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 01-Jul-2021 07:42:27 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/2_msa/O75417_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417 --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/O75417/2_msa/O75417_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 559 sites

WARNING: Sequences tr_A0A1D5NUU1_A0A1D5NUU1_CHICK_9031 and tr_G1MSU1_G1MSU1_MELGA_9103 are exactly identical!
WARNING: Sequences tr_A0A1D5NUU1_A0A1D5NUU1_CHICK_9031 and tr_R0LG86_R0LG86_ANAPL_8839 are exactly identical!
WARNING: Sequences sp_Q6P4T2_U520_MOUSE_10090 and sp_F1LNJ2_U520_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q6P4T2_U520_MOUSE_10090 and tr_A0A1S3FF03_A0A1S3FF03_DIPOR_10020 are exactly identical!
WARNING: Sequences sp_Q6P4T2_U520_MOUSE_10090 and tr_A0A1U7Q4L2_A0A1U7Q4L2_MESAU_10036 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_G3QR47_G3QR47_GORGO_9595 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_H2P548_H2P548_PONAB_9601 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_G1SY30_G1SY30_RABIT_9986 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_H2QIC8_H2QIC8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_F7E0H9_F7E0H9_HORSE_9796 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_I3MRE8_I3MRE8_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_H0WV46_H0WV46_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and sp_O75643_U520_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_I0FQ43_I0FQ43_MACMU_9544 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_F7IBV6_F7IBV6_CALJA_9483 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_G1LR17_G1LR17_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2I2UID1_A0A2I2UID1_FELCA_9685 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A096NDJ1_A0A096NDJ1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A0D9RXR5_A0A0D9RXR5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A1U7TU73_A0A1U7TU73_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2K5KVL9_A0A2K5KVL9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2K6C382_A0A2K6C382_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2K5XLU4_A0A2K5XLU4_MANLE_9568 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2R9C7E7_A0A2R9C7E7_PANPA_9597 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2U3VWT9_A0A2U3VWT9_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2U3XHT6_A0A2U3XHT6_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A2Y9L3P6_A0A2Y9L3P6_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YC22_M3YC22_MUSPF_9669 and tr_A0A384CU75_A0A384CU75_URSMA_29073 are exactly identical!
WARNING: Sequences tr_A0A0E1S3J4_A0A0E1S3J4_COCIM_246410 and tr_A0A0J6YDD2_A0A0J6YDD2_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B6QNR2_B6QNR2_TALMQ_441960 and tr_A0A093URZ9_A0A093URZ9_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_A0A179V3A9_A0A179V3A9_BLAGS_559298 and tr_C5GCX6_C5GCX6_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_J9NTZ1_J9NTZ1_CANLF_9615 and tr_A0A1S3AJD1_A0A1S3AJD1_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_A0A2I3TMA5_A0A2I3TMA5_PANTR_9598 and tr_A0A2R8ZWH6_A0A2R8ZWH6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2QZF4_H2QZF4_PANTR_9598 and tr_A0A2R8Z8J2_A0A2R8Z8J2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_W5PWZ8_W5PWZ8_SHEEP_9940 and tr_E1BH78_E1BH78_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A158NH93_A0A158NH93_ATTCE_12957 and tr_A0A195B6M6_A0A195B6M6_9HYME_520822 are exactly identical!
WARNING: Sequences tr_H0V8J7_H0V8J7_CAVPO_10141 and tr_G5BMV9_G5BMV9_HETGA_10181 are exactly identical!
WARNING: Sequences tr_H0V8J7_H0V8J7_CAVPO_10141 and tr_A0A091D8E5_A0A091D8E5_FUKDA_885580 are exactly identical!
WARNING: Sequences tr_F6SPG4_F6SPG4_MACMU_9544 and tr_G7P523_G7P523_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6SPG4_F6SPG4_MACMU_9544 and tr_A0A2K6D4I9_A0A2K6D4I9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_B8BP75_B8BP75_ORYSI_39946 and tr_I1R5Q3_I1R5Q3_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_B8BP75_B8BP75_ORYSI_39946 and tr_A0A0P0Y964_A0A0P0Y964_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0RG60_A0A0E0RG60_ORYRU_4529 and tr_A0A0D3HTH2_A0A0D3HTH2_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0RG60_A0A0E0RG60_ORYRU_4529 and tr_A0A0E0BRI9_A0A0E0BRI9_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A3B5Y3S6_A0A3B5Y3S6_WHEAT_4565 and tr_A0A3B5Z2C7_A0A3B5Z2C7_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A151MMC8_A0A151MMC8_ALLMI_8496 and tr_A0A1U7SD66_A0A1U7SD66_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A0R3QDQ8_A0A0R3QDQ8_9BILA_42155 and tr_A0A0R3RHQ9_A0A0R3RHQ9_9BILA_1147741 are exactly identical!
WARNING: Sequences tr_A0A2D0SZM6_A0A2D0SZM6_ICTPU_7998 and tr_A0A2D0T0K5_A0A2D0T0K5_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2J6JLW3_A0A2J6JLW3_LACSA_4236 and tr_A0A2J6KEL4_A0A2J6KEL4_LACSA_4236 are exactly identical!
WARNING: Sequences tr_A0A2U4B058_A0A2U4B058_TURTR_9739 and tr_A0A2Y9QB21_A0A2Y9QB21_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A383W4H7_A0A383W4H7_TETOB_3088 and tr_A0A383WPU4_A0A383WPU4_TETOB_3088 are exactly identical!
WARNING: Duplicate sequences found: 51

