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 03-Jul-2021 23:20:51 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/2_msa/A0A0C4DH41_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41 --seed 2 --threads 2 --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 (2 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/2_msa/A0A0C4DH41_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 89 sites

WARNING: Sequences sp_P01806_HVM36_MOUSE_10090 and sp_P01807_HVM37_MOUSE_10090 are exactly identical!
WARNING: Sequences sp_P01806_HVM36_MOUSE_10090 and sp_P01808_HVM38_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_G1Q2K8_G1Q2K8_MYOLU_59463 and tr_G1Q8L6_G1Q8L6_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_G1QB32_G1QB32_MYOLU_59463 and tr_G1QBC9_G1QBC9_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_G1QBP2_G1QBP2_MYOLU_59463 and tr_G1QG99_G1QG99_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_A0A2I2ZS16_A0A2I2ZS16_GORGO_9595 and sp_A0A0B4J1V2_HV226_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2NMG9_H2NMG9_PONAB_9601 and tr_H2NMK3_H2NMK3_PONAB_9601 are exactly identical!
WARNING: Sequences tr_A0A2I3RT04_A0A2I3RT04_PANTR_9598 and tr_A0A2R9BGQ2_A0A2R9BGQ2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3SLP9_A0A2I3SLP9_PANTR_9598 and tr_A0A2R8ZD36_A0A2R8ZD36_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3TKA3_A0A2I3TKA3_PANTR_9598 and tr_A0A2R8ZT41_A0A2R8ZT41_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2REE2_H2REE2_PANTR_9598 and tr_A0A2R9BPV8_A0A2R9BPV8_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2RIL7_H2RIL7_PANTR_9598 and tr_A0A2R8ZD60_A0A2R8ZD60_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F7B7I0_F7B7I0_ORNAN_9258 and tr_F7DZW1_F7DZW1_ORNAN_9258 are exactly identical!
WARNING: Sequences tr_A0A0G2JYX2_A0A0G2JYX2_RAT_10116 and tr_M0R5S4_M0R5S4_RAT_10116 are exactly identical!
WARNING: Sequences tr_A0A0G2K3L1_A0A0G2K3L1_RAT_10116 and tr_A0A0G2K8C3_A0A0G2K8C3_RAT_10116 are exactly identical!
WARNING: Sequences sp_P01768_HV330_HUMAN_9606 and sp_P01772_HV333_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_P01768_HV330_HUMAN_9606 and sp_P0DP03_HV335_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A1D5QWN5_A0A1D5QWN5_MACMU_9544 and tr_A0A2I3N4K5_A0A2I3N4K5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QWN5_A0A1D5QWN5_MACMU_9544 and tr_A0A2K6AZ28_A0A2K6AZ28_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5RHL0_A0A1D5RHL0_MACMU_9544 and tr_A0A2I3LGI1_A0A2I3LGI1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5RHL0_A0A1D5RHL0_MACMU_9544 and tr_A0A2K6D0G6_A0A2K6D0G6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5RHL0_A0A1D5RHL0_MACMU_9544 and tr_A0A2K5XSZ2_A0A2K5XSZ2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H9H2S9_H9H2S9_MACMU_9544 and tr_G7P8Z3_G7P8Z3_MACFA_9541 are exactly identical!
WARNING: Sequences tr_H9H495_H9H495_MACMU_9544 and tr_G8F4H4_G8F4H4_MACFA_9541 are exactly identical!
WARNING: Sequences tr_K7FF02_K7FF02_PELSI_13735 and tr_K7GGJ2_K7GGJ2_PELSI_13735 are exactly identical!
WARNING: Sequences tr_K7FZ52_K7FZ52_PELSI_13735 and tr_K7G3Z9_K7G3Z9_PELSI_13735 are exactly identical!
WARNING: Sequences tr_A0A1B8Y629_A0A1B8Y629_XENTR_8364 and tr_F7AYR9_F7AYR9_XENTR_8364 are exactly identical!
WARNING: Sequences tr_A0A1B8Y635_A0A1B8Y635_XENTR_8364 and tr_L7N2R3_L7N2R3_XENTR_8364 are exactly identical!
WARNING: Sequences tr_A0A1B8Y640_A0A1B8Y640_XENTR_8364 and tr_F7ANK9_F7ANK9_XENTR_8364 are exactly identical!
WARNING: Sequences tr_A0A1B8Y659_A0A1B8Y659_XENTR_8364 and tr_L7N3Y2_L7N3Y2_XENTR_8364 are exactly identical!
WARNING: Sequences tr_A0A2R8MKX8_A0A2R8MKX8_CALJA_9483 and tr_A0A2R8P841_A0A2R8P841_CALJA_9483 are exactly identical!
WARNING: Sequences tr_A0A096NK93_A0A096NK93_PAPAN_9555 and tr_A0A0D9R9G5_A0A0D9R9G5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1L8HYV3_A0A1L8HYV3_XENLA_8355 and tr_A0A1L8HYX2_A0A1L8HYX2_XENLA_8355 are exactly identical!
WARNING: Duplicate sequences found: 33

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/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.reduced.phy

Alignment comprises 1 partitions and 89 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 89 / 89
Gaps: 0.61 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.rba

Parallelization scheme autoconfig: 2 worker(s) x 1 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 / 89 / 7120
[00:00:00] Data distribution: max. searches per worker: 10

