 10.000000)
[00:00:34 -670540.959984] AUTODETECT spr round 1 (radius: 5)
[00:02:15 -514186.335187] AUTODETECT spr round 2 (radius: 10)
[00:04:06 -412046.079490] AUTODETECT spr round 3 (radius: 15)
[00:06:05 -333949.552886] AUTODETECT spr round 4 (radius: 20)
[00:08:21 -317141.211363] AUTODETECT spr round 5 (radius: 25)
[00:10:49 -312931.870332] SPR radius for FAST iterations: 25 (autodetect)
[00:10:49 -312931.870332] Model parameter optimization (eps = 3.000000)
[00:11:14 -312533.963050] FAST spr round 1 (radius: 25)
[00:13:48 -276222.912205] FAST spr round 2 (radius: 25)
[00:15:47 -274478.323672] FAST spr round 3 (radius: 25)
[00:17:31 -274347.185950] FAST spr round 4 (radius: 25)
[00:19:02 -274339.041257] FAST spr round 5 (radius: 25)
[00:20:27 -274339.040597] Model parameter optimization (eps = 1.000000)
[00:20:42 -274318.926878] SLOW spr round 1 (radius: 5)
[00:22:34 -274275.993034] SLOW spr round 2 (radius: 5)
[00:24:23 -274273.055456] SLOW spr round 3 (radius: 5)
[00:26:09 -274273.054661] SLOW spr round 4 (radius: 10)
[00:28:03 -274267.754344] SLOW spr round 5 (radius: 5)
[00:30:08 -274267.518916] SLOW spr round 6 (radius: 5)
[00:32:03 -274267.518902] SLOW spr round 7 (radius: 10)
[00:34:01 -274267.088383] SLOW spr round 8 (radius: 5)
[00:36:03 -274263.520173] SLOW spr round 9 (radius: 5)
[00:37:55 -274263.520161] SLOW spr round 10 (radius: 10)
[00:39:50 -274262.142536] SLOW spr round 11 (radius: 5)
[00:41:52 -274262.142523] SLOW spr round 12 (radius: 10)
[00:43:54 -274262.142523] SLOW spr round 13 (radius: 15)
[00:46:38 -274262.142523] SLOW spr round 14 (radius: 20)
[00:50:25 -274262.142523] SLOW spr round 15 (radius: 25)
[00:54:48 -274262.142523] Model parameter optimization (eps = 0.100000)

[00:54:57] ML tree search #1, logLikelihood: -274261.853249

[00:54:57 -803676.571066] Initial branch length optimization
[00:55:01 -673951.426152] Model parameter optimization (eps = 10.000000)
[00:55:33 -670660.581603] AUTODETECT spr round 1 (radius: 5)
[00:57:13 -520543.486975] AUTODETECT spr round 2 (radius: 10)
[00:59:05 -391325.599646] AUTODETECT spr round 3 (radius: 15)
[01:01:04 -318956.749855] AUTODETECT spr round 4 (radius: 20)
[01:03:10 -304909.910311] AUTODETECT spr round 5 (radius: 25)
[01:05:28 -302705.988381] SPR radius for FAST iterations: 25 (autodetect)
[01:05:28 -302705.988381] Model parameter optimization (eps = 3.000000)
[01:05:53 -302299.853192] FAST spr round 1 (radius: 25)
[01:08:14 -275559.590773] FAST spr round 2 (radius: 25)
[01:10:10 -274406.046727] FAST spr round 3 (radius: 25)
[01:11:50 -274351.159330] FAST spr round 4 (radius: 25)
[01:13:17 -274339.089539] FAST spr round 5 (radius: 25)
[01:14:39 -274339.089424] Model parameter optimization (eps = 1.000000)
[01:14:56 -274336.924340] SLOW spr round 1 (radius: 5)
[01:16:42 -274290.142608] SLOW spr round 2 (radius: 5)
[01:18:29 -274281.792121] SLOW spr round 3 (radius: 5)
[01:20:11 -274281.791397] SLOW spr round 4 (radius: 10)
[01:22:00 -274278.559009] SLOW spr round 5 (radius: 5)
[01:24:02 -274276.980553] SLOW spr round 6 (radius: 5)
[01:25:56 -274276.980368] SLOW spr round 7 (radius: 10)
[01:27:52 -274275.736690] SLOW spr round 8 (radius: 5)
[01:29:59 -274267.001683] SLOW spr round 9 (radius: 5)
[01:31:52 -274267.001049] SLOW spr round 10 (radius: 10)
[01:33:49 -274267.000936] SLOW spr round 11 (radius: 15)
[01:36:38 -274267.000912] SLOW spr round 12 (radius: 20)
[01:40:26 -274267.000906] SLOW spr round 13 (radius: 25)
[01:44:50 -274267.000905] Model parameter optimization (eps = 0.100000)

