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 18:06:24 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/2_msa/Q9NV72_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72 --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: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/2_msa/Q9NV72_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 701 sites

WARNING: Sequences tr_G1RAS0_G1RAS0_NOMLE_61853 and tr_F7GDG2_F7GDG2_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1RAS0_G1RAS0_NOMLE_61853 and tr_A0A096MVU8_A0A096MVU8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1RAS0_G1RAS0_NOMLE_61853 and tr_A0A0D9S896_A0A0D9S896_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1RAS0_G1RAS0_NOMLE_61853 and tr_A0A2K5LPR7_A0A2K5LPR7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1RAS0_G1RAS0_NOMLE_61853 and tr_A0A2K6BKJ1_A0A2K6BKJ1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I2YDK3_A0A2I2YDK3_GORGO_9595 and tr_A0A2J8R638_A0A2J8R638_PONAB_9601 are exactly identical!
WARNING: Sequences tr_A0A2I2Z5M2_A0A2I2Z5M2_GORGO_9595 and tr_A0A2J8SJ28_A0A2J8SJ28_PONAB_9601 are exactly identical!
WARNING: Sequences tr_A0A2I2Z5M2_A0A2I2Z5M2_GORGO_9595 and tr_H2R0W5_H2R0W5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I2Z5M2_A0A2I2Z5M2_GORGO_9595 and sp_Q9C0F3_ZN436_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I2Z5M2_A0A2I2Z5M2_GORGO_9595 and tr_A0A2R9BGK0_A0A2R9BGK0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3S228_G3S228_GORGO_9595 and tr_A0A2I3T1I2_A0A2I3T1I2_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3S228_G3S228_GORGO_9595 and tr_A0A2R9C8X5_A0A2R9C8X5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3RKK8_A0A2I3RKK8_PANTR_9598 and tr_A0A2R9A572_A0A2R9A572_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3TIE9_A0A2I3TIE9_PANTR_9598 and tr_A0A2R9CGM5_A0A2R9CGM5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_W5PCH7_W5PCH7_SHEEP_9940 and tr_E1BMZ4_E1BMZ4_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A1D5QC17_A0A1D5QC17_MACMU_9544 and tr_A0A2K6BUH3_A0A2K6BUH3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5R3C7_A0A1D5R3C7_MACMU_9544 and tr_G7PXE8_G7PXE8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5R3C7_A0A1D5R3C7_MACMU_9544 and tr_A0A2K5L6Z1_A0A2K5L6Z1_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5R3C7_A0A1D5R3C7_MACMU_9544 and tr_A0A2K6DA83_A0A2K6DA83_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5R403_A0A1D5R403_MACMU_9544 and tr_A0A2K6CQR3_A0A2K6CQR3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5R704_A0A1D5R704_MACMU_9544 and tr_A0A2K6B9B3_A0A2K6B9B3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6QVW9_F6QVW9_MACMU_9544 and tr_A0A2K5MYE8_A0A2K5MYE8_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F6QVW9_F6QVW9_MACMU_9544 and tr_A0A2K5ZQH5_A0A2K5ZQH5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F6UR85_F6UR85_MACMU_9544 and tr_A0A2K6ADH3_A0A2K6ADH3_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F6V0U3_F6V0U3_MACMU_9544 and tr_G7PYP5_G7PYP5_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6ZAL5_F6ZAL5_MACMU_9544 and tr_A0A2K5NSA5_A0A2K5NSA5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7FX09_F7FX09_MACMU_9544 and tr_A0A2K6B732_A0A2K6B732_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GB84_F7GB84_MACMU_9544 and tr_A0A2K6BN44_A0A2K6BN44_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GTJ8_F7GTJ8_MACMU_9544 and tr_A0A2K6BJH0_A0A2K6BJH0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7H5I5_F7H5I5_MACMU_9544 and tr_G7PXE5_G7PXE5_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A0A0MW33_A0A0A0MW33_PAPAN_9555 and tr_A0A2K5ZEU7_A0A2K5ZEU7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2K5NJ59_A0A2K5NJ59_CERAT_9531 and tr_A0A2K5YNA2_A0A2K5YNA2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2Y9LKY1_A0A2Y9LKY1_DELLE_9749 and tr_A0A383ZJ36_A0A383ZJ36_BALAS_310752 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/Q9NV72/3_mltree/Q9NV72.raxml.reduced.phy

Alignment comprises 1 partitions and 701 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 701 / 701
Gaps: 23.29 %
Invariant sites: 0.29 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.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 / 101 / 8080
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -866050.613964] Initial branch length optimization
[00:00:03 -772580.473556] Model parameter optimization (eps = 10.000000)
[00:00:37 -767884.731646] AUTODETECT spr round 1 (radius: 5)
[00:02:27 -590885.563627] AUTODETECT spr round 2 (radius: 10)
[00:04:33 -377662.675309] AUTODETECT spr round 3 (radius: 15)
[00:06:38 -291028.803409] AUTODETECT spr round 4 (radius: 20)
[00:09:15 -282928.634548] AUTODETECT spr round 5 (radius: 25)
[00:12:19 -280675.404836] SPR radius for FAST iterations: 25 (autodetect)
[00:12:19 -280675.404836] Model parameter optimization (eps = 3.000000)
[00:12:39 -280130.948299] FAST spr round 1 (radius: 25)
[00:14:51 -245632.478678] FAST spr round 2 (radius: 25)
[00:16:44 -244549.559431] FAST spr round 3 (radius: 25)
[00:18:26 -244409.718687] FAST spr round 4 (radius: 25)
[00:19:57 -244398.871475] FAST spr round 5 (radius: 25)
[00:21:24 -244398.865921] Model parameter optimization (eps = 1.000000)
[00:21:33 -244394.914576] SLOW spr round 1 (radius: 5)
[00:23:33 -244317.475048] SLOW spr round 2 (radius: 5)
[00:25:28 -244312.664022] SLOW spr round 3 (radius: 5)
[00:27:18 -244312.663731] SLOW spr round 4 (radius: 10)
[00:29:17 -244312.476879] SLOW spr round 5 (radius: 5)
[00:31:35 -244290.294312] SLOW spr round 6 (radius: 5)
[00:33:36 -244287.081513] SLOW spr round 7 (radius: 5)
[00:35:28 -244287.081378] SLOW spr round 8 (radius: 10)
[00:37:25 -244287.081359] SLOW spr round 9 (radius: 15)
[00:40:57 -244287.081357] SLOW spr round 10 (radius: 20)
[00:45:55 -244287.081356] SLOW spr round 11 (radius: 25)
[00:51:43 -244287.081356] Model parameter optimization (eps = 0.100000)