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/O75417/3_mltree/O75417.raxml.reduced.phy

Alignment comprises 1 partitions and 559 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 559 / 559
Gaps: 16.18 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.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 / 80 / 6400
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -892929.737307] Initial branch length optimization
[00:00:04 -743152.266015] Model parameter optimization (eps = 10.000000)
[00:00:58 -739716.552300] AUTODETECT spr round 1 (radius: 5)
[00:02:45 -510430.789356] AUTODETECT spr round 2 (radius: 10)
[00:04:42 -383234.843710] AUTODETECT spr round 3 (radius: 15)
[00:06:40 -325248.575048] AUTODETECT spr round 4 (radius: 20)
[00:08:54 -289735.218550] AUTODETECT spr round 5 (radius: 25)
[00:11:18 -283463.992521] SPR radius for FAST iterations: 25 (autodetect)
[00:11:18 -283463.992521] Model parameter optimization (eps = 3.000000)
[00:11:50 -283092.161342] FAST spr round 1 (radius: 25)
[00:14:21 -251333.514830] FAST spr round 2 (radius: 25)
[00:16:22 -250134.776899] FAST spr round 3 (radius: 25)
[00:18:12 -249990.691048] FAST spr round 4 (radius: 25)
[00:19:52 -249961.954872] FAST spr round 5 (radius: 25)
[00:21:23 -249956.724544] FAST spr round 6 (radius: 25)
[00:22:50 -249947.524789] FAST spr round 7 (radius: 25)
[00:24:18 -249947.512384] Model parameter optimization (eps = 1.000000)
[00:24:31 -249934.596637] SLOW spr round 1 (radius: 5)
[00:26:17 -249897.456206] SLOW spr round 2 (radius: 5)
[00:28:05 -249896.589035] SLOW spr round 3 (radius: 5)
[00:29:52 -249896.587750] SLOW spr round 4 (radius: 10)
[00:31:47 -249893.565298] SLOW spr round 5 (radius: 5)
[00:33:55 -249892.020152] SLOW spr round 6 (radius: 5)
[00:35:49 -249891.917267] SLOW spr round 7 (radius: 5)
[00:37:37 -249891.915841] SLOW spr round 8 (radius: 10)
[00:39:30 -249890.340913] SLOW spr round 9 (radius: 5)
[00:41:33 -249890.340327] SLOW spr round 10 (radius: 10)
[00:43:31 -249890.340174] SLOW spr round 11 (radius: 15)
[00:46:23 -249890.340121] SLOW spr round 12 (radius: 20)
[00:50:32 -249889.060475] SLOW spr round 13 (radius: 5)
[00:52:48 -249888.949814] SLOW spr round 14 (radius: 5)
[00:54:48 -249888.948676] SLOW spr round 15 (radius: 10)
[00:56:46 -249888.948245] SLOW spr round 16 (radius: 15)
[00:59:42 -249888.948020] SLOW spr round 17 (radius: 20)
[01:03:49 -249888.947955] SLOW spr round 18 (radius: 25)
[01:09:02 -249770.824473] SLOW spr round 19 (radius: 5)
[01:11:21 -249745.824490] SLOW spr round 20 (radius: 5)
[01:13:22 -249745.823894] SLOW spr round 21 (radius: 10)
[01:15:24 -249695.467924] SLOW spr round 22 (radius: 5)
[01:17:34 -249637.432995] SLOW spr round 23 (radius: 5)
[01:19:29 -249634.563951] SLOW spr round 24 (radius: 5)
[01:21:16 -249634.563249] SLOW spr round 25 (radius: 10)
[01:23:08 -249633.549617] SLOW spr round 26 (radius: 5)
[01:25:12 -249633.547670] SLOW spr round 27 (radius: 10)
[01:27:12 -249633.547357] SLOW spr round 28 (radius: 15)
[01:30:09 -249282.181573] SLOW spr round 29 (radius: 5)
[01:32:27 -249257.050981] SLOW spr round 30 (radius: 5)
[01:34:26 -249256.119564] SLOW spr round 31 (radius: 5)
[01:36:18 -249256.027110] SLOW spr round 32 (radius: 10)
[01:38:12 -249256.024830] SLOW spr round 33 (radius: 15)
[01:41:09 -249254.611775] SLOW spr round 34 (radius: 5)
[01:43:24 -249254.445025] SLOW spr round 35 (radius: 5)
[01:45:24 -249254.444103] SLOW spr round 36 (radius: 10)
[01:47:21 -249254.444050] SLOW spr round 37 (radius: 15)
[01:50:20 -249254.444033] SLOW spr round 38 (radius: 20)
[01:54:37 -249251.520130] SLOW spr round 39 (radius: 5)
[01:56:52 -249251.164674] SLOW spr round 40 (radius: 5)
[01:58:52 -249251.132075] SLOW spr round 41 (radius: 10)
[02:00:49 -249251.131865] SLOW spr round 42 (radius: 15)
[02:03:46 -249251.131817] SLOW spr round 43 (radius: 20)
[02:07:58 -249251.131799] SLOW spr round 44 (radius: 25)
[02:13:07 -249250.660503] SLOW spr round 45 (radius: 5)
[02:15:19 -249250.657239] SLOW spr round 46 (radius: 10)
[02:17:34 -249250.656585] SLOW spr round 47 (radius: 15)
[02:20:30 -249250.656473] SLOW spr round 48 (radius: 20)
[02:24:47 -249250.656453] SLOW spr round 49 (radius: 25)
[02:30:03 -249250.656448] Model parameter optimization (eps = 0.100000)

