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

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

RAxML-NG was called at 17-Jul-2021 13:17:22 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/2_msa/P12882_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882 --seed 2 --threads 7 --tree rand{20} pars{20}

Analysis options:
  run mode: ML tree search
  start tree(s): random (20)
  random seed: 2
  tip-inner: OFF
  pattern compression: ON
  per-rate scalers: OFF
  site repeats: ON
  fast spr radius: AUTO
  spr subtree cutoff: 1.000000
  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
  SIMD kernels: AVX2
  parallelization: coarse-grained (auto), PTHREADS (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/2_msa/P12882_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 1932 sites

WARNING: Sequences tr_A0A0G2L365_A0A0G2L365_DANRE_7955 and tr_A0A2R8Q9M0_A0A2R8Q9M0_DANRE_7955 are exactly identical!
WARNING: Sequences tr_G3QE77_G3QE77_GORGO_9595 and tr_K7D9M1_K7D9M1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A140T8E7_A0A140T8E7_CANLF_9615 and sp_Q076A6_MYH1_CANLF_9615 are exactly identical!
WARNING: Sequences tr_H2QC99_H2QC99_PANTR_9598 and tr_A0A2R9C3D0_A0A2R9C3D0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F6R839_F6R839_HORSE_9796 and sp_Q8MJV0_MYH1_HORSE_9796 are exactly identical!
WARNING: Sequences tr_A0A044TQH0_A0A044TQH0_ONCVO_6282 and tr_A0A182DWJ6_A0A182DWJ6_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A0D9RA52_A0A0D9RA52_CHLSB_60711 and tr_A0A2K5N9J7_A0A2K5N9J7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A0V1CMQ7_A0A0V1CMQ7_TRIBR_45882 and tr_A0A0V0ZZW7_A0A0V0ZZW7_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V1CMQ7_A0A0V1CMQ7_TRIBR_45882 and tr_A0A0V1P7M8_A0A0V1P7M8_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CMQ7_A0A0V1CMQ7_TRIBR_45882 and tr_A0A0V0TVZ1_A0A0V0TVZ1_9BILA_144512 are exactly identical!
WARNING: Duplicate sequences found: 10

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.reduced.phy

Alignment comprises 1 partitions and 1932 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1932 / 1932
Gaps: 3.77 %
Invariant sites: 0.10 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.rba

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

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

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 276 / 22080
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1765842.880526] Initial branch length optimization
[00:00:20 -1449234.246511] Model parameter optimization (eps = 10.000000)
[00:02:03 -1443087.403013] AUTODETECT spr round 1 (radius: 5)
[00:06:15 -1007689.811166] AUTODETECT spr round 2 (radius: 10)
[00:10:36 -733083.966378] AUTODETECT spr round 3 (radius: 15)
[00:15:01 -549064.901715] AUTODETECT spr round 4 (radius: 20)
[00:20:11 -497758.370511] AUTODETECT spr round 5 (radius: 25)
[00:25:42 -496920.002009] SPR radius for FAST iterations: 25 (autodetect)
[00:25:42 -496920.002009] Model parameter optimization (eps = 3.000000)
[00:26:23 -496078.591563] FAST spr round 1 (radius: 25)
[00:30:48 -431003.218472] FAST spr round 2 (radius: 25)
[00:34:06 -426229.897353] FAST spr round 3 (radius: 25)
[00:36:59 -426171.877207] FAST spr round 4 (radius: 25)
[00:39:29 -426164.490515] FAST spr round 5 (radius: 25)
[00:41:50 -426164.490514] Model parameter optimization (eps = 1.000000)
[00:42:13 -426047.786114] SLOW spr round 1 (radius: 5)
[00:45:49 -425982.915516] SLOW spr round 2 (radius: 5)
[00:49:08 -425982.839795] SLOW spr round 3 (radius: 10)
[00:52:33 -425980.598547] SLOW spr round 4 (radius: 5)
[00:56:54 -425958.619123] SLOW spr round 5 (radius: 5)
[01:00:40 -425958.618772] SLOW spr round 6 (radius: 10)
[01:04:14 -425956.779973] SLOW spr round 7 (radius: 5)
[01:08:27 -425955.494713] SLOW spr round 8 (radius: 5)
[01:12:12 -425954.583418] SLOW spr round 9 (radius: 5)
[01:15:39 -425954.583321] SLOW spr round 10 (radius: 10)
[01:19:05 -425954.583317] SLOW spr round 11 (radius: 15)
[01:25:18 -425954.583317] SLOW spr round 12 (radius: 20)
[01:35:12 -425954.583317] SLOW spr round 13 (radius: 25)
[01:50:38 -425949.135190] SLOW spr round 14 (radius: 5)
[01:55:16 -425948.220164] SLOW spr round 15 (radius: 5)
[01:59:16 -425948.220157] SLOW spr round 16 (radius: 10)
[02:03:02 -425948.220157] SLOW spr round 17 (radius: 15)
[02:08:45 -425948.220157] SLOW spr round 18 (radius: 20)
[02:19:00 -425948.220157] SLOW spr round 19 (radius: 25)
[02:34:12 -425948.220157] Model parameter optimization (eps = 0.100000)

