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 18-Jul-2021 19:19:10 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/2_msa/E7ETH6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6 --seed 2 --threads 7 --tree rand{20} pars{20}

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

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/2_msa/E7ETH6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 563 sites

WARNING: Sequences tr_M3YWT0_M3YWT0_MUSPF_9669 and tr_A0A2U3Y1N2_A0A2U3Y1N2_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3YWT0_M3YWT0_MUSPF_9669 and tr_A0A2Y9KFZ4_A0A2Y9KFZ4_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_A0A2I2Z5M2_A0A2I2Z5M2_GORGO_9595 and tr_A0A2J8SJ28_A0A2J8SJ28_PONAB_9601 are exactly identical!
WARNING: Sequences tr_A0A2I2ZTG0_A0A2I2ZTG0_GORGO_9595 and sp_P17036_ZNF3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QM58_G3QM58_GORGO_9595 and tr_H2PSX1_H2PSX1_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3QM58_G3QM58_GORGO_9595 and tr_H2R6I1_H2R6I1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QM58_G3QM58_GORGO_9595 and sp_O75820_ZN189_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QM58_G3QM58_GORGO_9595 and tr_F6SES3_F6SES3_CALJA_9483 are exactly identical!
WARNING: Sequences tr_G3QM58_G3QM58_GORGO_9595 and tr_A0A2R9AYB6_A0A2R9AYB6_PANPA_9597 are exactly identical!
WARNING: Sequences sp_Q5REA0_ZN331_PONAB_9601 and sp_Q9NQX6_ZN331_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3SRP6_A0A2I3SRP6_PANTR_9598 and tr_A0A2R9A2F1_A0A2R9A2F1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3TWI2_A0A2I3TWI2_PANTR_9598 and tr_A0A2R9C949_A0A2R9C949_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2J8JDP3_A0A2J8JDP3_PANTR_9598 and tr_A0A2R8ZR33_A0A2R8ZR33_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2R0W5_H2R0W5_PANTR_9598 and tr_A0A2R9BGK0_A0A2R9BGK0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_K7D7J1_K7D7J1_PANTR_9598 and tr_A0A2R9APT9_A0A2R9APT9_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A1D5Q092_A0A1D5Q092_MACMU_9544 and tr_G7PZ38_G7PZ38_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5Q092_A0A1D5Q092_MACMU_9544 and tr_A0A0A0MVV1_A0A0A0MVV1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q092_A0A1D5Q092_MACMU_9544 and tr_A0A2K5P4U7_A0A2K5P4U7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5Q092_A0A1D5Q092_MACMU_9544 and tr_A0A2K6CGA3_A0A2K6CGA3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6SAQ2_F6SAQ2_MACMU_9544 and tr_G7PZ87_G7PZ87_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6TL94_F6TL94_MACMU_9544 and tr_G7P0C3_G7P0C3_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6TL94_F6TL94_MACMU_9544 and tr_A0A2K6DHH7_A0A2K6DHH7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6VJ66_F6VJ66_MACMU_9544 and tr_G7PZA9_G7PZA9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6X482_F6X482_MACMU_9544 and tr_A0A2K6C6G6_A0A2K6C6G6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GDG2_F7GDG2_MACMU_9544 and tr_A0A096MVU8_A0A096MVU8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7GDG2_F7GDG2_MACMU_9544 and tr_A0A0D9S896_A0A0D9S896_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7GDG2_F7GDG2_MACMU_9544 and tr_A0A2K5LPR7_A0A2K5LPR7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7GDG2_F7GDG2_MACMU_9544 and tr_A0A2K6BKJ1_A0A2K6BKJ1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H9ERQ6_H9ERQ6_MACMU_9544 and tr_A0A2K6D8Q9_A0A2K6D8Q9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1LSL0_G1LSL0_AILME_9646 and tr_A0A384CDE3_A0A384CDE3_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G7PRT6_G7PRT6_MACFA_9541 and tr_A0A2K5KKJ7_A0A2K5KKJ7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7PRT6_G7PRT6_MACFA_9541 and tr_A0A2K6E2Z0_A0A2K6E2Z0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7PRT6_G7PRT6_MACFA_9541 and tr_A0A2K5YQK9_A0A2K5YQK9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G7PZ91_G7PZ91_MACFA_9541 and tr_A0A2K6DD16_A0A2K6DD16_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A096MQ78_A0A096MQ78_PAPAN_9555 and tr_A0A2K5ZGD5_A0A2K5ZGD5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A096P472_A0A096P472_PAPAN_9555 and tr_A0A2K5ZDY2_A0A2K5ZDY2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A0A0MVK3_A0A0A0MVK3_PAPAN_9555 and tr_A0A2K6BJ33_A0A2K6BJ33_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3M7K3_A0A2I3M7K3_PAPAN_9555 and tr_A0A2K6C3V2_A0A2K6C3V2_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3M7K3_A0A2I3M7K3_PAPAN_9555 and tr_A0A2K5YCM2_A0A2K5YCM2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2K5KL85_A0A2K5KL85_CERAT_9531 and tr_A0A2K6A1X2_A0A2K6A1X2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2U4CGU5_A0A2U4CGU5_TURTR_9739 and tr_A0A2Y9QA60_A0A2Y9QA60_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U3ZRA2_A0A2U3ZRA2_ODORO_9708 and tr_A0A2U3ZSB0_A0A2U3ZSB0_ODORO_9708 are exactly identical!
WARNING: Sequences tr_A0A2Y9LKY1_A0A2Y9LKY1_DELLE_9749 and tr_A0A383ZJ36_A0A383ZJ36_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 43

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.reduced.phy

Alignment comprises 1 partitions and 563 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 563 / 563
Gaps: 15.84 %
Invariant sites: 0.36 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.rba