[01:44:56] ML tree search #2, logLikelihood: -274266.924631

[01:44:56 -800999.851086] Initial branch length optimization
[01:45:00 -671379.459984] Model parameter optimization (eps = 10.000000)
[01:45:32 -668329.287658] AUTODETECT spr round 1 (radius: 5)
[01:47:13 -517457.754136] AUTODETECT spr round 2 (radius: 10)
[01:49:06 -406769.610954] AUTODETECT spr round 3 (radius: 15)
[01:51:07 -337870.193790] AUTODETECT spr round 4 (radius: 20)
[01:53:15 -314571.796613] AUTODETECT spr round 5 (radius: 25)
[01:55:26 -307835.270716] SPR radius for FAST iterations: 25 (autodetect)
[01:55:26 -307835.270716] Model parameter optimization (eps = 3.000000)
[01:55:48 -307477.750206] FAST spr round 1 (radius: 25)
[01:58:11 -275772.162595] FAST spr round 2 (radius: 25)
[02:00:07 -274504.776335] FAST spr round 3 (radius: 25)
[02:01:48 -274441.665078] FAST spr round 4 (radius: 25)
[02:03:21 -274408.482676] FAST spr round 5 (radius: 25)
[02:04:48 -274401.366653] FAST spr round 6 (radius: 25)
[02:06:11 -274401.366511] Model parameter optimization (eps = 1.000000)
[02:06:25 -274397.521852] SLOW spr round 1 (radius: 5)
[02:08:18 -274342.567052] SLOW spr round 2 (radius: 5)
[02:10:07 -274335.641799] SLOW spr round 3 (radius: 5)
[02:11:52 -274335.641394] SLOW spr round 4 (radius: 10)
[02:13:43 -274333.336864] SLOW spr round 5 (radius: 5)
[02:15:49 -274322.741246] SLOW spr round 6 (radius: 5)
[02:17:42 -274318.933504] SLOW spr round 7 (radius: 5)
[02:19:29 -274318.933258] SLOW spr round 8 (radius: 10)
[02:21:19 -274318.081292] SLOW spr round 9 (radius: 5)
[02:23:19 -274318.077829] SLOW spr round 10 (radius: 10)
[02:25:21 -274315.482459] SLOW spr round 11 (radius: 5)
[02:27:20 -274315.074545] SLOW spr round 12 (radius: 5)
[02:29:10 -274309.682970] SLOW spr round 13 (radius: 5)
[02:30:57 -274306.969287] SLOW spr round 14 (radius: 5)
[02:32:40 -274306.969004] SLOW spr round 15 (radius: 10)
[02:34:28 -274306.685152] SLOW spr round 16 (radius: 5)
[02:36:29 -274304.858041] SLOW spr round 17 (radius: 5)
[02:38:19 -274304.857779] SLOW spr round 18 (radius: 10)
[02:40:11 -274302.706923] SLOW spr round 19 (radius: 5)
[02:42:13 -274292.593737] SLOW spr round 20 (radius: 5)
[02:44:05 -274291.807163] SLOW spr round 21 (radius: 5)
[02:45:51 -274291.806850] SLOW spr round 22 (radius: 10)
[02:47:42 -274288.137130] SLOW spr round 23 (radius: 5)
[02:49:45 -274285.531793] SLOW spr round 24 (radius: 5)
[02:51:37 -274284.708153] SLOW spr round 25 (radius: 5)
[02:53:23 -274284.707547] SLOW spr round 26 (radius: 10)
[02:55:15 -274284.581125] SLOW spr round 27 (radius: 5)
[02:57:16 -274284.581123] SLOW spr round 28 (radius: 10)
[02:59:19 -274284.581122] SLOW spr round 29 (radius: 15)
[03:02:08 -274284.581120] SLOW spr round 30 (radius: 20)
[03:06:07 -274284.581118] SLOW spr round 31 (radius: 25)
[03:10:55 -274284.581117] Model parameter optimization (eps = 0.100000)

[03:11:09] ML tree search #3, logLikelihood: -274283.930598

[03:11:09 -807052.614271] Initial branch length optimization
[03:11:13 -674253.481186] Model parameter optimization (eps = 10.000000)
[03:11:52 -671002.781351] AUTODETECT spr round 1 (radius: 5)
[03:13:34 -520576.718377] AUTODETECT spr round 2 (radius: 10)
[03:15:25 -385366.244626] AUTODETECT spr round 3 (radius: 15)
[03:17:21 -330510.724785] AUTODETECT spr round 4 (radius: 20)
[03:19:31 -306605.295575] AUTODETECT spr round 5 (radius: 25)
[03:21:53 -302106.490963] SPR radius for FAST iterations: 25 (autodetect)
[03:21:53 -302106.490963] Model parameter optimization (eps = 3.000000)
[03:22:12 -301702.505270] FAST spr round 1 (radius: 25)
[03:24:39 -276291.369887] FAST spr round 2 (radius: 25)
[03:26:37 -274431.416142] FAST spr round 3 (radius: 25)
[03:28:18 -274377.467381] FAST spr round 4 (radius: 25)
[03:29:51 -274355.736892] FAST spr round 5 (radius: 25)
[03:31:17 -274352.863108] FAST spr round 6 (radius: 25)
[03:32:41 -274351.966885] FAST spr round 7 (radius: 25)
[03:34:03 -274351.966553] Model parameter optimization (eps = 1.000000)
[03:34:22 -274340.626375] SLOW spr round 1 (radius: 5)
[03:36:11 -274297.157626] SLOW spr round 2 (radius: 5)
[03:37:57 -274288.619559] SLOW spr round 3 (radius: 5)
[03:39:39 -274288.618834] SLOW spr round 4 (radius: 10)
[03:41:26 -274288.510192] SLOW spr round 5 (radius: 5)
[03:43:26 -274288.508569] SLOW spr round 6 (radius: 10)
[03:45:25 -274288.508309] SLOW spr round 7 (radius: 15)
[03:48:02 -274288.508263] SLOW spr round 8 (radius: 20)
[03:51:41 -274288.508255] SLOW spr round 9 (radius: 25)
[03:56:00 -274288.508254] Model parameter optimization (eps = 0.100000)

[03:56:04] ML tree search #4, logLikelihood: -274288.442479

[03:56:04 -806084.311724] Initial branch length optimization
[03:56:08 -672320.394859] Model parameter optimization (eps = 10.000000)
[03:56:49 -669098.656203] AUTODETECT spr round 1 (radius: 5)
[03:58:26 -511411.171506] AUTODETECT spr round 2 (radius: 10)
[04:00:12 -414717.820637] AUTODETECT spr round 3 (radius: 15)
[04:02:12 -337441.768330] AUTODETECT spr round 4 (radius: 20)
[04:04:32 -315194.422078] AUTODETECT spr round 5 (radius: 25)
[04:07:24 -305162.958473] SPR radius for FAST iterations: 25 (autodetect)
[04:07:24 -305162.958473] Model parameter optimization (eps = 3.000000)
[04:07:47 -304663.773327] FAST spr round 1 (radius: 25)
[04:10:14 -275394.719460] FAST spr round 2 (radius: 25)
[04:12:10 -274450.091280] FAST spr round 3 (radius: 25)
[04:13:52 -274370.520782] FAST spr round 4 (radius: 25)
[04:15:19 -274357.794711] FAST spr round 5 (radius: 25)
[04:16:51 -274337.562035] FAST spr round 6 (radius: 25)
[04:18:12 -274337.560410] Model parameter optimization (eps = 1.000000)
[04:18:27 -274333.106413] SLOW spr round 1 (radius: 5)
[04:20:20 -274278.983518] SLOW spr round 2 (radius: 5)
[04:22:10 -274274.878048] SLOW spr round 3 (radius: 5)
[04:23:57 -274273.585985] SLOW spr round 4 (radius: 5)
[04:25:41 -274273.585058] SLOW spr round 5 (radius: 10)
[04:27:33 -274271.356885] SLOW spr round 6 (radius: 5)
[04:29:37 -274270.990811] SLOW spr round 7 (radius: 5)
[04:31:31 -274270.990788] SLOW spr round 8 (radius: 10)
[04:33:28 -274270.920935] SLOW spr round 9 (radius: 15)
[04:36:18 -274270.919220] SLOW spr round 10 (radius: 20)
[04:40:05 -274270.919029] SLOW spr round 11 (radius: 25)
[04:44:30 -274270.918993] Model parameter optimization (eps = 0.100000)