Starting ML tree search with 20 distinct starting trees

[00:00:00 -119254.476537] Initial branch length optimization
[00:00:02 -103571.877093] Model parameter optimization (eps = 10.000000)
[00:00:24 -102952.060714] AUTODETECT spr round 1 (radius: 5)
[00:01:52 -73862.104995] AUTODETECT spr round 2 (radius: 10)
[00:03:27 -58105.238678] AUTODETECT spr round 3 (radius: 15)
[00:05:10 -50383.025688] AUTODETECT spr round 4 (radius: 20)
[00:07:07 -47412.376383] AUTODETECT spr round 5 (radius: 25)
[00:09:18 -44051.543707] SPR radius for FAST iterations: 25 (autodetect)
[00:09:18 -44051.543707] Model parameter optimization (eps = 3.000000)
[00:09:34 -43864.070080] FAST spr round 1 (radius: 25)
[00:11:34 -37264.412015] FAST spr round 2 (radius: 25)
[00:13:04 -36794.948962] FAST spr round 3 (radius: 25)
[00:14:24 -36719.808720] FAST spr round 4 (radius: 25)
[00:15:38 -36713.141160] FAST spr round 5 (radius: 25)
[00:16:49 -36708.555228] FAST spr round 6 (radius: 25)
[00:17:57 -36708.555165] Model parameter optimization (eps = 1.000000)
[00:18:05 -36701.791418] SLOW spr round 1 (radius: 5)
[00:19:37 -36687.492733] SLOW spr round 2 (radius: 5)
[00:21:06 -36684.544631] SLOW spr round 3 (radius: 5)
[00:22:33 -36676.548959] SLOW spr round 4 (radius: 5)
[00:23:58 -36674.638489] SLOW spr round 5 (radius: 5)
[00:25:22 -36674.638372] SLOW spr round 6 (radius: 10)
[00:26:46 -36670.997392] SLOW spr round 7 (radius: 5)
[00:28:27 -36670.966195] SLOW spr round 8 (radius: 10)
[00:30:01 -36668.481975] SLOW spr round 9 (radius: 5)
[00:31:39 -36668.394955] SLOW spr round 10 (radius: 10)
[00:33:10 -36668.227333] SLOW spr round 11 (radius: 5)
[00:34:47 -36668.227311] SLOW spr round 12 (radius: 10)
[00:36:17 -36668.227310] SLOW spr round 13 (radius: 15)
[00:38:20 -36666.589171] SLOW spr round 14 (radius: 5)
[00:40:03 -36664.256543] SLOW spr round 15 (radius: 5)
[00:41:36 -36662.463804] SLOW spr round 16 (radius: 5)
[00:43:03 -36662.009722] SLOW spr round 17 (radius: 5)
[00:44:27 -36662.009719] SLOW spr round 18 (radius: 10)
[00:45:51 -36657.169596] SLOW spr round 19 (radius: 5)
[00:47:31 -36655.809150] SLOW spr round 20 (radius: 5)
[00:49:02 -36655.809105] SLOW spr round 21 (radius: 10)
[00:50:27 -36655.809105] SLOW spr round 22 (radius: 15)
[00:52:39 -36654.430907] SLOW spr round 23 (radius: 5)
[00:54:18 -36654.430907] SLOW spr round 24 (radius: 10)
[00:55:53 -36653.970203] SLOW spr round 25 (radius: 5)
[00:57:30 -36652.528749] SLOW spr round 26 (radius: 5)
[00:59:00 -36652.528749] SLOW spr round 27 (radius: 10)
[01:00:25 -36652.528749] SLOW spr round 28 (radius: 15)
[01:02:37 -36652.528749] SLOW spr round 29 (radius: 20)
[01:04:59 -36650.552821] SLOW spr round 30 (radius: 5)
[01:06:43 -36639.186976] SLOW spr round 31 (radius: 5)
[01:08:18 -36638.891133] SLOW spr round 32 (radius: 5)
[01:09:46 -36638.891130] SLOW spr round 33 (radius: 10)
[01:11:11 -36638.891130] SLOW spr round 34 (radius: 15)
[01:13:25 -36638.891130] SLOW spr round 35 (radius: 20)
[01:15:46 -36638.891130] SLOW spr round 36 (radius: 25)
[01:18:11 -36638.891130] Model parameter optimization (eps = 0.100000)

[01:18:15] [worker #0] ML tree search #1, logLikelihood: -36638.875022

[01:18:15 -120121.263272] Initial branch length optimization
[01:18:17 -105005.305170] Model parameter optimization (eps = 10.000000)
[01:18:38 -104343.065965] AUTODETECT spr round 1 (radius: 5)
[01:19:16] [worker #1] ML tree search #2, logLikelihood: -37372.769813
[01:20:04 -74841.876542] AUTODETECT spr round 2 (radius: 10)
[01:21:41 -58288.282964] AUTODETECT spr round 3 (radius: 15)
[01:23:26 -48213.438386] AUTODETECT spr round 4 (radius: 20)
[01:25:21 -43726.932369] AUTODETECT spr round 5 (radius: 25)
[01:27:35 -43108.676427] SPR radius for FAST iterations: 25 (autodetect)
[01:27:35 -43108.676427] Model parameter optimization (eps = 3.000000)
[01:27:50 -42909.116757] FAST spr round 1 (radius: 25)
[01:29:44 -37883.374535] FAST spr round 2 (radius: 25)
[01:31:13 -37524.925192] FAST spr round 3 (radius: 25)
[01:32:34 -37301.831162] FAST spr round 4 (radius: 25)
[01:33:53 -36946.956824] FAST spr round 5 (radius: 25)
[01:35:09 -36876.804984] FAST spr round 6 (radius: 25)
[01:36:18 -36875.403831] FAST spr round 7 (radius: 25)
[01:37:28 -36874.914058] FAST spr round 8 (radius: 25)
[01:38:37 -36874.914058] Model parameter optimization (eps = 1.000000)
[01:38:51 -36868.597844] SLOW spr round 1 (radius: 5)
[01:40:23 -36859.089264] SLOW spr round 2 (radius: 5)
[01:41:53 -36853.511746] SLOW spr round 3 (radius: 5)
[01:43:19 -36852.683084] SLOW spr round 4 (radius: 5)
[01:44:46 -36850.335761] SLOW spr round 5 (radius: 5)
[01:46:11 -36850.335691] SLOW spr round 6 (radius: 10)
[01:47:37 -36844.334116] SLOW spr round 7 (radius: 5)
[01:49:17 -36844.333765] SLOW spr round 8 (radius: 10)
[01:50:49 -36842.551035] SLOW spr round 9 (radius: 5)
[01:52:28 -36840.564631] SLOW spr round 10 (radius: 5)
[01:53:59 -36840.564621] SLOW spr round 11 (radius: 10)
[01:55:26 -36840.239463] SLOW spr round 12 (radius: 5)
[01:57:08 -36840.239459] SLOW spr round 13 (radius: 10)
[01:58:42 -36839.980691] SLOW spr round 14 (radius: 5)
[02:00:22 -36839.742231] SLOW spr round 15 (radius: 5)
[02:01:55 -36838.717788] SLOW spr round 16 (radius: 5)
[02:03:24 -36835.338597] SLOW spr round 17 (radius: 5)
[02:04:52 -36834.675340] SLOW spr round 18 (radius: 5)
[02:06:17 -36834.675340] SLOW spr round 19 (radius: 10)
[02:07:43 -36827.938388] SLOW spr round 20 (radius: 5)
[02:09:26 -36822.533799] SLOW spr round 21 (radius: 5)
[02:11:01 -36820.694909] SLOW spr round 22 (radius: 5)
[02:12:31 -36817.876807] SLOW spr round 23 (radius: 5)
[02:13:57 -36817.720429] SLOW spr round 24 (radius: 5)
[02:15:22 -36817.720290] SLOW spr round 25 (radius: 10)
[02:16:48 -36815.699259] SLOW spr round 26 (radius: 5)
[02:18:29 -36812.281503] SLOW spr round 27 (radius: 5)
[02:20:01 -36812.281502] SLOW spr round 28 (radius: 10)
[02:21:28 -36812.281501] SLOW spr round 29 (radius: 15)
[02:23:41 -36802.002175] SLOW spr round 30 (radius: 5)
[02:25:25 -36800.619167] SLOW spr round 31 (radius: 5)
[02:26:59 -36800.619167] SLOW spr round 32 (radius: 10)
[02:28:27 -36800.427677] SLOW spr round 33 (radius: 5)
[02:30:06 -36800.427644] SLOW spr round 34 (radius: 10)
[02:31:38 -36800.427644] SLOW spr round 35 (radius: 15)
[02:33:43 -36800.427644] SLOW spr round 36 (radius: 20)
[02:36:22 -36800.427644] SLOW spr round 37 (radius: 25)
[02:39:21 -36799.206038] SLOW spr round 38 (radius: 5)
[02:41:08 -36798.500224] SLOW spr round 39 (radius: 5)
[02:42:43 -36798.500219] SLOW spr round 40 (radius: 10)
[02:44:12 -36797.781031] SLOW spr round 41 (radius: 5)
[02:45:51 -36797.781026] SLOW spr round 42 (radius: 10)
[02:47:23 -36797.781026] SLOW spr round 43 (radius: 15)
[02:49:25 -36797.781026] SLOW spr round 44 (radius: 20)
[02:52:04 -36797.781026] SLOW spr round 45 (radius: 25)
[02:55:03 -36797.781026] Model parameter optimization (eps = 0.100000)