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

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

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 81 / 6480
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -778253.162433] Initial branch length optimization
[00:00:03 -691202.315890] Model parameter optimization (eps = 10.000000)
[00:00:55 -687908.673106] AUTODETECT spr round 1 (radius: 5)
[00:02:58 -549031.633051] AUTODETECT spr round 2 (radius: 10)
[00:05:13 -362679.536224] AUTODETECT spr round 3 (radius: 15)
[00:07:34 -271896.767932] AUTODETECT spr round 4 (radius: 20)
[00:10:32 -261120.556658] AUTODETECT spr round 5 (radius: 25)
[00:14:38 -260582.534541] SPR radius for FAST iterations: 25 (autodetect)
[00:14:38 -260582.534541] Model parameter optimization (eps = 3.000000)
[00:14:54 -260447.186861] FAST spr round 1 (radius: 25)
[00:17:00 -229219.349500] FAST spr round 2 (radius: 25)
[00:18:50 -227916.267394] FAST spr round 3 (radius: 25)
[00:20:33 -227800.493233] FAST spr round 4 (radius: 25)
[00:22:05 -227787.445285] FAST spr round 5 (radius: 25)
[00:23:33 -227784.658345] FAST spr round 6 (radius: 25)
[00:25:01 -227779.641663] FAST spr round 7 (radius: 25)
[00:26:28 -227779.641571] Model parameter optimization (eps = 1.000000)
[00:26:42 -227767.464930] SLOW spr round 1 (radius: 5)
[00:28:36 -227708.913402] SLOW spr round 2 (radius: 5)
[00:30:28 -227687.121156] SLOW spr round 3 (radius: 5)
[00:32:15 -227686.793107] SLOW spr round 4 (radius: 5)
[00:34:03 -227686.791579] SLOW spr round 5 (radius: 10)
[00:35:55 -227686.630619] SLOW spr round 6 (radius: 5)
[00:38:16 -227686.630454] SLOW spr round 7 (radius: 10)
[00:40:23 -227686.630453] SLOW spr round 8 (radius: 15)
[00:43:24 -227686.630453] SLOW spr round 9 (radius: 20)
[00:49:20 -227686.630453] SLOW spr round 10 (radius: 25)
[00:57:17 -227686.630453] Model parameter optimization (eps = 0.100000)

[00:57:25] ML tree search #1, logLikelihood: -227686.526241

[00:57:25 -779602.026395] Initial branch length optimization
[00:57:28 -691535.654964] Model parameter optimization (eps = 10.000000)
[00:58:00 -688239.267330] AUTODETECT spr round 1 (radius: 5)
[01:00:03 -556241.882634] AUTODETECT spr round 2 (radius: 10)
[01:02:12 -347629.740829] AUTODETECT spr round 3 (radius: 15)
[01:04:29 -278858.812022] AUTODETECT spr round 4 (radius: 20)
[01:07:13 -260510.515875] AUTODETECT spr round 5 (radius: 25)
[01:10:43 -258072.092828] SPR radius for FAST iterations: 25 (autodetect)
[01:10:43 -258072.092828] Model parameter optimization (eps = 3.000000)
[01:11:04 -257939.248832] FAST spr round 1 (radius: 25)
[01:13:14 -229016.090318] FAST spr round 2 (radius: 25)
[01:15:01 -227812.444224] FAST spr round 3 (radius: 25)
[01:16:37 -227774.422132] FAST spr round 4 (radius: 25)
[01:18:07 -227774.421255] Model parameter optimization (eps = 1.000000)
[01:18:22 -227757.080003] SLOW spr round 1 (radius: 5)
[01:20:21 -227694.070138] SLOW spr round 2 (radius: 5)
[01:22:14 -227693.174565] SLOW spr round 3 (radius: 5)
[01:24:04 -227693.174484] SLOW spr round 4 (radius: 10)
[01:25:56 -227691.398580] SLOW spr round 5 (radius: 5)
[01:28:10 -227684.919609] SLOW spr round 6 (radius: 5)
[01:30:07 -227684.919596] SLOW spr round 7 (radius: 10)
[01:32:01 -227684.205644] SLOW spr round 8 (radius: 5)
[01:34:13 -227683.546320] SLOW spr round 9 (radius: 5)
[01:36:12 -227683.546105] SLOW spr round 10 (radius: 10)
[01:38:15 -227683.546105] SLOW spr round 11 (radius: 15)
[01:41:39 -227683.546105] SLOW spr round 12 (radius: 20)
[01:47:43 -227683.546105] SLOW spr round 13 (radius: 25)
[01:55:06 -227683.546105] Model parameter optimization (eps = 0.100000)

[01:55:16] ML tree search #2, logLikelihood: -227683.391981

[01:55:16 -777109.118968] Initial branch length optimization
[01:55:19 -689811.298418] Model parameter optimization (eps = 10.000000)
[01:55:59 -686478.573034] AUTODETECT spr round 1 (radius: 5)
[01:57:59 -554591.634876] AUTODETECT spr round 2 (radius: 10)
[02:00:08 -342708.315148] AUTODETECT spr round 3 (radius: 15)
[02:02:24 -273836.107797] AUTODETECT spr round 4 (radius: 20)
[02:05:08 -261082.011057] AUTODETECT spr round 5 (radius: 25)
[02:08:23 -259719.115796] SPR radius for FAST iterations: 25 (autodetect)
[02:08:23 -259719.115796] Model parameter optimization (eps = 3.000000)
[02:08:47 -259401.481062] FAST spr round 1 (radius: 25)
[02:10:54 -228762.552961] FAST spr round 2 (radius: 25)
[02:12:44 -227824.225471] FAST spr round 3 (radius: 25)
[02:14:23 -227777.434699] FAST spr round 4 (radius: 25)
[02:15:53 -227777.434273] Model parameter optimization (eps = 1.000000)
[02:16:10 -227762.601424] SLOW spr round 1 (radius: 5)
[02:18:07 -227715.242123] SLOW spr round 2 (radius: 5)
[02:19:57 -227714.612986] SLOW spr round 3 (radius: 5)
[02:21:44 -227714.612183] SLOW spr round 4 (radius: 10)
[02:23:38 -227714.417256] SLOW spr round 5 (radius: 5)
[02:25:55 -227696.433831] SLOW spr round 6 (radius: 5)
[02:27:58 -227688.267621] SLOW spr round 7 (radius: 5)
[02:29:51 -227688.267587] SLOW spr round 8 (radius: 10)
[02:31:42 -227688.267587] SLOW spr round 9 (radius: 15)
[02:34:53 -227688.267587] SLOW spr round 10 (radius: 20)
[02:40:42 -227688.267587] SLOW spr round 11 (radius: 25)
[02:47:57 -227688.267587] Model parameter optimization (eps = 0.100000)