[04:44:37] ML tree search #5, logLikelihood: -274270.817087

[04:44:37 -804662.667061] Initial branch length optimization
[04:44:41 -670851.139884] Model parameter optimization (eps = 10.000000)
[04:45:23 -667522.655546] AUTODETECT spr round 1 (radius: 5)
[04:47:03 -517616.113307] AUTODETECT spr round 2 (radius: 10)
[04:48:55 -397178.364313] AUTODETECT spr round 3 (radius: 15)
[04:50:53 -336772.323668] AUTODETECT spr round 4 (radius: 20)
[04:53:10 -305530.827315] AUTODETECT spr round 5 (radius: 25)
[04:55:34 -303982.959102] SPR radius for FAST iterations: 25 (autodetect)
[04:55:34 -303982.959102] Model parameter optimization (eps = 3.000000)
[04:55:54 -303607.349595] FAST spr round 1 (radius: 25)
[04:58:19 -275534.985634] FAST spr round 2 (radius: 25)
[05:00:17 -274485.283301] FAST spr round 3 (radius: 25)
[05:01:57 -274406.311656] FAST spr round 4 (radius: 25)
[05:03:26 -274381.570899] FAST spr round 5 (radius: 25)
[05:04:47 -274381.570726] Model parameter optimization (eps = 1.000000)
[05:05:03 -274338.558129] SLOW spr round 1 (radius: 5)
[05:06:55 -274282.835151] SLOW spr round 2 (radius: 5)
[05:08:40 -274280.751371] SLOW spr round 3 (radius: 5)
[05:10:22 -274280.749519] SLOW spr round 4 (radius: 10)
[05:12:10 -274277.929456] SLOW spr round 5 (radius: 5)
[05:14:12 -274275.521284] SLOW spr round 6 (radius: 5)
[05:16:01 -274275.521244] SLOW spr round 7 (radius: 10)
[05:17:52 -274275.521241] SLOW spr round 8 (radius: 15)
[05:20:38 -274274.903054] SLOW spr round 9 (radius: 5)
[05:22:43 -274274.901691] SLOW spr round 10 (radius: 10)
[05:24:48 -274274.901661] SLOW spr round 11 (radius: 15)
[05:27:26 -274274.901658] SLOW spr round 12 (radius: 20)
[05:31:12 -274274.901657] SLOW spr round 13 (radius: 25)
[05:35:34 -274274.901657] Model parameter optimization (eps = 0.100000)

[05:35:39] ML tree search #6, logLikelihood: -274274.880028

[05:35:39 -801160.863308] Initial branch length optimization
[05:35:42 -671341.331902] Model parameter optimization (eps = 10.000000)
[05:36:08 -668156.364703] AUTODETECT spr round 1 (radius: 5)
[05:37:47 -517855.356357] AUTODETECT spr round 2 (radius: 10)
[05:39:35 -425684.178323] AUTODETECT spr round 3 (radius: 15)
[05:41:33 -363907.337114] AUTODETECT spr round 4 (radius: 20)
[05:43:46 -321698.870205] AUTODETECT spr round 5 (radius: 25)
[05:46:04 -310179.256401] SPR radius for FAST iterations: 25 (autodetect)
[05:46:04 -310179.256401] Model parameter optimization (eps = 3.000000)
[05:46:22 -309712.603405] FAST spr round 1 (radius: 25)
[05:48:42 -275986.277043] FAST spr round 2 (radius: 25)
[05:50:35 -274524.347918] FAST spr round 3 (radius: 25)
[05:52:15 -274432.852017] FAST spr round 4 (radius: 25)
[05:53:46 -274409.302519] FAST spr round 5 (radius: 25)
[05:55:13 -274382.901004] FAST spr round 6 (radius: 25)
[05:56:37 -274379.247674] FAST spr round 7 (radius: 25)
[05:57:59 -274378.805830] FAST spr round 8 (radius: 25)
[05:59:22 -274378.804350] Model parameter optimization (eps = 1.000000)
[05:59:34 -274375.250261] SLOW spr round 1 (radius: 5)
[06:01:24 -274305.830716] SLOW spr round 2 (radius: 5)
[06:03:12 -274297.781223] SLOW spr round 3 (radius: 5)
[06:04:57 -274297.674590] SLOW spr round 4 (radius: 5)
[06:06:39 -274297.674271] SLOW spr round 5 (radius: 10)
[06:08:31 -274295.241955] SLOW spr round 6 (radius: 5)
[06:10:33 -274295.231291] SLOW spr round 7 (radius: 10)
[06:12:36 -274295.230044] SLOW spr round 8 (radius: 15)
[06:15:14 -274295.229905] SLOW spr round 9 (radius: 20)
[06:18:52 -274295.229885] SLOW spr round 10 (radius: 25)
[06:23:08 -274295.229880] Model parameter optimization (eps = 0.100000)

[06:23:13] ML tree search #7, logLikelihood: -274295.148435

[06:23:13 -800011.421715] Initial branch length optimization
[06:23:16 -670707.189054] Model parameter optimization (eps = 10.000000)
[06:23:41 -667669.721371] AUTODETECT spr round 1 (radius: 5)
[06:25:18 -518492.827864] AUTODETECT spr round 2 (radius: 10)
[06:27:03 -400441.000032] AUTODETECT spr round 3 (radius: 15)
[06:28:58 -340068.272079] AUTODETECT spr round 4 (radius: 20)
[06:31:09 -310741.178795] AUTODETECT spr round 5 (radius: 25)
[06:33:27 -307406.644409] SPR radius for FAST iterations: 25 (autodetect)
[06:33:28 -307406.644409] Model parameter optimization (eps = 3.000000)
[06:33:51 -306919.072365] FAST spr round 1 (radius: 25)
[06:36:07 -276025.921071] FAST spr round 2 (radius: 25)
[06:38:01 -274477.442219] FAST spr round 3 (radius: 25)
[06:39:41 -274411.975757] FAST spr round 4 (radius: 25)
[06:41:13 -274376.966973] FAST spr round 5 (radius: 25)
[06:42:37 -274371.935978] FAST spr round 6 (radius: 25)
[06:43:58 -274371.358157] FAST spr round 7 (radius: 25)
[06:45:18 -274371.357549] Model parameter optimization (eps = 1.000000)
[06:45:30 -274367.731913] SLOW spr round 1 (radius: 5)
[06:47:19 -274309.127342] SLOW spr round 2 (radius: 5)
[06:49:07 -274298.208331] SLOW spr round 3 (radius: 5)
[06:50:53 -274293.937986] SLOW spr round 4 (radius: 5)
[06:52:39 -274293.750410] SLOW spr round 5 (radius: 5)
[06:54:23 -274293.750387] SLOW spr round 6 (radius: 10)
[06:56:16 -274284.318444] SLOW spr round 7 (radius: 5)
[06:58:22 -274275.316833] SLOW spr round 8 (radius: 5)
[07:00:14 -274275.316552] SLOW spr round 9 (radius: 10)
[07:02:09 -274275.316538] SLOW spr round 10 (radius: 15)
[07:05:01 -274275.316538] SLOW spr round 11 (radius: 20)
[07:08:58 -274275.316537] SLOW spr round 12 (radius: 25)
[07:13:43 -274275.316537] Model parameter optimization (eps = 0.100000)

