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 13-Jul-2021 23:56:33 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/2_msa/O95714_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/3_mltree/O95714 --seed 2 --threads 9 --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 (9 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/2_msa/O95714_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1000 taxa and 1054 sites

WARNING: Sequences sp_Q4U2R1_HERC2_MOUSE_10090 and tr_A0A0G2JUC9_A0A0G2JUC9_RAT_10116 are exactly identical!
WARNING: Sequences tr_M3YPD3_M3YPD3_MUSPF_9669 and tr_A0A2Y9ITS7_A0A2Y9ITS7_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G3QGP7_G3QGP7_GORGO_9595 and sp_Q5T447_HECD3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_W5QHY1_W5QHY1_SHEEP_9940 and tr_F1MNS0_F1MNS0_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A158NCL1_A0A158NCL1_ATTCE_12957 and tr_A0A195BYI1_A0A195BYI1_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A0E0G846_A0A0E0G846_ORYNI_4536 and tr_A0A0E0NGC0_A0A0E0NGC0_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0G846_A0A0E0G846_ORYNI_4536 and tr_A0A0D9YTK1_A0A0D9YTK1_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0G846_A0A0E0G846_ORYNI_4536 and tr_Q69SU2_Q69SU2_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F7HR90_F7HR90_MACMU_9544 and tr_A0A2K5NLE0_A0A2K5NLE0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7HR90_F7HR90_MACMU_9544 and tr_A0A2K6CZD8_A0A2K6CZD8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7HR90_F7HR90_MACMU_9544 and tr_A0A2K5YD99_A0A2K5YD99_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H9EUE9_H9EUE9_MACMU_9544 and tr_A0A096NMA9_A0A096NMA9_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_H9EUE9_H9EUE9_MACMU_9544 and tr_A0A0D9RIZ5_A0A0D9RIZ5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_H9EUE9_H9EUE9_MACMU_9544 and tr_A0A2K6DT69_A0A2K6DT69_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A2XTP3_A2XTP3_ORYSI_39946 and tr_A0A0E0P9F4_A0A0E0P9F4_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A2XTP3_A2XTP3_ORYSI_39946 and tr_Q7XRB6_Q7XRB6_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_I1PLG0_I1PLG0_ORYGL_4538 and tr_A0A0D3FW31_A0A0D3FW31_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_H1A2D7_H1A2D7_TAEGU_59729 and tr_A0A093QJL8_A0A093QJL8_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A0E0PG21_A0A0E0PG21_ORYRU_4529 and tr_A0A0D9ZSQ2_A0A0D9ZSQ2_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0PG21_A0A0E0PG21_ORYRU_4529 and tr_Q7XTM0_Q7XTM0_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0PLU8_A0A0E0PLU8_ORYRU_4529 and tr_A0A0D9ZYJ6_A0A0D9ZYJ6_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0PLU8_A0A0E0PLU8_ORYRU_4529 and tr_Q0DIJ3_Q0DIJ3_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_B3RY36_B3RY36_TRIAD_10228 and tr_A0A369SJW4_A0A369SJW4_9METZ_287889 are exactly identical!
WARNING: Sequences tr_B3RZN4_B3RZN4_TRIAD_10228 and tr_A0A369SB32_A0A369SB32_9METZ_287889 are exactly identical!
WARNING: Sequences tr_W2PEF4_W2PEF4_PHYPN_761204 and tr_A0A0W8D1A5_A0A0W8D1A5_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_W2QDQ6_W2QDQ6_PHYPN_761204 and tr_W2JCZ3_W2JCZ3_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A078FNS1_A0A078FNS1_BRANA_3708 and tr_A0A0D3EE22_A0A0D3EE22_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A0W8CBR4_A0A0W8CBR4_PHYNI_4790 and tr_W2L712_W2L712_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A091JWT9_A0A091JWT9_EGRGA_188379 and tr_A0A0A0AGI3_A0A0A0AGI3_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091VRX9_A0A091VRX9_OPIHO_30419 and tr_A0A0A0A8M2_A0A0A0A8M2_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A2I0MLM1_A0A2I0MLM1_COLLI_8932 and tr_A0A1V4JBE1_A0A1V4JBE1_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A1S3YIX1_A0A1S3YIX1_TOBAC_4097 and tr_A0A1U7VWV0_A0A1U7VWV0_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3UF40_A0A1S3UF40_VIGRR_3916 and tr_A0A3Q0F0W0_A0A3Q0F0W0_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A2U3V8Y4_A0A2U3V8Y4_TURTR_9739 and tr_A0A2Y9NAL1_A0A2Y9NAL1_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U3V8Y4_A0A2U3V8Y4_TURTR_9739 and tr_A0A383YPA7_A0A383YPA7_BALAS_310752 are exactly identical!
WARNING: Sequences tr_A0A2Y9L652_A0A2Y9L652_ENHLU_391180 and tr_A0A384DC01_A0A384DC01_URSMA_29073 are exactly identical!
WARNING: Duplicate sequences found: 36

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/O95714/3_mltree/O95714.raxml.reduced.phy

Alignment comprises 1 partitions and 1054 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1054 / 1054
Gaps: 33.96 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/3_mltree/O95714.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 9 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 1000 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 118 / 9440
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1466127.607180] Initial branch length optimization
[00:00:08 -1206694.027656] Model parameter optimization (eps = 10.000000)
[00:01:09 -1197508.117939] AUTODETECT spr round 1 (radius: 5)
[00:03:24 -797660.418295] AUTODETECT spr round 2 (radius: 10)
[00:05:37 -590914.053589] AUTODETECT spr round 3 (radius: 15)
[00:08:02 -490518.731651] AUTODETECT spr round 4 (radius: 20)
[00:10:41 -433495.561023] AUTODETECT spr round 5 (radius: 25)
[00:13:33 -423794.527455] SPR radius for FAST iterations: 25 (autodetect)
[00:13:33 -423794.527455] Model parameter optimization (eps = 3.000000)
[00:13:58 -422455.837811] FAST spr round 1 (radius: 25)
[00:17:12 -355211.748036] FAST spr round 2 (radius: 25)
[00:19:39 -351928.193746] FAST spr round 3 (radius: 25)
[00:21:35 -351710.044336] FAST spr round 4 (radius: 25)
[00:23:22 -351690.417746] FAST spr round 5 (radius: 25)
[00:25:01 -351689.226234] FAST spr round 6 (radius: 25)
[00:26:38 -351689.225328] Model parameter optimization (eps = 1.000000)
[00:26:51 -351687.285956] SLOW spr round 1 (radius: 5)
[00:28:56 -351615.655790] SLOW spr round 2 (radius: 5)
[00:31:01 -351608.526729] SLOW spr round 3 (radius: 5)
[00:33:05 -351607.996848] SLOW spr round 4 (radius: 5)
[00:35:06 -351607.995743] SLOW spr round 5 (radius: 10)
[00:37:18 -351606.197746] SLOW spr round 6 (radius: 5)
[00:39:45 -351606.196912] SLOW spr round 7 (radius: 10)
[00:42:14 -351606.196525] SLOW spr round 8 (radius: 15)
[00:45:43 -351606.196278] SLOW spr round 9 (radius: 20)
[00:51:00 -351606.196089] SLOW spr round 10 (radius: 25)
[00:57:28 -351606.195936] Model parameter optimization (eps = 0.100000)