[02:48:06] ML tree search #3, logLikelihood: -227688.099918

[02:48:06 -780927.700752] Initial branch length optimization
[02:48:09 -692156.533109] Model parameter optimization (eps = 10.000000)
[02:48:39 -688669.561500] AUTODETECT spr round 1 (radius: 5)
[02:50:44 -568573.378960] AUTODETECT spr round 2 (radius: 10)
[02:53:18 -373689.072272] AUTODETECT spr round 3 (radius: 15)
[02:55:43 -285249.045870] AUTODETECT spr round 4 (radius: 20)
[02:58:39 -266802.657567] AUTODETECT spr round 5 (radius: 25)
[03:02:24 -262709.931195] SPR radius for FAST iterations: 25 (autodetect)
[03:02:24 -262709.931195] Model parameter optimization (eps = 3.000000)
[03:02:44 -262592.649568] FAST spr round 1 (radius: 25)
[03:04:54 -229113.065374] FAST spr round 2 (radius: 25)
[03:06:42 -227878.431459] FAST spr round 3 (radius: 25)
[03:08:25 -227812.024404] FAST spr round 4 (radius: 25)
[03:10:03 -227778.324358] FAST spr round 5 (radius: 25)
[03:11:34 -227773.768376] FAST spr round 6 (radius: 25)
[03:13:06 -227772.522588] FAST spr round 7 (radius: 25)
[03:14:36 -227772.522512] Model parameter optimization (eps = 1.000000)
[03:14:52 -227754.772609] SLOW spr round 1 (radius: 5)
[03:16:45 -227696.829391] SLOW spr round 2 (radius: 5)
[03:18:34 -227695.366969] SLOW spr round 3 (radius: 5)
[03:20:20 -227695.366903] SLOW spr round 4 (radius: 10)
[03:22:11 -227692.541530] SLOW spr round 5 (radius: 5)
[03:24:22 -227692.541329] SLOW spr round 6 (radius: 10)
[03:26:20 -227692.541328] SLOW spr round 7 (radius: 15)
[03:29:26 -227690.450238] SLOW spr round 8 (radius: 5)
[03:31:47 -227683.937524] SLOW spr round 9 (radius: 5)
[03:33:49 -227679.959090] SLOW spr round 10 (radius: 5)
[03:35:43 -227679.959013] SLOW spr round 11 (radius: 10)
[03:37:36 -227679.959013] SLOW spr round 12 (radius: 15)
[03:40:47 -227679.959013] SLOW spr round 13 (radius: 20)
[03:46:31 -227679.959013] SLOW spr round 14 (radius: 25)
[03:53:44 -227679.959013] Model parameter optimization (eps = 0.100000)

[03:53:57] ML tree search #4, logLikelihood: -227677.858691

[03:53:57 -780925.749598] Initial branch length optimization
[03:54:00 -692961.193719] Model parameter optimization (eps = 10.000000)
[03:54:31 -689457.654500] AUTODETECT spr round 1 (radius: 5)
[03:56:31 -556662.767933] AUTODETECT spr round 2 (radius: 10)
[03:58:45 -349983.054002] AUTODETECT spr round 3 (radius: 15)
[04:00:53 -277790.904016] AUTODETECT spr round 4 (radius: 20)
[04:03:49 -264517.863680] AUTODETECT spr round 5 (radius: 25)
[04:07:29 -261892.914975] SPR radius for FAST iterations: 25 (autodetect)
[04:07:29 -261892.914975] Model parameter optimization (eps = 3.000000)
[04:07:45 -261767.766122] FAST spr round 1 (radius: 25)
[04:09:57 -228889.771112] FAST spr round 2 (radius: 25)
[04:11:44 -227855.598059] FAST spr round 3 (radius: 25)
[04:13:23 -227767.755896] FAST spr round 4 (radius: 25)
[04:14:55 -227762.702481] FAST spr round 5 (radius: 25)
[04:16:23 -227762.702454] Model parameter optimization (eps = 1.000000)
[04:16:37 -227748.199456] SLOW spr round 1 (radius: 5)
[04:18:32 -227709.838571] SLOW spr round 2 (radius: 5)
[04:20:22 -227709.717715] SLOW spr round 3 (radius: 5)
[04:22:10 -227709.717711] SLOW spr round 4 (radius: 10)
[04:24:01 -227709.717711] SLOW spr round 5 (radius: 15)
[04:27:13 -227709.717711] SLOW spr round 6 (radius: 20)
[04:32:41 -227709.717711] SLOW spr round 7 (radius: 25)
[04:39:44 -227709.717711] Model parameter optimization (eps = 0.100000)

[04:39:51] ML tree search #5, logLikelihood: -227709.646586

[04:39:51 -779729.246995] Initial branch length optimization
[04:39:55 -693394.618876] Model parameter optimization (eps = 10.000000)
[04:40:22 -689887.578330] AUTODETECT spr round 1 (radius: 5)
[04:42:23 -553633.492773] AUTODETECT spr round 2 (radius: 10)
[04:44:39 -358127.845887] AUTODETECT spr round 3 (radius: 15)
[04:46:58 -277322.819392] AUTODETECT spr round 4 (radius: 20)
[04:49:51 -262487.829797] AUTODETECT spr round 5 (radius: 25)
[04:53:30 -261566.648176] SPR radius for FAST iterations: 25 (autodetect)
[04:53:30 -261566.648176] Model parameter optimization (eps = 3.000000)
[04:53:46 -261440.650191] FAST spr round 1 (radius: 25)
[04:55:58 -228986.825522] FAST spr round 2 (radius: 25)
[04:57:46 -227786.845333] FAST spr round 3 (radius: 25)
[04:59:25 -227754.028885] FAST spr round 4 (radius: 25)
[05:00:56 -227749.029401] FAST spr round 5 (radius: 25)
[05:02:23 -227749.029237] Model parameter optimization (eps = 1.000000)
[05:02:37 -227740.145068] SLOW spr round 1 (radius: 5)
[05:04:33 -227708.255485] SLOW spr round 2 (radius: 5)
[05:06:23 -227707.820272] SLOW spr round 3 (radius: 5)
[05:08:10 -227707.820217] SLOW spr round 4 (radius: 10)
[05:10:03 -227707.820217] SLOW spr round 5 (radius: 15)
[05:13:17 -227707.820217] SLOW spr round 6 (radius: 20)
[05:19:13 -227707.820217] SLOW spr round 7 (radius: 25)
[05:26:32 -227707.820217] Model parameter optimization (eps = 0.100000)