[02:34:29] ML tree search #1, logLikelihood: -425947.716321

[02:34:29 -1762017.142366] Initial branch length optimization
[02:34:41 -1447242.459645] Model parameter optimization (eps = 10.000000)
[02:36:04 -1441197.778122] AUTODETECT spr round 1 (radius: 5)
[02:40:19 -988091.831808] AUTODETECT spr round 2 (radius: 10)
[02:44:26 -709804.011682] AUTODETECT spr round 3 (radius: 15)
[02:48:49 -589269.361759] AUTODETECT spr round 4 (radius: 20)
[02:54:21 -505068.207136] AUTODETECT spr round 5 (radius: 25)
[02:59:55 -500721.800038] SPR radius for FAST iterations: 25 (autodetect)
[02:59:55 -500721.800038] Model parameter optimization (eps = 3.000000)
[03:00:27 -499867.282782] FAST spr round 1 (radius: 25)
[03:04:56 -428818.682144] FAST spr round 2 (radius: 25)
[03:08:13 -426311.472642] FAST spr round 3 (radius: 25)
[03:11:09 -426221.911726] FAST spr round 4 (radius: 25)
[03:13:35 -426217.030919] FAST spr round 5 (radius: 25)
[03:15:54 -426217.030908] Model parameter optimization (eps = 1.000000)
[03:16:15 -426076.409365] SLOW spr round 1 (radius: 5)
[03:19:56 -425974.039343] SLOW spr round 2 (radius: 5)
[03:23:19 -425969.355960] SLOW spr round 3 (radius: 5)
[03:26:37 -425964.624956] SLOW spr round 4 (radius: 5)
[03:29:50 -425964.623415] SLOW spr round 5 (radius: 10)
[03:33:11 -425964.623241] SLOW spr round 6 (radius: 15)
[03:39:41 -425964.623223] SLOW spr round 7 (radius: 20)
[03:50:33 -425955.749723] SLOW spr round 8 (radius: 5)
[03:55:04 -425954.524402] SLOW spr round 9 (radius: 5)
[03:58:58 -425954.524342] SLOW spr round 10 (radius: 10)
[04:02:39 -425942.903424] SLOW spr round 11 (radius: 5)
[04:06:51 -425939.754468] SLOW spr round 12 (radius: 5)
[04:10:32 -425939.754468] SLOW spr round 13 (radius: 10)
[04:14:04 -425939.754468] SLOW spr round 14 (radius: 15)
[04:20:08 -425939.754468] SLOW spr round 15 (radius: 20)
[04:31:05 -425939.754468] SLOW spr round 16 (radius: 25)
[04:46:50 -425939.754468] Model parameter optimization (eps = 0.100000)

[04:46:57] ML tree search #2, logLikelihood: -425939.719058

[04:46:57 -1761217.121089] Initial branch length optimization
[04:47:13 -1446162.232993] Model parameter optimization (eps = 10.000000)
[04:48:57 -1440253.693936] AUTODETECT spr round 1 (radius: 5)
[04:53:10 -1030170.947354] AUTODETECT spr round 2 (radius: 10)
[04:57:36 -721342.871934] AUTODETECT spr round 3 (radius: 15)
[05:02:09 -581690.989995] AUTODETECT spr round 4 (radius: 20)
[05:07:42 -516882.453691] AUTODETECT spr round 5 (radius: 25)
[05:14:05 -508377.599165] SPR radius for FAST iterations: 25 (autodetect)
[05:14:05 -508377.599165] Model parameter optimization (eps = 3.000000)
[05:14:36 -507383.256268] FAST spr round 1 (radius: 25)
[05:19:10 -433858.803156] FAST spr round 2 (radius: 25)
[05:22:35 -426418.847969] FAST spr round 3 (radius: 25)
[05:25:33 -426021.251027] FAST spr round 4 (radius: 25)
[05:28:13 -425999.860062] FAST spr round 5 (radius: 25)
[05:30:39 -425993.047797] FAST spr round 6 (radius: 25)
[05:32:58 -425993.047790] Model parameter optimization (eps = 1.000000)
[05:33:20 -425952.368715] SLOW spr round 1 (radius: 5)
[05:36:57 -425906.683363] SLOW spr round 2 (radius: 5)
[05:40:18 -425903.990334] SLOW spr round 3 (radius: 5)
[05:43:33 -425903.989818] SLOW spr round 4 (radius: 10)
[05:46:54 -425903.791031] SLOW spr round 5 (radius: 5)
[05:51:10 -425903.791025] SLOW spr round 6 (radius: 10)
[05:55:12 -425903.791025] SLOW spr round 7 (radius: 15)
[06:00:50 -425903.791025] SLOW spr round 8 (radius: 20)
[06:12:16 -425903.791025] SLOW spr round 9 (radius: 25)
[06:27:15 -425903.791025] Model parameter optimization (eps = 0.100000)

[06:27:25] ML tree search #3, logLikelihood: -425903.754395

[06:27:25 -1754943.303917] Initial branch length optimization
[06:27:41 -1446069.223863] Model parameter optimization (eps = 10.000000)
[06:29:07 -1439831.967243] AUTODETECT spr round 1 (radius: 5)
[06:33:24 -1023907.905782] AUTODETECT spr round 2 (radius: 10)
[06:37:46 -724950.862798] AUTODETECT spr round 3 (radius: 15)
[06:42:13 -602865.533191] AUTODETECT spr round 4 (radius: 20)
[06:48:21 -522699.715298] AUTODETECT spr round 5 (radius: 25)
[06:55:48 -512097.986667] SPR radius for FAST iterations: 25 (autodetect)
[06:55:49 -512097.986667] Model parameter optimization (eps = 3.000000)
[06:56:39 -511153.706666] FAST spr round 1 (radius: 25)
[07:01:23 -431031.303892] FAST spr round 2 (radius: 25)
[07:04:41 -426386.567168] FAST spr round 3 (radius: 25)
[07:07:40 -426251.234641] FAST spr round 4 (radius: 25)
[07:10:11 -426193.431211] FAST spr round 5 (radius: 25)
[07:12:33 -426189.009704] FAST spr round 6 (radius: 25)
[07:14:51 -426184.847327] FAST spr round 7 (radius: 25)
[07:17:08 -426184.847327] Model parameter optimization (eps = 1.000000)
[07:17:29 -425978.914810] SLOW spr round 1 (radius: 5)
[07:21:05 -425895.878878] SLOW spr round 2 (radius: 5)
[07:24:23 -425887.618111] SLOW spr round 3 (radius: 5)
[07:27:36 -425887.617925] SLOW spr round 4 (radius: 10)
[07:30:59 -425886.898045] SLOW spr round 5 (radius: 5)
[07:35:16 -425883.151402] SLOW spr round 6 (radius: 5)
[07:39:01 -425883.151401] SLOW spr round 7 (radius: 10)
[07:42:37 -425883.151401] SLOW spr round 8 (radius: 15)
[07:48:42 -425883.151401] SLOW spr round 9 (radius: 20)
[08:00:12 -425883.151401] SLOW spr round 10 (radius: 25)
[08:17:02 -425883.151401] Model parameter optimization (eps = 0.100000)