[02:55:12] [worker #0] ML tree search #3, logLikelihood: -36796.770185

[02:55:12 -118406.684783] Initial branch length optimization
[02:55:13 -103747.428477] Model parameter optimization (eps = 10.000000)
[02:55:34 -103115.922560] AUTODETECT spr round 1 (radius: 5)
[02:57:01 -72990.099318] AUTODETECT spr round 2 (radius: 10)
[02:58:37 -55909.144223] AUTODETECT spr round 3 (radius: 15)
[03:00:23 -50017.033616] AUTODETECT spr round 4 (radius: 20)
[03:02:04] [worker #1] ML tree search #4, logLikelihood: -36616.023858
[03:02:19 -45518.711346] AUTODETECT spr round 5 (radius: 25)
[03:04:18 -43616.660000] SPR radius for FAST iterations: 25 (autodetect)
[03:04:18 -43616.660000] Model parameter optimization (eps = 3.000000)
[03:04:33 -43407.710763] FAST spr round 1 (radius: 25)
[03:06:29 -37333.471067] FAST spr round 2 (radius: 25)
[03:08:01 -36791.435027] FAST spr round 3 (radius: 25)
[03:09:24 -36739.081592] FAST spr round 4 (radius: 25)
[03:10:38 -36736.442829] FAST spr round 5 (radius: 25)
[03:11:50 -36736.442283] Model parameter optimization (eps = 1.000000)
[03:11:58 -36733.509746] SLOW spr round 1 (radius: 5)
[03:13:32 -36708.578961] SLOW spr round 2 (radius: 5)
[03:15:02 -36693.602341] SLOW spr round 3 (radius: 5)
[03:16:30 -36685.834973] SLOW spr round 4 (radius: 5)
[03:17:57 -36684.961803] SLOW spr round 5 (radius: 5)
[03:19:21 -36684.961800] SLOW spr round 6 (radius: 10)
[03:20:48 -36681.128814] SLOW spr round 7 (radius: 5)
[03:22:30 -36674.108592] SLOW spr round 8 (radius: 5)
[03:24:02 -36673.593921] SLOW spr round 9 (radius: 5)
[03:25:31 -36671.804147] SLOW spr round 10 (radius: 5)
[03:26:56 -36671.804142] SLOW spr round 11 (radius: 10)
[03:28:21 -36669.284274] SLOW spr round 12 (radius: 5)
[03:30:03 -36669.283040] SLOW spr round 13 (radius: 10)
[03:31:37 -36668.456777] SLOW spr round 14 (radius: 5)
[03:33:17 -36667.376036] SLOW spr round 15 (radius: 5)
[03:34:48 -36667.376031] SLOW spr round 16 (radius: 10)
[03:36:15 -36666.731368] SLOW spr round 17 (radius: 5)
[03:37:55 -36666.731320] SLOW spr round 18 (radius: 10)
[03:39:29 -36665.963692] SLOW spr round 19 (radius: 5)
[03:41:08 -36664.208081] SLOW spr round 20 (radius: 5)
[03:42:40 -36663.146816] SLOW spr round 21 (radius: 5)
[03:44:07 -36663.058681] SLOW spr round 22 (radius: 10)
[03:45:33 -36662.490934] SLOW spr round 23 (radius: 5)
[03:47:15 -36658.303832] SLOW spr round 24 (radius: 5)
[03:48:47 -36658.303831] SLOW spr round 25 (radius: 10)
[03:50:14 -36656.198886] SLOW spr round 26 (radius: 5)
[03:51:53 -36656.197143] SLOW spr round 27 (radius: 10)
[03:53:28 -36653.946648] SLOW spr round 28 (radius: 5)
[03:55:08 -36653.837687] SLOW spr round 29 (radius: 5)
[03:56:41 -36653.112270] SLOW spr round 30 (radius: 5)
[03:58:09 -36653.112128] SLOW spr round 31 (radius: 10)
[03:59:34 -36653.112125] SLOW spr round 32 (radius: 15)
[04:01:50 -36649.217344] SLOW spr round 33 (radius: 5)
[04:03:34 -36647.702296] SLOW spr round 34 (radius: 5)
[04:05:08 -36647.702296] SLOW spr round 35 (radius: 10)
[04:06:38 -36644.863938] SLOW spr round 36 (radius: 5)
[04:08:18 -36643.356841] SLOW spr round 37 (radius: 5)
[04:09:52 -36641.683356] SLOW spr round 38 (radius: 5)
[04:11:20 -36641.682882] SLOW spr round 39 (radius: 10)
[04:12:45 -36641.156264] SLOW spr round 40 (radius: 5)
[04:14:25 -36638.093392] SLOW spr round 41 (radius: 5)
[04:15:56 -36638.093389] SLOW spr round 42 (radius: 10)
[04:17:22 -36638.093389] SLOW spr round 43 (radius: 15)
[04:19:32 -36638.093389] SLOW spr round 44 (radius: 20)
[04:22:07 -36636.897782] SLOW spr round 45 (radius: 5)
[04:23:54 -36626.273871] SLOW spr round 46 (radius: 5)
[04:25:30 -36626.273410] SLOW spr round 47 (radius: 10)
[04:26:56 -36626.273403] SLOW spr round 48 (radius: 15)
[04:29:04 -36626.273402] SLOW spr round 49 (radius: 20)
[04:31:38 -36626.273402] SLOW spr round 50 (radius: 25)
[04:34:29 -36622.564278] SLOW spr round 51 (radius: 5)
[04:36:17 -36613.241507] SLOW spr round 52 (radius: 5)
[04:37:51 -36613.033016] SLOW spr round 53 (radius: 5)
[04:38:45] [worker #1] ML tree search #6, logLikelihood: -36626.449791
[04:39:19 -36613.033011] SLOW spr round 54 (radius: 10)
[04:40:44 -36613.033010] SLOW spr round 55 (radius: 15)
[04:43:02 -36612.900540] SLOW spr round 56 (radius: 5)
[04:44:46 -36612.900509] SLOW spr round 57 (radius: 10)
[04:46:23 -36612.900506] SLOW spr round 58 (radius: 15)
[04:48:28 -36612.900505] SLOW spr round 59 (radius: 20)
[04:51:14 -36612.900505] SLOW spr round 60 (radius: 25)
[04:54:15 -36612.900505] Model parameter optimization (eps = 0.100000)