[00:51:52] ML tree search #1, logLikelihood: -244286.841800

[00:51:52 -863033.936259] Initial branch length optimization
[00:51:55 -770040.845860] Model parameter optimization (eps = 10.000000)
[00:52:24 -765344.450462] AUTODETECT spr round 1 (radius: 5)
[00:54:25 -583701.987172] AUTODETECT spr round 2 (radius: 10)
[00:56:47 -382722.890125] AUTODETECT spr round 3 (radius: 15)
[00:59:04 -294564.761233] AUTODETECT spr round 4 (radius: 20)
[01:01:43 -279418.851384] AUTODETECT spr round 5 (radius: 25)
[01:04:53 -277782.414862] SPR radius for FAST iterations: 25 (autodetect)
[01:04:53 -277782.414862] Model parameter optimization (eps = 3.000000)
[01:05:16 -277224.576252] FAST spr round 1 (radius: 25)
[01:07:24 -245633.234793] FAST spr round 2 (radius: 25)
[01:09:13 -244543.729884] FAST spr round 3 (radius: 25)
[01:10:52 -244420.435493] FAST spr round 4 (radius: 25)
[01:12:23 -244399.910279] FAST spr round 5 (radius: 25)
[01:13:49 -244399.908245] Model parameter optimization (eps = 1.000000)
[01:14:02 -244398.309565] SLOW spr round 1 (radius: 5)
[01:16:01 -244317.856987] SLOW spr round 2 (radius: 5)
[01:17:57 -244297.424124] SLOW spr round 3 (radius: 5)
[01:19:48 -244295.866543] SLOW spr round 4 (radius: 5)
[01:21:38 -244295.527107] SLOW spr round 5 (radius: 5)
[01:23:27 -244294.673865] SLOW spr round 6 (radius: 5)
[01:25:16 -244294.673859] SLOW spr round 7 (radius: 10)
[01:27:14 -244292.150306] SLOW spr round 8 (radius: 5)
[01:29:27 -244292.150203] SLOW spr round 9 (radius: 10)
[01:31:37 -244292.150203] SLOW spr round 10 (radius: 15)
[01:34:57 -244292.150203] SLOW spr round 11 (radius: 20)
[01:39:58 -244292.150203] SLOW spr round 12 (radius: 25)
[01:45:47 -244292.150203] Model parameter optimization (eps = 0.100000)

[01:45:53] ML tree search #2, logLikelihood: -244291.714117

[01:45:53 -861887.964932] Initial branch length optimization
[01:45:59 -768331.151954] Model parameter optimization (eps = 10.000000)
[01:46:24 -763573.557980] AUTODETECT spr round 1 (radius: 5)
[01:48:24 -581796.000535] AUTODETECT spr round 2 (radius: 10)
[01:50:43 -370457.555422] AUTODETECT spr round 3 (radius: 15)
[01:52:57 -302330.546523] AUTODETECT spr round 4 (radius: 20)
[01:55:44 -280325.936566] AUTODETECT spr round 5 (radius: 25)
[01:58:56 -279707.430962] SPR radius for FAST iterations: 25 (autodetect)
[01:58:56 -279707.430962] Model parameter optimization (eps = 3.000000)
[01:59:17 -279491.410262] FAST spr round 1 (radius: 25)
[02:01:33 -245824.394995] FAST spr round 2 (radius: 25)
[02:03:25 -244726.909696] FAST spr round 3 (radius: 25)
[02:05:09 -244670.776791] FAST spr round 4 (radius: 25)
[02:06:43 -244663.549808] FAST spr round 5 (radius: 25)
[02:08:12 -244663.549512] Model parameter optimization (eps = 1.000000)
[02:08:30 -244423.304835] SLOW spr round 1 (radius: 5)
[02:10:34 -244354.496521] SLOW spr round 2 (radius: 5)
[02:12:31 -244341.278874] SLOW spr round 3 (radius: 5)
[02:14:23 -244330.028440] SLOW spr round 4 (radius: 5)
[02:16:14 -244330.028412] SLOW spr round 5 (radius: 10)
[02:18:13 -244326.781129] SLOW spr round 6 (radius: 5)
[02:20:28 -244325.624212] SLOW spr round 7 (radius: 5)
[02:22:28 -244325.624194] SLOW spr round 8 (radius: 10)
[02:24:30 -244324.735331] SLOW spr round 9 (radius: 5)
[02:26:46 -244313.951929] SLOW spr round 10 (radius: 5)
[02:28:47 -244305.046834] SLOW spr round 11 (radius: 5)
[02:30:33 -244304.129989] SLOW spr round 12 (radius: 5)
[02:32:16 -244304.129981] SLOW spr round 13 (radius: 10)
[02:34:05 -244304.129981] SLOW spr round 14 (radius: 15)
[02:37:24 -244304.129981] SLOW spr round 15 (radius: 20)
[02:42:19 -244304.129981] SLOW spr round 16 (radius: 25)
[02:48:04 -244304.129981] Model parameter optimization (eps = 0.100000)

[02:48:11] ML tree search #3, logLikelihood: -244303.822647

[02:48:11 -864706.837438] Initial branch length optimization
[02:48:15 -771312.951782] Model parameter optimization (eps = 10.000000)
[02:48:38 -766624.200923] AUTODETECT spr round 1 (radius: 5)
[02:50:30 -585359.522609] AUTODETECT spr round 2 (radius: 10)
[02:52:38 -366566.768354] AUTODETECT spr round 3 (radius: 15)
[02:54:37 -294056.024454] AUTODETECT spr round 4 (radius: 20)
[02:56:59 -280676.986884] AUTODETECT spr round 5 (radius: 25)
[02:59:59 -278238.333242] SPR radius for FAST iterations: 25 (autodetect)
[02:59:59 -278238.333242] Model parameter optimization (eps = 3.000000)
[03:00:18 -277678.256975] FAST spr round 1 (radius: 25)
[03:02:18 -245817.560502] FAST spr round 2 (radius: 25)
[03:03:54 -244572.998080] FAST spr round 3 (radius: 25)
[03:05:25 -244430.732616] FAST spr round 4 (radius: 25)
[03:06:49 -244407.061620] FAST spr round 5 (radius: 25)
[03:08:11 -244405.489093] FAST spr round 6 (radius: 25)
[03:09:31 -244405.489090] Model parameter optimization (eps = 1.000000)
[03:09:39 -244401.436906] SLOW spr round 1 (radius: 5)
[03:11:28 -244335.783388] SLOW spr round 2 (radius: 5)
[03:13:15 -244319.911947] SLOW spr round 3 (radius: 5)
[03:14:58 -244319.581009] SLOW spr round 4 (radius: 5)
[03:16:40 -244319.580900] SLOW spr round 5 (radius: 10)
[03:18:29 -244319.580885] SLOW spr round 6 (radius: 15)
[03:21:45 -244319.580883] SLOW spr round 7 (radius: 20)
[03:26:21 -244319.580883] SLOW spr round 8 (radius: 25)
[03:31:45 -244319.580883] Model parameter optimization (eps = 0.100000)