[00:57:38] ML tree search #1, logLikelihood: -351606.062694

[00:57:38 -1465442.410405] Initial branch length optimization
[00:57:47 -1201206.977433] Model parameter optimization (eps = 10.000000)
[00:59:00 -1192098.613383] AUTODETECT spr round 1 (radius: 5)
[01:01:09 -805888.464461] AUTODETECT spr round 2 (radius: 10)
[01:03:27 -576189.543595] AUTODETECT spr round 3 (radius: 15)
[01:05:47 -481691.877413] AUTODETECT spr round 4 (radius: 20)
[01:08:21 -438705.643838] AUTODETECT spr round 5 (radius: 25)
[01:11:21 -422521.269094] SPR radius for FAST iterations: 25 (autodetect)
[01:11:21 -422521.269094] Model parameter optimization (eps = 3.000000)
[01:11:46 -420763.935615] FAST spr round 1 (radius: 25)
[01:14:54 -354546.727662] FAST spr round 2 (radius: 25)
[01:17:18 -351881.279739] FAST spr round 3 (radius: 25)
[01:19:20 -351802.539441] FAST spr round 4 (radius: 25)
[01:21:07 -351785.907980] FAST spr round 5 (radius: 25)
[01:22:48 -351779.119183] FAST spr round 6 (radius: 25)
[01:24:25 -351779.056891] Model parameter optimization (eps = 1.000000)
[01:24:44 -351748.402057] SLOW spr round 1 (radius: 5)
[01:26:53 -351691.784133] SLOW spr round 2 (radius: 5)
[01:29:03 -351669.361724] SLOW spr round 3 (radius: 5)
[01:31:14 -351657.312932] SLOW spr round 4 (radius: 5)
[01:33:20 -351655.584376] SLOW spr round 5 (radius: 5)
[01:35:22 -351655.581052] SLOW spr round 6 (radius: 10)
[01:37:33 -351654.673765] SLOW spr round 7 (radius: 5)
[01:40:02 -351654.671928] SLOW spr round 8 (radius: 10)
[01:42:29 -351654.671167] SLOW spr round 9 (radius: 15)
[01:45:55 -351653.300276] SLOW spr round 10 (radius: 5)
[01:48:29 -351651.698657] SLOW spr round 11 (radius: 5)
[01:50:45 -351651.696539] SLOW spr round 12 (radius: 10)
[01:53:06 -351648.258387] SLOW spr round 13 (radius: 5)
[01:55:33 -351643.126304] SLOW spr round 14 (radius: 5)
[01:57:45 -351643.126217] SLOW spr round 15 (radius: 10)
[02:00:02 -351642.476696] SLOW spr round 16 (radius: 5)
[02:02:27 -351642.475901] SLOW spr round 17 (radius: 10)
[02:04:54 -351642.475601] SLOW spr round 18 (radius: 15)
[02:08:19 -351642.475451] SLOW spr round 19 (radius: 20)
[02:13:17 -351642.475356] SLOW spr round 20 (radius: 25)
[02:19:03 -351642.475285] Model parameter optimization (eps = 0.100000)

[02:19:17] ML tree search #2, logLikelihood: -351642.074671

[02:19:17 -1456313.327243] Initial branch length optimization
[02:19:25 -1185188.958736] Model parameter optimization (eps = 10.000000)
[02:20:27 -1176758.376377] AUTODETECT spr round 1 (radius: 5)
[02:22:35 -789252.692104] AUTODETECT spr round 2 (radius: 10)
[02:24:49 -596444.459657] AUTODETECT spr round 3 (radius: 15)
[02:27:15 -477297.308727] AUTODETECT spr round 4 (radius: 20)
[02:29:42 -415610.648508] AUTODETECT spr round 5 (radius: 25)
[02:32:26 -405243.786548] SPR radius for FAST iterations: 25 (autodetect)
[02:32:26 -405243.786548] Model parameter optimization (eps = 3.000000)
[02:32:54 -403929.513904] FAST spr round 1 (radius: 25)
[02:36:03 -353239.583488] FAST spr round 2 (radius: 25)
[02:38:22 -351793.495408] FAST spr round 3 (radius: 25)
[02:40:20 -351704.079760] FAST spr round 4 (radius: 25)
[02:42:06 -351695.874970] FAST spr round 5 (radius: 25)
[02:43:44 -351695.872984] Model parameter optimization (eps = 1.000000)
[02:44:02 -351684.741303] SLOW spr round 1 (radius: 5)
[02:46:10 -351627.169074] SLOW spr round 2 (radius: 5)
[02:48:16 -351622.195121] SLOW spr round 3 (radius: 5)
[02:50:19 -351621.990437] SLOW spr round 4 (radius: 5)
[02:52:21 -351621.990200] SLOW spr round 5 (radius: 10)
[02:54:34 -351620.681722] SLOW spr round 6 (radius: 5)
[02:57:01 -351620.646446] SLOW spr round 7 (radius: 10)
[02:59:32 -351620.643968] SLOW spr round 8 (radius: 15)
[03:03:00 -351620.643053] SLOW spr round 9 (radius: 20)
[03:08:13 -351620.642657] SLOW spr round 10 (radius: 25)
[03:14:29 -351620.642462] Model parameter optimization (eps = 0.100000)

[03:14:38] ML tree search #3, logLikelihood: -351620.277160

[03:14:38 -1465296.933568] Initial branch length optimization
[03:14:45 -1193026.698412] Model parameter optimization (eps = 10.000000)
[03:16:03 -1184528.077237] AUTODETECT spr round 1 (radius: 5)
[03:18:09 -786358.788448] AUTODETECT spr round 2 (radius: 10)
[03:20:20 -587133.773997] AUTODETECT spr round 3 (radius: 15)
[03:22:43 -474276.199274] AUTODETECT spr round 4 (radius: 20)
[03:25:21 -429491.234510] AUTODETECT spr round 5 (radius: 25)
[03:28:35 -415430.953373] SPR radius for FAST iterations: 25 (autodetect)
[03:28:35 -415430.953373] Model parameter optimization (eps = 3.000000)
[03:29:02 -413957.568824] FAST spr round 1 (radius: 25)
[03:32:06 -352984.950066] FAST spr round 2 (radius: 25)
[03:34:20 -351779.265690] FAST spr round 3 (radius: 25)
[03:36:16 -351741.015485] FAST spr round 4 (radius: 25)
[03:37:57 -351737.621072] FAST spr round 5 (radius: 25)
[03:39:33 -351737.620080] Model parameter optimization (eps = 1.000000)
[03:39:47 -351733.962170] SLOW spr round 1 (radius: 5)
[03:41:50 -351636.905704] SLOW spr round 2 (radius: 5)
[03:43:56 -351624.877957] SLOW spr round 3 (radius: 5)
[03:46:01 -351620.544160] SLOW spr round 4 (radius: 5)
[03:48:02 -351620.385755] SLOW spr round 5 (radius: 5)
[03:50:03 -351620.385116] SLOW spr round 6 (radius: 10)
[03:52:13 -351620.339383] SLOW spr round 7 (radius: 15)
[03:55:52 -351620.338575] SLOW spr round 8 (radius: 20)
[04:00:50 -351620.338302] SLOW spr round 9 (radius: 25)
[04:06:55 -351620.338159] Model parameter optimization (eps = 0.100000)