[04:54:23] [worker #0] ML tree search #5, logLikelihood: -36607.461677

[04:54:23 -119536.139829] Initial branch length optimization
[04:54:25 -104365.834219] Model parameter optimization (eps = 10.000000)
[04:54:41 -103682.256428] AUTODETECT spr round 1 (radius: 5)
[04:56:10 -72581.100305] AUTODETECT spr round 2 (radius: 10)
[04:57:48 -55903.479041] AUTODETECT spr round 3 (radius: 15)
[04:59:38 -46568.841516] AUTODETECT spr round 4 (radius: 20)
[05:01:43 -43346.177894] AUTODETECT spr round 5 (radius: 25)
[05:03:57 -42286.288110] SPR radius for FAST iterations: 25 (autodetect)
[05:03:57 -42286.288110] Model parameter optimization (eps = 3.000000)
[05:04:15 -42087.534687] FAST spr round 1 (radius: 25)
[05:06:11 -37151.170688] FAST spr round 2 (radius: 25)
[05:07:42 -36741.236233] FAST spr round 3 (radius: 25)
[05:09:01 -36713.551688] FAST spr round 4 (radius: 25)
[05:10:16 -36710.834194] FAST spr round 5 (radius: 25)
[05:11:27 -36701.114954] FAST spr round 6 (radius: 25)
[05:12:38 -36697.414955] FAST spr round 7 (radius: 25)
[05:13:46 -36697.414385] Model parameter optimization (eps = 1.000000)
[05:13:54 -36694.864467] SLOW spr round 1 (radius: 5)
[05:15:25 -36682.471905] SLOW spr round 2 (radius: 5)
[05:16:53 -36675.888206] SLOW spr round 3 (radius: 5)
[05:18:18 -36674.361727] SLOW spr round 4 (radius: 5)
[05:19:41 -36674.361594] SLOW spr round 5 (radius: 10)
[05:21:06 -36665.484697] SLOW spr round 6 (radius: 5)
[05:22:45 -36662.544788] SLOW spr round 7 (radius: 5)
[05:24:17 -36662.543038] SLOW spr round 8 (radius: 10)
[05:25:46 -36661.118122] SLOW spr round 9 (radius: 5)
[05:27:28 -36658.607904] SLOW spr round 10 (radius: 5)
[05:29:00 -36658.607333] SLOW spr round 11 (radius: 10)
[05:30:28 -36657.583759] SLOW spr round 12 (radius: 5)
[05:32:08 -36657.583757] SLOW spr round 13 (radius: 10)
[05:33:42 -36657.127953] SLOW spr round 14 (radius: 5)
[05:35:24 -36651.758721] SLOW spr round 15 (radius: 5)
[05:36:54 -36651.758721] SLOW spr round 16 (radius: 10)
[05:38:21 -36651.758721] SLOW spr round 17 (radius: 15)
[05:40:35 -36649.040136] SLOW spr round 18 (radius: 5)
[05:42:19 -36649.040136] SLOW spr round 19 (radius: 10)
[05:43:57 -36648.430894] SLOW spr round 20 (radius: 5)
[05:45:33 -36648.430874] SLOW spr round 21 (radius: 10)
[05:47:03 -36648.430874] SLOW spr round 22 (radius: 15)
[05:49:08 -36648.091931] SLOW spr round 23 (radius: 5)
[05:50:49 -36648.091931] SLOW spr round 24 (radius: 10)
[05:52:26 -36648.091931] SLOW spr round 25 (radius: 15)
[05:54:28 -36646.774601] SLOW spr round 26 (radius: 5)
[05:56:10 -36646.774572] SLOW spr round 27 (radius: 10)
[05:57:48 -36644.215266] SLOW spr round 28 (radius: 5)
[05:59:25 -36644.215256] SLOW spr round 29 (radius: 10)
[06:00:55 -36644.215256] SLOW spr round 30 (radius: 15)
[06:02:59 -36641.402353] SLOW spr round 31 (radius: 5)
[06:04:40 -36641.402334] SLOW spr round 32 (radius: 10)
[06:06:17 -36641.402334] SLOW spr round 33 (radius: 15)
[06:07:37] [worker #1] ML tree search #8, logLikelihood: -36616.693391
[06:08:16 -36641.402334] SLOW spr round 34 (radius: 20)
[06:10:50 -36641.402334] SLOW spr round 35 (radius: 25)
[06:13:34 -36641.070240] SLOW spr round 36 (radius: 5)
[06:15:20 -36641.070239] SLOW spr round 37 (radius: 10)
[06:17:04 -36641.070239] SLOW spr round 38 (radius: 15)
[06:19:06 -36641.070239] SLOW spr round 39 (radius: 20)
[06:21:42 -36641.070239] SLOW spr round 40 (radius: 25)
[06:24:25 -36641.070239] Model parameter optimization (eps = 0.100000)

