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 23-Jun-2021 00:19:53 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/2_msa/Q8WZA1_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/2_msa/Q8WZA1_trimmed_msa.fasta
[00:00:00] Loaded alignment with 762 taxa and 657 sites

WARNING: Sequences tr_B4QF20_B4QF20_DROSI_7240 and tr_B4HQ92_B4HQ92_DROSE_7238 are exactly identical!
WARNING: Sequences tr_G9KHU4_G9KHU4_MUSPF_9669 and tr_A0A2Y9IVG3_A0A2Y9IVG3_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G3QIV6_G3QIV6_GORGO_9595 and tr_H2PYY3_H2PYY3_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2J8P7L1_A0A2J8P7L1_PANTR_9598 and sp_Q96BQ1_FAM3D_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_W5Q5G1_W5Q5G1_SHEEP_9940 and tr_Q5E9I4_Q5E9I4_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_F6WYE4_F6WYE4_MACMU_9544 and tr_G7P9A4_G7P9A4_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6WYE4_F6WYE4_MACMU_9544 and tr_A0A2K6BPF8_A0A2K6BPF8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GR52_F7GR52_MACMU_9544 and tr_G7NV04_G7NV04_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7GR52_F7GR52_MACMU_9544 and tr_A0A2K5MGI6_A0A2K5MGI6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7GR52_F7GR52_MACMU_9544 and tr_A0A2K6CRU7_A0A2K6CRU7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A044S5F1_A0A044S5F1_ONCVO_6282 and tr_A0A182E1A9_A0A182E1A9_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A2I3N7V1_A0A2I3N7V1_PAPAN_9555 and tr_A0A2K6CSH6_A0A2K6CSH6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A091F5K1_A0A091F5K1_CORBR_85066 and tr_A0A218VEA8_A0A218VEA8_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A0V0UQG4_A0A0V0UQG4_9BILA_181606 and tr_A0A0V0THC6_A0A0V0THC6_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V1NS61_A0A0V1NS61_9BILA_92180 and tr_A0A0V0TH85_A0A0V0TH85_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A226NMN4_A0A226NMN4_CALSU_9009 and tr_A0A226PFU5_A0A226PFU5_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2K5L3S5_A0A2K5L3S5_CERAT_9531 and tr_A0A2K5XAV2_A0A2K5XAV2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2K5N5M7_A0A2K5N5M7_CERAT_9531 and tr_A0A2K5YQQ8_A0A2K5YQQ8_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2U4CN25_A0A2U4CN25_TURTR_9739 and tr_A0A2Y9M596_A0A2Y9M596_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2Y9SIV0_A0A2Y9SIV0_PHYCD_9755 and tr_A0A383YP76_A0A383YP76_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 20

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.raxml.reduced.phy

Alignment comprises 1 partitions and 657 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 657 / 657
Gaps: 38.01 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.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 762 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 165 / 13200
[00:00:00] Data distribution: max. searches per worker: 10

Starting ML tree search with 20 distinct starting trees

[00:00:00 -655797.112136] Initial branch length optimization
[00:00:08 -544839.513862] Model parameter optimization (eps = 10.000000)
[00:01:03 -542069.913519] AUTODETECT spr round 1 (radius: 5)
[00:02:46 -370972.861799] AUTODETECT spr round 2 (radius: 10)
[00:04:38 -278535.124782] AUTODETECT spr round 3 (radius: 15)
[00:06:40 -230096.333156] AUTODETECT spr round 4 (radius: 20)
[00:08:56 -214546.164915] AUTODETECT spr round 5 (radius: 25)
[00:11:23 -213236.438084] SPR radius for FAST iterations: 25 (autodetect)
[00:11:23 -213236.438084] Model parameter optimization (eps = 3.000000)
[00:11:41 -213114.355111] FAST spr round 1 (radius: 25)
[00:14:15 -193942.939968] FAST spr round 2 (radius: 25)
[00:16:11 -193308.364988] FAST spr round 3 (radius: 25)
[00:17:47 -193267.815898] FAST spr round 4 (radius: 25)
[00:19:08 -193267.077128] FAST spr round 5 (radius: 25)
[00:20:26 -193267.076800] Model parameter optimization (eps = 1.000000)
[00:20:45 -193259.091823] SLOW spr round 1 (radius: 5)
[00:22:42 -193202.425104] SLOW spr round 2 (radius: 5)
[00:24:39 -193188.305470] SLOW spr round 3 (radius: 5)
[00:26:26 -193187.097691] SLOW spr round 4 (radius: 5)
[00:28:10 -193187.097454] SLOW spr round 5 (radius: 10)
[00:29:58 -193186.919096] SLOW spr round 6 (radius: 5)
[00:32:10 -193185.318095] SLOW spr round 7 (radius: 5)
[00:34:07 -193185.317746] SLOW spr round 8 (radius: 10)
[00:36:00 -193185.317729] SLOW spr round 9 (radius: 15)
[00:39:07 -193185.317727] SLOW spr round 10 (radius: 20)
[00:43:06 -193185.317727] SLOW spr round 11 (radius: 25)
[00:47:53 -193185.317727] Model parameter optimization (eps = 0.100000)