[08:17:13] ML tree search #4, logLikelihood: -425883.046572

[08:17:13 -1765484.043001] Initial branch length optimization
[08:17:31 -1450844.947775] Model parameter optimization (eps = 10.000000)
[08:19:03 -1444868.342167] AUTODETECT spr round 1 (radius: 5)
[08:23:30 -997902.712735] AUTODETECT spr round 2 (radius: 10)
[08:27:54 -709458.411326] AUTODETECT spr round 3 (radius: 15)
[08:32:08 -660581.453815] AUTODETECT spr round 4 (radius: 20)
[08:37:25 -602663.962211] AUTODETECT spr round 5 (radius: 25)
[08:44:40 -546002.687432] SPR radius for FAST iterations: 25 (autodetect)
[08:44:40 -546002.687432] Model parameter optimization (eps = 3.000000)
[08:45:15 -544942.624427] FAST spr round 1 (radius: 25)
[08:50:08 -431754.271908] FAST spr round 2 (radius: 25)
[08:53:35 -426636.397034] FAST spr round 3 (radius: 25)
[08:56:35 -426410.645540] FAST spr round 4 (radius: 25)
[08:59:13 -426392.379697] FAST spr round 5 (radius: 25)
[09:01:35 -426389.989337] FAST spr round 6 (radius: 25)
[09:03:54 -426389.989337] Model parameter optimization (eps = 1.000000)
[09:04:18 -426089.250816] SLOW spr round 1 (radius: 5)
[09:07:57 -425981.897402] SLOW spr round 2 (radius: 5)
[09:11:20 -425979.350804] SLOW spr round 3 (radius: 5)
[09:14:34 -425979.350795] SLOW spr round 4 (radius: 10)
[09:17:56 -425979.350795] SLOW spr round 5 (radius: 15)
[09:24:22 -425979.350795] SLOW spr round 6 (radius: 20)
[09:34:54 -425979.350794] SLOW spr round 7 (radius: 25)
[09:50:34 -425973.290781] SLOW spr round 8 (radius: 5)
[09:55:06 -425973.290762] SLOW spr round 9 (radius: 10)
[09:59:36 -425973.290761] SLOW spr round 10 (radius: 15)
[10:05:02 -425973.290761] SLOW spr round 11 (radius: 20)
[10:16:27 -425973.290761] SLOW spr round 12 (radius: 25)
[10:31:50 -425973.290761] Model parameter optimization (eps = 0.100000)

[10:32:05] ML tree search #5, logLikelihood: -425973.166892

[10:32:05 -1753507.351135] Initial branch length optimization
[10:32:18 -1445241.809665] Model parameter optimization (eps = 10.000000)
[10:33:26 -1439384.221343] AUTODETECT spr round 1 (radius: 5)
[10:37:30 -986645.483683] AUTODETECT spr round 2 (radius: 10)
[10:41:34 -704137.719769] AUTODETECT spr round 3 (radius: 15)
[10:45:55 -565458.164312] AUTODETECT spr round 4 (radius: 20)
[10:50:44 -500619.771132] AUTODETECT spr round 5 (radius: 25)
[10:57:13 -488975.576667] SPR radius for FAST iterations: 25 (autodetect)
[10:57:13 -488975.576667] Model parameter optimization (eps = 3.000000)
[10:57:49 -488086.417795] FAST spr round 1 (radius: 25)
[11:02:04 -428297.323443] FAST spr round 2 (radius: 25)
[11:05:20 -426294.080852] FAST spr round 3 (radius: 25)
[11:08:17 -426128.650154] FAST spr round 4 (radius: 25)
[11:10:47 -426107.931382] FAST spr round 5 (radius: 25)
[11:13:05 -426107.931370] Model parameter optimization (eps = 1.000000)
[11:13:30 -425957.633510] SLOW spr round 1 (radius: 5)
[11:17:09 -425909.683381] SLOW spr round 2 (radius: 5)
[11:20:27 -425906.767771] SLOW spr round 3 (radius: 5)
[11:23:39 -425906.767658] SLOW spr round 4 (radius: 10)
[11:27:01 -425901.895483] SLOW spr round 5 (radius: 5)
[11:31:16 -425898.944068] SLOW spr round 6 (radius: 5)
[11:35:00 -425895.108940] SLOW spr round 7 (radius: 5)
[11:38:24 -425895.108924] SLOW spr round 8 (radius: 10)
[11:41:48 -425894.988514] SLOW spr round 9 (radius: 5)
[11:46:01 -425893.420011] SLOW spr round 10 (radius: 5)
[11:49:45 -425889.625765] SLOW spr round 11 (radius: 5)
[11:53:08 -425889.625758] SLOW spr round 12 (radius: 10)
[11:56:32 -425889.625758] SLOW spr round 13 (radius: 15)
[12:02:45 -425889.625757] SLOW spr round 14 (radius: 20)
[12:13:21 -425882.534019] SLOW spr round 15 (radius: 5)
[12:17:49 -425882.533989] SLOW spr round 16 (radius: 10)
[12:22:12 -425882.533987] SLOW spr round 17 (radius: 15)
[12:27:39 -425882.533987] SLOW spr round 18 (radius: 20)
[12:39:04 -425882.533986] SLOW spr round 19 (radius: 25)
[12:54:23 -425882.533986] Model parameter optimization (eps = 0.100000)