[06:24:29] [worker #0] ML tree search #7, logLikelihood: -36641.023085

[06:24:29 -119705.345252] Initial branch length optimization
[06:24:31 -104496.320093] Model parameter optimization (eps = 10.000000)
[06:24:59 -103826.115786] AUTODETECT spr round 1 (radius: 5)
[06:26:25 -73065.408031] AUTODETECT spr round 2 (radius: 10)
[06:28:06 -56615.184470] AUTODETECT spr round 3 (radius: 15)
[06:29:54 -48304.791271] AUTODETECT spr round 4 (radius: 20)
[06:31:53 -44845.545203] AUTODETECT spr round 5 (radius: 25)
[06:34:03 -43030.866093] SPR radius for FAST iterations: 25 (autodetect)
[06:34:03 -43030.866093] Model parameter optimization (eps = 3.000000)
[06:34:20 -42827.586813] FAST spr round 1 (radius: 25)
[06:36:25 -37521.112253] FAST spr round 2 (radius: 25)
[06:37:59 -36775.679472] FAST spr round 3 (radius: 25)
[06:39:20 -36723.938157] FAST spr round 4 (radius: 25)
[06:40:36 -36709.035023] FAST spr round 5 (radius: 25)
[06:41:49 -36707.251683] FAST spr round 6 (radius: 25)
[06:42:59 -36707.251649] Model parameter optimization (eps = 1.000000)
[06:43:11 -36704.160603] SLOW spr round 1 (radius: 5)
[06:44:44 -36691.035499] SLOW spr round 2 (radius: 5)
[06:46:13 -36690.982849] SLOW spr round 3 (radius: 10)
[06:47:40 -36683.346357] SLOW spr round 4 (radius: 5)
[06:49:24 -36671.155295] SLOW spr round 5 (radius: 5)
[06:50:59 -36669.170473] SLOW spr round 6 (radius: 5)
[06:52:29 -36668.225690] SLOW spr round 7 (radius: 5)
[06:53:55 -36667.756006] SLOW spr round 8 (radius: 5)
[06:55:21 -36667.755992] SLOW spr round 9 (radius: 10)
[06:56:47 -36664.520881] SLOW spr round 10 (radius: 5)
[06:58:28 -36662.822574] SLOW spr round 11 (radius: 5)
[07:00:00 -36662.821048] SLOW spr round 12 (radius: 10)
[07:01:27 -36661.662328] SLOW spr round 13 (radius: 5)
[07:03:07 -36661.263349] SLOW spr round 14 (radius: 5)
[07:04:38 -36660.921286] SLOW spr round 15 (radius: 5)
[07:06:05 -36660.921211] SLOW spr round 16 (radius: 10)
[07:07:30 -36660.532419] SLOW spr round 17 (radius: 5)
[07:09:10 -36660.531976] SLOW spr round 18 (radius: 10)
[07:10:44 -36660.209149] SLOW spr round 19 (radius: 5)
[07:11:24] [worker #1] ML tree search #10, logLikelihood: -36715.179988
[07:12:23 -36658.425342] SLOW spr round 20 (radius: 5)
[07:13:53 -36658.425342] SLOW spr round 21 (radius: 10)
[07:15:21 -36657.819511] SLOW spr round 22 (radius: 5)
[07:17:02 -36651.432070] SLOW spr round 23 (radius: 5)
[07:18:35 -36651.432034] SLOW spr round 24 (radius: 10)
[07:20:03 -36650.642061] SLOW spr round 25 (radius: 5)
[07:21:44 -36648.146711] SLOW spr round 26 (radius: 5)
[07:23:15 -36648.146697] SLOW spr round 27 (radius: 10)
[07:24:43 -36647.986420] SLOW spr round 28 (radius: 5)
[07:26:22 -36647.986420] SLOW spr round 29 (radius: 10)
[07:27:58 -36647.845009] SLOW spr round 30 (radius: 5)
[07:29:39 -36647.341401] SLOW spr round 31 (radius: 5)
[07:31:10 -36647.341263] SLOW spr round 32 (radius: 10)
[07:32:37 -36647.236735] SLOW spr round 33 (radius: 5)
[07:34:17 -36647.236735] SLOW spr round 34 (radius: 10)
[07:35:52 -36647.236735] SLOW spr round 35 (radius: 15)
[07:37:59 -36647.236735] SLOW spr round 36 (radius: 20)
[07:40:37 -36646.975289] SLOW spr round 37 (radius: 5)
[07:42:24 -36646.349010] SLOW spr round 38 (radius: 5)
[07:43:57 -36646.349000] SLOW spr round 39 (radius: 10)
[07:45:27 -36646.349000] SLOW spr round 40 (radius: 15)
[07:47:35 -36646.349000] SLOW spr round 41 (radius: 20)
[07:50:10 -36646.349000] SLOW spr round 42 (radius: 25)
[07:52:56 -36646.051146] SLOW spr round 43 (radius: 5)
[07:54:40 -36646.051144] SLOW spr round 44 (radius: 10)
[07:56:23 -36646.051144] SLOW spr round 45 (radius: 15)
[07:58:23 -36646.051144] SLOW spr round 46 (radius: 20)
[08:01:00 -36646.051144] SLOW spr round 47 (radius: 25)
[08:03:46 -36646.051144] Model parameter optimization (eps = 0.100000)