[00:48:04] [worker #0] ML tree search #1, logLikelihood: -193183.250998

[00:48:04 -662943.649011] Initial branch length optimization
[00:48:09 -547340.738369] Model parameter optimization (eps = 10.000000)
[00:48:41 -544511.122375] AUTODETECT spr round 1 (radius: 5)
[00:50:24 -365499.450884] AUTODETECT spr round 2 (radius: 10)
[00:52:13 -280643.622008] AUTODETECT spr round 3 (radius: 15)
[00:54:21 -233882.486932] AUTODETECT spr round 4 (radius: 20)
[00:56:39 -214131.288287] AUTODETECT spr round 5 (radius: 25)
[00:59:21 -211484.008849] SPR radius for FAST iterations: 25 (autodetect)
[00:59:21 -211484.008849] Model parameter optimization (eps = 3.000000)
[00:59:40 -211369.126441] FAST spr round 1 (radius: 25)
[01:01:49] [worker #1] ML tree search #2, logLikelihood: -193172.800668
[01:02:07 -193800.726292] FAST spr round 2 (radius: 25)
[01:04:04 -193317.848373] FAST spr round 3 (radius: 25)
[01:05:41 -193275.691247] FAST spr round 4 (radius: 25)
[01:07:04 -193258.533908] FAST spr round 5 (radius: 25)
[01:08:21 -193258.533256] Model parameter optimization (eps = 1.000000)
[01:08:39 -193240.242256] SLOW spr round 1 (radius: 5)
[01:10:33 -193195.999225] SLOW spr round 2 (radius: 5)
[01:12:23 -193194.032152] SLOW spr round 3 (radius: 5)
[01:14:08 -193194.030384] SLOW spr round 4 (radius: 10)
[01:15:58 -193188.145498] SLOW spr round 5 (radius: 5)
[01:18:12 -193184.775705] SLOW spr round 6 (radius: 5)
[01:20:07 -193184.774805] SLOW spr round 7 (radius: 10)
[01:21:58 -193184.774357] SLOW spr round 8 (radius: 15)
[01:24:54 -193184.774134] SLOW spr round 9 (radius: 20)
[01:28:42 -193184.774023] SLOW spr round 10 (radius: 25)
[01:33:08 -193184.773968] Model parameter optimization (eps = 0.100000)