[05:26:45] ML tree search #6, logLikelihood: -227705.809503

[05:26:46 -779612.914274] Initial branch length optimization
[05:26:48 -692452.323123] Model parameter optimization (eps = 10.000000)
[05:27:23 -689072.630124] AUTODETECT spr round 1 (radius: 5)
[05:29:23 -553052.314476] AUTODETECT spr round 2 (radius: 10)
[05:31:36 -340900.917668] AUTODETECT spr round 3 (radius: 15)
[05:33:49 -271225.694395] AUTODETECT spr round 4 (radius: 20)
[05:36:31 -261768.790633] AUTODETECT spr round 5 (radius: 25)
[05:40:04 -261553.247281] SPR radius for FAST iterations: 25 (autodetect)
[05:40:04 -261553.247281] Model parameter optimization (eps = 3.000000)
[05:40:20 -261427.030614] FAST spr round 1 (radius: 25)
[05:42:29 -229051.494120] FAST spr round 2 (radius: 25)
[05:44:19 -227868.496654] FAST spr round 3 (radius: 25)
[05:45:59 -227797.522463] FAST spr round 4 (radius: 25)
[05:47:32 -227781.952524] FAST spr round 5 (radius: 25)
[05:49:00 -227781.952439] Model parameter optimization (eps = 1.000000)
[05:49:15 -227773.771974] SLOW spr round 1 (radius: 5)
[05:51:15 -227724.855638] SLOW spr round 2 (radius: 5)
[05:53:08 -227719.422429] SLOW spr round 3 (radius: 5)
[05:54:58 -227715.482044] SLOW spr round 4 (radius: 5)
[05:56:47 -227715.482011] SLOW spr round 5 (radius: 10)
[05:58:38 -227715.482011] SLOW spr round 6 (radius: 15)
[06:01:56 -227715.482011] SLOW spr round 7 (radius: 20)
[06:07:40 -227715.482011] SLOW spr round 8 (radius: 25)
[06:14:50 -227715.482011] Model parameter optimization (eps = 0.100000)

[06:15:02] ML tree search #7, logLikelihood: -227711.807700

[06:15:02 -777824.658362] Initial branch length optimization
[06:15:05 -690391.607661] Model parameter optimization (eps = 10.000000)
[06:15:38 -686931.312615] AUTODETECT spr round 1 (radius: 5)
[06:17:37 -552814.100134] AUTODETECT spr round 2 (radius: 10)
[06:19:52 -341404.822813] AUTODETECT spr round 3 (radius: 15)
[06:22:09 -273630.846385] AUTODETECT spr round 4 (radius: 20)
[06:25:12 -261867.434050] AUTODETECT spr round 5 (radius: 25)
[06:28:53 -261022.529301] SPR radius for FAST iterations: 25 (autodetect)
[06:28:53 -261022.529301] Model parameter optimization (eps = 3.000000)
[06:29:10 -260883.731310] FAST spr round 1 (radius: 25)
[06:31:18 -229743.044188] FAST spr round 2 (radius: 25)
[06:33:05 -227873.973429] FAST spr round 3 (radius: 25)
[06:34:43 -227807.932087] FAST spr round 4 (radius: 25)
[06:36:13 -227795.704085] FAST spr round 5 (radius: 25)
[06:37:41 -227790.917956] FAST spr round 6 (radius: 25)
[06:39:08 -227787.616173] FAST spr round 7 (radius: 25)
[06:40:33 -227787.614624] Model parameter optimization (eps = 1.000000)
[06:40:53 -227780.059094] SLOW spr round 1 (radius: 5)
[06:42:45 -227724.077328] SLOW spr round 2 (radius: 5)
[06:44:36 -227712.271463] SLOW spr round 3 (radius: 5)
[06:46:22 -227712.271436] SLOW spr round 4 (radius: 10)
[06:48:10 -227710.335637] SLOW spr round 5 (radius: 5)
[06:50:19 -227709.109885] SLOW spr round 6 (radius: 5)
[06:52:15 -227708.646363] SLOW spr round 7 (radius: 5)
[06:54:04 -227708.646363] SLOW spr round 8 (radius: 10)
[06:55:53 -227708.646363] SLOW spr round 9 (radius: 15)
[06:59:05 -227708.646363] SLOW spr round 10 (radius: 20)
[07:04:48 -227708.646363] SLOW spr round 11 (radius: 25)
[07:12:06 -227708.646363] Model parameter optimization (eps = 0.100000)

[07:12:18] ML tree search #8, logLikelihood: -227706.840030

[07:12:18 -780349.985483] Initial branch length optimization
[07:12:21 -691321.544680] Model parameter optimization (eps = 10.000000)
[07:12:54 -687937.313403] AUTODETECT spr round 1 (radius: 5)
[07:14:54 -551067.643728] AUTODETECT spr round 2 (radius: 10)
[07:17:04 -353563.567811] AUTODETECT spr round 3 (radius: 15)
[07:19:15 -279698.970505] AUTODETECT spr round 4 (radius: 20)
[07:22:04 -264212.836027] AUTODETECT spr round 5 (radius: 25)
[07:25:30 -259240.701998] SPR radius for FAST iterations: 25 (autodetect)
[07:25:30 -259240.701998] Model parameter optimization (eps = 3.000000)
[07:25:52 -259115.826073] FAST spr round 1 (radius: 25)
[07:28:00 -229012.612614] FAST spr round 2 (radius: 25)
[07:29:46 -227875.460542] FAST spr round 3 (radius: 25)
[07:31:25 -227791.065285] FAST spr round 4 (radius: 25)
[07:32:56 -227770.790815] FAST spr round 5 (radius: 25)
[07:34:23 -227770.790799] Model parameter optimization (eps = 1.000000)
[07:34:34 -227767.347987] SLOW spr round 1 (radius: 5)
[07:36:29 -227704.127323] SLOW spr round 2 (radius: 5)
[07:38:17 -227702.037076] SLOW spr round 3 (radius: 5)
[07:40:04 -227702.037019] SLOW spr round 4 (radius: 10)
[07:41:55 -227697.560824] SLOW spr round 5 (radius: 5)
[07:44:04 -227696.311734] SLOW spr round 6 (radius: 5)
[07:46:01 -227695.848225] SLOW spr round 7 (radius: 5)
[07:47:51 -227695.848222] SLOW spr round 8 (radius: 10)
[07:49:41 -227695.848222] SLOW spr round 9 (radius: 15)
[07:52:51 -227695.848222] SLOW spr round 10 (radius: 20)
[07:58:48 -227695.848222] SLOW spr round 11 (radius: 25)
[08:06:10 -227695.848222] Model parameter optimization (eps = 0.100000)