[07:13:49] ML tree search #8, logLikelihood: -274275.309303

[07:13:49 -797359.948982] Initial branch length optimization
[07:13:52 -668710.163429] Model parameter optimization (eps = 10.000000)
[07:14:17 -665607.994788] AUTODETECT spr round 1 (radius: 5)
[07:15:57 -510152.321152] AUTODETECT spr round 2 (radius: 10)
[07:17:49 -412816.469321] AUTODETECT spr round 3 (radius: 15)
[07:19:55 -344555.110282] AUTODETECT spr round 4 (radius: 20)
[07:22:11 -322412.678182] AUTODETECT spr round 5 (radius: 25)
[07:24:35 -315043.357977] SPR radius for FAST iterations: 25 (autodetect)
[07:24:35 -315043.357977] Model parameter optimization (eps = 3.000000)
[07:24:56 -314557.947379] FAST spr round 1 (radius: 25)
[07:27:31 -276914.215744] FAST spr round 2 (radius: 25)
[07:29:30 -275070.687992] FAST spr round 3 (radius: 25)
[07:31:08 -274985.103998] FAST spr round 4 (radius: 25)
[07:32:39 -274969.436622] FAST spr round 5 (radius: 25)
[07:34:03 -274968.875558] FAST spr round 6 (radius: 25)
[07:35:27 -274968.875108] Model parameter optimization (eps = 1.000000)
[07:35:40 -274963.485221] SLOW spr round 1 (radius: 5)
[07:37:31 -274895.751782] SLOW spr round 2 (radius: 5)
[07:39:19 -274882.454738] SLOW spr round 3 (radius: 5)
[07:41:09 -274873.284193] SLOW spr round 4 (radius: 5)
[07:42:53 -274871.713638] SLOW spr round 5 (radius: 5)
[07:44:37 -274871.713359] SLOW spr round 6 (radius: 10)
[07:46:28 -274868.546070] SLOW spr round 7 (radius: 5)
[07:48:28 -274868.281148] SLOW spr round 8 (radius: 5)
[07:50:19 -274868.280309] SLOW spr round 9 (radius: 10)
[07:52:12 -274867.897542] SLOW spr round 10 (radius: 5)
[07:54:13 -274860.943401] SLOW spr round 11 (radius: 5)
[07:56:04 -274854.533810] SLOW spr round 12 (radius: 5)
[07:57:49 -274849.831797] SLOW spr round 13 (radius: 5)
[07:59:33 -274848.672479] SLOW spr round 14 (radius: 5)
[08:01:15 -274848.672425] SLOW spr round 15 (radius: 10)
[08:03:02 -274848.672424] SLOW spr round 16 (radius: 15)
[08:05:55 -274848.672424] SLOW spr round 17 (radius: 20)
[08:09:48 -274846.039965] SLOW spr round 18 (radius: 5)
[08:11:57 -274846.039599] SLOW spr round 19 (radius: 10)
[08:14:11 -274846.039593] SLOW spr round 20 (radius: 15)
[08:16:59 -274846.039592] SLOW spr round 21 (radius: 20)
[08:21:01 -274846.039592] SLOW spr round 22 (radius: 25)
[08:25:45 -274846.039592] Model parameter optimization (eps = 0.100000)

[08:25:56] ML tree search #9, logLikelihood: -274845.365982

[08:25:56 -802513.877686] Initial branch length optimization
[08:25:59 -673490.254531] Model parameter optimization (eps = 10.000000)
[08:26:30 -670288.262614] AUTODETECT spr round 1 (radius: 5)
[08:28:12 -515334.203318] AUTODETECT spr round 2 (radius: 10)
[08:30:04 -415155.118042] AUTODETECT spr round 3 (radius: 15)
[08:32:04 -345657.650352] AUTODETECT spr round 4 (radius: 20)
[08:34:27 -309774.455994] AUTODETECT spr round 5 (radius: 25)
[08:36:51 -304540.535674] SPR radius for FAST iterations: 25 (autodetect)
[08:36:51 -304540.535674] Model parameter optimization (eps = 3.000000)
[08:37:13 -304112.305530] FAST spr round 1 (radius: 25)
[08:39:44 -275691.616778] FAST spr round 2 (radius: 25)
[08:41:45 -274460.283782] FAST spr round 3 (radius: 25)
[08:43:28 -274344.898252] FAST spr round 4 (radius: 25)
[08:44:58 -274339.168798] FAST spr round 5 (radius: 25)
[08:46:22 -274339.167444] Model parameter optimization (eps = 1.000000)
[08:46:38 -274333.877372] SLOW spr round 1 (radius: 5)
[08:48:33 -274265.936389] SLOW spr round 2 (radius: 5)
[08:50:20 -274259.654079] SLOW spr round 3 (radius: 5)
[08:52:04 -274259.641760] SLOW spr round 4 (radius: 10)
[08:53:55 -274258.539776] SLOW spr round 5 (radius: 5)
[08:55:56 -274258.539700] SLOW spr round 6 (radius: 10)
[08:57:58 -274257.792750] SLOW spr round 7 (radius: 5)
[08:59:58 -274255.320021] SLOW spr round 8 (radius: 5)
[09:01:47 -274255.319625] SLOW spr round 9 (radius: 10)
[09:03:39 -274255.319612] SLOW spr round 10 (radius: 15)
[09:06:27 -274255.319611] SLOW spr round 11 (radius: 20)
[09:10:14 -274255.319611] SLOW spr round 12 (radius: 25)
[09:14:45 -274255.319611] Model parameter optimization (eps = 0.100000)