[01:33:21] [worker #0] ML tree search #3, logLikelihood: -193183.625564

[01:33:21 -655369.300629] Initial branch length optimization
[01:33:25 -541784.994326] Model parameter optimization (eps = 10.000000)
[01:33:56 -538864.906837] AUTODETECT spr round 1 (radius: 5)
[01:35:39 -366015.998912] AUTODETECT spr round 2 (radius: 10)
[01:37:28 -277355.299190] AUTODETECT spr round 3 (radius: 15)
[01:39:38 -233385.259000] AUTODETECT spr round 4 (radius: 20)
[01:41:56 -217910.186220] AUTODETECT spr round 5 (radius: 25)
[01:44:46 -213181.647344] SPR radius for FAST iterations: 25 (autodetect)
[01:44:47 -213181.647344] Model parameter optimization (eps = 3.000000)
[01:45:09 -213054.054353] FAST spr round 1 (radius: 25)
[01:47:43 -194072.368125] FAST spr round 2 (radius: 25)
[01:49:38 -193321.990216] FAST spr round 3 (radius: 25)
[01:51:15 -193278.455275] FAST spr round 4 (radius: 25)
[01:52:40 -193266.795686] FAST spr round 5 (radius: 25)
[01:53:57 -193266.795663] Model parameter optimization (eps = 1.000000)
[01:54:22 -193257.188169] SLOW spr round 1 (radius: 5)
[01:56:18 -193212.354278] SLOW spr round 2 (radius: 5)
[01:58:11 -193199.808926] SLOW spr round 3 (radius: 5)
[01:58:32] [worker #1] ML tree search #4, logLikelihood: -193181.851829
[01:59:57 -193199.808313] SLOW spr round 4 (radius: 10)
[02:01:48 -193199.808226] SLOW spr round 5 (radius: 15)
[02:04:53 -193198.714156] SLOW spr round 6 (radius: 5)
[02:07:12 -193198.687969] SLOW spr round 7 (radius: 10)
[02:09:21 -193198.687329] SLOW spr round 8 (radius: 15)
[02:12:10 -193198.687101] SLOW spr round 9 (radius: 20)
[02:16:04 -193198.686989] SLOW spr round 10 (radius: 25)
[02:20:36 -193198.686934] Model parameter optimization (eps = 0.100000)

[02:20:45] [worker #0] ML tree search #5, logLikelihood: -193198.554877

[02:20:45 -657034.836097] Initial branch length optimization
[02:20:53 -545411.784871] Model parameter optimization (eps = 10.000000)
[02:21:28 -542657.415110] AUTODETECT spr round 1 (radius: 5)
[02:23:11 -378180.046448] AUTODETECT spr round 2 (radius: 10)
[02:25:00 -292263.671943] AUTODETECT spr round 3 (radius: 15)
[02:27:01 -252454.048602] AUTODETECT spr round 4 (radius: 20)
[02:29:13 -226810.330774] AUTODETECT spr round 5 (radius: 25)
[02:31:40 -218906.111082] SPR radius for FAST iterations: 25 (autodetect)
[02:31:40 -218906.111082] Model parameter optimization (eps = 3.000000)
[02:31:58 -218836.318918] FAST spr round 1 (radius: 25)
[02:34:35 -195097.273894] FAST spr round 2 (radius: 25)
[02:36:29 -193457.940986] FAST spr round 3 (radius: 25)
[02:38:08 -193289.418131] FAST spr round 4 (radius: 25)
[02:39:31 -193275.643307] FAST spr round 5 (radius: 25)
[02:40:48 -193274.777316] FAST spr round 6 (radius: 25)
[02:42:02 -193274.775812] Model parameter optimization (eps = 1.000000)
[02:42:17 -193255.080482] SLOW spr round 1 (radius: 5)
[02:44:14 -193200.904689] SLOW spr round 2 (radius: 5)
[02:46:03 -193191.836730] SLOW spr round 3 (radius: 5)
[02:47:47 -193190.894842] SLOW spr round 4 (radius: 5)
[02:49:30 -193189.594079] SLOW spr round 5 (radius: 5)
[02:50:48] [worker #1] ML tree search #6, logLikelihood: -193184.411418
[02:51:14 -193189.072857] SLOW spr round 6 (radius: 5)
[02:52:57 -193189.072832] SLOW spr round 7 (radius: 10)
[02:54:46 -193188.889897] SLOW spr round 8 (radius: 5)
[02:56:58 -193188.817305] SLOW spr round 9 (radius: 10)
[02:59:03 -193188.814629] SLOW spr round 10 (radius: 15)
[03:01:54 -193188.813635] SLOW spr round 11 (radius: 20)
[03:05:48 -193186.564935] SLOW spr round 12 (radius: 5)
[03:08:08 -193186.561461] SLOW spr round 13 (radius: 10)
[03:10:23 -193186.559989] SLOW spr round 14 (radius: 15)
[03:13:10 -193186.141910] SLOW spr round 15 (radius: 5)
[03:15:27 -193186.141669] SLOW spr round 16 (radius: 10)
[03:17:37 -193186.141664] SLOW spr round 17 (radius: 15)
[03:20:24 -193186.141663] SLOW spr round 18 (radius: 20)
[03:24:18 -193186.141663] SLOW spr round 19 (radius: 25)
[03:28:57 -193186.141663] Model parameter optimization (eps = 0.100000)