[08:06:22] ML tree search #9, logLikelihood: -227690.729734

[08:06:22 -778606.912642] Initial branch length optimization
[08:06:26 -691758.788480] Model parameter optimization (eps = 10.000000)
[08:06:51 -688274.423217] AUTODETECT spr round 1 (radius: 5)
[08:08:49 -554513.240333] AUTODETECT spr round 2 (radius: 10)
[08:10:57 -362124.225649] AUTODETECT spr round 3 (radius: 15)
[08:13:13 -270115.424997] AUTODETECT spr round 4 (radius: 20)
[08:16:02 -258431.345108] AUTODETECT spr round 5 (radius: 25)
[08:19:16 -257881.116533] SPR radius for FAST iterations: 25 (autodetect)
[08:19:16 -257881.116533] Model parameter optimization (eps = 3.000000)
[08:19:31 -257767.260789] FAST spr round 1 (radius: 25)
[08:21:36 -229009.214310] FAST spr round 2 (radius: 25)
[08:23:23 -227817.702633] FAST spr round 3 (radius: 25)
[08:25:00 -227772.762469] FAST spr round 4 (radius: 25)
[08:26:29 -227764.057564] FAST spr round 5 (radius: 25)
[08:27:55 -227764.056375] Model parameter optimization (eps = 1.000000)
[08:28:09 -227752.341876] SLOW spr round 1 (radius: 5)
[08:30:04 -227695.381030] SLOW spr round 2 (radius: 5)
[08:31:53 -227688.042307] SLOW spr round 3 (radius: 5)
[08:33:39 -227688.042233] SLOW spr round 4 (radius: 10)
[08:35:27 -227685.547165] SLOW spr round 5 (radius: 5)
[08:37:37 -227684.312568] SLOW spr round 6 (radius: 5)
[08:39:33 -227683.849039] SLOW spr round 7 (radius: 5)
[08:41:23 -227683.849038] SLOW spr round 8 (radius: 10)
[08:43:11 -227683.849038] SLOW spr round 9 (radius: 15)
[08:46:23 -227683.849038] SLOW spr round 10 (radius: 20)
[08:52:05 -227683.849038] SLOW spr round 11 (radius: 25)
[08:59:13 -227683.849038] Model parameter optimization (eps = 0.100000)

[08:59:26] ML tree search #10, logLikelihood: -227681.219723

[08:59:26 -781206.230269] Initial branch length optimization
[08:59:29 -692954.344503] Model parameter optimization (eps = 10.000000)
[09:00:00 -689596.662873] AUTODETECT spr round 1 (radius: 5)
[09:01:58 -549886.571945] AUTODETECT spr round 2 (radius: 10)
[09:04:05 -345344.251493] AUTODETECT spr round 3 (radius: 15)
[09:06:25 -270443.951209] AUTODETECT spr round 4 (radius: 20)
[09:09:24 -257394.168960] AUTODETECT spr round 5 (radius: 25)
[09:13:28 -257394.126690] SPR radius for FAST iterations: 20 (autodetect)
[09:13:28 -257394.126690] Model parameter optimization (eps = 3.000000)
[09:13:42 -257286.109737] FAST spr round 1 (radius: 20)
[09:15:46 -229334.255928] FAST spr round 2 (radius: 20)
[09:17:32 -227808.843652] FAST spr round 3 (radius: 20)
[09:19:08 -227740.748061] FAST spr round 4 (radius: 20)
[09:20:35 -227740.186555] FAST spr round 5 (radius: 20)
[09:22:01 -227740.186553] Model parameter optimization (eps = 1.000000)
[09:22:18 -227725.122385] SLOW spr round 1 (radius: 5)
[09:24:12 -227690.940259] SLOW spr round 2 (radius: 5)
[09:25:59 -227690.939622] SLOW spr round 3 (radius: 10)
[09:27:47 -227690.939602] SLOW spr round 4 (radius: 15)
[09:30:56 -227690.939601] SLOW spr round 5 (radius: 20)
[09:36:37 -227690.939601] SLOW spr round 6 (radius: 25)
[09:43:53 -227690.939601] Model parameter optimization (eps = 0.100000)

[09:43:57] ML tree search #11, logLikelihood: -227690.935958

[09:43:57 -779739.305974] Initial branch length optimization
[09:44:00 -691869.688338] Model parameter optimization (eps = 10.000000)
[09:44:31 -688568.686779] AUTODETECT spr round 1 (radius: 5)
[09:46:31 -548566.277606] AUTODETECT spr round 2 (radius: 10)
[09:48:39 -351230.052158] AUTODETECT spr round 3 (radius: 15)
[09:50:53 -273993.092264] AUTODETECT spr round 4 (radius: 20)
[09:53:50 -262566.731534] AUTODETECT spr round 5 (radius: 25)
[09:57:51 -260439.512664] SPR radius for FAST iterations: 25 (autodetect)
[09:57:51 -260439.512664] Model parameter optimization (eps = 3.000000)
[09:58:05 -260342.380576] FAST spr round 1 (radius: 25)
[10:00:14 -228793.323199] FAST spr round 2 (radius: 25)
[10:02:00 -227936.790810] FAST spr round 3 (radius: 25)
[10:03:40 -227813.091224] FAST spr round 4 (radius: 25)
[10:05:14 -227787.037260] FAST spr round 5 (radius: 25)
[10:06:41 -227783.879692] FAST spr round 6 (radius: 25)
[10:08:07 -227783.879541] Model parameter optimization (eps = 1.000000)
[10:08:21 -227775.984055] SLOW spr round 1 (radius: 5)
[10:10:12 -227711.420962] SLOW spr round 2 (radius: 5)
[10:12:01 -227708.687286] SLOW spr round 3 (radius: 5)
[10:13:47 -227708.687254] SLOW spr round 4 (radius: 10)
[10:15:37 -227699.067465] SLOW spr round 5 (radius: 5)
[10:17:46 -227698.792876] SLOW spr round 6 (radius: 5)
[10:19:41 -227698.792870] SLOW spr round 7 (radius: 10)
[10:21:33 -227698.792870] SLOW spr round 8 (radius: 15)
[10:24:39 -227698.792870] SLOW spr round 9 (radius: 20)
[10:30:28 -227698.792870] SLOW spr round 10 (radius: 25)
[10:37:47 -227698.792870] Model parameter optimization (eps = 0.100000)