[03:31:49] ML tree search #4, logLikelihood: -244319.481213

[03:31:49 -867326.708763] Initial branch length optimization
[03:31:53 -773775.654541] Model parameter optimization (eps = 10.000000)
[03:32:16 -769178.464211] AUTODETECT spr round 1 (radius: 5)
[03:34:09 -584070.976927] AUTODETECT spr round 2 (radius: 10)
[03:36:19 -354641.725946] AUTODETECT spr round 3 (radius: 15)
[03:38:23 -285995.978425] AUTODETECT spr round 4 (radius: 20)
[03:40:48 -278094.413940] AUTODETECT spr round 5 (radius: 25)
[03:43:31 -276727.723651] SPR radius for FAST iterations: 25 (autodetect)
[03:43:31 -276727.723651] Model parameter optimization (eps = 3.000000)
[03:44:02 -276293.611293] FAST spr round 1 (radius: 25)
[03:46:01 -245488.760362] FAST spr round 2 (radius: 25)
[03:47:47 -244539.503693] FAST spr round 3 (radius: 25)
[03:49:24 -244440.457930] FAST spr round 4 (radius: 25)
[03:50:53 -244424.849717] FAST spr round 5 (radius: 25)
[03:52:21 -244422.986033] FAST spr round 6 (radius: 25)
[03:53:48 -244422.986002] Model parameter optimization (eps = 1.000000)
[03:53:59 -244415.784741] SLOW spr round 1 (radius: 5)
[03:55:54 -244351.425265] SLOW spr round 2 (radius: 5)
[03:57:50 -244337.370578] SLOW spr round 3 (radius: 5)
[03:59:43 -244337.018387] SLOW spr round 4 (radius: 5)
[04:01:27 -244337.018386] SLOW spr round 5 (radius: 10)
[04:03:26 -244333.883563] SLOW spr round 6 (radius: 5)
[04:05:43 -244325.123771] SLOW spr round 7 (radius: 5)
[04:07:42 -244325.123758] SLOW spr round 8 (radius: 10)
[04:09:40 -244325.123758] SLOW spr round 9 (radius: 15)
[04:13:09 -244325.123758] SLOW spr round 10 (radius: 20)
[04:18:02 -244325.123758] SLOW spr round 11 (radius: 25)
[04:23:48 -244325.123758] Model parameter optimization (eps = 0.100000)

[04:23:55] ML tree search #5, logLikelihood: -244325.021142

[04:23:55 -866586.021991] Initial branch length optimization
[04:23:58 -772322.191364] Model parameter optimization (eps = 10.000000)
[04:24:24 -767548.175441] AUTODETECT spr round 1 (radius: 5)
[04:26:23 -572699.240014] AUTODETECT spr round 2 (radius: 10)
[04:28:43 -369207.729557] AUTODETECT spr round 3 (radius: 15)
[04:30:54 -304001.255081] AUTODETECT spr round 4 (radius: 20)
[04:33:38 -283436.662136] AUTODETECT spr round 5 (radius: 25)
[04:36:49 -280094.768163] SPR radius for FAST iterations: 25 (autodetect)
[04:36:49 -280094.768163] Model parameter optimization (eps = 3.000000)
[04:37:15 -279639.420085] FAST spr round 1 (radius: 25)
[04:39:40 -245435.632771] FAST spr round 2 (radius: 25)
[04:41:40 -244529.551820] FAST spr round 3 (radius: 25)
[04:43:27 -244465.183363] FAST spr round 4 (radius: 25)
[04:45:03 -244443.767382] FAST spr round 5 (radius: 25)
[04:46:28 -244443.767366] Model parameter optimization (eps = 1.000000)
[04:46:40 -244441.440683] SLOW spr round 1 (radius: 5)
[04:48:31 -244343.106799] SLOW spr round 2 (radius: 5)
[04:50:33 -244323.923545] SLOW spr round 3 (radius: 5)
[04:52:17 -244321.738215] SLOW spr round 4 (radius: 5)
[04:54:01 -244321.178022] SLOW spr round 5 (radius: 5)
[04:55:47 -244321.178016] SLOW spr round 6 (radius: 10)
[04:57:35 -244320.013684] SLOW spr round 7 (radius: 5)
[04:59:44 -244320.013667] SLOW spr round 8 (radius: 10)
[05:01:48 -244319.340583] SLOW spr round 9 (radius: 5)
[05:03:57 -244319.340360] SLOW spr round 10 (radius: 10)
[05:06:21 -244319.340359] SLOW spr round 11 (radius: 15)
[05:10:04 -244319.340359] SLOW spr round 12 (radius: 20)
[05:15:42 -244319.340359] SLOW spr round 13 (radius: 25)
[05:22:09 -244319.340359] Model parameter optimization (eps = 0.100000)

[05:22:16] ML tree search #6, logLikelihood: -244319.240896

[05:22:16 -868063.042471] Initial branch length optimization
[05:22:20 -774010.989561] Model parameter optimization (eps = 10.000000)
[05:22:52 -769234.802951] AUTODETECT spr round 1 (radius: 5)
[05:25:10 -587818.446008] AUTODETECT spr round 2 (radius: 10)
[05:27:50 -381862.966975] AUTODETECT spr round 3 (radius: 15)
[05:30:19 -312493.737221] AUTODETECT spr round 4 (radius: 20)
[05:33:19 -290184.256606] AUTODETECT spr round 5 (radius: 25)
[05:36:34 -287006.957010] SPR radius for FAST iterations: 25 (autodetect)
[05:36:34 -287006.957010] Model parameter optimization (eps = 3.000000)
[05:37:05 -286435.765715] FAST spr round 1 (radius: 25)
[05:39:38 -246725.446867] FAST spr round 2 (radius: 25)
[05:41:46 -244615.218375] FAST spr round 3 (radius: 25)
[05:43:37 -244531.190528] FAST spr round 4 (radius: 25)
[05:45:21 -244519.331900] FAST spr round 5 (radius: 25)
[05:46:59 -244516.695821] FAST spr round 6 (radius: 25)
[05:48:38 -244516.695742] Model parameter optimization (eps = 1.000000)
[05:48:47 -244514.890728] SLOW spr round 1 (radius: 5)
[05:51:04 -244468.105324] SLOW spr round 2 (radius: 5)
[05:53:12 -244466.699915] SLOW spr round 3 (radius: 5)
[05:55:18 -244466.699912] SLOW spr round 4 (radius: 10)
[05:57:34 -244461.525196] SLOW spr round 5 (radius: 5)
[06:00:18 -244454.275970] SLOW spr round 6 (radius: 5)
[06:02:35 -244453.787537] SLOW spr round 7 (radius: 5)
[06:04:45 -244453.787291] SLOW spr round 8 (radius: 10)
[06:07:07 -244453.734540] SLOW spr round 9 (radius: 15)
[06:11:12 -244317.563670] SLOW spr round 10 (radius: 5)
[06:13:55 -244310.538622] SLOW spr round 11 (radius: 5)
[06:16:14 -244310.538560] SLOW spr round 12 (radius: 10)
[06:18:34 -244310.538559] SLOW spr round 13 (radius: 15)
[06:22:28 -244310.538559] SLOW spr round 14 (radius: 20)
[06:28:01 -244310.538559] SLOW spr round 15 (radius: 25)
[06:34:31 -244310.538559] Model parameter optimization (eps = 0.100000)