[09:14:49] ML tree search #10, logLikelihood: -274255.239329

[09:14:49 -801911.910592] Initial branch length optimization
[09:14:52 -669071.527899] Model parameter optimization (eps = 10.000000)
[09:15:25 -665916.134389] AUTODETECT spr round 1 (radius: 5)
[09:17:02 -512251.739326] AUTODETECT spr round 2 (radius: 10)
[09:18:48 -409110.236897] AUTODETECT spr round 3 (radius: 15)
[09:20:47 -332623.630939] AUTODETECT spr round 4 (radius: 20)
[09:22:51 -311130.673588] AUTODETECT spr round 5 (radius: 25)
[09:25:10 -304685.062793] SPR radius for FAST iterations: 25 (autodetect)
[09:25:10 -304685.062793] Model parameter optimization (eps = 3.000000)
[09:25:29 -304255.945171] FAST spr round 1 (radius: 25)
[09:27:51 -275960.800179] FAST spr round 2 (radius: 25)
[09:29:42 -274475.334464] FAST spr round 3 (radius: 25)
[09:31:22 -274372.553624] FAST spr round 4 (radius: 25)
[09:32:52 -274361.164193] FAST spr round 5 (radius: 25)
[09:34:17 -274354.968821] FAST spr round 6 (radius: 25)
[09:35:41 -274354.968510] Model parameter optimization (eps = 1.000000)
[09:35:55 -274344.810652] SLOW spr round 1 (radius: 5)
[09:37:47 -274281.935546] SLOW spr round 2 (radius: 5)
[09:39:36 -274276.073557] SLOW spr round 3 (radius: 5)
[09:41:21 -274275.867778] SLOW spr round 4 (radius: 5)
[09:43:04 -274275.864993] SLOW spr round 5 (radius: 10)
[09:44:55 -274274.690444] SLOW spr round 6 (radius: 5)
[09:46:58 -274274.468057] SLOW spr round 7 (radius: 5)
[09:48:50 -274274.467635] SLOW spr round 8 (radius: 10)
[09:50:46 -274274.467594] SLOW spr round 9 (radius: 15)
[09:53:30 -274274.467590] SLOW spr round 10 (radius: 20)
[09:57:08 -274274.467590] SLOW spr round 11 (radius: 25)
[10:01:23 -274274.467590] Model parameter optimization (eps = 0.100000)

[10:01:33] ML tree search #11, logLikelihood: -274274.301996

[10:01:33 -799432.554202] Initial branch length optimization
[10:01:37 -669708.366004] Model parameter optimization (eps = 10.000000)
[10:02:07 -666797.758888] AUTODETECT spr round 1 (radius: 5)
[10:03:47 -514234.979363] AUTODETECT spr round 2 (radius: 10)
[10:05:39 -406816.209304] AUTODETECT spr round 3 (radius: 15)
[10:07:42 -343936.717715] AUTODETECT spr round 4 (radius: 20)
[10:09:54 -314747.649681] AUTODETECT spr round 5 (radius: 25)
[10:12:06 -308831.283619] SPR radius for FAST iterations: 25 (autodetect)
[10:12:06 -308831.283619] Model parameter optimization (eps = 3.000000)
[10:12:28 -308422.244248] FAST spr round 1 (radius: 25)
[10:14:53 -277158.419961] FAST spr round 2 (radius: 25)
[10:16:43 -275037.990255] FAST spr round 3 (radius: 25)
[10:18:20 -274929.091079] FAST spr round 4 (radius: 25)
[10:19:47 -274922.086958] FAST spr round 5 (radius: 25)
[10:21:10 -274921.073391] FAST spr round 6 (radius: 25)
[10:22:31 -274921.072920] Model parameter optimization (eps = 1.000000)
[10:22:45 -274910.392908] SLOW spr round 1 (radius: 5)
[10:24:30 -274862.784659] SLOW spr round 2 (radius: 5)
[10:26:17 -274850.749012] SLOW spr round 3 (radius: 5)
[10:27:58 -274850.748167] SLOW spr round 4 (radius: 10)
[10:29:45 -274850.730343] SLOW spr round 5 (radius: 15)
[10:32:29 -274850.729750] SLOW spr round 6 (radius: 20)
[10:36:06 -274850.729688] SLOW spr round 7 (radius: 25)
[10:40:27 -274850.729674] Model parameter optimization (eps = 0.100000)

[10:40:32] ML tree search #12, logLikelihood: -274850.637050

[10:40:32 -801481.837815] Initial branch length optimization
[10:40:36 -672921.576680] Model parameter optimization (eps = 10.000000)
[10:41:00 -669904.988326] AUTODETECT spr round 1 (radius: 5)
[10:42:37 -512234.429653] AUTODETECT spr round 2 (radius: 10)
[10:44:27 -397106.947109] AUTODETECT spr round 3 (radius: 15)
[10:46:22 -344768.772701] AUTODETECT spr round 4 (radius: 20)
[10:48:49 -312643.912276] AUTODETECT spr round 5 (radius: 25)
[10:51:28 -309565.716674] SPR radius for FAST iterations: 25 (autodetect)
[10:51:28 -309565.716674] Model parameter optimization (eps = 3.000000)
[10:51:46 -309177.056866] FAST spr round 1 (radius: 25)
[10:54:17 -276046.798730] FAST spr round 2 (radius: 25)
[10:56:13 -274552.437982] FAST spr round 3 (radius: 25)
[10:57:54 -274396.068938] FAST spr round 4 (radius: 25)
[10:59:27 -274382.692767] FAST spr round 5 (radius: 25)
[11:00:53 -274373.117196] FAST spr round 6 (radius: 25)
[11:02:17 -274373.113569] Model parameter optimization (eps = 1.000000)
[11:02:35 -274344.627433] SLOW spr round 1 (radius: 5)
[11:04:27 -274297.073471] SLOW spr round 2 (radius: 5)
[11:06:17 -274288.771165] SLOW spr round 3 (radius: 5)
[11:08:04 -274283.355711] SLOW spr round 4 (radius: 5)
[11:09:50 -274274.576011] SLOW spr round 5 (radius: 5)
[11:11:37 -274265.128603] SLOW spr round 6 (radius: 5)
[11:13:21 -274265.128171] SLOW spr round 7 (radius: 10)
[11:15:11 -274264.407815] SLOW spr round 8 (radius: 5)
[11:17:13 -274260.528541] SLOW spr round 9 (radius: 5)
[11:19:05 -274260.528425] SLOW spr round 10 (radius: 10)
[11:20:58 -274260.528423] SLOW spr round 11 (radius: 15)
[11:23:43 -274260.528423] SLOW spr round 12 (radius: 20)
[11:27:26 -274260.528423] SLOW spr round 13 (radius: 25)
[11:31:47 -274260.528423] Model parameter optimization (eps = 0.100000)