[03:29:06] [worker #0] ML tree search #7, logLikelihood: -193186.031567

[03:29:06 -663352.860682] Initial branch length optimization
[03:29:12 -548142.432972] Model parameter optimization (eps = 10.000000)
[03:30:07 -545203.921609] AUTODETECT spr round 1 (radius: 5)
[03:31:50 -369212.746974] AUTODETECT spr round 2 (radius: 10)
[03:33:42 -278731.925753] AUTODETECT spr round 3 (radius: 15)
[03:35:52 -228133.993106] AUTODETECT spr round 4 (radius: 20)
[03:38:23 -211639.362861] AUTODETECT spr round 5 (radius: 25)
[03:41:10 -210010.809715] SPR radius for FAST iterations: 25 (autodetect)
[03:41:10 -210010.809715] Model parameter optimization (eps = 3.000000)
[03:41:29 -209925.753385] FAST spr round 1 (radius: 25)
[03:44:01 -193904.313365] FAST spr round 2 (radius: 25)
[03:45:54 -193333.745351] FAST spr round 3 (radius: 25)
[03:47:30 -193279.343154] FAST spr round 4 (radius: 25)
[03:48:51 -193275.263329] FAST spr round 5 (radius: 25)
[03:50:09 -193274.953903] FAST spr round 6 (radius: 25)
[03:50:16] [worker #1] ML tree search #8, logLikelihood: -193186.123171
[03:51:28 -193274.953320] Model parameter optimization (eps = 1.000000)
[03:51:45 -193259.694157] SLOW spr round 1 (radius: 5)
[03:53:42 -193197.895943] SLOW spr round 2 (radius: 5)
[03:55:34 -193196.001261] SLOW spr round 3 (radius: 5)
[03:57:21 -193195.998393] SLOW spr round 4 (radius: 10)
[03:59:11 -193193.795275] SLOW spr round 5 (radius: 5)
[04:01:26 -193184.388912] SLOW spr round 6 (radius: 5)
[04:03:23 -193179.524536] SLOW spr round 7 (radius: 5)
[04:05:13 -193179.523541] SLOW spr round 8 (radius: 10)
[04:07:02 -193179.523028] SLOW spr round 9 (radius: 15)
[04:10:02 -193177.700383] SLOW spr round 10 (radius: 5)
[04:12:20 -193177.697883] SLOW spr round 11 (radius: 10)
[04:14:28 -193177.697473] SLOW spr round 12 (radius: 15)
[04:17:15 -193177.697358] SLOW spr round 13 (radius: 20)
[04:21:03 -193177.697322] SLOW spr round 14 (radius: 25)
[04:25:31 -193177.697311] Model parameter optimization (eps = 0.100000)

[04:25:43] [worker #0] ML tree search #9, logLikelihood: -193176.689469

[04:25:43 -661546.063092] Initial branch length optimization
[04:25:48 -549160.356057] Model parameter optimization (eps = 10.000000)
[04:26:27 -546220.103595] AUTODETECT spr round 1 (radius: 5)
[04:28:11 -365635.616645] AUTODETECT spr round 2 (radius: 10)
[04:29:59 -292267.480064] AUTODETECT spr round 3 (radius: 15)
[04:32:01 -248011.869306] AUTODETECT spr round 4 (radius: 20)
[04:34:06 -224370.246874] AUTODETECT spr round 5 (radius: 25)
[04:36:30 -215638.358933] SPR radius for FAST iterations: 25 (autodetect)
[04:36:30 -215638.358933] Model parameter optimization (eps = 3.000000)
[04:36:50 -215537.421807] FAST spr round 1 (radius: 25)
[04:39:16 -194226.073482] FAST spr round 2 (radius: 25)
[04:41:08 -193323.810894] FAST spr round 3 (radius: 25)
[04:42:46 -193260.919799] FAST spr round 4 (radius: 25)
[04:44:12 -193253.019319] FAST spr round 5 (radius: 25)
[04:45:34 -193249.134192] FAST spr round 6 (radius: 25)
[04:46:50 -193249.133783] Model parameter optimization (eps = 1.000000)
[04:47:07 -193234.348165] SLOW spr round 1 (radius: 5)
[04:49:02 -193188.436503] SLOW spr round 2 (radius: 5)
[04:50:54 -193182.767570] SLOW spr round 3 (radius: 5)
[04:52:39 -193182.764787] SLOW spr round 4 (radius: 10)
[04:54:28 -193178.412854] SLOW spr round 5 (radius: 5)
[04:56:41 -193178.209705] SLOW spr round 6 (radius: 5)
[04:58:32] [worker #1] ML tree search #10, logLikelihood: -193183.714580
[04:58:38 -193178.209704] SLOW spr round 7 (radius: 10)
[05:00:33 -193178.209704] SLOW spr round 8 (radius: 15)
[05:03:41 -193178.209704] SLOW spr round 9 (radius: 20)
[05:07:43 -193178.209704] SLOW spr round 10 (radius: 25)
[05:12:35 -193178.209704] Model parameter optimization (eps = 0.100000)