[02:30:14] ML tree search #1, logLikelihood: -249249.600226

[02:30:14 -900354.020458] Initial branch length optimization
[02:30:18 -750642.783651] Model parameter optimization (eps = 10.000000)
[02:30:58 -747391.873326] AUTODETECT spr round 1 (radius: 5)
[02:32:49 -515640.028346] AUTODETECT spr round 2 (radius: 10)
[02:34:50 -381942.581610] AUTODETECT spr round 3 (radius: 15)
[02:36:57 -323872.645495] AUTODETECT spr round 4 (radius: 20)
[02:39:13 -294720.031493] AUTODETECT spr round 5 (radius: 25)
[02:41:52 -287428.514090] SPR radius for FAST iterations: 25 (autodetect)
[02:41:52 -287428.514090] Model parameter optimization (eps = 3.000000)
[02:42:24 -287116.268192] FAST spr round 1 (radius: 25)
[02:44:57 -253312.086105] FAST spr round 2 (radius: 25)
[02:46:59 -249471.512350] FAST spr round 3 (radius: 25)
[02:48:47 -249244.155354] FAST spr round 4 (radius: 25)
[02:50:24 -249196.942390] FAST spr round 5 (radius: 25)
[02:51:54 -249186.212743] FAST spr round 6 (radius: 25)
[02:53:20 -249186.210507] Model parameter optimization (eps = 1.000000)
[02:53:34 -249182.718158] SLOW spr round 1 (radius: 5)
[02:55:17 -249131.668629] SLOW spr round 2 (radius: 5)
[02:57:01 -249126.760679] SLOW spr round 3 (radius: 5)
[02:58:46 -249126.281775] SLOW spr round 4 (radius: 5)
[03:00:29 -249126.278309] SLOW spr round 5 (radius: 10)
[03:02:22 -249126.276582] SLOW spr round 6 (radius: 15)
[03:05:20 -249126.275739] SLOW spr round 7 (radius: 20)
[03:09:31 -249124.481340] SLOW spr round 8 (radius: 5)
[03:11:47 -249123.668101] SLOW spr round 9 (radius: 5)
[03:13:47 -249123.667418] SLOW spr round 10 (radius: 10)
[03:15:46 -249123.667206] SLOW spr round 11 (radius: 15)
[03:18:47 -249123.322865] SLOW spr round 12 (radius: 5)
[03:21:01 -249122.139594] SLOW spr round 13 (radius: 5)
[03:23:02 -249121.653986] SLOW spr round 14 (radius: 5)
[03:24:53 -249121.653778] SLOW spr round 15 (radius: 10)
[03:26:47 -249121.653689] SLOW spr round 16 (radius: 15)
[03:29:45 -249121.653632] SLOW spr round 17 (radius: 20)
[03:33:53 -249121.625172] SLOW spr round 18 (radius: 25)
[03:38:54 -249121.622780] Model parameter optimization (eps = 0.100000)