[04:07:07] ML tree search #4, logLikelihood: -351619.876490

[04:07:07 -1454667.359557] Initial branch length optimization
[04:07:12 -1197402.564067] Model parameter optimization (eps = 10.000000)
[04:08:09 -1188792.725235] AUTODETECT spr round 1 (radius: 5)
[04:10:17 -791878.318358] AUTODETECT spr round 2 (radius: 10)
[04:12:29 -606015.888986] AUTODETECT spr round 3 (radius: 15)
[04:14:56 -510910.170577] AUTODETECT spr round 4 (radius: 20)
[04:17:31 -437175.218339] AUTODETECT spr round 5 (radius: 25)
[04:20:25 -419253.322141] SPR radius for FAST iterations: 25 (autodetect)
[04:20:25 -419253.322141] Model parameter optimization (eps = 3.000000)
[04:20:44 -417388.661806] FAST spr round 1 (radius: 25)
[04:23:55 -353698.987274] FAST spr round 2 (radius: 25)
[04:26:24 -351866.632560] FAST spr round 3 (radius: 25)
[04:28:24 -351759.223636] FAST spr round 4 (radius: 25)
[04:30:07 -351750.559051] FAST spr round 5 (radius: 25)
[04:31:44 -351750.524135] Model parameter optimization (eps = 1.000000)
[04:31:57 -351747.879408] SLOW spr round 1 (radius: 5)
[04:34:02 -351666.876570] SLOW spr round 2 (radius: 5)
[04:36:09 -351654.184830] SLOW spr round 3 (radius: 5)
[04:38:10 -351653.427745] SLOW spr round 4 (radius: 5)
[04:40:11 -351653.427416] SLOW spr round 5 (radius: 10)
[04:42:23 -351644.699591] SLOW spr round 6 (radius: 5)
[04:44:55 -351627.175377] SLOW spr round 7 (radius: 5)
[04:47:07 -351627.025315] SLOW spr round 8 (radius: 5)
[04:49:13 -351627.025104] SLOW spr round 9 (radius: 10)
[04:51:25 -351626.981844] SLOW spr round 10 (radius: 15)
[04:55:02 -351626.981686] SLOW spr round 11 (radius: 20)
[04:59:57 -351626.981546] SLOW spr round 12 (radius: 25)
[05:05:49 -351626.096877] SLOW spr round 13 (radius: 5)
[05:08:30 -351626.095540] SLOW spr round 14 (radius: 10)
[05:11:19 -351626.095443] SLOW spr round 15 (radius: 15)
[05:14:43 -351626.095357] SLOW spr round 16 (radius: 20)
[05:19:42 -351626.095282] SLOW spr round 17 (radius: 25)
[05:25:30 -351626.095216] Model parameter optimization (eps = 0.100000)

[05:25:41] ML tree search #5, logLikelihood: -351625.737271

[05:25:41 -1464410.597132] Initial branch length optimization
[05:25:47 -1196774.141381] Model parameter optimization (eps = 10.000000)
[05:26:37 -1188153.846466] AUTODETECT spr round 1 (radius: 5)
[05:28:44 -774016.484819] AUTODETECT spr round 2 (radius: 10)
[05:30:58 -587308.884803] AUTODETECT spr round 3 (radius: 15)
[05:33:21 -474980.650592] AUTODETECT spr round 4 (radius: 20)
[05:35:58 -425978.949911] AUTODETECT spr round 5 (radius: 25)
[05:39:06 -420909.816855] SPR radius for FAST iterations: 25 (autodetect)
[05:39:06 -420909.816855] Model parameter optimization (eps = 3.000000)
[05:39:48 -419580.674190] FAST spr round 1 (radius: 25)
[05:42:48 -354493.004378] FAST spr round 2 (radius: 25)
[05:45:05 -352067.215943] FAST spr round 3 (radius: 25)
[05:47:03 -351779.986894] FAST spr round 4 (radius: 25)
[05:48:51 -351760.903753] FAST spr round 5 (radius: 25)
[05:50:31 -351760.899484] Model parameter optimization (eps = 1.000000)
[05:50:44 -351738.085919] SLOW spr round 1 (radius: 5)
[05:52:51 -351676.083367] SLOW spr round 2 (radius: 5)
[05:54:58 -351672.441876] SLOW spr round 3 (radius: 5)
[05:57:02 -351672.440243] SLOW spr round 4 (radius: 10)
[05:59:19 -351661.084812] SLOW spr round 5 (radius: 5)
[06:01:51 -351660.010116] SLOW spr round 6 (radius: 5)
[06:04:11 -351660.007724] SLOW spr round 7 (radius: 10)
[06:06:39 -351654.447445] SLOW spr round 8 (radius: 5)
[06:09:15 -351644.771679] SLOW spr round 9 (radius: 5)
[06:11:36 -351643.518592] SLOW spr round 10 (radius: 5)
[06:13:49 -351642.184933] SLOW spr round 11 (radius: 5)
[06:16:00 -351642.172326] SLOW spr round 12 (radius: 10)
[06:18:20 -351642.172038] SLOW spr round 13 (radius: 15)
[06:22:18 -351640.232324] SLOW spr round 14 (radius: 5)
[06:25:03 -351639.675087] SLOW spr round 15 (radius: 5)
[06:27:28 -351639.673739] SLOW spr round 16 (radius: 10)
[06:29:57 -351639.673402] SLOW spr round 17 (radius: 15)
[06:33:46 -351639.673274] SLOW spr round 18 (radius: 20)
[06:39:17 -351639.673207] SLOW spr round 19 (radius: 25)
[06:45:56 -351639.673166] Model parameter optimization (eps = 0.100000)