[05:12:40] [worker #0] ML tree search #11, logLikelihood: -193178.148772

[05:12:40 -658808.025184] Initial branch length optimization
[05:12:47 -544625.587874] Model parameter optimization (eps = 10.000000)
[05:13:33 -541636.361536] AUTODETECT spr round 1 (radius: 5)
[05:15:16 -359075.260658] AUTODETECT spr round 2 (radius: 10)
[05:17:05 -270706.690935] AUTODETECT spr round 3 (radius: 15)
[05:19:06 -228352.771653] AUTODETECT spr round 4 (radius: 20)
[05:21:28 -221508.048009] AUTODETECT spr round 5 (radius: 25)
[05:24:14 -215746.760340] SPR radius for FAST iterations: 25 (autodetect)
[05:24:14 -215746.760340] Model parameter optimization (eps = 3.000000)
[05:24:38 -215610.739247] FAST spr round 1 (radius: 25)
[05:27:10 -194172.835848] FAST spr round 2 (radius: 25)
[05:29:04 -193319.362616] FAST spr round 3 (radius: 25)
[05:30:36 -193292.757430] FAST spr round 4 (radius: 25)
[05:31:59 -193279.807312] FAST spr round 5 (radius: 25)
[05:33:17 -193278.645299] FAST spr round 6 (radius: 25)
[05:34:33 -193278.630205] Model parameter optimization (eps = 1.000000)
[05:34:49 -193267.994819] SLOW spr round 1 (radius: 5)
[05:36:43 -193194.143697] SLOW spr round 2 (radius: 5)
[05:38:33 -193184.407450] SLOW spr round 3 (radius: 5)
[05:40:17 -193182.765228] SLOW spr round 4 (radius: 5)
[05:42:00 -193182.765217] SLOW spr round 5 (radius: 10)
[05:43:47 -193182.102977] SLOW spr round 6 (radius: 5)
[05:45:58 -193181.822980] SLOW spr round 7 (radius: 5)
[05:47:53 -193181.820442] SLOW spr round 8 (radius: 10)
[05:49:43 -193181.819213] SLOW spr round 9 (radius: 15)
[05:52:43 -193177.102504] SLOW spr round 10 (radius: 5)
[05:54:59 -193177.091949] SLOW spr round 11 (radius: 10)
[05:57:07 -193177.088159] SLOW spr round 12 (radius: 15)
[06:00:00 -193177.086755] SLOW spr round 13 (radius: 20)
[06:04:05 -193177.086281] SLOW spr round 14 (radius: 25)
[06:08:31 -193177.086132] Model parameter optimization (eps = 0.100000)

