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

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

RAxML-NG was called at 05-Jul-2021 14:57:07 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/2_msa/Q8TEQ8_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8 --seed 2 --threads 8 --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 (8 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/2_msa/Q8TEQ8_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 846 sites

WARNING: Sequences tr_J3K120_J3K120_COCIM_246410 and tr_A0A0J6YPD3_A0A0J6YPD3_COCIT_404692 are exactly identical!
WARNING: Sequences tr_H2QP26_H2QP26_PANTR_9598 and tr_A0A2R9A5W5_A0A2R9A5W5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_K7A107_K7A107_PANTR_9598 and sp_Q8TEQ8_PIGO_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_K7A107_K7A107_PANTR_9598 and tr_A0A2R8ZMP4_A0A2R8ZMP4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_Q2U994_Q2U994_ASPOR_510516 and tr_A0A1S9D9V8_A0A1S9D9V8_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_G7X7Z4_G7X7Z4_ASPKW_1033177 and tr_A0A146FKB9_A0A146FKB9_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_B8BFW4_B8BFW4_ORYSI_39946 and tr_Q33AP3_Q33AP3_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_G2Y825_G2Y825_BOTF4_999810 and tr_M7TIP3_M7TIP3_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_V2X743_V2X743_MONRO_1381753 and tr_A0A0W0FMT9_A0A0W0FMT9_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_W2Q5T9_W2Q5T9_PHYPN_761204 and tr_W2GSE0_W2GSE0_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A1S3UHN5_A0A1S3UHN5_VIGRR_3916 and tr_A0A3Q0FAS1_A0A3Q0FAS1_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A1S3VTI2_A0A1S3VTI2_VIGRR_3916 and tr_A0A3Q0FLX1_A0A3Q0FLX1_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A2D0SRC6_A0A2D0SRC6_ICTPU_7998 and tr_A0A2D0SSG4_A0A2D0SSG4_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 13

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/Q8TEQ8/3_mltree/Q8TEQ8.raxml.reduced.phy

Alignment comprises 1 partitions and 845 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 846 / 845
Gaps: 11.51 %
Invariant sites: 1.77 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8.raxml.rba

Parallelization scheme autoconfig: 2 worker(s) x 4 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 / 212 / 16960
[00:00:00] Data distribution: max. searches per worker: 10

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1593918.657280] Initial branch length optimization
[00:00:07 -1320251.802250] Model parameter optimization (eps = 10.000000)
[00:01:31 -1313580.580318] AUTODETECT spr round 1 (radius: 5)
[00:04:38 -1032980.788415] AUTODETECT spr round 2 (radius: 10)
[00:08:07 -774639.315600] AUTODETECT spr round 3 (radius: 15)
[00:12:06 -674837.410379] AUTODETECT spr round 4 (radius: 20)
[00:16:52 -616182.410281] AUTODETECT spr round 5 (radius: 25)
[00:22:30 -607984.082674] SPR radius for FAST iterations: 25 (autodetect)
[00:22:30 -607984.082674] Model parameter optimization (eps = 3.000000)
[00:23:05 -607364.296731] FAST spr round 1 (radius: 25)
[00:27:43 -532386.899028] FAST spr round 2 (radius: 25)
[00:30:47 -529743.211327] FAST spr round 3 (radius: 25)
[00:33:27 -529521.357437] FAST spr round 4 (radius: 25)
[00:35:42 -529478.064053] FAST spr round 5 (radius: 25)
[00:37:45 -529478.063426] Model parameter optimization (eps = 1.000000)
[00:38:04 -529424.201279] SLOW spr round 1 (radius: 5)
[00:41:10 -529300.326614] SLOW spr round 2 (radius: 5)
[00:44:11 -529272.677045] SLOW spr round 3 (radius: 5)
[00:47:01 -529269.795587] SLOW spr round 4 (radius: 5)
[00:49:50 -529266.651035] SLOW spr round 5 (radius: 5)
[00:52:36 -529266.651023] SLOW spr round 6 (radius: 10)
[00:55:32 -529266.354783] SLOW spr round 7 (radius: 5)
[00:59:08 -529266.352396] SLOW spr round 8 (radius: 10)
[01:02:27 -529266.352252] SLOW spr round 9 (radius: 15)
[01:07:26 -529266.352243] SLOW spr round 10 (radius: 20)
[01:15:17 -529266.352243] SLOW spr round 11 (radius: 25)
[01:25:08 -529266.352243] Model parameter optimization (eps = 0.100000)