[10:37:53] ML tree search #12, logLikelihood: -227698.698089

[10:37:54 -779735.833609] Initial branch length optimization
[10:37:57 -692165.478182] Model parameter optimization (eps = 10.000000)
[10:38:25 -688842.710466] AUTODETECT spr round 1 (radius: 5)
[10:40:24 -543740.867560] AUTODETECT spr round 2 (radius: 10)
[10:42:31 -350249.944741] AUTODETECT spr round 3 (radius: 15)
[10:44:45 -268934.686556] AUTODETECT spr round 4 (radius: 20)
[10:47:39 -258248.269688] AUTODETECT spr round 5 (radius: 25)
[10:51:42 -256990.279574] SPR radius for FAST iterations: 25 (autodetect)
[10:51:42 -256990.279574] Model parameter optimization (eps = 3.000000)
[10:51:58 -256867.401477] FAST spr round 1 (radius: 25)
[10:54:06 -229249.065320] FAST spr round 2 (radius: 25)
[10:55:51 -227803.281671] FAST spr round 3 (radius: 25)
[10:57:30 -227737.940460] FAST spr round 4 (radius: 25)
[10:58:59 -227736.025965] FAST spr round 5 (radius: 25)
[11:00:25 -227736.025961] Model parameter optimization (eps = 1.000000)
[11:00:38 -227723.837671] SLOW spr round 1 (radius: 5)
[11:02:32 -227694.986314] SLOW spr round 2 (radius: 5)
[11:04:23 -227681.892578] SLOW spr round 3 (radius: 5)
[11:06:10 -227680.006527] SLOW spr round 4 (radius: 5)
[11:07:57 -227680.006505] SLOW spr round 5 (radius: 10)
[11:09:45 -227680.006505] SLOW spr round 6 (radius: 15)
[11:12:52 -227680.006505] SLOW spr round 7 (radius: 20)
[11:18:23 -227680.006505] SLOW spr round 8 (radius: 25)
[11:25:22 -227680.006505] Model parameter optimization (eps = 0.100000)

[11:25:34] ML tree search #13, logLikelihood: -227679.108799

[11:25:34 -780174.935982] Initial branch length optimization
[11:25:37 -692810.077694] Model parameter optimization (eps = 10.000000)
[11:26:05 -689337.224749] AUTODETECT spr round 1 (radius: 5)
[11:28:04 -551335.063583] AUTODETECT spr round 2 (radius: 10)
[11:30:13 -348170.392888] AUTODETECT spr round 3 (radius: 15)
[11:32:30 -268233.309805] AUTODETECT spr round 4 (radius: 20)
[11:35:22 -256010.567774] AUTODETECT spr round 5 (radius: 25)
[11:38:49 -255430.135329] SPR radius for FAST iterations: 25 (autodetect)
[11:38:49 -255430.135329] Model parameter optimization (eps = 3.000000)
[11:39:10 -255305.366089] FAST spr round 1 (radius: 25)
[11:41:13 -228778.763098] FAST spr round 2 (radius: 25)
[11:42:58 -227911.793543] FAST spr round 3 (radius: 25)
[11:44:38 -227815.326421] FAST spr round 4 (radius: 25)
[11:46:07 -227803.137936] FAST spr round 5 (radius: 25)
[11:47:33 -227803.137515] Model parameter optimization (eps = 1.000000)
[11:47:56 -227775.521036] SLOW spr round 1 (radius: 5)
[11:49:49 -227697.355953] SLOW spr round 2 (radius: 5)
[11:51:38 -227694.824104] SLOW spr round 3 (radius: 5)
[11:53:24 -227694.824075] SLOW spr round 4 (radius: 10)
[11:55:12 -227694.824074] SLOW spr round 5 (radius: 15)
[11:58:23 -227694.824074] SLOW spr round 6 (radius: 20)
[12:04:05 -227694.824074] SLOW spr round 7 (radius: 25)
[12:11:20 -227694.824074] Model parameter optimization (eps = 0.100000)

[12:11:26] ML tree search #14, logLikelihood: -227694.770081

[12:11:26 -779770.625716] Initial branch length optimization
[12:11:29 -692041.237985] Model parameter optimization (eps = 10.000000)
[12:11:59 -688653.271891] AUTODETECT spr round 1 (radius: 5)
[12:13:57 -546174.096828] AUTODETECT spr round 2 (radius: 10)
[12:16:06 -358359.176351] AUTODETECT spr round 3 (radius: 15)
[12:18:21 -269829.419952] AUTODETECT spr round 4 (radius: 20)
[12:21:11 -261737.451068] AUTODETECT spr round 5 (radius: 25)
[12:24:36 -260579.327662] SPR radius for FAST iterations: 25 (autodetect)
[12:24:36 -260579.327662] Model parameter optimization (eps = 3.000000)
[12:24:51 -260455.300975] FAST spr round 1 (radius: 25)
[12:26:59 -229048.195465] FAST spr round 2 (radius: 25)
[12:28:50 -227837.503577] FAST spr round 3 (radius: 25)
[12:30:27 -227769.954414] FAST spr round 4 (radius: 25)
[12:31:56 -227759.549603] FAST spr round 5 (radius: 25)
[12:33:22 -227759.549587] Model parameter optimization (eps = 1.000000)
[12:33:37 -227752.459473] SLOW spr round 1 (radius: 5)
[12:35:30 -227699.507477] SLOW spr round 2 (radius: 5)
[12:37:21 -227692.350623] SLOW spr round 3 (radius: 5)
[12:39:08 -227692.350569] SLOW spr round 4 (radius: 10)
[12:40:56 -227690.395306] SLOW spr round 5 (radius: 5)
[12:43:06 -227689.270940] SLOW spr round 6 (radius: 5)
[12:45:02 -227689.270888] SLOW spr round 7 (radius: 10)
[12:46:53 -227689.270887] SLOW spr round 8 (radius: 15)
[12:50:00 -227687.144605] SLOW spr round 9 (radius: 5)
[12:52:18 -227676.671678] SLOW spr round 10 (radius: 5)
[12:54:17 -227676.671546] SLOW spr round 11 (radius: 10)
[12:56:08 -227676.671545] SLOW spr round 12 (radius: 15)
[12:59:11 -227676.671545] SLOW spr round 13 (radius: 20)
[13:04:45 -227676.671545] SLOW spr round 14 (radius: 25)
[13:11:43 -227676.671545] Model parameter optimization (eps = 0.100000)