[11:32:00] ML tree search #13, logLikelihood: -274260.018257

[11:32:01 -801011.535460] Initial branch length optimization
[11:32:04 -670275.713615] Model parameter optimization (eps = 10.000000)
[11:32:36 -667144.465498] AUTODETECT spr round 1 (radius: 5)
[11:34:14 -512820.372884] AUTODETECT spr round 2 (radius: 10)
[11:36:03 -401713.243963] AUTODETECT spr round 3 (radius: 15)
[11:37:55 -336554.356936] AUTODETECT spr round 4 (radius: 20)
[11:39:56 -306749.575628] AUTODETECT spr round 5 (radius: 25)
[11:42:26 -304880.461082] SPR radius for FAST iterations: 25 (autodetect)
[11:42:26 -304880.461082] Model parameter optimization (eps = 3.000000)
[11:42:50 -304600.852519] FAST spr round 1 (radius: 25)
[11:45:17 -275785.831138] FAST spr round 2 (radius: 25)
[11:47:12 -274487.683433] FAST spr round 3 (radius: 25)
[11:48:50 -274408.891053] FAST spr round 4 (radius: 25)
[11:50:17 -274403.791013] FAST spr round 5 (radius: 25)
[11:51:42 -274374.433580] FAST spr round 6 (radius: 25)
[11:53:05 -274344.659103] FAST spr round 7 (radius: 25)
[11:54:25 -274344.658612] Model parameter optimization (eps = 1.000000)
[11:54:39 -274336.259787] SLOW spr round 1 (radius: 5)
[11:56:26 -274282.991669] SLOW spr round 2 (radius: 5)
[11:58:12 -274271.449903] SLOW spr round 3 (radius: 5)
[11:59:54 -274271.262696] SLOW spr round 4 (radius: 5)
[12:01:35 -274271.261733] SLOW spr round 5 (radius: 10)
[12:03:24 -274266.785159] SLOW spr round 6 (radius: 5)
[12:05:26 -274266.314544] SLOW spr round 7 (radius: 5)
[12:07:16 -274266.312750] SLOW spr round 8 (radius: 10)
[12:09:08 -274265.232216] SLOW spr round 9 (radius: 5)
[12:11:08 -274264.182042] SLOW spr round 10 (radius: 5)
[12:13:02 -274262.870045] SLOW spr round 11 (radius: 5)
[12:14:51 -274262.869679] SLOW spr round 12 (radius: 10)
[12:16:42 -274262.869663] SLOW spr round 13 (radius: 15)
[12:19:33 -274262.869661] SLOW spr round 14 (radius: 20)
[12:23:20 -274261.374087] SLOW spr round 15 (radius: 5)
[12:25:29 -274261.373518] SLOW spr round 16 (radius: 10)
[12:27:40 -274261.373507] SLOW spr round 17 (radius: 15)
[12:30:21 -274261.373505] SLOW spr round 18 (radius: 20)
[12:34:09 -274261.373504] SLOW spr round 19 (radius: 25)
[12:38:33 -274261.373504] Model parameter optimization (eps = 0.100000)

[12:38:38] ML tree search #14, logLikelihood: -274261.184507

[12:38:39 -804329.190684] Initial branch length optimization
[12:38:43 -673236.546478] Model parameter optimization (eps = 10.000000)
[12:39:07 -670020.013150] AUTODETECT spr round 1 (radius: 5)
[12:40:45 -519145.693236] AUTODETECT spr round 2 (radius: 10)
[12:42:35 -403461.663549] AUTODETECT spr round 3 (radius: 15)
[12:44:27 -343507.934761] AUTODETECT spr round 4 (radius: 20)
[12:46:32 -315429.666350] AUTODETECT spr round 5 (radius: 25)
[12:48:48 -308799.367753] SPR radius for FAST iterations: 25 (autodetect)
[12:48:48 -308799.367753] Model parameter optimization (eps = 3.000000)
[12:49:11 -308363.534388] FAST spr round 1 (radius: 25)
[12:51:37 -275868.169129] FAST spr round 2 (radius: 25)
[12:53:32 -274548.391873] FAST spr round 3 (radius: 25)
[12:55:12 -274399.591059] FAST spr round 4 (radius: 25)
[12:56:37 -274382.757891] FAST spr round 5 (radius: 25)
[12:57:57 -274379.267542] FAST spr round 6 (radius: 25)
[12:59:15 -274379.267164] Model parameter optimization (eps = 1.000000)
[12:59:28 -274356.580603] SLOW spr round 1 (radius: 5)
[13:01:17 -274285.365826] SLOW spr round 2 (radius: 5)
[13:03:01 -274278.692709] SLOW spr round 3 (radius: 5)
[13:04:40 -274278.690761] SLOW spr round 4 (radius: 10)
[13:06:25 -274275.575093] SLOW spr round 5 (radius: 5)
[13:08:24 -274270.286262] SLOW spr round 6 (radius: 5)
[13:10:11 -274270.285108] SLOW spr round 7 (radius: 10)
[13:12:00 -274270.284959] SLOW spr round 8 (radius: 15)
[13:14:39 -274270.284930] SLOW spr round 9 (radius: 20)
[13:18:18 -274270.284924] SLOW spr round 10 (radius: 25)
[13:22:42 -274270.284922] Model parameter optimization (eps = 0.100000)