[06:34:45] ML tree search #7, logLikelihood: -244310.389135

[06:34:45 -862235.426119] Initial branch length optimization
[06:34:48 -771201.339511] Model parameter optimization (eps = 10.000000)
[06:35:36 -766377.421363] AUTODETECT spr round 1 (radius: 5)
[06:37:52 -583931.854476] AUTODETECT spr round 2 (radius: 10)
[06:40:31 -378726.920898] AUTODETECT spr round 3 (radius: 15)
[06:43:05 -298612.343745] AUTODETECT spr round 4 (radius: 20)
[06:46:02 -280823.735688] AUTODETECT spr round 5 (radius: 25)
[06:50:01 -280479.187213] SPR radius for FAST iterations: 25 (autodetect)
[06:50:01 -280479.187213] Model parameter optimization (eps = 3.000000)
[06:50:25 -280224.943265] FAST spr round 1 (radius: 25)
[06:52:52 -245854.813008] FAST spr round 2 (radius: 25)
[06:54:56 -244758.632226] FAST spr round 3 (radius: 25)
[06:56:47 -244664.464735] FAST spr round 4 (radius: 25)
[06:58:29 -244657.738239] FAST spr round 5 (radius: 25)
[07:00:08 -244657.738190] Model parameter optimization (eps = 1.000000)
[07:00:28 -244414.125260] SLOW spr round 1 (radius: 5)
[07:02:40 -244337.319516] SLOW spr round 2 (radius: 5)
[07:04:49 -244318.918229] SLOW spr round 3 (radius: 5)
[07:06:50 -244318.540488] SLOW spr round 4 (radius: 5)
[07:08:50 -244318.540424] SLOW spr round 5 (radius: 10)
[07:11:01 -244312.118451] SLOW spr round 6 (radius: 5)
[07:13:28 -244305.754654] SLOW spr round 7 (radius: 5)
[07:15:43 -244305.754624] SLOW spr round 8 (radius: 10)
[07:17:59 -244305.754624] SLOW spr round 9 (radius: 15)
[07:21:52 -244305.754624] SLOW spr round 10 (radius: 20)
[07:27:31 -244305.754624] SLOW spr round 11 (radius: 25)
[07:34:06 -244305.754624] Model parameter optimization (eps = 0.100000)

[07:34:19] ML tree search #8, logLikelihood: -244305.101414

[07:34:19 -861932.679105] Initial branch length optimization
[07:34:23 -772569.315041] Model parameter optimization (eps = 10.000000)
[07:34:54 -767710.559132] AUTODETECT spr round 1 (radius: 5)
[07:37:10 -581083.759854] AUTODETECT spr round 2 (radius: 10)
[07:39:46 -375676.525122] AUTODETECT spr round 3 (radius: 15)
[07:42:16 -298528.846774] AUTODETECT spr round 4 (radius: 20)
[07:45:11 -280987.662154] AUTODETECT spr round 5 (radius: 25)
[07:48:06 -279724.813182] SPR radius for FAST iterations: 25 (autodetect)
[07:48:06 -279724.813182] Model parameter optimization (eps = 3.000000)
[07:48:31 -279167.320633] FAST spr round 1 (radius: 25)
[07:50:52 -245570.903237] FAST spr round 2 (radius: 25)
[07:52:57 -244601.638942] FAST spr round 3 (radius: 25)
[07:54:52 -244436.548726] FAST spr round 4 (radius: 25)
[07:56:39 -244372.431491] FAST spr round 5 (radius: 25)
[07:58:18 -244364.716538] FAST spr round 6 (radius: 25)
[07:59:55 -244364.716474] Model parameter optimization (eps = 1.000000)
[08:00:08 -244356.623973] SLOW spr round 1 (radius: 5)
[08:02:19 -244298.596002] SLOW spr round 2 (radius: 5)
[08:04:26 -244296.532393] SLOW spr round 3 (radius: 5)
[08:06:31 -244295.567738] SLOW spr round 4 (radius: 5)
[08:08:33 -244295.128692] SLOW spr round 5 (radius: 5)
[08:10:35 -244295.128689] SLOW spr round 6 (radius: 10)
[08:12:46 -244289.857174] SLOW spr round 7 (radius: 5)
[08:15:15 -244289.856183] SLOW spr round 8 (radius: 10)
[08:17:38 -244289.856164] SLOW spr round 9 (radius: 15)
[08:21:21 -244289.856164] SLOW spr round 10 (radius: 20)
[08:26:51 -244289.856164] SLOW spr round 11 (radius: 25)
[08:33:18 -244289.856164] Model parameter optimization (eps = 0.100000)