[12:54:38] ML tree search #6, logLikelihood: -425881.773034

[12:54:38 -1765760.765531] Initial branch length optimization
[12:54:54 -1450409.188857] Model parameter optimization (eps = 10.000000)
[12:56:55 -1444269.315245] AUTODETECT spr round 1 (radius: 5)
[13:01:21 -1025297.127818] AUTODETECT spr round 2 (radius: 10)
[13:05:47 -722233.657316] AUTODETECT spr round 3 (radius: 15)
[13:10:05 -577099.677972] AUTODETECT spr round 4 (radius: 20)
[13:15:32 -518674.288146] AUTODETECT spr round 5 (radius: 25)
[13:21:46 -511469.776633] SPR radius for FAST iterations: 25 (autodetect)
[13:21:46 -511469.776633] Model parameter optimization (eps = 3.000000)
[13:22:19 -510521.010293] FAST spr round 1 (radius: 25)
[13:27:03 -430480.689004] FAST spr round 2 (radius: 25)
[13:30:32 -426224.087289] FAST spr round 3 (radius: 25)
[13:33:31 -426016.715409] FAST spr round 4 (radius: 25)
[13:36:05 -426008.273057] FAST spr round 5 (radius: 25)
[13:38:27 -426008.273045] Model parameter optimization (eps = 1.000000)
[13:38:45 -425966.539206] SLOW spr round 1 (radius: 5)
[13:42:24 -425919.467461] SLOW spr round 2 (radius: 5)
[13:45:46 -425913.585898] SLOW spr round 3 (radius: 5)
[13:49:08 -425895.000731] SLOW spr round 4 (radius: 5)
[13:52:22 -425894.364882] SLOW spr round 5 (radius: 5)
[13:55:36 -425892.441297] SLOW spr round 6 (radius: 5)
[13:58:50 -425892.441280] SLOW spr round 7 (radius: 10)
[14:02:15 -425889.028818] SLOW spr round 8 (radius: 5)
[14:06:31 -425889.028814] SLOW spr round 9 (radius: 10)
[14:10:34 -425889.028814] SLOW spr round 10 (radius: 15)
[14:16:17 -425889.028814] SLOW spr round 11 (radius: 20)
[14:28:21 -425889.028814] SLOW spr round 12 (radius: 25)
[14:44:38 -425883.140386] SLOW spr round 13 (radius: 5)
[14:49:11 -425883.140211] SLOW spr round 14 (radius: 10)
[14:53:46 -425883.140199] SLOW spr round 15 (radius: 15)
[14:59:18 -425883.140198] SLOW spr round 16 (radius: 20)
[15:11:35 -425883.140198] SLOW spr round 17 (radius: 25)
[15:27:47 -425883.140198] Model parameter optimization (eps = 0.100000)

[15:27:54] ML tree search #7, logLikelihood: -425883.091669

[15:27:54 -1764183.460193] Initial branch length optimization
[15:28:06 -1451881.741514] Model parameter optimization (eps = 10.000000)
[15:29:32 -1445589.423145] AUTODETECT spr round 1 (radius: 5)
[15:33:52 -1040607.123753] AUTODETECT spr round 2 (radius: 10)
[15:38:21 -712894.098481] AUTODETECT spr round 3 (radius: 15)
[15:42:49 -565237.377090] AUTODETECT spr round 4 (radius: 20)
[15:48:11 -536024.486538] AUTODETECT spr round 5 (radius: 25)
[15:54:32 -497378.279136] SPR radius for FAST iterations: 25 (autodetect)
[15:54:32 -497378.279136] Model parameter optimization (eps = 3.000000)
[15:55:06 -496387.016600] FAST spr round 1 (radius: 25)
[15:59:36 -435983.276312] FAST spr round 2 (radius: 25)
[16:02:58 -429591.097796] FAST spr round 3 (radius: 25)
[16:05:59 -426231.477224] FAST spr round 4 (radius: 25)
[16:08:32 -426217.413329] FAST spr round 5 (radius: 25)
[16:10:55 -426217.412556] Model parameter optimization (eps = 1.000000)
[16:11:16 -426036.061555] SLOW spr round 1 (radius: 5)
[16:14:55 -425977.765929] SLOW spr round 2 (radius: 5)
[16:18:20 -425969.680601] SLOW spr round 3 (radius: 5)
[16:21:37 -425969.680579] SLOW spr round 4 (radius: 10)
[16:25:01 -425969.680579] SLOW spr round 5 (radius: 15)
[16:31:41 -425969.680579] SLOW spr round 6 (radius: 20)
[16:42:23 -425969.680579] SLOW spr round 7 (radius: 25)
[16:57:42 -425963.508032] SLOW spr round 8 (radius: 5)
[17:02:16 -425963.508031] SLOW spr round 9 (radius: 10)
[17:06:46 -425963.508031] SLOW spr round 10 (radius: 15)
[17:12:18 -425963.508031] SLOW spr round 11 (radius: 20)
[17:23:54 -425963.508031] SLOW spr round 12 (radius: 25)
[17:38:59 -425963.508031] Model parameter optimization (eps = 0.100000)

[17:39:10] ML tree search #8, logLikelihood: -425963.461244

[17:39:11 -1756403.120931] Initial branch length optimization
[17:39:23 -1450101.339218] Model parameter optimization (eps = 10.000000)
[17:40:42 -1443671.705819] AUTODETECT spr round 1 (radius: 5)
[17:44:53 -1029383.441856] AUTODETECT spr round 2 (radius: 10)
[17:49:20 -729360.433698] AUTODETECT spr round 3 (radius: 15)
[17:53:25 -610280.381746] AUTODETECT spr round 4 (radius: 20)
[17:59:39 -552194.111007] AUTODETECT spr round 5 (radius: 25)
[18:07:25 -513192.260073] SPR radius for FAST iterations: 25 (autodetect)
[18:07:25 -513192.260073] Model parameter optimization (eps = 3.000000)
[18:08:03 -512366.125008] FAST spr round 1 (radius: 25)
[18:12:26 -429151.783651] FAST spr round 2 (radius: 25)
[18:15:53 -426388.083870] FAST spr round 3 (radius: 25)
[18:18:55 -426236.221870] FAST spr round 4 (radius: 25)
[18:21:27 -426235.153304] FAST spr round 5 (radius: 25)
[18:23:53 -426235.153297] Model parameter optimization (eps = 1.000000)
[18:24:17 -426034.839048] SLOW spr round 1 (radius: 5)
[18:27:59 -425969.561540] SLOW spr round 2 (radius: 5)
[18:31:26 -425964.323564] SLOW spr round 3 (radius: 5)
[18:34:47 -425964.323560] SLOW spr round 4 (radius: 10)
[18:38:15 -425958.711196] SLOW spr round 5 (radius: 5)
[18:42:35 -425958.711178] SLOW spr round 6 (radius: 10)
[18:46:41 -425958.711177] SLOW spr round 7 (radius: 15)
[18:52:13 -425958.711177] SLOW spr round 8 (radius: 20)
[19:02:16 -425958.711177] SLOW spr round 9 (radius: 25)
[19:17:12 -425958.711177] Model parameter optimization (eps = 0.100000)