[01:25:21] [worker #0] ML tree search #1, logLikelihood: -529266.258997

[01:25:21 -1597023.520603] Initial branch length optimization
[01:25:27 -1327466.600776] Model parameter optimization (eps = 10.000000)
[01:26:50 -1320808.579479] AUTODETECT spr round 1 (radius: 5)
[01:29:51 -1048484.720523] AUTODETECT spr round 2 (radius: 10)
[01:31:01] [worker #1] ML tree search #2, logLikelihood: -529309.460007
[01:33:08 -801354.044933] AUTODETECT spr round 3 (radius: 15)
[01:37:18 -652824.709628] AUTODETECT spr round 4 (radius: 20)
[01:41:52 -619233.597319] AUTODETECT spr round 5 (radius: 25)
[01:47:24 -608591.189718] SPR radius for FAST iterations: 25 (autodetect)
[01:47:24 -608591.189718] Model parameter optimization (eps = 3.000000)
[01:47:56 -607808.325086] FAST spr round 1 (radius: 25)
[01:52:46 -531551.036190] FAST spr round 2 (radius: 25)
[01:56:18 -529556.527611] FAST spr round 3 (radius: 25)
[01:58:58 -529404.106385] FAST spr round 4 (radius: 25)
[02:01:15 -529404.105754] Model parameter optimization (eps = 1.000000)
[02:01:32 -529392.037939] SLOW spr round 1 (radius: 5)
[02:05:06 -529293.015408] SLOW spr round 2 (radius: 5)
[02:08:09 -529279.526038] SLOW spr round 3 (radius: 5)
[02:11:01 -529274.680984] SLOW spr round 4 (radius: 5)
[02:13:48 -529274.680040] SLOW spr round 5 (radius: 10)
[02:16:45 -529272.595295] SLOW spr round 6 (radius: 5)
[02:20:22 -529266.853901] SLOW spr round 7 (radius: 5)
[02:23:33 -529266.852993] SLOW spr round 8 (radius: 10)
[02:26:36 -529266.852695] SLOW spr round 9 (radius: 15)
[02:31:53 -529266.852425] SLOW spr round 10 (radius: 20)
[02:39:47 -529266.852157] SLOW spr round 11 (radius: 25)
[02:42:04] [worker #1] ML tree search #4, logLikelihood: -529270.476363
[02:49:44 -529266.851889] Model parameter optimization (eps = 0.100000)

[02:49:56] [worker #0] ML tree search #3, logLikelihood: -529266.347453

[02:49:56 -1592807.969514] Initial branch length optimization
[02:50:03 -1317986.804232] Model parameter optimization (eps = 10.000000)
[02:51:13 -1311168.901959] AUTODETECT spr round 1 (radius: 5)
[02:54:10 -1032200.933616] AUTODETECT spr round 2 (radius: 10)
[02:57:33 -791793.830273] AUTODETECT spr round 3 (radius: 15)
[03:01:33 -653523.436702] AUTODETECT spr round 4 (radius: 20)
[03:05:26 -606806.503015] AUTODETECT spr round 5 (radius: 25)
[03:10:10 -598343.130382] SPR radius for FAST iterations: 25 (autodetect)
[03:10:10 -598343.130382] Model parameter optimization (eps = 3.000000)
[03:10:43 -597598.796159] FAST spr round 1 (radius: 25)
[03:15:41 -531735.959974] FAST spr round 2 (radius: 25)
[03:18:56 -529617.638024] FAST spr round 3 (radius: 25)
[03:21:32 -529483.976263] FAST spr round 4 (radius: 25)
[03:23:47 -529453.087866] FAST spr round 5 (radius: 25)
[03:25:50 -529453.087590] Model parameter optimization (eps = 1.000000)
[03:26:07 -529434.629385] SLOW spr round 1 (radius: 5)
[03:29:22 -529301.394332] SLOW spr round 2 (radius: 5)
[03:32:43 -529261.310012] SLOW spr round 3 (radius: 5)
[03:35:47 -529261.309671] SLOW spr round 4 (radius: 10)
[03:38:56 -529260.927956] SLOW spr round 5 (radius: 5)
[03:42:48 -529260.925020] SLOW spr round 6 (radius: 10)
[03:46:23 -529260.924583] SLOW spr round 7 (radius: 15)
[03:51:44 -529260.924304] SLOW spr round 8 (radius: 20)
[04:00:02 -529260.924036] SLOW spr round 9 (radius: 25)
[04:00:11] [worker #1] ML tree search #6, logLikelihood: -529273.535280
[04:10:12 -529260.923768] Model parameter optimization (eps = 0.100000)