[06:46:08] ML tree search #6, logLikelihood: -351639.074133

[06:46:08 -1461958.048441] Initial branch length optimization
[06:46:13 -1189838.496870] Model parameter optimization (eps = 10.000000)
[06:47:11 -1181410.754346] AUTODETECT spr round 1 (radius: 5)
[06:49:28 -794067.223430] AUTODETECT spr round 2 (radius: 10)
[06:51:46 -609623.031797] AUTODETECT spr round 3 (radius: 15)
[06:54:16 -484726.014650] AUTODETECT spr round 4 (radius: 20)
[06:56:54 -423280.926552] AUTODETECT spr round 5 (radius: 25)
[06:59:32 -409811.929091] SPR radius for FAST iterations: 25 (autodetect)
[06:59:32 -409811.929091] Model parameter optimization (eps = 3.000000)
[07:00:04 -408539.412884] FAST spr round 1 (radius: 25)
[07:03:15 -353833.047601] FAST spr round 2 (radius: 25)
[07:05:46 -351917.655754] FAST spr round 3 (radius: 25)
[07:07:54 -351764.452042] FAST spr round 4 (radius: 25)
[07:09:44 -351760.328780] FAST spr round 5 (radius: 25)
[07:11:28 -351760.314151] Model parameter optimization (eps = 1.000000)
[07:11:46 -351735.650835] SLOW spr round 1 (radius: 5)
[07:14:02 -351650.627079] SLOW spr round 2 (radius: 5)
[07:16:16 -351636.788337] SLOW spr round 3 (radius: 5)
[07:18:29 -351633.552790] SLOW spr round 4 (radius: 5)
[07:20:42 -351630.123439] SLOW spr round 5 (radius: 5)
[07:22:51 -351630.122325] SLOW spr round 6 (radius: 10)
[07:25:08 -351630.121711] SLOW spr round 7 (radius: 15)
[07:28:58 -351627.945649] SLOW spr round 8 (radius: 5)
[07:31:39 -351627.943684] SLOW spr round 9 (radius: 10)
[07:34:25 -351627.942253] SLOW spr round 10 (radius: 15)
[07:37:59 -351627.941071] SLOW spr round 11 (radius: 20)
[07:43:12 -351627.940082] SLOW spr round 12 (radius: 25)
[07:49:18 -351627.939252] Model parameter optimization (eps = 0.100000)

[07:49:26] ML tree search #7, logLikelihood: -351627.803128

[07:49:27 -1455933.600657] Initial branch length optimization
[07:49:36 -1194615.970040] Model parameter optimization (eps = 10.000000)
[07:50:52 -1185905.189175] AUTODETECT spr round 1 (radius: 5)
[07:53:07 -788185.327574] AUTODETECT spr round 2 (radius: 10)
[07:55:29 -597426.691037] AUTODETECT spr round 3 (radius: 15)
[07:58:01 -485974.742185] AUTODETECT spr round 4 (radius: 20)
[08:00:53 -427820.995283] AUTODETECT spr round 5 (radius: 25)
[08:04:24 -412648.475750] SPR radius for FAST iterations: 25 (autodetect)
[08:04:24 -412648.475750] Model parameter optimization (eps = 3.000000)
[08:05:19 -411353.808721] FAST spr round 1 (radius: 25)
[08:08:27 -354025.048337] FAST spr round 2 (radius: 25)
[08:10:46 -351843.821765] FAST spr round 3 (radius: 25)
[08:12:48 -351757.889575] FAST spr round 4 (radius: 25)
[08:14:41 -351721.404817] FAST spr round 5 (radius: 25)
[08:16:25 -351717.212151] FAST spr round 6 (radius: 25)
[08:18:05 -351712.266135] FAST spr round 7 (radius: 25)
[08:19:45 -351712.265771] Model parameter optimization (eps = 1.000000)
[08:19:59 -351703.947434] SLOW spr round 1 (radius: 5)
[08:22:07 -351661.273657] SLOW spr round 2 (radius: 5)
[08:24:18 -351659.335173] SLOW spr round 3 (radius: 5)
[08:26:29 -351657.986140] SLOW spr round 4 (radius: 5)
[08:28:36 -351657.939026] SLOW spr round 5 (radius: 10)
[08:30:55 -351641.748027] SLOW spr round 6 (radius: 5)
[08:33:33 -351636.149443] SLOW spr round 7 (radius: 5)
[08:35:53 -351636.074898] SLOW spr round 8 (radius: 10)
[08:38:17 -351636.072839] SLOW spr round 9 (radius: 15)
[08:41:59 -351633.587248] SLOW spr round 10 (radius: 5)
[08:44:40 -351633.582503] SLOW spr round 11 (radius: 10)
[08:47:23 -351633.581388] SLOW spr round 12 (radius: 15)
[08:50:57 -351633.581054] SLOW spr round 13 (radius: 20)
[08:56:16 -351633.580909] SLOW spr round 14 (radius: 25)
[09:02:43 -351633.580810] Model parameter optimization (eps = 0.100000)

[09:02:52] ML tree search #8, logLikelihood: -351633.235866

[09:02:52 -1445711.264318] Initial branch length optimization
[09:02:59 -1177157.236783] Model parameter optimization (eps = 10.000000)
[09:03:53 -1168026.827099] AUTODETECT spr round 1 (radius: 5)
[09:06:07 -795007.356076] AUTODETECT spr round 2 (radius: 10)
[09:08:26 -584641.531569] AUTODETECT spr round 3 (radius: 15)
[09:11:01 -497699.112260] AUTODETECT spr round 4 (radius: 20)
[09:13:55 -424255.695251] AUTODETECT spr round 5 (radius: 25)
[09:17:00 -418491.189952] SPR radius for FAST iterations: 25 (autodetect)
[09:17:00 -418491.189952] Model parameter optimization (eps = 3.000000)
[09:17:34 -416554.417123] FAST spr round 1 (radius: 25)
[09:20:56 -353902.781340] FAST spr round 2 (radius: 25)
[09:23:23 -351861.609146] FAST spr round 3 (radius: 25)
[09:25:24 -351707.088061] FAST spr round 4 (radius: 25)
[09:27:14 -351703.414849] FAST spr round 5 (radius: 25)
[09:28:57 -351697.739355] FAST spr round 6 (radius: 25)
[09:30:38 -351696.940132] FAST spr round 7 (radius: 25)
[09:32:17 -351696.938753] Model parameter optimization (eps = 1.000000)
[09:32:32 -351691.521981] SLOW spr round 1 (radius: 5)
[09:34:49 -351628.139561] SLOW spr round 2 (radius: 5)
[09:37:00 -351616.957931] SLOW spr round 3 (radius: 5)
[09:39:13 -351608.675285] SLOW spr round 4 (radius: 5)
[09:41:21 -351608.137547] SLOW spr round 5 (radius: 5)
[09:43:28 -351608.133016] SLOW spr round 6 (radius: 10)
[09:45:44 -351608.131499] SLOW spr round 7 (radius: 15)
[09:49:28 -351608.130567] SLOW spr round 8 (radius: 20)
[09:54:08 -351608.129954] SLOW spr round 9 (radius: 25)
[09:59:41 -351608.129537] Model parameter optimization (eps = 0.100000)