[13:11:52] ML tree search #15, logLikelihood: -227676.491488

[13:11:52 -779895.767135] Initial branch length optimization
[13:11:55 -692627.678646] Model parameter optimization (eps = 10.000000)
[13:12:25 -689177.543562] AUTODETECT spr round 1 (radius: 5)
[13:14:24 -544057.401510] AUTODETECT spr round 2 (radius: 10)
[13:16:30 -351664.007904] AUTODETECT spr round 3 (radius: 15)
[13:18:44 -284903.968724] AUTODETECT spr round 4 (radius: 20)
[13:21:37 -264416.635091] AUTODETECT spr round 5 (radius: 25)
[13:25:42 -260999.908895] SPR radius for FAST iterations: 25 (autodetect)
[13:25:42 -260999.908895] Model parameter optimization (eps = 3.000000)
[13:25:59 -260848.517865] FAST spr round 1 (radius: 25)
[13:28:07 -229197.481104] FAST spr round 2 (radius: 25)
[13:29:54 -227972.345867] FAST spr round 3 (radius: 25)
[13:31:36 -227845.413615] FAST spr round 4 (radius: 25)
[13:33:06 -227786.132957] FAST spr round 5 (radius: 25)
[13:34:34 -227776.168966] FAST spr round 6 (radius: 25)
[13:36:00 -227749.533615] FAST spr round 7 (radius: 25)
[13:37:25 -227749.533585] Model parameter optimization (eps = 1.000000)
[13:37:43 -227737.927308] SLOW spr round 1 (radius: 5)
[13:39:33 -227701.401027] SLOW spr round 2 (radius: 5)
[13:41:21 -227697.105028] SLOW spr round 3 (radius: 5)
[13:43:07 -227697.104884] SLOW spr round 4 (radius: 10)
[13:44:55 -227697.104883] SLOW spr round 5 (radius: 15)
[13:48:06 -227697.104883] SLOW spr round 6 (radius: 20)
[13:53:49 -227697.104883] SLOW spr round 7 (radius: 25)
[14:01:08 -227697.104883] Model parameter optimization (eps = 0.100000)

[14:01:16] ML tree search #16, logLikelihood: -227696.849885

[14:01:16 -776329.461014] Initial branch length optimization
[14:01:20 -690797.846098] Model parameter optimization (eps = 10.000000)
[14:01:48 -687489.547681] AUTODETECT spr round 1 (radius: 5)
[14:03:47 -549767.224561] AUTODETECT spr round 2 (radius: 10)
[14:05:58 -357914.722758] AUTODETECT spr round 3 (radius: 15)
[14:08:12 -276823.348880] AUTODETECT spr round 4 (radius: 20)
[14:11:07 -263010.818977] AUTODETECT spr round 5 (radius: 25)
[14:14:48 -261754.677688] SPR radius for FAST iterations: 25 (autodetect)
[14:14:48 -261754.677688] Model parameter optimization (eps = 3.000000)
[14:15:06 -261645.349709] FAST spr round 1 (radius: 25)
[14:17:14 -229128.063503] FAST spr round 2 (radius: 25)
[14:19:01 -227825.777435] FAST spr round 3 (radius: 25)
[14:20:43 -227759.286052] FAST spr round 4 (radius: 25)
[14:22:13 -227747.744619] FAST spr round 5 (radius: 25)
[14:23:40 -227747.743505] Model parameter optimization (eps = 1.000000)
[14:23:54 -227735.276407] SLOW spr round 1 (radius: 5)
[14:25:51 -227699.743344] SLOW spr round 2 (radius: 5)
[14:27:40 -227692.423286] SLOW spr round 3 (radius: 5)
[14:29:27 -227692.423245] SLOW spr round 4 (radius: 10)
[14:31:16 -227692.423244] SLOW spr round 5 (radius: 15)
[14:34:29 -227692.423244] SLOW spr round 6 (radius: 20)
[14:40:08 -227692.423244] SLOW spr round 7 (radius: 25)
[14:47:20 -227692.423244] Model parameter optimization (eps = 0.100000)

[14:47:24] ML tree search #17, logLikelihood: -227692.409636

[14:47:24 -778695.910440] Initial branch length optimization
[14:47:28 -690629.932463] Model parameter optimization (eps = 10.000000)
[14:48:05 -687323.895717] AUTODETECT spr round 1 (radius: 5)
[14:50:05 -549284.477082] AUTODETECT spr round 2 (radius: 10)
[14:52:13 -357311.074774] AUTODETECT spr round 3 (radius: 15)
[14:54:34 -276970.880449] AUTODETECT spr round 4 (radius: 20)
[14:57:37 -262278.815365] AUTODETECT spr round 5 (radius: 25)
[15:01:32 -261793.814326] SPR radius for FAST iterations: 25 (autodetect)
[15:01:32 -261793.814326] Model parameter optimization (eps = 3.000000)
[15:01:54 -261651.761497] FAST spr round 1 (radius: 25)
[15:04:03 -228992.410114] FAST spr round 2 (radius: 25)
[15:05:46 -227885.368509] FAST spr round 3 (radius: 25)
[15:07:22 -227809.011838] FAST spr round 4 (radius: 25)
[15:08:51 -227806.753085] FAST spr round 5 (radius: 25)
[15:10:17 -227806.753039] Model parameter optimization (eps = 1.000000)
[15:10:32 -227792.035814] SLOW spr round 1 (radius: 5)
[15:12:26 -227731.278845] SLOW spr round 2 (radius: 5)
[15:14:18 -227728.449102] SLOW spr round 3 (radius: 5)
[15:16:07 -227722.298616] SLOW spr round 4 (radius: 5)
[15:17:53 -227722.298339] SLOW spr round 5 (radius: 10)
[15:19:43 -227712.567907] SLOW spr round 6 (radius: 5)
[15:21:53 -227711.568676] SLOW spr round 7 (radius: 5)
[15:23:48 -227711.568560] SLOW spr round 8 (radius: 10)
[15:25:41 -227711.181372] SLOW spr round 9 (radius: 5)
[15:27:48 -227711.181352] SLOW spr round 10 (radius: 10)
[15:29:45 -227699.483782] SLOW spr round 11 (radius: 5)
[15:31:53 -227695.773071] SLOW spr round 12 (radius: 5)
[15:33:51 -227692.457122] SLOW spr round 13 (radius: 5)
[15:35:41 -227692.457108] SLOW spr round 14 (radius: 10)
[15:37:32 -227692.457108] SLOW spr round 15 (radius: 15)
[15:40:43 -227692.457108] SLOW spr round 16 (radius: 20)
[15:46:28 -227692.457108] SLOW spr round 17 (radius: 25)
[15:53:36 -227692.457108] Model parameter optimization (eps = 0.100000)