[06:08:47] [worker #0] ML tree search #13, logLikelihood: -193175.044422

[06:08:47 -659000.825180] Initial branch length optimization
[06:08:52 -549403.851493] Model parameter optimization (eps = 10.000000)
[06:09:25 -546581.077206] AUTODETECT spr round 1 (radius: 5)
[06:10:59] [worker #1] ML tree search #12, logLikelihood: -193183.101817
[06:11:06 -369911.451565] AUTODETECT spr round 2 (radius: 10)
[06:12:59 -274185.678627] AUTODETECT spr round 3 (radius: 15)
[06:15:03 -242008.082608] AUTODETECT spr round 4 (radius: 20)
[06:17:28 -229578.805912] AUTODETECT spr round 5 (radius: 25)
[06:20:12 -222700.073475] SPR radius for FAST iterations: 25 (autodetect)
[06:20:12 -222700.073475] Model parameter optimization (eps = 3.000000)
[06:20:31 -222626.085812] FAST spr round 1 (radius: 25)
[06:22:56 -194745.298354] FAST spr round 2 (radius: 25)
[06:24:51 -193421.925645] FAST spr round 3 (radius: 25)
[06:26:33 -193310.354077] FAST spr round 4 (radius: 25)
[06:28:00 -193298.488799] FAST spr round 5 (radius: 25)
[06:29:22 -193293.219675] FAST spr round 6 (radius: 25)
[06:30:42 -193293.218651] Model parameter optimization (eps = 1.000000)
[06:30:58 -193275.012773] SLOW spr round 1 (radius: 5)
[06:32:59 -193198.357387] SLOW spr round 2 (radius: 5)
[06:34:54 -193193.218427] SLOW spr round 3 (radius: 5)
[06:36:43 -193191.575042] SLOW spr round 4 (radius: 5)
[06:38:29 -193191.573879] SLOW spr round 5 (radius: 10)
[06:40:18 -193185.067422] SLOW spr round 6 (radius: 5)
[06:42:33 -193184.159816] SLOW spr round 7 (radius: 5)
[06:44:30 -193184.158936] SLOW spr round 8 (radius: 10)
[06:46:24 -193182.009697] SLOW spr round 9 (radius: 5)
[06:48:37 -193181.549431] SLOW spr round 10 (radius: 5)
[06:50:33 -193181.547965] SLOW spr round 11 (radius: 10)
[06:52:25 -193181.547612] SLOW spr round 12 (radius: 15)
[06:55:19 -193181.547524] SLOW spr round 13 (radius: 20)
[06:59:11 -193181.547502] SLOW spr round 14 (radius: 25)
[07:03:40 -193181.547496] Model parameter optimization (eps = 0.100000)

[07:04:04] [worker #0] ML tree search #15, logLikelihood: -193176.163376

[07:04:04 -655728.442230] Initial branch length optimization
[07:04:10 -542896.220293] Model parameter optimization (eps = 10.000000)
[07:04:47 -539811.425028] AUTODETECT spr round 1 (radius: 5)
[07:06:30 -368901.951482] AUTODETECT spr round 2 (radius: 10)
[07:08:18 -277608.724359] AUTODETECT spr round 3 (radius: 15)
[07:10:21 -224256.753542] AUTODETECT spr round 4 (radius: 20)
[07:11:18] [worker #1] ML tree search #14, logLikelihood: -193187.729026
[07:12:50 -212353.806889] AUTODETECT spr round 5 (radius: 25)
[07:15:27 -210156.449850] SPR radius for FAST iterations: 25 (autodetect)
[07:15:27 -210156.449850] Model parameter optimization (eps = 3.000000)
[07:15:48 -210080.543780] FAST spr round 1 (radius: 25)
[07:18:10 -193939.986099] FAST spr round 2 (radius: 25)
[07:20:01 -193387.758050] FAST spr round 3 (radius: 25)
[07:21:41 -193319.019855] FAST spr round 4 (radius: 25)
[07:23:07 -193310.719319] FAST spr round 5 (radius: 25)
[07:24:25 -193310.719274] Model parameter optimization (eps = 1.000000)
[07:24:41 -193298.354638] SLOW spr round 1 (radius: 5)
[07:26:41 -193226.727790] SLOW spr round 2 (radius: 5)
[07:28:35 -193220.617575] SLOW spr round 3 (radius: 5)
[07:30:24 -193220.431835] SLOW spr round 4 (radius: 5)
[07:32:12 -193220.430062] SLOW spr round 5 (radius: 10)
[07:34:03 -193218.502566] SLOW spr round 6 (radius: 5)
[07:36:20 -193215.041204] SLOW spr round 7 (radius: 5)
[07:38:19 -193213.191782] SLOW spr round 8 (radius: 5)
[07:40:10 -193213.190757] SLOW spr round 9 (radius: 10)
[07:42:04 -193210.597902] SLOW spr round 10 (radius: 5)
[07:44:17 -193210.241634] SLOW spr round 11 (radius: 5)
[07:46:15 -193210.240541] SLOW spr round 12 (radius: 10)
[07:48:10 -193209.938588] SLOW spr round 13 (radius: 5)
[07:50:21 -193209.936447] SLOW spr round 14 (radius: 10)
[07:52:27 -193209.390141] SLOW spr round 15 (radius: 5)
[07:54:38 -193207.811421] SLOW spr round 16 (radius: 5)
[07:56:34 -193207.811003] SLOW spr round 17 (radius: 10)
[07:57:23] [worker #1] ML tree search #16, logLikelihood: -193180.804317
[07:58:31 -193203.160166] SLOW spr round 18 (radius: 5)
[08:00:45 -193202.594164] SLOW spr round 19 (radius: 5)
[08:02:42 -193202.594057] SLOW spr round 20 (radius: 10)
[08:04:36 -193202.594054] SLOW spr round 21 (radius: 15)
[08:07:36 -193202.594054] SLOW spr round 22 (radius: 20)
[08:11:42 -193202.594054] SLOW spr round 23 (radius: 25)
[08:16:33 -193202.594053] Model parameter optimization (eps = 0.100000)