[09:59:51] ML tree search #9, logLikelihood: -351607.551053

[09:59:51 -1467818.861961] Initial branch length optimization
[09:59:58 -1207701.800447] Model parameter optimization (eps = 10.000000)
[10:01:04 -1198634.594253] AUTODETECT spr round 1 (radius: 5)
[10:03:12 -789150.371084] AUTODETECT spr round 2 (radius: 10)
[10:05:25 -604808.482358] AUTODETECT spr round 3 (radius: 15)
[10:07:48 -497897.570817] AUTODETECT spr round 4 (radius: 20)
[10:10:22 -435764.072585] AUTODETECT spr round 5 (radius: 25)
[10:13:16 -417332.816689] SPR radius for FAST iterations: 25 (autodetect)
[10:13:16 -417332.816689] Model parameter optimization (eps = 3.000000)
[10:13:44 -415864.766646] FAST spr round 1 (radius: 25)
[10:16:57 -354952.529147] FAST spr round 2 (radius: 25)
[10:19:16 -351803.468764] FAST spr round 3 (radius: 25)
[10:21:14 -351729.765951] FAST spr round 4 (radius: 25)
[10:22:58 -351724.137436] FAST spr round 5 (radius: 25)
[10:24:36 -351724.115196] Model parameter optimization (eps = 1.000000)
[10:24:50 -351718.828374] SLOW spr round 1 (radius: 5)
[10:26:57 -351663.696914] SLOW spr round 2 (radius: 5)
[10:29:03 -351643.296009] SLOW spr round 3 (radius: 5)
[10:31:06 -351642.435422] SLOW spr round 4 (radius: 5)
[10:33:08 -351642.434525] SLOW spr round 5 (radius: 10)
[10:35:18 -351642.434098] SLOW spr round 6 (radius: 15)
[10:39:00 -351642.433846] SLOW spr round 7 (radius: 20)
[10:44:22 -351642.433680] SLOW spr round 8 (radius: 25)
[10:51:03 -351642.433553] Model parameter optimization (eps = 0.100000)

[10:51:10] ML tree search #10, logLikelihood: -351642.375818

[10:51:11 -1479195.349996] Initial branch length optimization
[10:51:17 -1204016.308236] Model parameter optimization (eps = 10.000000)
[10:52:24 -1195649.551557] AUTODETECT spr round 1 (radius: 5)
[10:54:35 -792644.329708] AUTODETECT spr round 2 (radius: 10)
[10:56:46 -597444.970373] AUTODETECT spr round 3 (radius: 15)
[10:59:12 -497017.674050] AUTODETECT spr round 4 (radius: 20)
[11:01:58 -441643.373642] AUTODETECT spr round 5 (radius: 25)
[11:05:11 -422215.642609] SPR radius for FAST iterations: 25 (autodetect)
[11:05:11 -422215.642609] Model parameter optimization (eps = 3.000000)
[11:05:54 -420721.921881] FAST spr round 1 (radius: 25)
[11:09:02 -354901.762976] FAST spr round 2 (radius: 25)
[11:11:27 -351951.302207] FAST spr round 3 (radius: 25)
[11:13:30 -351743.462959] FAST spr round 4 (radius: 25)
[11:15:26 -351713.144761] FAST spr round 5 (radius: 25)
[11:17:10 -351713.142163] Model parameter optimization (eps = 1.000000)
[11:17:23 -351709.640731] SLOW spr round 1 (radius: 5)
[11:19:38 -351630.486303] SLOW spr round 2 (radius: 5)
[11:21:51 -351624.022551] SLOW spr round 3 (radius: 5)
[11:23:58 -351624.021510] SLOW spr round 4 (radius: 10)
[11:26:12 -351620.768032] SLOW spr round 5 (radius: 5)
[11:28:36 -351618.183212] SLOW spr round 6 (radius: 5)
[11:30:35 -351618.182751] SLOW spr round 7 (radius: 10)
[11:32:38 -351618.182564] SLOW spr round 8 (radius: 15)
[11:35:49 -351618.182456] SLOW spr round 9 (radius: 20)
[11:40:08 -351618.182387] SLOW spr round 10 (radius: 25)
[11:45:22 -351617.404261] SLOW spr round 11 (radius: 5)
[11:47:47 -351614.985530] SLOW spr round 12 (radius: 5)
[11:49:54 -351614.984235] SLOW spr round 13 (radius: 10)
[11:52:02 -351614.983953] SLOW spr round 14 (radius: 15)
[11:55:10 -351614.983851] SLOW spr round 15 (radius: 20)
[11:59:29 -351614.983810] SLOW spr round 16 (radius: 25)
[12:04:43 -351614.983773] Model parameter optimization (eps = 0.100000)

[12:04:50] ML tree search #11, logLikelihood: -351614.657746

[12:04:51 -1460091.268327] Initial branch length optimization
[12:04:56 -1198027.812001] Model parameter optimization (eps = 10.000000)
[12:06:03 -1189006.524172] AUTODETECT spr round 1 (radius: 5)
[12:07:57 -781220.737902] AUTODETECT spr round 2 (radius: 10)
[12:09:57 -582112.988181] AUTODETECT spr round 3 (radius: 15)
[12:12:13 -464855.894311] AUTODETECT spr round 4 (radius: 20)
[12:14:43 -411861.096459] AUTODETECT spr round 5 (radius: 25)
[12:17:22 -402915.744958] SPR radius for FAST iterations: 25 (autodetect)
[12:17:22 -402915.744958] Model parameter optimization (eps = 3.000000)
[12:17:50 -401431.599926] FAST spr round 1 (radius: 25)
[12:20:38 -352954.124855] FAST spr round 2 (radius: 25)
[12:22:40 -351798.912555] FAST spr round 3 (radius: 25)
[12:24:25 -351723.328276] FAST spr round 4 (radius: 25)
[12:25:58 -351721.918222] FAST spr round 5 (radius: 25)
[12:27:26 -351721.916622] Model parameter optimization (eps = 1.000000)
[12:27:45 -351710.055271] SLOW spr round 1 (radius: 5)
[12:29:38 -351657.270319] SLOW spr round 2 (radius: 5)
[12:31:37 -351637.977634] SLOW spr round 3 (radius: 5)
[12:33:31 -351633.162263] SLOW spr round 4 (radius: 5)
[12:35:22 -351633.118947] SLOW spr round 5 (radius: 10)
[12:37:20 -351633.118856] SLOW spr round 6 (radius: 15)
[12:40:37 -351633.118767] SLOW spr round 7 (radius: 20)
[12:45:01 -351632.706672] SLOW spr round 8 (radius: 5)
[12:47:24 -351632.704015] SLOW spr round 9 (radius: 10)
[12:49:49 -351632.703055] SLOW spr round 10 (radius: 15)
[12:52:53 -351632.702668] SLOW spr round 11 (radius: 20)
[12:57:20 -351632.702482] SLOW spr round 12 (radius: 25)
[13:02:40 -351632.702365] Model parameter optimization (eps = 0.100000)