[04:10:34] [worker #0] ML tree search #5, logLikelihood: -529259.809753

[04:10:34 -1602368.199987] Initial branch length optimization
[04:10:41 -1322810.740478] Model parameter optimization (eps = 10.000000)
[04:12:02 -1316052.933557] AUTODETECT spr round 1 (radius: 5)
[04:15:21 -1020274.562018] AUTODETECT spr round 2 (radius: 10)
[04:19:01 -773778.937857] AUTODETECT spr round 3 (radius: 15)
[04:23:45 -648829.349138] AUTODETECT spr round 4 (radius: 20)
[04:28:18 -601902.788207] AUTODETECT spr round 5 (radius: 25)
[04:33:47 -597082.303829] SPR radius for FAST iterations: 25 (autodetect)
[04:33:47 -597082.303829] Model parameter optimization (eps = 3.000000)
[04:34:18 -596275.871604] FAST spr round 1 (radius: 25)
[04:38:59 -532028.909788] FAST spr round 2 (radius: 25)
[04:42:12 -529638.448051] FAST spr round 3 (radius: 25)
[04:45:09 -529459.732301] FAST spr round 4 (radius: 25)
[04:47:41 -529420.901648] FAST spr round 5 (radius: 25)
[04:50:02 -529410.718928] FAST spr round 6 (radius: 25)
[04:52:15 -529410.718190] Model parameter optimization (eps = 1.000000)
[04:52:39 -529386.018558] SLOW spr round 1 (radius: 5)
[04:56:01 -529267.884085] SLOW spr round 2 (radius: 5)
[04:58:50 -529267.402221] SLOW spr round 3 (radius: 5)
[05:01:35 -529267.401787] SLOW spr round 4 (radius: 10)
[05:04:29 -529267.028749] SLOW spr round 5 (radius: 5)
[05:08:01 -529267.025841] SLOW spr round 6 (radius: 10)
[05:11:36 -529267.025404] SLOW spr round 7 (radius: 15)
[05:16:58 -529267.025132] SLOW spr round 8 (radius: 20)
[05:25:13 -529267.025098] SLOW spr round 9 (radius: 25)
[05:35:30 -529267.025098] Model parameter optimization (eps = 0.100000)
[05:35:33] [worker #1] ML tree search #8, logLikelihood: -529251.245205

[05:35:37] [worker #0] ML tree search #7, logLikelihood: -529266.960962

[05:35:37 -1586329.772838] Initial branch length optimization
[05:35:44 -1317952.107770] Model parameter optimization (eps = 10.000000)
[05:36:47 -1311093.231849] AUTODETECT spr round 1 (radius: 5)
[05:39:47 -1033799.569181] AUTODETECT spr round 2 (radius: 10)
[05:43:09 -772305.556566] AUTODETECT spr round 3 (radius: 15)
[05:47:17 -668693.885604] AUTODETECT spr round 4 (radius: 20)
[05:51:35 -620262.986888] AUTODETECT spr round 5 (radius: 25)
[05:56:44 -607807.521444] SPR radius for FAST iterations: 25 (autodetect)
[05:56:44 -607807.521444] Model parameter optimization (eps = 3.000000)
[05:57:28 -606938.439922] FAST spr round 1 (radius: 25)
[06:01:56 -531699.032912] FAST spr round 2 (radius: 25)
[06:04:58 -529623.548294] FAST spr round 3 (radius: 25)
[06:07:28 -529463.435972] FAST spr round 4 (radius: 25)
[06:09:37 -529444.957514] FAST spr round 5 (radius: 25)
[06:11:39 -529439.128591] FAST spr round 6 (radius: 25)
[06:13:35 -529439.128326] Model parameter optimization (eps = 1.000000)
[06:13:54 -529421.671112] SLOW spr round 1 (radius: 5)
[06:16:54 -529278.557364] SLOW spr round 2 (radius: 5)
[06:19:41 -529264.999622] SLOW spr round 3 (radius: 5)
[06:22:22 -529261.275861] SLOW spr round 4 (radius: 5)
[06:24:59 -529261.275561] SLOW spr round 5 (radius: 10)
[06:27:47 -529260.874198] SLOW spr round 6 (radius: 5)
[06:31:11 -529260.871467] SLOW spr round 7 (radius: 10)
[06:34:19 -529260.871051] SLOW spr round 8 (radius: 15)
[06:39:06 -529260.870777] SLOW spr round 9 (radius: 20)
[06:42:46] [worker #1] ML tree search #10, logLikelihood: -529262.132172
[06:46:52 -529260.870511] SLOW spr round 10 (radius: 25)
[06:56:33 -529260.870246] Model parameter optimization (eps = 0.100000)