[03:38:59] ML tree search #2, logLikelihood: -249121.608335

[03:38:59 -899728.364345] Initial branch length optimization
[03:39:03 -746604.217332] Model parameter optimization (eps = 10.000000)
[03:39:47 -743127.590111] AUTODETECT spr round 1 (radius: 5)
[03:41:32 -504278.813588] AUTODETECT spr round 2 (radius: 10)
[03:43:25 -388210.448712] AUTODETECT spr round 3 (radius: 15)
[03:45:27 -329950.959714] AUTODETECT spr round 4 (radius: 20)
[03:47:52 -289053.141030] AUTODETECT spr round 5 (radius: 25)
[03:50:20 -284574.909770] SPR radius for FAST iterations: 25 (autodetect)
[03:50:20 -284574.909770] Model parameter optimization (eps = 3.000000)
[03:50:45 -284192.304982] FAST spr round 1 (radius: 25)
[03:53:08 -251787.469466] FAST spr round 2 (radius: 25)
[03:55:04 -249859.703756] FAST spr round 3 (radius: 25)
[03:56:46 -249369.652963] FAST spr round 4 (radius: 25)
[03:58:24 -249333.890218] FAST spr round 5 (radius: 25)
[03:59:54 -249327.712539] FAST spr round 6 (radius: 25)
[04:01:21 -249327.711638] Model parameter optimization (eps = 1.000000)
[04:01:37 -249316.401297] SLOW spr round 1 (radius: 5)
[04:03:21 -249265.630338] SLOW spr round 2 (radius: 5)
[04:05:11 -249253.740855] SLOW spr round 3 (radius: 5)
[04:07:02 -249247.036436] SLOW spr round 4 (radius: 5)
[04:08:51 -249247.034902] SLOW spr round 5 (radius: 10)
[04:10:44 -249247.034322] SLOW spr round 6 (radius: 15)
[04:13:40 -249247.034286] SLOW spr round 7 (radius: 20)
[04:17:39 -249243.823030] SLOW spr round 8 (radius: 5)
[04:19:50 -249243.588215] SLOW spr round 9 (radius: 5)
[04:21:47 -249243.587679] SLOW spr round 10 (radius: 10)
[04:23:41 -249243.587229] SLOW spr round 11 (radius: 15)
[04:26:32 -249236.425129] SLOW spr round 12 (radius: 5)
[04:28:39 -249236.423695] SLOW spr round 13 (radius: 10)
[04:30:42 -249236.423682] SLOW spr round 14 (radius: 15)
[04:33:35 -249236.423677] SLOW spr round 15 (radius: 20)
[04:37:45 -249236.423677] SLOW spr round 16 (radius: 25)
[04:42:50 -249219.392863] SLOW spr round 17 (radius: 5)
[04:45:06 -249214.298695] SLOW spr round 18 (radius: 5)
[04:47:06 -249212.104602] SLOW spr round 19 (radius: 5)
[04:48:58 -249212.103976] SLOW spr round 20 (radius: 10)
[04:50:54 -249197.852177] SLOW spr round 21 (radius: 5)
[04:53:04 -249117.267878] SLOW spr round 22 (radius: 5)
[04:55:00 -249117.082342] SLOW spr round 23 (radius: 5)
[04:56:48 -249117.080963] SLOW spr round 24 (radius: 10)
[04:58:41 -249116.867870] SLOW spr round 25 (radius: 5)
[05:00:47 -249116.866285] SLOW spr round 26 (radius: 10)
[05:02:47 -249116.865908] SLOW spr round 27 (radius: 15)
[05:05:39 -249116.865817] SLOW spr round 28 (radius: 20)
[05:09:45 -249116.865794] SLOW spr round 29 (radius: 25)
[05:14:49 -249116.865787] Model parameter optimization (eps = 0.100000)