[13:02:47] ML tree search #12, logLikelihood: -351632.367090

[13:02:47 -1461484.790371] Initial branch length optimization
[13:02:53 -1195826.594787] Model parameter optimization (eps = 10.000000)
[13:04:05 -1187256.026205] AUTODETECT spr round 1 (radius: 5)
[13:06:02 -804962.079005] AUTODETECT spr round 2 (radius: 10)
[13:08:05 -609397.640458] AUTODETECT spr round 3 (radius: 15)
[13:10:14 -512415.196539] AUTODETECT spr round 4 (radius: 20)
[13:12:59 -429159.212738] AUTODETECT spr round 5 (radius: 25)
[13:15:41 -420594.917181] SPR radius for FAST iterations: 25 (autodetect)
[13:15:41 -420594.917181] Model parameter optimization (eps = 3.000000)
[13:16:06 -418700.963151] FAST spr round 1 (radius: 25)
[13:18:44 -353534.380434] FAST spr round 2 (radius: 25)
[13:20:46 -351819.216352] FAST spr round 3 (radius: 25)
[13:22:32 -351741.592716] FAST spr round 4 (radius: 25)
[13:24:07 -351718.979422] FAST spr round 5 (radius: 25)
[13:25:36 -351718.613929] FAST spr round 6 (radius: 25)
[13:27:03 -351718.611485] Model parameter optimization (eps = 1.000000)
[13:27:17 -351701.782182] SLOW spr round 1 (radius: 5)
[13:29:10 -351647.751906] SLOW spr round 2 (radius: 5)
[13:31:05 -351633.015041] SLOW spr round 3 (radius: 5)
[13:33:00 -351631.819080] SLOW spr round 4 (radius: 5)
[13:34:51 -351631.818648] SLOW spr round 5 (radius: 10)
[13:36:51 -351631.818472] SLOW spr round 6 (radius: 15)
[13:40:09 -351628.852231] SLOW spr round 7 (radius: 5)
[13:42:27 -351628.648194] SLOW spr round 8 (radius: 5)
[13:44:31 -351628.647519] SLOW spr round 9 (radius: 10)
[13:46:39 -351628.646995] SLOW spr round 10 (radius: 15)
[13:49:47 -351628.646579] SLOW spr round 11 (radius: 20)
[13:54:27 -351628.646243] SLOW spr round 12 (radius: 25)
[13:59:56 -351628.645964] Model parameter optimization (eps = 0.100000)

[14:00:04] ML tree search #13, logLikelihood: -351628.504369

[14:00:04 -1458801.836092] Initial branch length optimization
[14:00:10 -1194508.641692] Model parameter optimization (eps = 10.000000)
[14:00:57 -1185783.583598] AUTODETECT spr round 1 (radius: 5)
[14:02:52 -794862.098689] AUTODETECT spr round 2 (radius: 10)
[14:04:53 -596745.755069] AUTODETECT spr round 3 (radius: 15)
[14:07:03 -512805.958229] AUTODETECT spr round 4 (radius: 20)
[14:09:26 -471797.143308] AUTODETECT spr round 5 (radius: 25)
[14:12:13 -429493.181320] SPR radius for FAST iterations: 25 (autodetect)
[14:12:13 -429493.181320] Model parameter optimization (eps = 3.000000)
[14:12:47 -428051.894559] FAST spr round 1 (radius: 25)
[14:15:45 -355599.225264] FAST spr round 2 (radius: 25)
[14:18:00 -351971.294598] FAST spr round 3 (radius: 25)
[14:19:55 -351800.512897] FAST spr round 4 (radius: 25)
[14:21:41 -351753.008000] FAST spr round 5 (radius: 25)
[14:23:13 -351745.473316] FAST spr round 6 (radius: 25)
[14:24:41 -351743.965020] FAST spr round 7 (radius: 25)
[14:26:07 -351743.964174] Model parameter optimization (eps = 1.000000)
[14:26:23 -351740.364777] SLOW spr round 1 (radius: 5)
[14:28:23 -351655.588649] SLOW spr round 2 (radius: 5)
[14:30:17 -351651.254294] SLOW spr round 3 (radius: 5)
[14:32:07 -351651.252807] SLOW spr round 4 (radius: 10)
[14:34:09 -351637.787046] SLOW spr round 5 (radius: 5)
[14:36:27 -351633.689149] SLOW spr round 6 (radius: 5)
[14:38:31 -351630.653232] SLOW spr round 7 (radius: 5)
[14:40:27 -351630.651221] SLOW spr round 8 (radius: 10)
[14:42:28 -351630.650441] SLOW spr round 9 (radius: 15)
[14:45:39 -351630.649821] SLOW spr round 10 (radius: 20)
[14:49:54 -351630.649322] SLOW spr round 11 (radius: 25)
[14:54:48 -351630.648918] Model parameter optimization (eps = 0.100000)

[14:54:53] ML tree search #14, logLikelihood: -351630.565993

[14:54:53 -1470987.745649] Initial branch length optimization
[14:55:00 -1206028.344781] Model parameter optimization (eps = 10.000000)
[14:55:59 -1197289.779828] AUTODETECT spr round 1 (radius: 5)
[14:57:56 -797621.070296] AUTODETECT spr round 2 (radius: 10)
[14:59:57 -578941.570835] AUTODETECT spr round 3 (radius: 15)
[15:02:10 -480392.195328] AUTODETECT spr round 4 (radius: 20)
[15:04:30 -430839.515253] AUTODETECT spr round 5 (radius: 25)
[15:07:12 -423053.978781] SPR radius for FAST iterations: 25 (autodetect)
[15:07:12 -423053.978781] Model parameter optimization (eps = 3.000000)
[15:07:37 -421451.226442] FAST spr round 1 (radius: 25)
[15:10:34 -353644.427114] FAST spr round 2 (radius: 25)
[15:12:38 -351817.274336] FAST spr round 3 (radius: 25)
[15:14:29 -351719.687428] FAST spr round 4 (radius: 25)
[15:16:06 -351699.120069] FAST spr round 5 (radius: 25)
[15:17:36 -351697.206857] FAST spr round 6 (radius: 25)
[15:19:03 -351697.203573] Model parameter optimization (eps = 1.000000)
[15:19:13 -351694.214114] SLOW spr round 1 (radius: 5)
[15:21:06 -351640.299920] SLOW spr round 2 (radius: 5)
[15:23:01 -351635.651267] SLOW spr round 3 (radius: 5)
[15:24:54 -351631.747908] SLOW spr round 4 (radius: 5)
[15:26:44 -351631.733861] SLOW spr round 5 (radius: 10)
[15:28:42 -351631.687916] SLOW spr round 6 (radius: 15)
[15:32:00 -351631.686571] SLOW spr round 7 (radius: 20)
[15:36:33 -351631.685958] SLOW spr round 8 (radius: 25)
[15:42:00 -351631.685591] Model parameter optimization (eps = 0.100000)