[08:33:23] ML tree search #9, logLikelihood: -244289.822907

[08:33:23 -863846.947827] Initial branch length optimization
[08:33:27 -772470.979616] Model parameter optimization (eps = 10.000000)
[08:33:56 -767568.585567] AUTODETECT spr round 1 (radius: 5)
[08:36:10 -589620.712434] AUTODETECT spr round 2 (radius: 10)
[08:38:48 -378624.580342] AUTODETECT spr round 3 (radius: 15)
[08:41:18 -306395.579299] AUTODETECT spr round 4 (radius: 20)
[08:44:18 -288022.442754] AUTODETECT spr round 5 (radius: 25)
[08:47:43 -287716.763534] SPR radius for FAST iterations: 25 (autodetect)
[08:47:43 -287716.763534] Model parameter optimization (eps = 3.000000)
[08:48:13 -287176.457135] FAST spr round 1 (radius: 25)
[08:50:45 -246393.387493] FAST spr round 2 (radius: 25)
[08:52:52 -244618.896503] FAST spr round 3 (radius: 25)
[08:54:50 -244507.088894] FAST spr round 4 (radius: 25)
[08:56:36 -244461.202977] FAST spr round 5 (radius: 25)
[08:58:18 -244441.249244] FAST spr round 6 (radius: 25)
[08:59:54 -244441.249227] Model parameter optimization (eps = 1.000000)
[09:00:04 -244437.502577] SLOW spr round 1 (radius: 5)
[09:02:20 -244342.002046] SLOW spr round 2 (radius: 5)
[09:04:28 -244320.969539] SLOW spr round 3 (radius: 5)
[09:06:31 -244319.337475] SLOW spr round 4 (radius: 5)
[09:08:32 -244310.298738] SLOW spr round 5 (radius: 5)
[09:10:33 -244304.072263] SLOW spr round 6 (radius: 5)
[09:12:33 -244304.072250] SLOW spr round 7 (radius: 10)
[09:14:43 -244299.802733] SLOW spr round 8 (radius: 5)
[09:17:13 -244299.802519] SLOW spr round 9 (radius: 10)
[09:19:41 -244299.802517] SLOW spr round 10 (radius: 15)
[09:23:28 -244299.802517] SLOW spr round 11 (radius: 20)
[09:29:15 -244299.802517] SLOW spr round 12 (radius: 25)
[09:35:55 -244299.802517] Model parameter optimization (eps = 0.100000)

[09:36:02] ML tree search #10, logLikelihood: -244299.759991

[09:36:02 -865141.320559] Initial branch length optimization
[09:36:05 -771058.758077] Model parameter optimization (eps = 10.000000)
[09:36:38 -766418.390326] AUTODETECT spr round 1 (radius: 5)
[09:38:55 -589903.077562] AUTODETECT spr round 2 (radius: 10)
[09:41:40 -353584.928460] AUTODETECT spr round 3 (radius: 15)
[09:44:10 -290355.813381] AUTODETECT spr round 4 (radius: 20)
[09:47:23 -278940.161698] AUTODETECT spr round 5 (radius: 25)
[09:51:09 -278789.567535] SPR radius for FAST iterations: 25 (autodetect)
[09:51:09 -278789.567535] Model parameter optimization (eps = 3.000000)
[09:51:33 -278271.369316] FAST spr round 1 (radius: 25)
[09:53:59 -246067.262176] FAST spr round 2 (radius: 25)
[09:56:01 -244597.563406] FAST spr round 3 (radius: 25)
[09:57:53 -244497.936409] FAST spr round 4 (radius: 25)
[09:59:31 -244496.567430] FAST spr round 5 (radius: 25)
[10:01:08 -244496.565912] Model parameter optimization (eps = 1.000000)
[10:01:19 -244493.601465] SLOW spr round 1 (radius: 5)
[10:03:33 -244443.519814] SLOW spr round 2 (radius: 5)
[10:05:48 -244404.338146] SLOW spr round 3 (radius: 5)
[10:07:56 -244397.591971] SLOW spr round 4 (radius: 5)
[10:10:01 -244396.593123] SLOW spr round 5 (radius: 5)
[10:12:05 -244396.592901] SLOW spr round 6 (radius: 10)
[10:14:17 -244392.186171] SLOW spr round 7 (radius: 5)
[10:16:46 -244392.185966] SLOW spr round 8 (radius: 10)
[10:19:12 -244392.185965] SLOW spr round 9 (radius: 15)
[10:22:58 -244392.185965] SLOW spr round 10 (radius: 20)
[10:28:45 -244392.185965] SLOW spr round 11 (radius: 25)
[10:35:21 -244392.185965] Model parameter optimization (eps = 0.100000)

[10:35:33] ML tree search #11, logLikelihood: -244391.701629

[10:35:33 -865004.443196] Initial branch length optimization
[10:35:37 -772583.534447] Model parameter optimization (eps = 10.000000)
[10:36:09 -767853.751810] AUTODETECT spr round 1 (radius: 5)
[10:38:23 -592595.757918] AUTODETECT spr round 2 (radius: 10)
[10:41:00 -369502.732489] AUTODETECT spr round 3 (radius: 15)
[10:43:22 -303370.871234] AUTODETECT spr round 4 (radius: 20)
[10:46:23 -288334.129567] AUTODETECT spr round 5 (radius: 25)
[10:49:46 -281818.301640] SPR radius for FAST iterations: 25 (autodetect)
[10:49:46 -281818.301640] Model parameter optimization (eps = 3.000000)
[10:50:08 -281598.124113] FAST spr round 1 (radius: 25)
[10:52:35 -246581.025716] FAST spr round 2 (radius: 25)
[10:54:37 -244847.146765] FAST spr round 3 (radius: 25)
[10:56:29 -244727.632921] FAST spr round 4 (radius: 25)
[10:58:11 -244714.173913] FAST spr round 5 (radius: 25)
[10:59:49 -244714.173594] Model parameter optimization (eps = 1.000000)
[11:00:10 -244465.121844] SLOW spr round 1 (radius: 5)
[11:02:23 -244353.536482] SLOW spr round 2 (radius: 5)
[11:04:35 -244314.621314] SLOW spr round 3 (radius: 5)
[11:06:40 -244313.937908] SLOW spr round 4 (radius: 5)
[11:08:42 -244313.937906] SLOW spr round 5 (radius: 10)
[11:10:53 -244309.026259] SLOW spr round 6 (radius: 5)
[11:13:22 -244309.026028] SLOW spr round 7 (radius: 10)
[11:15:47 -244309.026027] SLOW spr round 8 (radius: 15)
[11:19:30 -244309.026027] SLOW spr round 9 (radius: 20)
[11:25:09 -244309.026027] SLOW spr round 10 (radius: 25)
[11:31:49 -244309.026027] Model parameter optimization (eps = 0.100000)