[13:22:47] ML tree search #15, logLikelihood: -274270.211047

[13:22:47 -802705.832107] Initial branch length optimization
[13:22:50 -671436.259806] Model parameter optimization (eps = 10.000000)
[13:23:14 -668392.109718] AUTODETECT spr round 1 (radius: 5)
[13:24:49 -519940.059830] AUTODETECT spr round 2 (radius: 10)
[13:26:33 -409051.107481] AUTODETECT spr round 3 (radius: 15)
[13:28:34 -341255.010888] AUTODETECT spr round 4 (radius: 20)
[13:30:52 -312996.961070] AUTODETECT spr round 5 (radius: 25)
[13:33:20 -306158.743041] SPR radius for FAST iterations: 25 (autodetect)
[13:33:20 -306158.743041] Model parameter optimization (eps = 3.000000)
[13:33:38 -305824.480219] FAST spr round 1 (radius: 25)
[13:35:56 -275470.387787] FAST spr round 2 (radius: 25)
[13:37:50 -274422.142617] FAST spr round 3 (radius: 25)
[13:39:27 -274378.478003] FAST spr round 4 (radius: 25)
[13:40:56 -274373.156503] FAST spr round 5 (radius: 25)
[13:42:17 -274367.474311] FAST spr round 6 (radius: 25)
[13:43:36 -274367.474310] Model parameter optimization (eps = 1.000000)
[13:43:50 -274362.699172] SLOW spr round 1 (radius: 5)
[13:45:36 -274329.473906] SLOW spr round 2 (radius: 5)
[13:47:18 -274327.996223] SLOW spr round 3 (radius: 5)
[13:49:00 -274327.927411] SLOW spr round 4 (radius: 10)
[13:50:48 -274324.595743] SLOW spr round 5 (radius: 5)
[13:52:47 -274323.536170] SLOW spr round 6 (radius: 5)
[13:54:35 -274323.534650] SLOW spr round 7 (radius: 10)
[13:56:28 -274323.534524] SLOW spr round 8 (radius: 15)
[13:59:15 -274323.534511] SLOW spr round 9 (radius: 20)
[14:03:00 -274323.534509] SLOW spr round 10 (radius: 25)
[14:07:28 -274323.534508] Model parameter optimization (eps = 0.100000)

[14:07:32] ML tree search #16, logLikelihood: -274323.503599

[14:07:32 -803454.307534] Initial branch length optimization
[14:07:36 -674084.726232] Model parameter optimization (eps = 10.000000)
[14:08:13 -670817.604015] AUTODETECT spr round 1 (radius: 5)
[14:09:49 -516016.610916] AUTODETECT spr round 2 (radius: 10)
[14:11:34 -416408.603583] AUTODETECT spr round 3 (radius: 15)
[14:13:34 -341784.274380] AUTODETECT spr round 4 (radius: 20)
[14:15:35 -308977.224114] AUTODETECT spr round 5 (radius: 25)
[14:17:43 -306035.018810] SPR radius for FAST iterations: 25 (autodetect)
[14:17:43 -306035.018810] Model parameter optimization (eps = 3.000000)
[14:18:06 -305689.507738] FAST spr round 1 (radius: 25)
[14:20:26 -275926.692934] FAST spr round 2 (radius: 25)
[14:22:20 -274473.188858] FAST spr round 3 (radius: 25)
[14:23:53 -274414.696097] FAST spr round 4 (radius: 25)
[14:25:20 -274400.539142] FAST spr round 5 (radius: 25)
[14:26:42 -274392.619337] FAST spr round 6 (radius: 25)
[14:28:06 -274375.331751] FAST spr round 7 (radius: 25)
[14:29:27 -274357.315714] FAST spr round 8 (radius: 25)
[14:30:48 -274341.782951] FAST spr round 9 (radius: 25)
[14:32:05 -274341.047282] FAST spr round 10 (radius: 25)
[14:33:22 -274341.046411] Model parameter optimization (eps = 1.000000)
[14:33:36 -274339.494068] SLOW spr round 1 (radius: 5)
[14:35:20 -274292.988063] SLOW spr round 2 (radius: 5)
[14:37:04 -274284.062584] SLOW spr round 3 (radius: 5)
[14:38:46 -274280.335711] SLOW spr round 4 (radius: 5)
[14:40:26 -274280.333540] SLOW spr round 5 (radius: 10)
[14:42:13 -274271.743031] SLOW spr round 6 (radius: 5)
[14:44:14 -274264.819278] SLOW spr round 7 (radius: 5)
[14:46:03 -274261.735298] SLOW spr round 8 (radius: 5)
[14:47:46 -274261.734623] SLOW spr round 9 (radius: 10)
[14:49:33 -274261.734601] SLOW spr round 10 (radius: 15)
[14:52:16 -274261.734600] SLOW spr round 11 (radius: 20)
[14:55:53 -274261.734600] SLOW spr round 12 (radius: 25)
[15:00:09 -274261.734600] Model parameter optimization (eps = 0.100000)

[15:00:17] ML tree search #17, logLikelihood: -274261.545187

[15:00:17 -800057.801809] Initial branch length optimization
[15:00:20 -666903.040056] Model parameter optimization (eps = 10.000000)
[15:00:45 -663850.832088] AUTODETECT spr round 1 (radius: 5)
[15:02:20 -512656.433548] AUTODETECT spr round 2 (radius: 10)
[15:04:03 -418716.644894] AUTODETECT spr round 3 (radius: 15)
[15:06:01 -341820.161188] AUTODETECT spr round 4 (radius: 20)
[15:08:10 -324456.837269] AUTODETECT spr round 5 (radius: 25)
[15:10:25 -312172.119409] SPR radius for FAST iterations: 25 (autodetect)
[15:10:25 -312172.119409] Model parameter optimization (eps = 3.000000)
[15:10:47 -311772.456371] FAST spr round 1 (radius: 25)
[15:13:04 -275663.255603] FAST spr round 2 (radius: 25)
[15:14:56 -274472.116184] FAST spr round 3 (radius: 25)
[15:16:32 -274404.987574] FAST spr round 4 (radius: 25)
[15:18:00 -274381.982095] FAST spr round 5 (radius: 25)
[15:19:23 -274374.720689] FAST spr round 6 (radius: 25)
[15:20:45 -274365.859301] FAST spr round 7 (radius: 25)
[15:22:05 -274349.573190] FAST spr round 8 (radius: 25)
[15:23:25 -274341.341968] FAST spr round 9 (radius: 25)
[15:24:44 -274332.851506] FAST spr round 10 (radius: 25)
[15:26:02 -274330.909655] FAST spr round 11 (radius: 25)
[15:27:19 -274330.909432] Model parameter optimization (eps = 1.000000)
[15:27:33 -274320.223809] SLOW spr round 1 (radius: 5)
[15:29:21 -274276.694462] SLOW spr round 2 (radius: 5)
[15:31:01 -274276.693576] SLOW spr round 3 (radius: 10)
[15:32:47 -274269.529073] SLOW spr round 4 (radius: 5)
[15:34:44 -274267.753826] SLOW spr round 5 (radius: 5)
[15:36:32 -274267.753635] SLOW spr round 6 (radius: 10)
[15:38:22 -274267.753632] SLOW spr round 7 (radius: 15)
[15:41:08 -274267.753632] SLOW spr round 8 (radius: 20)
[15:45:00 -274267.167906] SLOW spr round 9 (radius: 5)
[15:47:07 -274264.601706] SLOW spr round 10 (radius: 5)
[15:48:59 -274264.601146] SLOW spr round 11 (radius: 10)
[15:50:51 -274264.601112] SLOW spr round 12 (radius: 15)
[15:53:35 -274264.601105] SLOW spr round 13 (radius: 20)
[15:57:26 -274264.601103] SLOW spr round 14 (radius: 25)
[16:02:07 -274264.601102] Model parameter optimization (eps = 0.100000)