[19:17:24] ML tree search #9, logLikelihood: -425958.613109

[19:17:24 -1753981.483612] Initial branch length optimization
[19:17:36 -1440705.183368] Model parameter optimization (eps = 10.000000)
[19:19:09 -1434799.764777] AUTODETECT spr round 1 (radius: 5)
[19:23:10 -1009633.154088] AUTODETECT spr round 2 (radius: 10)
[19:27:32 -722723.835292] AUTODETECT spr round 3 (radius: 15)
[19:31:55 -600035.432100] AUTODETECT spr round 4 (radius: 20)
[19:37:27 -544805.007894] AUTODETECT spr round 5 (radius: 25)
[19:44:11 -532026.105519] SPR radius for FAST iterations: 25 (autodetect)
[19:44:11 -532026.105519] Model parameter optimization (eps = 3.000000)
[19:44:54 -531110.249243] FAST spr round 1 (radius: 25)
[19:49:27 -431812.085439] FAST spr round 2 (radius: 25)
[19:52:51 -426624.833130] FAST spr round 3 (radius: 25)
[19:55:52 -426335.102240] FAST spr round 4 (radius: 25)
[19:58:32 -426315.261149] FAST spr round 5 (radius: 25)
[20:00:56 -426310.250430] FAST spr round 6 (radius: 25)
[20:03:15 -426310.250406] Model parameter optimization (eps = 1.000000)
[20:03:36 -426070.337279] SLOW spr round 1 (radius: 5)
[20:07:16 -426018.976519] SLOW spr round 2 (radius: 5)
[20:10:34 -426007.965997] SLOW spr round 3 (radius: 5)
[20:13:48 -426004.776443] SLOW spr round 4 (radius: 5)
[20:17:00 -426004.776442] SLOW spr round 5 (radius: 10)
[20:20:22 -426004.776442] SLOW spr round 6 (radius: 15)
[20:26:59 -426004.776442] SLOW spr round 7 (radius: 20)
[20:37:50 -426004.776442] SLOW spr round 8 (radius: 25)
[20:53:27 -425997.484481] SLOW spr round 9 (radius: 5)
[20:58:00 -425996.599036] SLOW spr round 10 (radius: 5)
[21:01:57 -425996.599036] SLOW spr round 11 (radius: 10)
[21:05:42 -425996.599035] SLOW spr round 12 (radius: 15)
[21:11:36 -425996.599035] SLOW spr round 13 (radius: 20)
[21:22:54 -425996.599035] SLOW spr round 14 (radius: 25)
[21:38:17 -425996.599035] Model parameter optimization (eps = 0.100000)

[21:38:29] ML tree search #10, logLikelihood: -425996.418257

[21:38:29 -1768097.955513] Initial branch length optimization
[21:38:43 -1451514.576190] Model parameter optimization (eps = 10.000000)
[21:40:04 -1445052.366073] AUTODETECT spr round 1 (radius: 5)
[21:44:38 -1013315.994039] AUTODETECT spr round 2 (radius: 10)
[21:48:56 -705514.266657] AUTODETECT spr round 3 (radius: 15)
[21:53:02 -582661.884655] AUTODETECT spr round 4 (radius: 20)
[21:58:09 -533314.909033] AUTODETECT spr round 5 (radius: 25)
[22:05:13 -507251.367635] SPR radius for FAST iterations: 25 (autodetect)
[22:05:13 -507251.367635] Model parameter optimization (eps = 3.000000)
[22:06:04 -506311.952801] FAST spr round 1 (radius: 25)
[22:10:51 -429060.301707] FAST spr round 2 (radius: 25)
[22:14:13 -426456.791131] FAST spr round 3 (radius: 25)
[22:17:12 -426209.807992] FAST spr round 4 (radius: 25)
[22:19:50 -426189.201297] FAST spr round 5 (radius: 25)
[22:22:14 -426189.201292] Model parameter optimization (eps = 1.000000)
[22:22:36 -425997.141385] SLOW spr round 1 (radius: 5)
[22:26:13 -425917.710350] SLOW spr round 2 (radius: 5)
[22:29:43 -425907.404136] SLOW spr round 3 (radius: 5)
[22:33:03 -425902.845932] SLOW spr round 4 (radius: 5)
[22:36:17 -425902.845429] SLOW spr round 5 (radius: 10)
[22:39:38 -425902.845429] SLOW spr round 6 (radius: 15)
[22:45:57 -425902.845429] SLOW spr round 7 (radius: 20)
[22:55:40 -425902.845429] SLOW spr round 8 (radius: 25)
[23:11:21 -425902.845429] Model parameter optimization (eps = 0.100000)

[23:11:36] ML tree search #11, logLikelihood: -425902.173314

[23:11:37 -1759949.937900] Initial branch length optimization
[23:11:49 -1445323.134208] Model parameter optimization (eps = 10.000000)
[23:13:02 -1439700.774117] AUTODETECT spr round 1 (radius: 5)
[23:17:21 -1047995.972719] AUTODETECT spr round 2 (radius: 10)
[23:21:51 -721092.187985] AUTODETECT spr round 3 (radius: 15)
[23:26:33 -589239.367794] AUTODETECT spr round 4 (radius: 20)
[23:31:40 -521199.586418] AUTODETECT spr round 5 (radius: 25)
[23:37:38 -509148.251765] SPR radius for FAST iterations: 25 (autodetect)
[23:37:38 -509148.251765] Model parameter optimization (eps = 3.000000)
[23:38:18 -508144.527063] FAST spr round 1 (radius: 25)
[23:42:21 -430523.909963] FAST spr round 2 (radius: 25)
[23:45:36 -426386.323281] FAST spr round 3 (radius: 25)
[23:48:31 -426104.769460] FAST spr round 4 (radius: 25)
[23:51:01 -426098.490593] FAST spr round 5 (radius: 25)
[23:53:24 -426098.489379] Model parameter optimization (eps = 1.000000)
[23:53:50 -426022.445840] SLOW spr round 1 (radius: 5)
[23:57:29 -425944.055374] SLOW spr round 2 (radius: 5)
[24:00:50 -425942.412595] SLOW spr round 3 (radius: 5)
[24:04:07 -425942.412567] SLOW spr round 4 (radius: 10)
[24:07:31 -425935.730440] SLOW spr round 5 (radius: 5)
[24:11:49 -425935.730436] SLOW spr round 6 (radius: 10)
[24:15:51 -425935.730436] SLOW spr round 7 (radius: 15)
[24:21:21 -425935.730436] SLOW spr round 8 (radius: 20)
[24:31:12 -425935.730436] SLOW spr round 9 (radius: 25)
[24:45:32 -425935.730435] Model parameter optimization (eps = 0.100000)