[11:31:59] ML tree search #12, logLikelihood: -244308.250675

[11:32:00 -864028.025621] Initial branch length optimization
[11:32:03 -770897.319936] Model parameter optimization (eps = 10.000000)
[11:32:30 -766058.423848] AUTODETECT spr round 1 (radius: 5)
[11:34:44 -583220.604869] AUTODETECT spr round 2 (radius: 10)
[11:37:17 -379514.441846] AUTODETECT spr round 3 (radius: 15)
[11:39:48 -292245.864610] AUTODETECT spr round 4 (radius: 20)
[11:42:58 -281299.720231] AUTODETECT spr round 5 (radius: 25)
[11:46:51 -280967.048882] SPR radius for FAST iterations: 25 (autodetect)
[11:46:51 -280967.048882] Model parameter optimization (eps = 3.000000)
[11:47:17 -280446.839274] FAST spr round 1 (radius: 25)
[11:49:46 -245889.899323] FAST spr round 2 (radius: 25)
[11:51:50 -244559.302526] FAST spr round 3 (radius: 25)
[11:53:44 -244471.496948] FAST spr round 4 (radius: 25)
[11:55:25 -244463.062031] FAST spr round 5 (radius: 25)
[11:57:04 -244461.024135] FAST spr round 6 (radius: 25)
[11:58:42 -244461.024113] Model parameter optimization (eps = 1.000000)
[11:58:55 -244453.743038] SLOW spr round 1 (radius: 5)
[12:01:08 -244381.245278] SLOW spr round 2 (radius: 5)
[12:03:14 -244373.350189] SLOW spr round 3 (radius: 5)
[12:05:16 -244367.070402] SLOW spr round 4 (radius: 5)
[12:07:17 -244366.422185] SLOW spr round 5 (radius: 5)
[12:09:16 -244366.422164] SLOW spr round 6 (radius: 10)
[12:11:25 -244358.044382] SLOW spr round 7 (radius: 5)
[12:13:57 -244357.818858] SLOW spr round 8 (radius: 5)
[12:16:10 -244357.818856] SLOW spr round 9 (radius: 10)
[12:18:27 -244357.687465] SLOW spr round 10 (radius: 5)
[12:20:57 -244357.604413] SLOW spr round 11 (radius: 10)
[12:23:23 -244357.604201] SLOW spr round 12 (radius: 15)
[12:27:11 -244357.604199] SLOW spr round 13 (radius: 20)
[12:33:07 -244357.604199] SLOW spr round 14 (radius: 25)
[12:39:50 -244357.604199] Model parameter optimization (eps = 0.100000)

[12:39:57] ML tree search #13, logLikelihood: -244357.480365

[12:39:57 -862574.536560] Initial branch length optimization
[12:40:01 -771102.914834] Model parameter optimization (eps = 10.000000)
[12:40:31 -766507.437291] AUTODETECT spr round 1 (radius: 5)
[12:42:46 -581854.291341] AUTODETECT spr round 2 (radius: 10)
[12:45:23 -355648.615739] AUTODETECT spr round 3 (radius: 15)
[12:47:58 -287063.487065] AUTODETECT spr round 4 (radius: 20)
[12:50:49 -276614.110050] AUTODETECT spr round 5 (radius: 25)
[12:54:06 -275522.726016] SPR radius for FAST iterations: 25 (autodetect)
[12:54:06 -275522.726016] Model parameter optimization (eps = 3.000000)
[12:54:31 -275038.887034] FAST spr round 1 (radius: 25)
[12:56:58 -245773.264081] FAST spr round 2 (radius: 25)
[12:58:59 -244732.584966] FAST spr round 3 (radius: 25)
[13:00:51 -244440.712912] FAST spr round 4 (radius: 25)
[13:02:33 -244425.750549] FAST spr round 5 (radius: 25)
[13:04:12 -244422.560920] FAST spr round 6 (radius: 25)
[13:05:50 -244422.560902] Model parameter optimization (eps = 1.000000)
[13:06:02 -244416.772754] SLOW spr round 1 (radius: 5)
[13:08:18 -244351.169639] SLOW spr round 2 (radius: 5)
[13:10:28 -244345.577739] SLOW spr round 3 (radius: 5)
[13:12:33 -244345.476386] SLOW spr round 4 (radius: 5)
[13:14:35 -244345.476327] SLOW spr round 5 (radius: 10)
[13:16:50 -244335.887001] SLOW spr round 6 (radius: 5)
[13:19:20 -244335.866854] SLOW spr round 7 (radius: 10)
[13:21:47 -244335.863989] SLOW spr round 8 (radius: 15)
[13:25:28 -244335.863605] SLOW spr round 9 (radius: 20)
[13:31:01 -244335.863553] SLOW spr round 10 (radius: 25)
[13:37:26 -244335.863546] Model parameter optimization (eps = 0.100000)

[13:37:31] ML tree search #14, logLikelihood: -244335.788783

[13:37:31 -864976.003798] Initial branch length optimization
[13:37:36 -771782.321039] Model parameter optimization (eps = 10.000000)
[13:38:07 -766958.970057] AUTODETECT spr round 1 (radius: 5)
[13:40:21 -592085.504896] AUTODETECT spr round 2 (radius: 10)
[13:42:59 -381824.346409] AUTODETECT spr round 3 (radius: 15)
[13:45:22 -301314.335556] AUTODETECT spr round 4 (radius: 20)
[13:48:17 -278852.222903] AUTODETECT spr round 5 (radius: 25)
[13:51:34 -275940.002934] SPR radius for FAST iterations: 25 (autodetect)
[13:51:34 -275940.002934] Model parameter optimization (eps = 3.000000)
[13:51:59 -275671.570503] FAST spr round 1 (radius: 25)
[13:54:25 -246281.854298] FAST spr round 2 (radius: 25)
[13:56:27 -244791.392837] FAST spr round 3 (radius: 25)
[13:58:21 -244715.219175] FAST spr round 4 (radius: 25)
[14:00:06 -244685.139881] FAST spr round 5 (radius: 25)
[14:01:45 -244685.139514] Model parameter optimization (eps = 1.000000)
[14:02:07 -244463.146800] SLOW spr round 1 (radius: 5)
[14:04:20 -244365.031303] SLOW spr round 2 (radius: 5)
[14:06:29 -244352.902113] SLOW spr round 3 (radius: 5)
[14:08:35 -244343.508834] SLOW spr round 4 (radius: 5)
[14:10:37 -244342.718775] SLOW spr round 5 (radius: 5)
[14:12:38 -244342.211580] SLOW spr round 6 (radius: 5)
[14:14:39 -244342.211580] SLOW spr round 7 (radius: 10)
[14:16:50 -244333.330020] SLOW spr round 8 (radius: 5)
[14:19:16 -244333.330002] SLOW spr round 9 (radius: 10)
[14:21:40 -244333.330002] SLOW spr round 10 (radius: 15)
[14:25:23 -244333.330002] SLOW spr round 11 (radius: 20)
[14:30:52 -244333.330002] SLOW spr round 12 (radius: 25)
[14:37:16 -244333.330002] Model parameter optimization (eps = 0.100000)