[16:02:15] ML tree search #18, logLikelihood: -274264.339504

[16:02:15 -799289.272199] Initial branch length optimization
[16:02:19 -665770.705007] Model parameter optimization (eps = 10.000000)
[16:02:45 -662688.809266] AUTODETECT spr round 1 (radius: 5)
[16:04:21 -516346.306338] AUTODETECT spr round 2 (radius: 10)
[16:06:07 -418927.895622] AUTODETECT spr round 3 (radius: 15)
[16:08:08 -338075.494887] AUTODETECT spr round 4 (radius: 20)
[16:10:09 -315269.421947] AUTODETECT spr round 5 (radius: 25)
[16:12:21 -306239.752063] SPR radius for FAST iterations: 25 (autodetect)
[16:12:21 -306239.752063] Model parameter optimization (eps = 3.000000)
[16:12:43 -305784.379301] FAST spr round 1 (radius: 25)
[16:15:01 -275676.940945] FAST spr round 2 (radius: 25)
[16:16:48 -274434.450528] FAST spr round 3 (radius: 25)
[16:18:23 -274367.822126] FAST spr round 4 (radius: 25)
[16:19:48 -274366.141593] FAST spr round 5 (radius: 25)
[16:21:09 -274366.043897] Model parameter optimization (eps = 1.000000)
[16:21:25 -274353.513974] SLOW spr round 1 (radius: 5)
[16:23:13 -274304.143438] SLOW spr round 2 (radius: 5)
[16:24:55 -274298.763740] SLOW spr round 3 (radius: 5)
[16:26:37 -274291.758615] SLOW spr round 4 (radius: 5)
[16:28:20 -274281.837826] SLOW spr round 5 (radius: 5)
[16:30:02 -274278.820168] SLOW spr round 6 (radius: 5)
[16:31:42 -274275.713736] SLOW spr round 7 (radius: 5)
[16:33:23 -274275.418097] SLOW spr round 8 (radius: 5)
[16:35:02 -274275.417753] SLOW spr round 9 (radius: 10)
[16:36:49 -274269.335097] SLOW spr round 10 (radius: 5)
[16:38:47 -274267.661631] SLOW spr round 11 (radius: 5)
[16:40:34 -274267.661337] SLOW spr round 12 (radius: 10)
[16:42:25 -274267.661316] SLOW spr round 13 (radius: 15)
[16:45:07 -274267.661313] SLOW spr round 14 (radius: 20)
[16:48:49 -274267.661312] SLOW spr round 15 (radius: 25)
[16:53:15 -274267.661312] Model parameter optimization (eps = 0.100000)

[16:53:27] ML tree search #19, logLikelihood: -274267.230684

[16:53:28 -800910.053351] Initial branch length optimization
[16:53:32 -669577.861497] Model parameter optimization (eps = 10.000000)
[16:53:57 -666270.086635] AUTODETECT spr round 1 (radius: 5)
[16:55:33 -510739.730151] AUTODETECT spr round 2 (radius: 10)
[16:57:17 -409835.608011] AUTODETECT spr round 3 (radius: 15)
[16:59:09 -360978.801814] AUTODETECT spr round 4 (radius: 20)
[17:01:18 -326774.257241] AUTODETECT spr round 5 (radius: 25)
[17:03:36 -310579.888360] SPR radius for FAST iterations: 25 (autodetect)
[17:03:36 -310579.888360] Model parameter optimization (eps = 3.000000)
[17:03:57 -310146.425116] FAST spr round 1 (radius: 25)
[17:06:17 -275875.278213] FAST spr round 2 (radius: 25)
[17:08:09 -274506.979620] FAST spr round 3 (radius: 25)
[17:09:49 -274383.161326] FAST spr round 4 (radius: 25)
[17:11:19 -274365.877742] FAST spr round 5 (radius: 25)
[17:12:41 -274362.077506] FAST spr round 6 (radius: 25)
[17:14:01 -274362.075559] Model parameter optimization (eps = 1.000000)
[17:14:14 -274359.819282] SLOW spr round 1 (radius: 5)
[17:16:04 -274298.477830] SLOW spr round 2 (radius: 5)
[17:17:48 -274288.981917] SLOW spr round 3 (radius: 5)
[17:19:29 -274288.100982] SLOW spr round 4 (radius: 5)
[17:21:09 -274287.754999] SLOW spr round 5 (radius: 5)
[17:22:47 -274287.754033] SLOW spr round 6 (radius: 10)
[17:24:32 -274279.146740] SLOW spr round 7 (radius: 5)
[17:26:31 -274272.307548] SLOW spr round 8 (radius: 5)
[17:28:18 -274272.307292] SLOW spr round 9 (radius: 10)
[17:30:07 -274270.756307] SLOW spr round 10 (radius: 5)
[17:32:02 -274270.746137] SLOW spr round 11 (radius: 10)
[17:33:59 -274270.745032] SLOW spr round 12 (radius: 15)
[17:36:35 -274269.703530] SLOW spr round 13 (radius: 5)
[17:38:37 -274269.399972] SLOW spr round 14 (radius: 5)
[17:40:25 -274269.399459] SLOW spr round 15 (radius: 10)
[17:42:17 -274269.399354] SLOW spr round 16 (radius: 15)
[17:44:56 -274269.399333] SLOW spr round 17 (radius: 20)
[17:48:30 -274269.399329] SLOW spr round 18 (radius: 25)
[17:52:39 -274269.399329] Model parameter optimization (eps = 0.100000)

[17:52:44] ML tree search #20, logLikelihood: -274269.303518


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.156204,0.445026) (0.166026,0.474190) (0.337188,0.827694) (0.340582,1.681441) 
   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: -274255.239329

AIC score: 552172.478658 / AICc score: 7260956.478658 / BIC score: 560201.769603
Free parameters (model + branch lengths): 1831

WARNING: Number of free parameters (K=1831) is larger than alignment size (n=593).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 69 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96MI9/3_mltree/Q96MI9.raxml.log

Analysis started: 30-Jun-2021 18:12:13 / finished: 01-Jul-2021 12:04:57

Elapsed time: 64364.287 seconds

Consumed energy: 6012.574 Wh (= 30 km in an electric car, or 150 km with an e-scooter!)