[15:42:06] ML tree search #15, logLikelihood: -351631.645719

[15:42:06 -1455232.248313] Initial branch length optimization
[15:42:13 -1183559.266309] Model parameter optimization (eps = 10.000000)
[15:43:20 -1174876.046133] AUTODETECT spr round 1 (radius: 5)
[15:45:14 -802497.761385] AUTODETECT spr round 2 (radius: 10)
[15:47:17 -582123.121696] AUTODETECT spr round 3 (radius: 15)
[15:49:24 -492478.755351] AUTODETECT spr round 4 (radius: 20)
[15:51:58 -430924.458757] AUTODETECT spr round 5 (radius: 25)
[15:54:28 -414718.250932] SPR radius for FAST iterations: 25 (autodetect)
[15:54:28 -414718.250932] Model parameter optimization (eps = 3.000000)
[15:54:51 -412962.257107] FAST spr round 1 (radius: 25)
[15:57:29 -355316.896312] FAST spr round 2 (radius: 25)
[15:59:32 -352007.776552] FAST spr round 3 (radius: 25)
[16:01:19 -351835.059717] FAST spr round 4 (radius: 25)
[16:02:57 -351807.430136] FAST spr round 5 (radius: 25)
[16:04:29 -351799.350437] FAST spr round 6 (radius: 25)
[16:05:57 -351799.347463] Model parameter optimization (eps = 1.000000)
[16:06:13 -351740.360408] SLOW spr round 1 (radius: 5)
[16:08:08 -351656.081920] SLOW spr round 2 (radius: 5)
[16:10:02 -351649.816269] SLOW spr round 3 (radius: 5)
[16:11:56 -351649.813679] SLOW spr round 4 (radius: 10)
[16:13:57 -351647.405835] SLOW spr round 5 (radius: 5)
[16:16:15 -351642.464966] SLOW spr round 6 (radius: 5)
[16:18:16 -351641.350544] SLOW spr round 7 (radius: 5)
[16:20:11 -351641.349287] SLOW spr round 8 (radius: 10)
[16:22:14 -351641.348411] SLOW spr round 9 (radius: 15)
[16:25:30 -351640.837560] SLOW spr round 10 (radius: 5)
[16:27:50 -351640.725555] SLOW spr round 11 (radius: 5)
[16:29:54 -351640.570744] SLOW spr round 12 (radius: 5)
[16:31:50 -351640.570040] SLOW spr round 13 (radius: 10)
[16:33:53 -351640.569844] SLOW spr round 14 (radius: 15)
[16:37:09 -351640.569785] SLOW spr round 15 (radius: 20)
[16:41:37 -351640.186246] SLOW spr round 16 (radius: 5)
[16:44:01 -351640.183788] SLOW spr round 17 (radius: 10)
[16:46:27 -351640.183066] SLOW spr round 18 (radius: 15)
[16:49:33 -351640.182634] SLOW spr round 19 (radius: 20)
[16:54:03 -351640.182553] SLOW spr round 20 (radius: 25)
[16:59:17 -351623.565400] SLOW spr round 21 (radius: 5)
[17:01:42 -351623.562263] SLOW spr round 22 (radius: 10)
[17:04:12 -351623.561160] SLOW spr round 23 (radius: 15)
[17:07:16 -351623.560750] SLOW spr round 24 (radius: 20)
[17:11:46 -351623.560599] SLOW spr round 25 (radius: 25)
[17:17:00 -351623.560524] Model parameter optimization (eps = 0.100000)

[17:17:13] ML tree search #16, logLikelihood: -351622.197595

[17:17:14 -1464670.207549] Initial branch length optimization
[17:17:18 -1199316.243506] Model parameter optimization (eps = 10.000000)
[17:17:58 -1190454.295933] AUTODETECT spr round 1 (radius: 5)
[17:19:55 -788573.429093] AUTODETECT spr round 2 (radius: 10)
[17:21:52 -596741.179188] AUTODETECT spr round 3 (radius: 15)
[17:23:59 -507331.359422] AUTODETECT spr round 4 (radius: 20)
[17:26:16 -454331.993254] AUTODETECT spr round 5 (radius: 25)
[17:28:50 -421599.684417] SPR radius for FAST iterations: 25 (autodetect)
[17:28:50 -421599.684417] Model parameter optimization (eps = 3.000000)
[17:29:27 -419521.231401] FAST spr round 1 (radius: 25)
[17:32:11 -353884.093185] FAST spr round 2 (radius: 25)
[17:34:16 -351935.889876] FAST spr round 3 (radius: 25)
[17:36:01 -351786.676649] FAST spr round 4 (radius: 25)
[17:37:40 -351754.168900] FAST spr round 5 (radius: 25)
[17:39:11 -351742.133138] FAST spr round 6 (radius: 25)
[17:40:38 -351738.890892] FAST spr round 7 (radius: 25)
[17:42:04 -351738.889224] Model parameter optimization (eps = 1.000000)
[17:42:16 -351735.468877] SLOW spr round 1 (radius: 5)
[17:44:07 -351627.793193] SLOW spr round 2 (radius: 5)
[17:46:01 -351622.071944] SLOW spr round 3 (radius: 5)
[17:47:51 -351622.070934] SLOW spr round 4 (radius: 10)
[17:49:50 -351621.697382] SLOW spr round 5 (radius: 5)
[17:52:04 -351621.696616] SLOW spr round 6 (radius: 10)
[17:54:19 -351621.696418] SLOW spr round 7 (radius: 15)
[17:57:30 -351618.577275] SLOW spr round 8 (radius: 5)
[17:59:49 -351618.515226] SLOW spr round 9 (radius: 10)
[18:02:11 -351618.514799] SLOW spr round 10 (radius: 15)
[18:05:20 -351618.514600] SLOW spr round 11 (radius: 20)
[18:10:00 -351616.289978] SLOW spr round 12 (radius: 5)
[18:12:23 -351616.262697] SLOW spr round 13 (radius: 10)
[18:14:50 -351616.260519] SLOW spr round 14 (radius: 15)
[18:18:01 -351616.259758] SLOW spr round 15 (radius: 20)
[18:22:44 -351616.259467] SLOW spr round 16 (radius: 25)
[18:28:23 -351616.259334] Model parameter optimization (eps = 0.100000)