[06:56:45] [worker #0] ML tree search #9, logLikelihood: -529260.371222

[06:56:45 -1595843.095586] Initial branch length optimization
[06:56:52 -1325102.321820] Model parameter optimization (eps = 10.000000)
[06:57:57 -1318346.626296] AUTODETECT spr round 1 (radius: 5)
[07:00:48 -1031435.729032] AUTODETECT spr round 2 (radius: 10)
[07:03:56 -760629.664698] AUTODETECT spr round 3 (radius: 15)
[07:07:38 -643330.931394] AUTODETECT spr round 4 (radius: 20)
[07:11:56 -602034.566408] AUTODETECT spr round 5 (radius: 25)
[07:16:42 -597429.713402] SPR radius for FAST iterations: 25 (autodetect)
[07:16:42 -597429.713402] Model parameter optimization (eps = 3.000000)
[07:17:10 -596657.917901] FAST spr round 1 (radius: 25)
[07:21:18 -532319.585904] FAST spr round 2 (radius: 25)
[07:24:12 -529679.137430] FAST spr round 3 (radius: 25)
[07:26:43 -529425.213599] FAST spr round 4 (radius: 25)
[07:28:46 -529421.964501] FAST spr round 5 (radius: 25)
[07:30:44 -529421.963101] Model parameter optimization (eps = 1.000000)
[07:31:05 -529408.638940] SLOW spr round 1 (radius: 5)
[07:34:15 -529292.323457] SLOW spr round 2 (radius: 5)
[07:37:08 -529279.379231] SLOW spr round 3 (radius: 5)
[07:39:52 -529276.567737] SLOW spr round 4 (radius: 5)
[07:42:32 -529276.567481] SLOW spr round 5 (radius: 10)
[07:45:23 -529276.182903] SLOW spr round 6 (radius: 5)
[07:48:51 -529276.179633] SLOW spr round 7 (radius: 10)
[07:52:01 -529276.179417] SLOW spr round 8 (radius: 15)
[07:52:34] [worker #1] ML tree search #12, logLikelihood: -529268.859845
[07:56:43 -529276.179403] SLOW spr round 9 (radius: 20)
[08:03:50 -529276.179403] SLOW spr round 10 (radius: 25)
[08:12:38 -529276.179403] Model parameter optimization (eps = 0.100000)