[24:45:43] ML tree search #12, logLikelihood: -425935.656484

[24:45:43 -1754552.946399] Initial branch length optimization
[24:45:58 -1443229.956259] Model parameter optimization (eps = 10.000000)
[24:47:13 -1437437.948447] AUTODETECT spr round 1 (radius: 5)
[24:51:29 -1031999.233078] AUTODETECT spr round 2 (radius: 10)
[24:55:58 -732016.066036] AUTODETECT spr round 3 (radius: 15)
[25:00:30 -540326.529858] AUTODETECT spr round 4 (radius: 20)
[25:06:04 -513160.689036] AUTODETECT spr round 5 (radius: 25)
[25:12:28 -508965.336512] SPR radius for FAST iterations: 25 (autodetect)
[25:12:28 -508965.336512] Model parameter optimization (eps = 3.000000)
[25:13:14 -508052.765590] FAST spr round 1 (radius: 25)
[25:17:33 -431669.770983] FAST spr round 2 (radius: 25)
[25:20:49 -426449.070734] FAST spr round 3 (radius: 25)
[25:23:42 -426251.259338] FAST spr round 4 (radius: 25)
[25:26:11 -426229.023127] FAST spr round 5 (radius: 25)
[25:28:37 -426221.592637] FAST spr round 6 (radius: 25)
[25:30:59 -426218.229076] FAST spr round 7 (radius: 25)
[25:33:20 -426218.229076] Model parameter optimization (eps = 1.000000)
[25:33:41 -425983.323769] SLOW spr round 1 (radius: 5)
[25:37:14 -425929.278283] SLOW spr round 2 (radius: 5)
[25:40:34 -425927.888877] SLOW spr round 3 (radius: 5)
[25:43:51 -425925.563292] SLOW spr round 4 (radius: 5)
[25:47:05 -425925.563285] SLOW spr round 5 (radius: 10)
[25:50:30 -425925.563284] SLOW spr round 6 (radius: 15)
[25:56:53 -425925.563284] SLOW spr round 7 (radius: 20)
[26:07:04 -425925.563284] SLOW spr round 8 (radius: 25)
[26:22:38 -425925.563284] Model parameter optimization (eps = 0.100000)

[26:22:46] ML tree search #13, logLikelihood: -425925.526201

[26:22:47 -1762290.886070] Initial branch length optimization
[26:23:00 -1448795.443184] Model parameter optimization (eps = 10.000000)
[26:24:50 -1442602.848757] AUTODETECT spr round 1 (radius: 5)
[26:29:05 -1053148.271431] AUTODETECT spr round 2 (radius: 10)
[26:33:32 -742542.287063] AUTODETECT spr round 3 (radius: 15)
[26:38:03 -617400.274829] AUTODETECT spr round 4 (radius: 20)
[26:44:02 -529605.719020] AUTODETECT spr round 5 (radius: 25)
[26:50:26 -511206.381420] SPR radius for FAST iterations: 25 (autodetect)
[26:50:26 -511206.381420] Model parameter optimization (eps = 3.000000)
[26:51:09 -510334.002215] FAST spr round 1 (radius: 25)
[26:55:48 -431158.287438] FAST spr round 2 (radius: 25)
[26:59:12 -426414.045073] FAST spr round 3 (radius: 25)
[27:02:11 -426186.767734] FAST spr round 4 (radius: 25)
[27:04:39 -426171.527801] FAST spr round 5 (radius: 25)
[27:07:00 -426171.527794] Model parameter optimization (eps = 1.000000)
[27:07:20 -425982.430828] SLOW spr round 1 (radius: 5)
[27:10:56 -425896.572286] SLOW spr round 2 (radius: 5)
[27:14:15 -425893.282954] SLOW spr round 3 (radius: 5)
[27:17:31 -425892.709112] SLOW spr round 4 (radius: 5)
[27:20:44 -425892.709106] SLOW spr round 5 (radius: 10)
[27:24:07 -425887.872247] SLOW spr round 6 (radius: 5)
[27:28:26 -425885.444982] SLOW spr round 7 (radius: 5)
[27:32:10 -425885.444948] SLOW spr round 8 (radius: 10)
[27:35:45 -425885.444948] SLOW spr round 9 (radius: 15)
[27:41:54 -425885.444948] SLOW spr round 10 (radius: 20)
[27:53:19 -425885.444948] SLOW spr round 11 (radius: 25)
[28:09:17 -425885.444948] Model parameter optimization (eps = 0.100000)