[15:53:40] ML tree search #18, logLikelihood: -227692.370277

[15:53:40 -779455.104141] Initial branch length optimization
[15:53:43 -691453.964755] Model parameter optimization (eps = 10.000000)
[15:54:16 -688141.044536] AUTODETECT spr round 1 (radius: 5)
[15:56:16 -561895.606518] AUTODETECT spr round 2 (radius: 10)
[15:58:34 -358603.971247] AUTODETECT spr round 3 (radius: 15)
[16:00:52 -277433.607661] AUTODETECT spr round 4 (radius: 20)
[16:03:33 -260535.526021] AUTODETECT spr round 5 (radius: 25)
[16:06:49 -258432.127189] SPR radius for FAST iterations: 25 (autodetect)
[16:06:49 -258432.127189] Model parameter optimization (eps = 3.000000)
[16:07:08 -258302.504630] FAST spr round 1 (radius: 25)
[16:09:09 -229100.736436] FAST spr round 2 (radius: 25)
[16:10:53 -227922.554706] FAST spr round 3 (radius: 25)
[16:12:32 -227788.269318] FAST spr round 4 (radius: 25)
[16:14:04 -227765.142598] FAST spr round 5 (radius: 25)
[16:15:32 -227758.485182] FAST spr round 6 (radius: 25)
[16:16:59 -227756.157975] FAST spr round 7 (radius: 25)
[16:18:26 -227756.157968] Model parameter optimization (eps = 1.000000)
[16:18:47 -227747.378850] SLOW spr round 1 (radius: 5)
[16:20:40 -227698.654732] SLOW spr round 2 (radius: 5)
[16:22:30 -227695.018418] SLOW spr round 3 (radius: 5)
[16:24:16 -227695.018103] SLOW spr round 4 (radius: 10)
[16:26:07 -227692.711073] SLOW spr round 5 (radius: 5)
[16:28:17 -227692.711040] SLOW spr round 6 (radius: 10)
[16:30:15 -227692.711040] SLOW spr round 7 (radius: 15)
[16:33:14 -227692.711040] SLOW spr round 8 (radius: 20)
[16:38:59 -227692.711040] SLOW spr round 9 (radius: 25)
[16:46:09 -227692.711040] Model parameter optimization (eps = 0.100000)

[16:46:18] ML tree search #19, logLikelihood: -227692.474715

[16:46:18 -779351.323008] Initial branch length optimization
[16:46:22 -690557.293518] Model parameter optimization (eps = 10.000000)
[16:47:04 -687180.626386] AUTODETECT spr round 1 (radius: 5)
[16:49:04 -559798.790830] AUTODETECT spr round 2 (radius: 10)
[16:51:12 -356270.993326] AUTODETECT spr round 3 (radius: 15)
[16:53:22 -273631.688906] AUTODETECT spr round 4 (radius: 20)
[16:56:34 -258902.850254] AUTODETECT spr round 5 (radius: 25)
[17:00:47 -256789.904162] SPR radius for FAST iterations: 25 (autodetect)
[17:00:47 -256789.904162] Model parameter optimization (eps = 3.000000)
[17:01:03 -256677.666218] FAST spr round 1 (radius: 25)
[17:03:10 -228659.996354] FAST spr round 2 (radius: 25)
[17:04:57 -227856.110493] FAST spr round 3 (radius: 25)
[17:06:34 -227764.068185] FAST spr round 4 (radius: 25)
[17:08:05 -227750.550394] FAST spr round 5 (radius: 25)
[17:09:32 -227748.569834] FAST spr round 6 (radius: 25)
[17:10:58 -227748.569531] Model parameter optimization (eps = 1.000000)
[17:11:17 -227740.129665] SLOW spr round 1 (radius: 5)
[17:13:12 -227696.102540] SLOW spr round 2 (radius: 5)
[17:15:02 -227690.654179] SLOW spr round 3 (radius: 5)
[17:16:52 -227685.149242] SLOW spr round 4 (radius: 5)
[17:18:38 -227685.149227] SLOW spr round 5 (radius: 10)
[17:20:27 -227682.845725] SLOW spr round 6 (radius: 5)
[17:22:36 -227682.845674] SLOW spr round 7 (radius: 10)
[17:24:33 -227682.845671] SLOW spr round 8 (radius: 15)
[17:27:36 -227682.845671] SLOW spr round 9 (radius: 20)
[17:33:28 -227682.845671] SLOW spr round 10 (radius: 25)
[17:40:44 -227682.845671] Model parameter optimization (eps = 0.100000)

[17:40:55] ML tree search #20, logLikelihood: -227682.419089


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.130670,0.329226) (0.121189,0.645280) (0.471833,0.939625) (0.276308,1.575899) 
   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: -227676.491488

AIC score: 459362.982977 / AICc score: 8503422.982977 / BIC score: 468051.208631
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=563).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ETH6/3_mltree/E7ETH6.raxml.log

Analysis started: 18-Jul-2021 19:19:10 / finished: 19-Jul-2021 13:00:06

Elapsed time: 63655.967 seconds