[18:28:31] ML tree search #17, logLikelihood: -351615.692123

[18:28:31 -1461572.774338] Initial branch length optimization
[18:28:37 -1190631.867550] Model parameter optimization (eps = 10.000000)
[18:29:39 -1182146.977431] AUTODETECT spr round 1 (radius: 5)
[18:31:33 -809160.201855] AUTODETECT spr round 2 (radius: 10)
[18:33:31 -595851.638744] AUTODETECT spr round 3 (radius: 15)
[18:35:39 -486630.561285] AUTODETECT spr round 4 (radius: 20)
[18:38:01 -420777.231646] AUTODETECT spr round 5 (radius: 25)
[18:40:43 -413050.112431] SPR radius for FAST iterations: 25 (autodetect)
[18:40:43 -413050.112431] Model parameter optimization (eps = 3.000000)
[18:41:30 -411542.040869] FAST spr round 1 (radius: 25)
[18:44:08 -354066.921108] FAST spr round 2 (radius: 25)
[18:46:08 -351985.771470] FAST spr round 3 (radius: 25)
[18:47:52 -351840.848416] FAST spr round 4 (radius: 25)
[18:49:30 -351807.836013] FAST spr round 5 (radius: 25)
[18:51:02 -351793.989904] FAST spr round 6 (radius: 25)
[18:52:28 -351793.934793] Model parameter optimization (eps = 1.000000)
[18:52:43 -351761.775995] SLOW spr round 1 (radius: 5)
[18:54:33 -351678.694844] SLOW spr round 2 (radius: 5)
[18:56:27 -351668.053999] SLOW spr round 3 (radius: 5)
[18:58:20 -351661.603765] SLOW spr round 4 (radius: 5)
[19:00:11 -351658.022182] SLOW spr round 5 (radius: 5)
[19:02:00 -351657.996334] SLOW spr round 6 (radius: 10)
[19:04:00 -351651.569537] SLOW spr round 7 (radius: 5)
[19:06:15 -351645.043245] SLOW spr round 8 (radius: 5)
[19:08:15 -351645.043091] SLOW spr round 9 (radius: 10)
[19:10:20 -351645.043007] SLOW spr round 10 (radius: 15)
[19:13:30 -351645.042945] SLOW spr round 11 (radius: 20)
[19:18:00 -351645.042890] SLOW spr round 12 (radius: 25)
[19:23:20 -351645.042838] Model parameter optimization (eps = 0.100000)

[19:23:28] ML tree search #18, logLikelihood: -351644.977947

[19:23:28 -1470688.201961] Initial branch length optimization
[19:23:33 -1205116.519241] Model parameter optimization (eps = 10.000000)
[19:24:16 -1196526.386466] AUTODETECT spr round 1 (radius: 5)
[19:26:11 -778089.959770] AUTODETECT spr round 2 (radius: 10)
[19:28:11 -587600.700515] AUTODETECT spr round 3 (radius: 15)
[19:30:23 -471656.115603] AUTODETECT spr round 4 (radius: 20)
[19:32:42 -418766.894105] AUTODETECT spr round 5 (radius: 25)
[19:35:24 -410230.717617] SPR radius for FAST iterations: 25 (autodetect)
[19:35:24 -410230.717617] Model parameter optimization (eps = 3.000000)
[19:35:48 -409013.653017] FAST spr round 1 (radius: 25)
[19:38:38 -354049.291306] FAST spr round 2 (radius: 25)
[19:40:47 -351918.404245] FAST spr round 3 (radius: 25)
[19:42:33 -351750.882170] FAST spr round 4 (radius: 25)
[19:44:08 -351743.094206] FAST spr round 5 (radius: 25)
[19:45:39 -351739.674482] FAST spr round 6 (radius: 25)
[19:47:06 -351739.671981] Model parameter optimization (eps = 1.000000)
[19:47:18 -351723.998967] SLOW spr round 1 (radius: 5)
[19:49:14 -351655.629539] SLOW spr round 2 (radius: 5)
[19:51:10 -351643.088844] SLOW spr round 3 (radius: 5)
[19:53:00 -351643.088502] SLOW spr round 4 (radius: 10)
[19:54:59 -351641.656628] SLOW spr round 5 (radius: 5)
[19:57:13 -351639.456348] SLOW spr round 6 (radius: 5)
[19:59:13 -351639.456263] SLOW spr round 7 (radius: 10)
[20:01:18 -351639.456198] SLOW spr round 8 (radius: 15)
[20:04:29 -351639.456147] SLOW spr round 9 (radius: 20)
[20:08:58 -351639.456101] SLOW spr round 10 (radius: 25)
[20:14:28 -351639.456061] Model parameter optimization (eps = 0.100000)

[20:14:33] ML tree search #19, logLikelihood: -351639.402885

[20:14:33 -1456443.960873] Initial branch length optimization
[20:14:41 -1198023.361027] Model parameter optimization (eps = 10.000000)
[20:15:44 -1189188.250773] AUTODETECT spr round 1 (radius: 5)
[20:17:38 -774729.366095] AUTODETECT spr round 2 (radius: 10)
[20:19:38 -560730.508373] AUTODETECT spr round 3 (radius: 15)
[20:21:48 -447674.596432] AUTODETECT spr round 4 (radius: 20)
[20:24:11 -417096.936742] AUTODETECT spr round 5 (radius: 25)
[20:27:04 -408165.857453] SPR radius for FAST iterations: 25 (autodetect)
[20:27:04 -408165.857453] Model parameter optimization (eps = 3.000000)
[20:27:30 -406780.411165] FAST spr round 1 (radius: 25)
[20:30:19 -353977.995773] FAST spr round 2 (radius: 25)
[20:32:22 -351894.278109] FAST spr round 3 (radius: 25)
[20:34:07 -351774.222167] FAST spr round 4 (radius: 25)
[20:35:44 -351751.456747] FAST spr round 5 (radius: 25)
[20:37:13 -351750.512103] FAST spr round 6 (radius: 25)
[20:38:40 -351750.511350] Model parameter optimization (eps = 1.000000)
[20:38:56 -351714.634868] SLOW spr round 1 (radius: 5)
[20:40:48 -351649.654289] SLOW spr round 2 (radius: 5)
[20:42:41 -351633.763323] SLOW spr round 3 (radius: 5)
[20:44:34 -351633.448960] SLOW spr round 4 (radius: 5)
[20:46:24 -351633.447435] SLOW spr round 5 (radius: 10)
[20:48:23 -351632.893340] SLOW spr round 6 (radius: 5)
[20:50:35 -351632.893239] SLOW spr round 7 (radius: 10)
[20:52:49 -351632.893197] SLOW spr round 8 (radius: 15)
[20:55:54 -351627.668754] SLOW spr round 9 (radius: 5)
[20:58:15 -351622.945210] SLOW spr round 10 (radius: 5)
[21:00:18 -351622.944534] SLOW spr round 11 (radius: 10)
[21:02:24 -351622.944040] SLOW spr round 12 (radius: 15)
[21:05:32 -351622.943672] SLOW spr round 13 (radius: 20)
[21:10:05 -351622.943394] SLOW spr round 14 (radius: 25)
[21:15:31 -351622.943181] Model parameter optimization (eps = 0.100000)

[21:15:40] ML tree search #20, logLikelihood: -351622.291637


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.206544,0.760831) (0.119019,1.231530) (0.443355,0.814755) (0.231082,1.449934) 
   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: -351606.062694

AIC score: 707218.125388 / AICc score: 8735242.125388 / BIC score: 717153.701889
Free parameters (model + branch lengths): 2003

WARNING: Number of free parameters (K=2003) is larger than alignment size (n=1054).
         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/O95714/3_mltree/O95714.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/3_mltree/O95714.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/3_mltree/O95714.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O95714/3_mltree/O95714.raxml.log

Analysis started: 13-Jul-2021 23:56:33 / finished: 14-Jul-2021 21:12:14

Elapsed time: 76540.764 seconds

Consumed energy: 6691.308 Wh (= 33 km in an electric car, or 167 km with an e-scooter!)