[28:09:30] ML tree search #14, logLikelihood: -425885.260990

[28:09:30 -1762741.918639] Initial branch length optimization
[28:09:43 -1448179.753924] Model parameter optimization (eps = 10.000000)
[28:11:41 -1441926.646449] AUTODETECT spr round 1 (radius: 5)
[28:16:06 -1009081.199771] AUTODETECT spr round 2 (radius: 10)
[28:20:30 -740117.521391] AUTODETECT spr round 3 (radius: 15)
[28:25:13 -552655.674388] AUTODETECT spr round 4 (radius: 20)
[28:30:39 -497140.097996] AUTODETECT spr round 5 (radius: 25)
[28:36:26 -496279.973887] SPR radius for FAST iterations: 25 (autodetect)
[28:36:26 -496279.973887] Model parameter optimization (eps = 3.000000)
[28:37:04 -495318.746098] FAST spr round 1 (radius: 25)
[28:41:24 -428984.584824] FAST spr round 2 (radius: 25)
[28:44:41 -426385.363137] FAST spr round 3 (radius: 25)
[28:47:37 -426203.632210] FAST spr round 4 (radius: 25)
[28:50:06 -426196.719443] FAST spr round 5 (radius: 25)
[28:52:27 -426196.719431] Model parameter optimization (eps = 1.000000)
[28:52:47 -426030.766373] SLOW spr round 1 (radius: 5)
[28:56:26 -425941.506886] SLOW spr round 2 (radius: 5)
[28:59:49 -425923.748652] SLOW spr round 3 (radius: 5)
[29:03:09 -425910.295962] SLOW spr round 4 (radius: 5)
[29:06:22 -425910.295928] SLOW spr round 5 (radius: 10)
[29:09:43 -425906.257664] SLOW spr round 6 (radius: 5)
[29:14:00 -425905.354684] SLOW spr round 7 (radius: 5)
[29:17:44 -425905.354674] SLOW spr round 8 (radius: 10)
[29:21:17 -425904.754933] SLOW spr round 9 (radius: 5)
[29:25:27 -425904.754927] SLOW spr round 10 (radius: 10)
[29:29:26 -425904.754927] SLOW spr round 11 (radius: 15)
[29:35:11 -425904.754927] SLOW spr round 12 (radius: 20)
[29:47:14 -425904.754927] SLOW spr round 13 (radius: 25)
[30:03:09 -425904.754927] Model parameter optimization (eps = 0.100000)

[30:03:27] ML tree search #15, logLikelihood: -425903.888221

[30:03:28 -1758372.665453] Initial branch length optimization
[30:03:39 -1445292.400336] Model parameter optimization (eps = 10.000000)
[30:04:49 -1439303.808638] AUTODETECT spr round 1 (radius: 5)
[30:09:01 -1022112.514377] AUTODETECT spr round 2 (radius: 10)
[30:13:29 -705368.667400] AUTODETECT spr round 3 (radius: 15)
[30:17:48 -557190.934414] AUTODETECT spr round 4 (radius: 20)
[30:23:05 -500938.696887] AUTODETECT spr round 5 (radius: 25)
[30:29:24 -499510.530645] SPR radius for FAST iterations: 25 (autodetect)
[30:29:24 -499510.530645] Model parameter optimization (eps = 3.000000)
[30:29:55 -498563.284683] FAST spr round 1 (radius: 25)
[30:34:10 -429378.305044] FAST spr round 2 (radius: 25)
[30:37:30 -426693.819411] FAST spr round 3 (radius: 25)
[30:40:23 -426160.320292] FAST spr round 4 (radius: 25)
[30:42:52 -426145.539215] FAST spr round 5 (radius: 25)
[30:45:14 -426140.649288] FAST spr round 6 (radius: 25)
[30:47:37 -426129.614736] FAST spr round 7 (radius: 25)
[30:49:56 -426129.614721] Model parameter optimization (eps = 1.000000)
[30:50:19 -426025.428755] SLOW spr round 1 (radius: 5)
[30:53:49 -425969.687057] SLOW spr round 2 (radius: 5)
[30:57:08 -425964.101132] SLOW spr round 3 (radius: 5)
[31:00:27 -425959.707120] SLOW spr round 4 (radius: 5)
[31:03:41 -425959.706930] SLOW spr round 5 (radius: 10)
[31:07:07 -425938.122386] SLOW spr round 6 (radius: 5)
[31:11:24 -425938.121676] SLOW spr round 7 (radius: 10)
[31:15:27 -425938.121664] SLOW spr round 8 (radius: 15)
[31:20:58 -425938.121663] SLOW spr round 9 (radius: 20)
[31:31:33 -425938.121662] SLOW spr round 10 (radius: 25)
[31:46:31 -425938.121662] Model parameter optimization (eps = 0.100000)

[31:46:50] ML tree search #16, logLikelihood: -425937.528394

[31:46:50 -1769121.414480] Initial branch length optimization
[31:47:05 -1452111.635497] Model parameter optimization (eps = 10.000000)
[31:48:38 -1446068.476349] AUTODETECT spr round 1 (radius: 5)
[31:53:01 -1035582.214642] AUTODETECT spr round 2 (radius: 10)
[31:57:23 -731853.966958] AUTODETECT spr round 3 (radius: 15)
[32:01:45 -580788.394190] AUTODETECT spr round 4 (radius: 20)
[32:07:53 -506640.300363] AUTODETECT spr round 5 (radius: 25)
[32:15:18 -503430.171457] SPR radius for FAST iterations: 25 (autodetect)
[32:15:18 -503430.171457] Model parameter optimization (eps = 3.000000)
[32:15:57 -502470.078722] FAST spr round 1 (radius: 25)
[32:20:38 -433226.979610] FAST spr round 2 (radius: 25)
[32:24:17 -426402.169625] FAST spr round 3 (radius: 25)
[32:27:15 -426209.515405] FAST spr round 4 (radius: 25)
[32:29:45 -426206.098514] FAST spr round 5 (radius: 25)
[32:32:08 -426206.098499] Model parameter optimization (eps = 1.000000)
[32:32:26 -426074.145658] SLOW spr round 1 (radius: 5)
[32:36:05 -425970.302768] SLOW spr round 2 (radius: 5)
[32:39:27 -425964.898018] SLOW spr round 3 (radius: 5)
[32:42:43 -425964.897992] SLOW spr round 4 (radius: 10)
[32:46:06 -425964.897992] SLOW spr round 5 (radius: 15)
[32:52:18 -425964.897992] SLOW spr round 6 (radius: 20)
[33:02:26 -425964.897992] SLOW spr round 7 (radius: 25)
[33:18:22 -425964.897992] Model parameter optimization (eps = 0.100000)