[08:12:50] [worker #0] ML tree search #11, logLikelihood: -529275.418197

[08:12:50 -1599095.052362] Initial branch length optimization
[08:12:59 -1327760.717240] Model parameter optimization (eps = 10.000000)
[08:14:03 -1321208.514754] AUTODETECT spr round 1 (radius: 5)
[08:17:00 -1039616.630762] AUTODETECT spr round 2 (radius: 10)
[08:20:14 -815716.284626] AUTODETECT spr round 3 (radius: 15)
[08:24:02 -699508.870885] AUTODETECT spr round 4 (radius: 20)
[08:28:07 -617823.921076] AUTODETECT spr round 5 (radius: 25)
[08:33:21 -606480.641313] SPR radius for FAST iterations: 25 (autodetect)
[08:33:21 -606480.641313] Model parameter optimization (eps = 3.000000)
[08:33:31 -606464.538029] FAST spr round 1 (radius: 25)
[08:38:00 -534841.580100] FAST spr round 2 (radius: 25)
[08:40:58 -530886.630364] FAST spr round 3 (radius: 25)
[08:43:34 -530333.196277] FAST spr round 4 (radius: 25)
[08:45:48 -530308.425203] FAST spr round 5 (radius: 25)
[08:47:58 -530284.677973] FAST spr round 6 (radius: 25)
[08:49:58 -530284.677902] Model parameter optimization (eps = 1.000000)
[08:50:22 -529430.719970] SLOW spr round 1 (radius: 5)
[08:53:26 -529282.798572] SLOW spr round 2 (radius: 5)
[08:56:17 -529276.181619] SLOW spr round 3 (radius: 5)
[08:59:14 -529274.724120] SLOW spr round 4 (radius: 5)
[09:02:09 -529274.724103] SLOW spr round 5 (radius: 10)
[09:05:19 -529274.240352] SLOW spr round 6 (radius: 5)
[09:09:15 -529267.674464] SLOW spr round 7 (radius: 5)
[09:12:39 -529267.673928] SLOW spr round 8 (radius: 10)
[09:14:54] [worker #1] ML tree search #14, logLikelihood: -530159.849325
[09:15:46 -529267.673923] SLOW spr round 9 (radius: 15)
[09:20:57 -529267.673922] SLOW spr round 10 (radius: 20)
[09:28:35 -529267.673922] SLOW spr round 11 (radius: 25)
[09:38:21 -529267.673922] Model parameter optimization (eps = 0.100000)

[09:38:39] [worker #0] ML tree search #13, logLikelihood: -529266.302032

[09:38:39 -1597676.269630] Initial branch length optimization
[09:38:45 -1325442.792422] Model parameter optimization (eps = 10.000000)
[09:40:11 -1318711.486375] AUTODETECT spr round 1 (radius: 5)
[09:43:31 -1040506.459357] AUTODETECT spr round 2 (radius: 10)
[09:47:21 -770925.580364] AUTODETECT spr round 3 (radius: 15)
[09:51:44 -674450.545038] AUTODETECT spr round 4 (radius: 20)
[09:57:00 -610901.321409] AUTODETECT spr round 5 (radius: 25)
[10:03:02 -601554.661096] SPR radius for FAST iterations: 25 (autodetect)
[10:03:02 -601554.661096] Model parameter optimization (eps = 3.000000)
[10:03:36 -600797.745579] FAST spr round 1 (radius: 25)
[10:08:42 -531481.552816] FAST spr round 2 (radius: 25)
[10:12:28 -529543.438888] FAST spr round 3 (radius: 25)
[10:15:28 -529434.608362] FAST spr round 4 (radius: 25)
[10:17:58 -529432.724331] FAST spr round 5 (radius: 25)
[10:20:17 -529431.326508] FAST spr round 6 (radius: 25)
[10:22:34 -529431.325836] Model parameter optimization (eps = 1.000000)
[10:22:56 -529411.605803] SLOW spr round 1 (radius: 5)
[10:26:33 -529274.486126] SLOW spr round 2 (radius: 5)
[10:29:56 -529259.581843] SLOW spr round 3 (radius: 5)
[10:33:07 -529252.888484] SLOW spr round 4 (radius: 5)
[10:34:43] [worker #1] ML tree search #16, logLikelihood: -529259.739803
[10:36:10 -529252.887996] SLOW spr round 5 (radius: 10)
[10:39:22 -529252.887682] SLOW spr round 6 (radius: 15)
[10:45:24 -529252.887405] SLOW spr round 7 (radius: 20)
[10:54:19 -529252.887135] SLOW spr round 8 (radius: 25)
[11:06:33 -529252.886868] Model parameter optimization (eps = 0.100000)