[14:37:29] ML tree search #15, logLikelihood: -244333.026396

[14:37:29 -864194.923501] Initial branch length optimization
[14:37:32 -770729.933843] Model parameter optimization (eps = 10.000000)
[14:38:01 -765955.307588] AUTODETECT spr round 1 (radius: 5)
[14:40:16 -578914.696191] AUTODETECT spr round 2 (radius: 10)
[14:42:49 -375773.574734] AUTODETECT spr round 3 (radius: 15)
[14:45:20 -299993.289848] AUTODETECT spr round 4 (radius: 20)
[14:48:24 -284663.846502] AUTODETECT spr round 5 (radius: 25)
[14:51:52 -282167.657189] SPR radius for FAST iterations: 25 (autodetect)
[14:51:52 -282167.657189] Model parameter optimization (eps = 3.000000)
[14:52:13 -281680.920035] FAST spr round 1 (radius: 25)
[14:54:42 -245989.324361] FAST spr round 2 (radius: 25)
[14:56:41 -244480.199064] FAST spr round 3 (radius: 25)
[14:58:29 -244424.454840] FAST spr round 4 (radius: 25)
[15:00:07 -244420.139583] FAST spr round 5 (radius: 25)
[15:01:43 -244420.139568] Model parameter optimization (eps = 1.000000)
[15:01:55 -244415.335206] SLOW spr round 1 (radius: 5)
[15:04:08 -244351.851825] SLOW spr round 2 (radius: 5)
[15:06:19 -244331.042116] SLOW spr round 3 (radius: 5)
[15:08:26 -244320.806720] SLOW spr round 4 (radius: 5)
[15:10:29 -244320.806655] SLOW spr round 5 (radius: 10)
[15:12:43 -244314.667766] SLOW spr round 6 (radius: 5)
[15:15:17 -244310.042909] SLOW spr round 7 (radius: 5)
[15:17:32 -244309.481872] SLOW spr round 8 (radius: 5)
[15:19:39 -244309.481819] SLOW spr round 9 (radius: 10)
[15:21:54 -244309.481814] SLOW spr round 10 (radius: 15)
[15:25:54 -244309.481813] SLOW spr round 11 (radius: 20)
[15:31:29 -244309.481813] SLOW spr round 12 (radius: 25)
[15:37:58 -244309.481813] Model parameter optimization (eps = 0.100000)

[15:38:04] ML tree search #16, logLikelihood: -244309.410058

[15:38:04 -864499.262723] Initial branch length optimization
[15:38:07 -772288.397024] Model parameter optimization (eps = 10.000000)
[15:38:34 -767466.223857] AUTODETECT spr round 1 (radius: 5)
[15:40:46 -581151.330946] AUTODETECT spr round 2 (radius: 10)
[15:43:18 -382370.889074] AUTODETECT spr round 3 (radius: 15)
[15:45:45 -306542.650767] AUTODETECT spr round 4 (radius: 20)
[15:49:07 -283413.116203] AUTODETECT spr round 5 (radius: 25)
[15:52:50 -282756.551274] SPR radius for FAST iterations: 25 (autodetect)
[15:52:50 -282756.551274] Model parameter optimization (eps = 3.000000)
[15:53:17 -282198.928202] FAST spr round 1 (radius: 25)
[15:55:46 -245773.954998] FAST spr round 2 (radius: 25)
[15:57:51 -244548.729150] FAST spr round 3 (radius: 25)
[15:59:43 -244450.447919] FAST spr round 4 (radius: 25)
[16:01:32 -244419.285098] FAST spr round 5 (radius: 25)
[16:03:13 -244411.113073] FAST spr round 6 (radius: 25)
[16:04:51 -244411.113037] Model parameter optimization (eps = 1.000000)
[16:05:03 -244409.043427] SLOW spr round 1 (radius: 5)
[16:07:19 -244364.594408] SLOW spr round 2 (radius: 5)
[16:09:27 -244357.140687] SLOW spr round 3 (radius: 5)
[16:11:32 -244357.140609] SLOW spr round 4 (radius: 10)
[16:13:47 -244350.009802] SLOW spr round 5 (radius: 5)
[16:16:18 -244346.840578] SLOW spr round 6 (radius: 5)
[16:18:31 -244346.665727] SLOW spr round 7 (radius: 5)
[16:20:35 -244346.665702] SLOW spr round 8 (radius: 10)
[16:22:47 -244345.195175] SLOW spr round 9 (radius: 5)
[16:25:13 -244345.195131] SLOW spr round 10 (radius: 10)
[16:27:37 -244343.884055] SLOW spr round 11 (radius: 5)
[16:30:08 -244319.485210] SLOW spr round 12 (radius: 5)
[16:32:21 -244315.767716] SLOW spr round 13 (radius: 5)
[16:34:28 -244315.767714] SLOW spr round 14 (radius: 10)
[16:36:43 -244314.504188] SLOW spr round 15 (radius: 5)
[16:39:17 -244311.053536] SLOW spr round 16 (radius: 5)
[16:41:31 -244310.061741] SLOW spr round 17 (radius: 5)
[16:43:38 -244310.061725] SLOW spr round 18 (radius: 10)
[16:45:53 -244310.061725] SLOW spr round 19 (radius: 15)
[16:49:50 -244310.061725] SLOW spr round 20 (radius: 20)
[16:55:31 -244310.061725] SLOW spr round 21 (radius: 25)
[17:02:10 -244310.061725] Model parameter optimization (eps = 0.100000)

[17:02:15] ML tree search #17, logLikelihood: -244310.005694

[17:02:15 -863793.988779] Initial branch length optimization
[17:02:18 -770652.570274] Model parameter optimization (eps = 10.000000)
[17:02:54 -765888.887328] AUTODETECT spr round 1 (radius: 5)
[17:05:08 -580325.549341] AUTODETECT spr round 2 (radius: 10)
[17:07:39 -382989.261054] AUTODETECT spr round 3 (radius: 15)
[17:10:06 -294410.046212] AUTODETECT spr round 4 (radius: 20)
[17:12:58 -280825.646244] AUTODETECT spr round 5 (radius: 25)
[17:16:12 -279984.467068] SPR radius for FAST iterations: 25 (autodetect)
[17:16:12 -279984.467068] Model parameter optimization (eps = 3.000000)
[17:16:38 -279348.941295] FAST spr round 1 (radius: 25)
[17:19:05 -245680.407602] FAST spr round 2 (radius: 25)
[17:21:05 -244593.377129] FAST spr round 3 (radius: 25)
[17:22:55 -244389.934707] FAST spr round 4 (radius: 25)
[17:24:35 -244383.767790] FAST spr round 5 (radius: 25)
[17:26:13 -244383.767761] Model parameter optimization (eps = 1.000000)
[17:26:23 -244380.938305] SLOW spr round 1 (radius: 5)
[17:28:36 -244323.660071] SLOW spr round 2 (radius: 5)
[17:30:45 -244322.101037] SLOW spr round 3 (radius: 5)
[17:32:50 -244321.049570] SLOW spr round 4 (radius: 5)
[17:34:53 -244321.049538] SLOW spr round 5 (radius: 10)
[17:37:07 -244318.961200] SLOW spr round 6 (radius: 5)
[17:39:39 -244313.940488] SLOW spr round 7 (radius: 5)
[17:41:52 -244313.940229] SLOW spr round 8 (radius: 10)
[17:44:08 -244312.225966] SLOW spr round 9 (radius: 5)
[17:46:37 -244310.368740] SLOW spr round 10 (radius: 5)
[17:48:49 -244310.368728] SLOW spr round 11 (radius: 10)
[17:51:02 -244310.368728] SLOW spr round 12 (radius: 15)
[17:54:50 -244310.368728] SLOW spr round 13 (radius: 20)
[18:00:26 -244310.368728] SLOW spr round 14 (radius: 25)
[18:06:54 -244310.368728] Model parameter optimization (eps = 0.100000)