[33:18:31] ML tree search #17, logLikelihood: -425964.826951

[33:18:31 -1770076.886555] Initial branch length optimization
[33:18:43 -1450997.996407] Model parameter optimization (eps = 10.000000)
[33:19:53 -1445139.703440] AUTODETECT spr round 1 (radius: 5)
[33:24:06 -1031337.257154] AUTODETECT spr round 2 (radius: 10)
[33:28:31 -671084.643644] AUTODETECT spr round 3 (radius: 15)
[33:32:32 -559868.431337] AUTODETECT spr round 4 (radius: 20)
[33:37:28 -518727.629437] AUTODETECT spr round 5 (radius: 25)
[33:44:46 -513159.322556] SPR radius for FAST iterations: 25 (autodetect)
[33:44:46 -513159.322556] Model parameter optimization (eps = 3.000000)
[33:45:32 -512210.051602] FAST spr round 1 (radius: 25)
[33:50:15 -431045.674276] FAST spr round 2 (radius: 25)
[33:53:47 -426737.255497] FAST spr round 3 (radius: 25)
[33:56:47 -426387.339776] FAST spr round 4 (radius: 25)
[33:59:17 -426381.448460] FAST spr round 5 (radius: 25)
[34:01:42 -426381.447414] Model parameter optimization (eps = 1.000000)
[34:02:07 -426122.941018] SLOW spr round 1 (radius: 5)
[34:05:51 -426018.258703] SLOW spr round 2 (radius: 5)
[34:09:18 -426004.384856] SLOW spr round 3 (radius: 5)
[34:12:38 -426001.165894] SLOW spr round 4 (radius: 5)
[34:15:56 -426001.165886] SLOW spr round 5 (radius: 10)
[34:19:21 -426001.165886] SLOW spr round 6 (radius: 15)
[34:25:30 -426001.165886] SLOW spr round 7 (radius: 20)
[34:34:55 -426001.165886] SLOW spr round 8 (radius: 25)
[34:50:13 -426001.165886] Model parameter optimization (eps = 0.100000)

[34:50:29] ML tree search #18, logLikelihood: -426000.977445

[34:50:29 -1757558.898534] Initial branch length optimization
[34:50:44 -1445342.358136] Model parameter optimization (eps = 10.000000)
[34:52:06 -1439535.412115] AUTODETECT spr round 1 (radius: 5)
[34:56:15 -1005213.750911] AUTODETECT spr round 2 (radius: 10)
[35:00:25 -744951.244928] AUTODETECT spr round 3 (radius: 15)
[35:04:50 -614323.037584] AUTODETECT spr round 4 (radius: 20)
[35:10:10 -533796.978943] AUTODETECT spr round 5 (radius: 25)
[35:16:19 -515399.134307] SPR radius for FAST iterations: 25 (autodetect)
[35:16:19 -515399.134307] Model parameter optimization (eps = 3.000000)
[35:16:53 -514463.357502] FAST spr round 1 (radius: 25)
[35:21:22 -435037.145907] FAST spr round 2 (radius: 25)
[35:24:37 -426689.627801] FAST spr round 3 (radius: 25)
[35:27:39 -426242.237663] FAST spr round 4 (radius: 25)
[35:30:07 -426241.212366] FAST spr round 5 (radius: 25)
[35:32:33 -426239.298172] FAST spr round 6 (radius: 25)
[35:34:53 -426239.298161] Model parameter optimization (eps = 1.000000)
[35:35:14 -426042.208771] SLOW spr round 1 (radius: 5)
[35:38:54 -425986.277193] SLOW spr round 2 (radius: 5)
[35:42:12 -425983.797759] SLOW spr round 3 (radius: 5)
[35:45:27 -425983.797759] SLOW spr round 4 (radius: 10)
[35:48:49 -425983.797759] SLOW spr round 5 (radius: 15)
[35:55:10 -425983.797759] SLOW spr round 6 (radius: 20)
[36:05:39 -425983.797759] SLOW spr round 7 (radius: 25)
[36:21:30 -425983.797759] Model parameter optimization (eps = 0.100000)

[36:21:39] ML tree search #19, logLikelihood: -425983.753275

[36:21:39 -1758303.165532] Initial branch length optimization
[36:21:59 -1445858.173628] Model parameter optimization (eps = 10.000000)
[36:23:13 -1440001.637232] AUTODETECT spr round 1 (radius: 5)
[36:27:16 -1005597.915559] AUTODETECT spr round 2 (radius: 10)
[36:31:36 -705485.187584] AUTODETECT spr round 3 (radius: 15)
[36:36:21 -542908.554671] AUTODETECT spr round 4 (radius: 20)
[36:41:51 -500224.061948] AUTODETECT spr round 5 (radius: 25)
[36:48:21 -487717.994441] SPR radius for FAST iterations: 25 (autodetect)
[36:48:21 -487717.994441] Model parameter optimization (eps = 3.000000)
[36:48:52 -486729.953975] FAST spr round 1 (radius: 25)
[36:53:05 -429050.900545] FAST spr round 2 (radius: 25)
[36:56:22 -426247.540213] FAST spr round 3 (radius: 25)
[36:59:09 -426012.145847] FAST spr round 4 (radius: 25)
[37:01:40 -425993.937939] FAST spr round 5 (radius: 25)
[37:04:00 -425993.937930] Model parameter optimization (eps = 1.000000)
[37:04:21 -425960.237566] SLOW spr round 1 (radius: 5)
[37:08:02 -425896.327879] SLOW spr round 2 (radius: 5)
[37:11:23 -425892.306074] SLOW spr round 3 (radius: 5)
[37:14:37 -425892.306074] SLOW spr round 4 (radius: 10)
[37:17:59 -425892.306074] SLOW spr round 5 (radius: 15)
[37:24:16 -425892.306074] SLOW spr round 6 (radius: 20)
[37:34:25 -425892.306074] SLOW spr round 7 (radius: 25)
[37:50:07 -425892.306074] Model parameter optimization (eps = 0.100000)

[37:50:15] ML tree search #20, logLikelihood: -425892.228821


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.242999,0.548557) (0.296023,1.243518) (0.383323,0.791129) (0.077655,2.515395) 
   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: -425881.773034

AIC score: 855773.546068 / AICc score: 8899833.546068 / BIC score: 866933.999653
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1932).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P12882/3_mltree/P12882.raxml.log

Analysis started: 17-Jul-2021 13:17:22 / finished: 19-Jul-2021 03:07:38

Elapsed time: 136215.857 seconds