[11:06:44] [worker #0] ML tree search #15, logLikelihood: -529252.670321

[11:06:44 -1598663.316628] Initial branch length optimization
[11:06:52 -1326465.131329] Model parameter optimization (eps = 10.000000)
[11:08:34 -1319444.395790] AUTODETECT spr round 1 (radius: 5)
[11:12:02 -1053329.848600] AUTODETECT spr round 2 (radius: 10)
[11:15:54 -773234.329163] AUTODETECT spr round 3 (radius: 15)
[11:20:26 -643025.595045] AUTODETECT spr round 4 (radius: 20)
[11:25:24 -603609.583648] AUTODETECT spr round 5 (radius: 25)
[11:32:19 -597602.873750] SPR radius for FAST iterations: 25 (autodetect)
[11:32:19 -597602.873750] Model parameter optimization (eps = 3.000000)
[11:33:02 -596836.421284] FAST spr round 1 (radius: 25)
[11:38:21 -531358.020581] FAST spr round 2 (radius: 25)
[11:41:59 -529551.870038] FAST spr round 3 (radius: 25)
[11:44:59 -529448.134761] FAST spr round 4 (radius: 25)
[11:47:25 -529432.518742] FAST spr round 5 (radius: 25)
[11:49:39 -529432.518456] Model parameter optimization (eps = 1.000000)
[11:50:05 -529414.927310] SLOW spr round 1 (radius: 5)
[11:53:31 -529281.573791] SLOW spr round 2 (radius: 5)
[11:56:44 -529269.019880] SLOW spr round 3 (radius: 5)
[11:57:02] [worker #1] ML tree search #18, logLikelihood: -529256.228558
[11:59:45 -529268.448199] SLOW spr round 4 (radius: 5)
[12:02:43 -529268.447811] SLOW spr round 5 (radius: 10)
[12:05:51 -529268.447542] SLOW spr round 6 (radius: 15)
[12:11:48 -529268.447277] SLOW spr round 7 (radius: 20)
[12:20:18 -529268.447011] SLOW spr round 8 (radius: 25)
[12:31:22 -529268.446745] Model parameter optimization (eps = 0.100000)

[12:31:34] [worker #0] ML tree search #17, logLikelihood: -529267.526561

[12:31:35 -1606882.417540] Initial branch length optimization
[12:31:42 -1330214.281002] Model parameter optimization (eps = 10.000000)
[12:33:18 -1323428.526630] AUTODETECT spr round 1 (radius: 5)
[12:36:41 -1041211.818998] AUTODETECT spr round 2 (radius: 10)
[12:40:20 -807309.635959] AUTODETECT spr round 3 (radius: 15)
[12:44:56 -657812.702112] AUTODETECT spr round 4 (radius: 20)
[12:49:40 -607641.736940] AUTODETECT spr round 5 (radius: 25)
[12:54:59 -593969.004222] SPR radius for FAST iterations: 25 (autodetect)
[12:54:59 -593969.004222] Model parameter optimization (eps = 3.000000)
[12:55:33 -593194.657507] FAST spr round 1 (radius: 25)
[13:00:39 -531503.013411] FAST spr round 2 (radius: 25)
[13:04:15 -529562.881555] FAST spr round 3 (radius: 25)
[13:07:17 -529476.718952] FAST spr round 4 (radius: 25)
[13:09:49 -529470.610381] FAST spr round 5 (radius: 25)
[13:12:12 -529468.090168] FAST spr round 6 (radius: 25)
[13:14:31 -529468.089814] Model parameter optimization (eps = 1.000000)
[13:14:59 -529455.261674] SLOW spr round 1 (radius: 5)
[13:18:40 -529307.572846] SLOW spr round 2 (radius: 5)
[13:21:14] [worker #1] ML tree search #20, logLikelihood: -529272.192176
[13:22:04 -529292.991941] SLOW spr round 3 (radius: 5)
[13:25:15 -529292.988675] SLOW spr round 4 (radius: 10)
[13:28:40 -529291.790219] SLOW spr round 5 (radius: 5)
[13:32:52 -529291.787282] SLOW spr round 6 (radius: 10)
[13:36:41 -529291.786845] SLOW spr round 7 (radius: 15)
[13:42:04 -529291.786567] SLOW spr round 8 (radius: 20)
[13:50:33 -529291.786299] SLOW spr round 9 (radius: 25)
[14:01:04 -529291.786032] Model parameter optimization (eps = 0.100000)

[14:01:21] [worker #0] ML tree search #19, logLikelihood: -529289.837003


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.166461,0.339030) (0.236287,0.510669) (0.442131,1.146569) (0.155120,2.036916) 
   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: -529251.245205

AIC score: 1062512.490409 / AICc score: 9106572.490409 / BIC score: 1072017.231725
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=846).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TEQ8/3_mltree/Q8TEQ8.raxml.log

Analysis started: 05-Jul-2021 14:57:07 / finished: 06-Jul-2021 04:58:28

Elapsed time: 50481.695 seconds

Consumed energy: 4011.240 Wh (= 20 km in an electric car, or 100 km with an e-scooter!)