[08:16:49] [worker #0] ML tree search #17, logLikelihood: -193195.073574

[08:16:50 -658427.715755] Initial branch length optimization
[08:16:55 -546277.049578] Model parameter optimization (eps = 10.000000)
[08:17:42 -543555.232131] AUTODETECT spr round 1 (radius: 5)
[08:19:26 -376992.171824] AUTODETECT spr round 2 (radius: 10)
[08:21:20 -285046.962199] AUTODETECT spr round 3 (radius: 15)
[08:23:30 -230396.357585] AUTODETECT spr round 4 (radius: 20)
[08:25:50 -213606.743334] AUTODETECT spr round 5 (radius: 25)
[08:28:34 -210144.140711] SPR radius for FAST iterations: 25 (autodetect)
[08:28:34 -210144.140711] Model parameter optimization (eps = 3.000000)
[08:28:53 -210045.301336] FAST spr round 1 (radius: 25)
[08:31:17 -194100.545506] FAST spr round 2 (radius: 25)
[08:33:07 -193315.464326] FAST spr round 3 (radius: 25)
[08:34:44 -193262.817314] FAST spr round 4 (radius: 25)
[08:36:07 -193254.191329] FAST spr round 5 (radius: 25)
[08:37:24 -193254.189811] Model parameter optimization (eps = 1.000000)
[08:37:41 -193245.575100] SLOW spr round 1 (radius: 5)
[08:39:37 -193185.703382] SLOW spr round 2 (radius: 5)
[08:41:28 -193178.609688] SLOW spr round 3 (radius: 5)
[08:43:12 -193178.607998] SLOW spr round 4 (radius: 10)
[08:45:01 -193177.929164] SLOW spr round 5 (radius: 5)
[08:47:12 -193177.772997] SLOW spr round 6 (radius: 5)
[08:49:07 -193177.772187] SLOW spr round 7 (radius: 10)
[08:50:13] [worker #1] ML tree search #18, logLikelihood: -193185.206551
[08:51:01 -193177.772147] SLOW spr round 8 (radius: 15)
[08:54:01 -193177.772144] SLOW spr round 9 (radius: 20)
[08:57:59 -193177.772143] SLOW spr round 10 (radius: 25)
[09:02:47 -193177.772142] Model parameter optimization (eps = 0.100000)

[09:03:02] [worker #0] ML tree search #19, logLikelihood: -193177.047303

[10:00:56] [worker #1] ML tree search #20, logLikelihood: -193189.895811

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.101346,0.424001) (0.173001,0.449588) (0.381276,0.807113) (0.344377,1.659567) 
   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: -193172.800668

AIC score: 389399.601335 / AICc score: 5055911.601335 / BIC score: 396252.294831
Free parameters (model + branch lengths): 1527

WARNING: Number of free parameters (K=1527) is larger than alignment size (n=657).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q8WZA1/3_mltree/Q8WZA1.raxml.log

Analysis started: 23-Jun-2021 00:19:53 / finished: 23-Jun-2021 10:20:50

Elapsed time: 36056.871 seconds