[08:03:52] [worker #0] ML tree search #9, logLikelihood: -36645.973055

[08:03:52 -120105.857104] Initial branch length optimization
[08:03:53 -104411.948228] Model parameter optimization (eps = 10.000000)
[08:04:14 -103788.209620] AUTODETECT spr round 1 (radius: 5)
[08:05:39 -74025.617229] AUTODETECT spr round 2 (radius: 10)
[08:07:14 -56563.374448] AUTODETECT spr round 3 (radius: 15)
[08:08:56 -48418.264820] AUTODETECT spr round 4 (radius: 20)
[08:10:59 -44445.088867] AUTODETECT spr round 5 (radius: 25)
[08:13:01 -43047.996067] SPR radius for FAST iterations: 25 (autodetect)
[08:13:01 -43047.996067] Model parameter optimization (eps = 3.000000)
[08:13:17 -42845.092148] FAST spr round 1 (radius: 25)
[08:15:16 -37420.696153] FAST spr round 2 (radius: 25)
[08:16:43 -37137.767574] FAST spr round 3 (radius: 25)
[08:18:02 -37093.435396] FAST spr round 4 (radius: 25)
[08:19:14 -37086.585741] FAST spr round 5 (radius: 25)
[08:20:24 -37082.220843] FAST spr round 6 (radius: 25)
[08:21:32 -37082.220706] Model parameter optimization (eps = 1.000000)
[08:21:40 -37074.480313] SLOW spr round 1 (radius: 5)
[08:23:10 -37058.981715] SLOW spr round 2 (radius: 5)
[08:24:37 -37055.674694] SLOW spr round 3 (radius: 5)
[08:26:02 -37052.628679] SLOW spr round 4 (radius: 5)
[08:27:25 -37052.627902] SLOW spr round 5 (radius: 10)
[08:28:52 -37043.701987] SLOW spr round 6 (radius: 5)
[08:30:34 -37039.788563] SLOW spr round 7 (radius: 5)
[08:32:05 -37039.788563] SLOW spr round 8 (radius: 10)
[08:33:31 -37038.490131] SLOW spr round 9 (radius: 5)
[08:35:11 -37037.760802] SLOW spr round 10 (radius: 5)
[08:36:41 -37037.760731] SLOW spr round 11 (radius: 10)
[08:37:50] [worker #1] ML tree search #12, logLikelihood: -36708.255603
[08:38:08 -37037.445792] SLOW spr round 12 (radius: 5)
[08:39:48 -37034.992230] SLOW spr round 13 (radius: 5)
[08:41:20 -37033.433823] SLOW spr round 14 (radius: 5)
[08:42:47 -37031.470654] SLOW spr round 15 (radius: 5)
[08:44:12 -37031.041040] SLOW spr round 16 (radius: 5)
[08:45:35 -37030.986080] SLOW spr round 17 (radius: 10)
[08:46:59 -37030.693294] SLOW spr round 18 (radius: 5)
[08:48:39 -37030.677680] SLOW spr round 19 (radius: 10)
[08:50:11 -37030.677631] SLOW spr round 20 (radius: 15)
[08:52:10 -37021.607242] SLOW spr round 21 (radius: 5)
[08:53:53 -37021.504230] SLOW spr round 22 (radius: 5)
[08:55:27 -37021.504117] SLOW spr round 23 (radius: 10)
[08:56:53 -37020.511025] SLOW spr round 24 (radius: 5)
[08:58:33 -37020.511020] SLOW spr round 25 (radius: 10)
[09:00:05 -37020.511020] SLOW spr round 26 (radius: 15)
[09:02:09 -37018.702546] SLOW spr round 27 (radius: 5)
[09:03:51 -37018.702546] SLOW spr round 28 (radius: 10)
[09:05:26 -37018.702546] SLOW spr round 29 (radius: 15)
[09:07:29 -37017.910792] SLOW spr round 30 (radius: 5)
[09:09:11 -37017.910150] SLOW spr round 31 (radius: 10)
[09:10:47 -37017.910141] SLOW spr round 32 (radius: 15)
[09:12:49 -37017.469541] SLOW spr round 33 (radius: 5)
[09:14:33 -37017.460926] SLOW spr round 34 (radius: 10)
[09:16:10 -37017.457471] SLOW spr round 35 (radius: 15)
[09:18:14 -37017.457370] SLOW spr round 36 (radius: 20)
[09:20:54 -37017.353513] SLOW spr round 37 (radius: 5)
[09:22:40 -37017.353513] SLOW spr round 38 (radius: 10)
[09:24:21 -37016.979677] SLOW spr round 39 (radius: 5)
[09:26:01 -37016.979677] SLOW spr round 40 (radius: 10)
[09:27:33 -37016.979677] SLOW spr round 41 (radius: 15)
[09:29:40 -37016.979677] SLOW spr round 42 (radius: 20)
[09:32:19 -37016.979677] SLOW spr round 43 (radius: 25)
[09:35:08 -37013.133412] SLOW spr round 44 (radius: 5)
[09:36:57 -37011.526785] SLOW spr round 45 (radius: 5)
[09:38:36 -37009.883526] SLOW spr round 46 (radius: 5)
[09:40:06 -37009.883520] SLOW spr round 47 (radius: 10)
[09:41:33 -37008.657093] SLOW spr round 48 (radius: 5)
[09:43:14 -37008.657090] SLOW spr round 49 (radius: 10)
[09:44:48 -37008.657090] SLOW spr round 50 (radius: 15)
[09:46:53 -37008.657090] SLOW spr round 51 (radius: 20)
[09:49:28 -37008.657090] SLOW spr round 52 (radius: 25)
[09:52:14 -37008.311773] SLOW spr round 53 (radius: 5)
[09:54:00 -37008.311750] SLOW spr round 54 (radius: 10)
[09:55:40 -37008.311750] SLOW spr round 55 (radius: 15)
[09:57:39 -37008.311750] SLOW spr round 56 (radius: 20)
[10:00:11 -37008.311750] SLOW spr round 57 (radius: 25)
[10:02:52 -37008.311750] Model parameter optimization (eps = 0.100000)

[10:03:02] [worker #0] ML tree search #11, logLikelihood: -37003.760251

[10:03:02 -119694.012793] Initial branch length optimization
[10:03:04 -104318.138213] Model parameter optimization (eps = 10.000000)
[10:03:28 -103675.806144] AUTODETECT spr round 1 (radius: 5)
[10:04:54 -74432.605794] AUTODETECT spr round 2 (radius: 10)
[10:06:28 -59217.302173] AUTODETECT spr round 3 (radius: 15)
[10:08:13 -51290.023054] AUTODETECT spr round 4 (radius: 20)
[10:09:18] [worker #1] ML tree search #14, logLikelihood: -36765.451375
[10:10:31 -45302.613709] AUTODETECT spr round 5 (radius: 25)
[10:12:54 -44000.108809] SPR radius for FAST iterations: 25 (autodetect)
[10:12:54 -44000.108809] Model parameter optimization (eps = 3.000000)
[10:13:10 -43752.990140] FAST spr round 1 (radius: 25)
[10:15:15 -37227.752499] FAST spr round 2 (radius: 25)
[10:16:49 -36724.642764] FAST spr round 3 (radius: 25)
[10:18:08 -36683.373293] FAST spr round 4 (radius: 25)
[10:19:21 -36680.812927] FAST spr round 5 (radius: 25)
[10:20:31 -36680.227574] FAST spr round 6 (radius: 25)
[10:21:39 -36680.227574] Model parameter optimization (eps = 1.000000)
[10:21:55 -36657.208368] SLOW spr round 1 (radius: 5)
[10:23:30 -36632.979786] SLOW spr round 2 (radius: 5)
[10:24:59 -36629.498750] SLOW spr round 3 (radius: 5)
[10:26:24 -36629.498494] SLOW spr round 4 (radius: 10)
[10:27:52 -36616.183321] SLOW spr round 5 (radius: 5)
[10:29:40 -36609.110588] SLOW spr round 6 (radius: 5)
[10:31:14 -36609.110444] SLOW spr round 7 (radius: 10)
[10:32:43 -36607.650622] SLOW spr round 8 (radius: 5)
[10:34:25 -36607.650153] SLOW spr round 9 (radius: 10)
[10:36:00 -36605.773802] SLOW spr round 10 (radius: 5)
[10:37:41 -36604.667760] SLOW spr round 11 (radius: 5)
[10:39:13 -36604.667760] SLOW spr round 12 (radius: 10)
[10:40:41 -36603.444904] SLOW spr round 13 (radius: 5)
[10:42:26 -36599.918389] SLOW spr round 14 (radius: 5)
[10:43:59 -36599.918206] SLOW spr round 15 (radius: 10)
[10:45:27 -36599.874683] SLOW spr round 16 (radius: 15)
[10:47:47 -36598.244308] SLOW spr round 17 (radius: 5)
[10:49:32 -36596.427657] SLOW spr round 18 (radius: 5)
[10:51:05 -36596.427657] SLOW spr round 19 (radius: 10)
[10:52:34 -36593.511342] SLOW spr round 20 (radius: 5)
[10:54:15 -36593.511265] SLOW spr round 21 (radius: 10)
[10:55:49 -36593.475346] SLOW spr round 22 (radius: 15)
[10:57:59 -36592.947630] SLOW spr round 23 (radius: 5)
[10:59:45 -36590.429349] SLOW spr round 24 (radius: 5)
[11:01:19 -36590.429309] SLOW spr round 25 (radius: 10)
[11:02:47 -36590.287748] SLOW spr round 26 (radius: 5)
[11:04:27 -36590.287720] SLOW spr round 27 (radius: 10)
[11:06:01 -36590.287720] SLOW spr round 28 (radius: 15)
[11:08:11 -36590.287720] SLOW spr round 29 (radius: 20)
[11:10:49 -36590.280430] SLOW spr round 30 (radius: 25)
[11:12:58] [worker #1] ML tree search #16, logLikelihood: -36615.087001
[11:13:33 -36590.280425] Model parameter optimization (eps = 0.100000)