[18:06:59] ML tree search #18, logLikelihood: -244310.330949

[18:07:00 -865831.764756] Initial branch length optimization
[18:07:03 -772198.705284] Model parameter optimization (eps = 10.000000)
[18:07:35 -767581.656268] AUTODETECT spr round 1 (radius: 5)
[18:09:52 -579984.080172] AUTODETECT spr round 2 (radius: 10)
[18:12:29 -365379.830377] AUTODETECT spr round 3 (radius: 15)
[18:14:56 -291438.537871] AUTODETECT spr round 4 (radius: 20)
[18:18:04 -279330.823085] AUTODETECT spr round 5 (radius: 25)
[18:21:30 -277178.588942] SPR radius for FAST iterations: 25 (autodetect)
[18:21:30 -277178.588942] Model parameter optimization (eps = 3.000000)
[18:21:56 -276672.655736] FAST spr round 1 (radius: 25)
[18:24:25 -245713.183820] FAST spr round 2 (radius: 25)
[18:26:26 -244466.271104] FAST spr round 3 (radius: 25)
[18:28:17 -244414.883730] FAST spr round 4 (radius: 25)
[18:29:56 -244406.436869] FAST spr round 5 (radius: 25)
[18:31:33 -244404.972847] FAST spr round 6 (radius: 25)
[18:33:08 -244404.972808] Model parameter optimization (eps = 1.000000)
[18:33:24 -244402.743964] SLOW spr round 1 (radius: 5)
[18:35:35 -244356.326746] SLOW spr round 2 (radius: 5)
[18:37:42 -244339.950571] SLOW spr round 3 (radius: 5)
[18:39:48 -244333.841911] SLOW spr round 4 (radius: 5)
[18:41:53 -244333.365292] SLOW spr round 5 (radius: 5)
[18:43:55 -244333.364246] SLOW spr round 6 (radius: 10)
[18:46:08 -244323.391429] SLOW spr round 7 (radius: 5)
[18:48:37 -244321.388815] SLOW spr round 8 (radius: 5)
[18:50:51 -244321.388703] SLOW spr round 9 (radius: 10)
[18:53:06 -244321.388696] SLOW spr round 10 (radius: 15)
[18:56:57 -244320.158684] SLOW spr round 11 (radius: 5)
[18:59:35 -244318.371067] SLOW spr round 12 (radius: 5)
[19:01:51 -244318.370349] SLOW spr round 13 (radius: 10)
[19:04:09 -244318.370309] SLOW spr round 14 (radius: 15)
[19:07:58 -244318.370304] SLOW spr round 15 (radius: 20)
[19:13:30 -244318.370304] SLOW spr round 16 (radius: 25)
[19:19:39 -244318.370304] Model parameter optimization (eps = 0.100000)

[19:19:44] ML tree search #19, logLikelihood: -244318.287281

[19:19:44 -865438.948720] Initial branch length optimization
[19:19:46 -772760.866577] Model parameter optimization (eps = 10.000000)
[19:20:14 -768029.108482] AUTODETECT spr round 1 (radius: 5)
[19:22:04 -581593.253478] AUTODETECT spr round 2 (radius: 10)
[19:24:10 -366292.280195] AUTODETECT spr round 3 (radius: 15)
[19:26:09 -306054.982028] AUTODETECT spr round 4 (radius: 20)
[19:28:37 -282266.684608] AUTODETECT spr round 5 (radius: 25)
[19:31:13 -280743.154399] SPR radius for FAST iterations: 25 (autodetect)
[19:31:13 -280743.154399] Model parameter optimization (eps = 3.000000)
[19:31:37 -280089.888101] FAST spr round 1 (radius: 25)
[19:33:38 -245909.527266] FAST spr round 2 (radius: 25)
[19:35:21 -244552.026576] FAST spr round 3 (radius: 25)
[19:36:52 -244470.759634] FAST spr round 4 (radius: 25)
[19:38:16 -244451.440071] FAST spr round 5 (radius: 25)
[19:39:38 -244450.285727] FAST spr round 6 (radius: 25)
[19:40:58 -244450.285352] Model parameter optimization (eps = 1.000000)
[19:41:05 -244447.578775] SLOW spr round 1 (radius: 5)
[19:42:56 -244365.226618] SLOW spr round 2 (radius: 5)
[19:44:44 -244351.333434] SLOW spr round 3 (radius: 5)
[19:46:28 -244346.514240] SLOW spr round 4 (radius: 5)
[19:48:09 -244346.514168] SLOW spr round 5 (radius: 10)
[19:49:58 -244337.058938] SLOW spr round 6 (radius: 5)
[19:52:00 -244337.058928] SLOW spr round 7 (radius: 10)
[19:54:00 -244336.730709] SLOW spr round 8 (radius: 5)
[19:56:01 -244335.696576] SLOW spr round 9 (radius: 5)
[19:57:49 -244335.696435] SLOW spr round 10 (radius: 10)
[19:59:40 -244335.696435] SLOW spr round 11 (radius: 15)
[20:02:54 -244335.696435] SLOW spr round 12 (radius: 20)
[20:07:34 -244335.696435] SLOW spr round 13 (radius: 25)
[20:13:07 -244335.696435] Model parameter optimization (eps = 0.100000)

[20:13:11] ML tree search #20, logLikelihood: -244335.683976


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.159284,0.499941) (0.158899,0.734176) (0.369779,1.418405) (0.312038,0.894797) 
   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: -244286.841800

AIC score: 492583.683599 / AICc score: 8536643.683599 / BIC score: 501711.461913
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=701).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 118 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9NV72/3_mltree/Q9NV72.raxml.log

Analysis started: 03-Jul-2021 18:06:24 / finished: 04-Jul-2021 14:19:36

Elapsed time: 72791.672 seconds

Consumed energy: 6708.067 Wh (= 34 km in an electric car, or 168 km with an e-scooter!)