[11:13:39] [worker #0] ML tree search #13, logLikelihood: -36590.189154

[11:13:39 -118808.924039] Initial branch length optimization
[11:13:42 -103594.445076] Model parameter optimization (eps = 10.000000)
[11:14:05 -102931.777573] AUTODETECT spr round 1 (radius: 5)
[11:15:32 -75051.175686] AUTODETECT spr round 2 (radius: 10)
[11:17:05 -59294.864875] AUTODETECT spr round 3 (radius: 15)
[11:18:45 -51830.422176] AUTODETECT spr round 4 (radius: 20)
[11:20:39 -49866.426473] AUTODETECT spr round 5 (radius: 25)
[11:22:50 -46039.258399] SPR radius for FAST iterations: 25 (autodetect)
[11:22:50 -46039.258399] Model parameter optimization (eps = 3.000000)
[11:23:07 -45820.507343] FAST spr round 1 (radius: 25)
[11:25:16 -38417.578815] FAST spr round 2 (radius: 25)
[11:26:51 -37361.118187] FAST spr round 3 (radius: 25)
[11:28:17 -37282.476883] FAST spr round 4 (radius: 25)
[11:29:35 -37273.877212] FAST spr round 5 (radius: 25)
[11:30:48 -37270.151071] FAST spr round 6 (radius: 25)
[11:31:58 -37270.151070] Model parameter optimization (eps = 1.000000)
[11:32:12 -37248.439515] SLOW spr round 1 (radius: 5)
[11:33:47 -37234.999525] SLOW spr round 2 (radius: 5)
[11:35:19 -37227.220599] SLOW spr round 3 (radius: 5)
[11:36:49 -37226.494062] SLOW spr round 4 (radius: 5)
[11:38:16 -37226.493833] SLOW spr round 5 (radius: 10)
[11:39:46 -37217.375570] SLOW spr round 6 (radius: 5)
[11:41:35 -37203.493368] SLOW spr round 7 (radius: 5)
[11:43:13 -37200.479795] SLOW spr round 8 (radius: 5)
[11:44:43 -37199.490866] SLOW spr round 9 (radius: 5)
[11:46:11 -37199.490809] SLOW spr round 10 (radius: 10)
[11:47:39 -37197.160882] SLOW spr round 11 (radius: 5)
[11:49:25 -37197.160527] SLOW spr round 12 (radius: 10)
[11:51:06 -37196.950057] SLOW spr round 13 (radius: 5)
[11:52:48 -37196.949976] SLOW spr round 14 (radius: 10)
[11:54:24 -37196.949976] SLOW spr round 15 (radius: 15)
[11:56:45 -37195.562007] SLOW spr round 16 (radius: 5)
[11:58:33 -37195.377196] SLOW spr round 17 (radius: 5)
[12:00:12 -37195.377187] SLOW spr round 18 (radius: 10)
[12:01:45 -37195.377187] SLOW spr round 19 (radius: 15)
[12:04:14 -37194.354394] SLOW spr round 20 (radius: 5)
[12:06:02 -37194.354392] SLOW spr round 21 (radius: 10)
[12:07:44 -37194.354391] SLOW spr round 22 (radius: 15)
[12:10:00 -37193.562581] SLOW spr round 23 (radius: 5)
[12:11:50 -37187.060318] SLOW spr round 24 (radius: 5)
[12:13:30 -37185.995119] SLOW spr round 25 (radius: 5)
[12:15:01 -37185.995119] SLOW spr round 26 (radius: 10)
[12:16:29 -37185.995119] SLOW spr round 27 (radius: 15)
[12:18:59 -37185.995119] SLOW spr round 28 (radius: 20)
[12:22:00 -36993.419997] SLOW spr round 29 (radius: 5)
[12:23:53 -36709.862133] SLOW spr round 30 (radius: 5)
[12:25:34 -36619.870741] SLOW spr round 31 (radius: 5)
[12:27:08 -36595.077300] SLOW spr round 32 (radius: 5)
[12:28:36 -36595.077191] SLOW spr round 33 (radius: 10)
[12:30:05 -36588.567114] SLOW spr round 34 (radius: 5)
[12:31:50 -36586.775718] SLOW spr round 35 (radius: 5)
[12:33:26 -36586.742778] SLOW spr round 36 (radius: 10)
[12:34:54 -36586.742766] SLOW spr round 37 (radius: 15)
[12:37:14 -36586.742766] SLOW spr round 38 (radius: 20)
[12:40:04 -36586.742766] SLOW spr round 39 (radius: 25)
[12:43:12 -36586.742766] Model parameter optimization (eps = 0.100000)

[12:43:17] [worker #0] ML tree search #15, logLikelihood: -36586.719972

[12:43:18 -119430.844771] Initial branch length optimization
[12:43:19 -104427.972168] Model parameter optimization (eps = 10.000000)
[12:43:37 -103775.221067] AUTODETECT spr round 1 (radius: 5)
[12:45:06 -74239.602314] AUTODETECT spr round 2 (radius: 10)
[12:46:43 -58056.498407] AUTODETECT spr round 3 (radius: 15)
[12:48:27 -49996.969395] AUTODETECT spr round 4 (radius: 20)
[12:50:20 -47396.110506] AUTODETECT spr round 5 (radius: 25)
[12:52:17 -46103.923061] SPR radius for FAST iterations: 25 (autodetect)
[12:52:17 -46103.923061] Model parameter optimization (eps = 3.000000)
[12:52:32 -45877.940855] FAST spr round 1 (radius: 25)
[12:54:29 -40130.309210] FAST spr round 2 (radius: 25)
[12:55:58 -39602.338717] FAST spr round 3 (radius: 25)
[12:57:25 -38899.547313] FAST spr round 4 (radius: 25)
[12:58:47 -37238.796015] FAST spr round 5 (radius: 25)
[13:00:05 -36701.903346] FAST spr round 6 (radius: 25)
[13:01:20 -36653.336782] FAST spr round 7 (radius: 25)
[13:02:30 -36649.117740] FAST spr round 8 (radius: 25)
[13:03:40 -36649.116145] Model parameter optimization (eps = 1.000000)
[13:03:51 -36642.447171] SLOW spr round 1 (radius: 5)
[13:05:24 -36628.828850] SLOW spr round 2 (radius: 5)
[13:06:53 -36628.780163] SLOW spr round 3 (radius: 10)
[13:08:21 -36628.372175] SLOW spr round 4 (radius: 5)
[13:10:04 -36628.372169] SLOW spr round 5 (radius: 10)
[13:11:42 -36627.973445] SLOW spr round 6 (radius: 5)
[13:13:23 -36627.647615] SLOW spr round 7 (radius: 5)
[13:14:56 -36627.647611] SLOW spr round 8 (radius: 10)
[13:16:23 -36627.598703] SLOW spr round 9 (radius: 15)
[13:18:51 -36625.813873] SLOW spr round 10 (radius: 5)
[13:20:37 -36625.184433] SLOW spr round 11 (radius: 5)
[13:22:12 -36625.184428] SLOW spr round 12 (radius: 10)
[13:23:41 -36625.184428] SLOW spr round 13 (radius: 15)
[13:26:06 -36625.136390] SLOW spr round 14 (radius: 20)
[13:28:54 -36624.680336] SLOW spr round 15 (radius: 5)
[13:30:25] [worker #1] ML tree search #18, logLikelihood: -36612.002094
[13:30:43 -36623.193613] SLOW spr round 16 (radius: 5)
[13:32:19 -36623.193613] SLOW spr round 17 (radius: 10)
[13:33:50 -36623.193613] SLOW spr round 18 (radius: 15)
[13:36:12 -36623.193613] SLOW spr round 19 (radius: 20)
[13:38:57 -36623.193613] SLOW spr round 20 (radius: 25)
[13:41:58 -36623.193613] Model parameter optimization (eps = 0.100000)

[13:42:03] [worker #0] ML tree search #17, logLikelihood: -36623.182568

[13:42:03 -118969.470127] Initial branch length optimization
[13:42:06 -103877.738914] Model parameter optimization (eps = 10.000000)
[13:42:27 -103218.942754] AUTODETECT spr round 1 (radius: 5)
[13:43:54 -75090.149504] AUTODETECT spr round 2 (radius: 10)
[13:45:30 -59267.001946] AUTODETECT spr round 3 (radius: 15)
[13:47:15 -48739.708848] AUTODETECT spr round 4 (radius: 20)
[13:49:15 -44703.537291] AUTODETECT spr round 5 (radius: 25)
[13:51:27 -43562.100924] SPR radius for FAST iterations: 25 (autodetect)
[13:51:27 -43562.100924] Model parameter optimization (eps = 3.000000)
[13:51:52 -43364.524576] FAST spr round 1 (radius: 25)
[13:53:51 -37536.089598] FAST spr round 2 (radius: 25)
[13:55:25 -36999.075376] FAST spr round 3 (radius: 25)
[13:56:49 -36961.688507] FAST spr round 4 (radius: 25)
[13:58:06 -36954.879535] FAST spr round 5 (radius: 25)
[13:59:17 -36954.860996] Model parameter optimization (eps = 1.000000)
[13:59:35 -36934.099871] SLOW spr round 1 (radius: 5)
[14:01:10 -36918.397453] SLOW spr round 2 (radius: 5)
[14:02:42 -36916.386808] SLOW spr round 3 (radius: 5)
[14:04:10 -36916.386801] SLOW spr round 4 (radius: 10)
[14:05:42 -36912.164277] SLOW spr round 5 (radius: 5)
[14:07:28 -36910.621792] SLOW spr round 6 (radius: 5)
[14:09:05 -36910.621601] SLOW spr round 7 (radius: 10)
[14:10:37 -36909.125215] SLOW spr round 8 (radius: 5)
[14:12:24 -36908.086821] SLOW spr round 9 (radius: 5)
[14:14:00 -36908.086820] SLOW spr round 10 (radius: 10)
[14:15:30 -36907.395543] SLOW spr round 11 (radius: 5)
[14:17:16 -36907.395524] SLOW spr round 12 (radius: 10)
[14:18:54 -36907.066383] SLOW spr round 13 (radius: 5)
[14:20:36 -36907.066193] SLOW spr round 14 (radius: 10)
[14:22:10 -36907.066187] SLOW spr round 15 (radius: 15)
[14:24:29 -36906.100310] SLOW spr round 16 (radius: 5)
[14:26:17 -36906.100310] SLOW spr round 17 (radius: 10)
[14:28:00 -36906.100310] SLOW spr round 18 (radius: 15)
[14:30:15 -36906.100310] SLOW spr round 19 (radius: 20)
[14:33:29 -36905.521712] SLOW spr round 20 (radius: 5)
[14:35:20 -36905.521601] SLOW spr round 21 (radius: 10)
[14:37:07 -36905.521601] SLOW spr round 22 (radius: 15)
[14:39:22 -36905.521601] SLOW spr round 23 (radius: 20)
[14:42:40 -36905.521601] SLOW spr round 24 (radius: 25)
[14:46:15 -36905.521601] Model parameter optimization (eps = 0.100000)

[14:46:23] [worker #0] ML tree search #19, logLikelihood: -36905.341375

[15:18:39] [worker #1] ML tree search #20, logLikelihood: -37072.988349

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.239906,0.635451) (0.135512,0.882942) (0.579644,0.859702) (0.044938,5.108878) 
   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: -36586.719972

AIC score: 77183.439945 / AICc score: 8121243.439945 / BIC score: 82173.155866
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=89).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 190 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A0A0C4DH41/3_mltree/A0A0C4DH41.raxml.log

Analysis started: 03-Jul-2021 23:20:51 / finished: 04-Jul-2021 14:39:31

Elapsed time: 55120.184 seconds

Consumed energy: 3978.126 Wh (= 20 km in an electric car, or 99 km with an e-scooter!)