[05:14:56] ML tree search #3, logLikelihood: -249116.745082

[05:14:56 -900897.768492] Initial branch length optimization
[05:15:00 -747705.582934] Model parameter optimization (eps = 10.000000)
[05:15:39 -744446.991721] AUTODETECT spr round 1 (radius: 5)
[05:17:29 -504220.357549] AUTODETECT spr round 2 (radius: 10)
[05:19:25 -382674.436534] AUTODETECT spr round 3 (radius: 15)
[05:21:29 -314947.908671] AUTODETECT spr round 4 (radius: 20)
[05:23:40 -283960.533066] AUTODETECT spr round 5 (radius: 25)
[05:26:01 -281063.232555] SPR radius for FAST iterations: 25 (autodetect)
[05:26:01 -281063.232555] Model parameter optimization (eps = 3.000000)
[05:26:22 -280720.336100] FAST spr round 1 (radius: 25)
[05:28:54 -250974.953353] FAST spr round 2 (radius: 25)
[05:30:58 -249749.049244] FAST spr round 3 (radius: 25)
[05:32:45 -249372.473393] FAST spr round 4 (radius: 25)
[05:34:24 -249241.138691] FAST spr round 5 (radius: 25)
[05:35:56 -249235.213311] FAST spr round 6 (radius: 25)
[05:37:26 -249235.199646] Model parameter optimization (eps = 1.000000)
[05:37:43 -249219.582620] SLOW spr round 1 (radius: 5)
[05:39:32 -249169.146838] SLOW spr round 2 (radius: 5)
[05:41:19 -249165.282988] SLOW spr round 3 (radius: 5)
[05:43:07 -249164.476618] SLOW spr round 4 (radius: 5)
[05:44:54 -249162.891380] SLOW spr round 5 (radius: 5)
[05:46:40 -249162.880076] SLOW spr round 6 (radius: 10)
[05:48:30 -249159.893928] SLOW spr round 7 (radius: 5)
[05:50:36 -249157.552485] SLOW spr round 8 (radius: 5)
[05:52:28 -249156.962504] SLOW spr round 9 (radius: 5)
[05:54:15 -249156.962432] SLOW spr round 10 (radius: 10)
[05:56:03 -249156.962431] SLOW spr round 11 (radius: 15)
[05:58:52 -249153.210238] SLOW spr round 12 (radius: 5)
[06:00:57 -249153.208829] SLOW spr round 13 (radius: 10)
[06:02:59 -249153.208359] SLOW spr round 14 (radius: 15)
[06:05:42 -249153.208200] SLOW spr round 15 (radius: 20)
[06:09:31 -249151.835287] SLOW spr round 16 (radius: 5)
[06:11:39 -249151.830251] SLOW spr round 17 (radius: 10)
[06:13:41 -249151.829011] SLOW spr round 18 (radius: 15)
[06:16:25 -249151.828745] SLOW spr round 19 (radius: 20)
[06:20:14 -249151.828691] SLOW spr round 20 (radius: 25)
[06:24:46 -249151.127118] SLOW spr round 21 (radius: 5)
[06:26:56 -249151.123304] SLOW spr round 22 (radius: 10)
[06:29:00 -249151.122610] SLOW spr round 23 (radius: 15)
[06:31:43 -249151.122443] SLOW spr round 24 (radius: 20)
[06:35:31 -249151.122386] SLOW spr round 25 (radius: 25)
[06:40:03 -249151.122360] Model parameter optimization (eps = 0.100000)

[06:40:13] ML tree search #4, logLikelihood: -249150.076393

[06:40:13 -900417.344384] Initial branch length optimization
[06:40:18 -745666.151582] Model parameter optimization (eps = 10.000000)
[06:40:55 -742373.944734] AUTODETECT spr round 1 (radius: 5)
[06:42:42 -509886.457416] AUTODETECT spr round 2 (radius: 10)
[06:44:35 -390889.870130] AUTODETECT spr round 3 (radius: 15)
[06:46:41 -317667.315471] AUTODETECT spr round 4 (radius: 20)
[06:48:52 -293752.257678] AUTODETECT spr round 5 (radius: 25)
[06:51:23 -284486.161076] SPR radius for FAST iterations: 25 (autodetect)
[06:51:23 -284486.161076] Model parameter optimization (eps = 3.000000)
[06:51:39 -284175.973476] FAST spr round 1 (radius: 25)
[06:54:10 -250868.513569] FAST spr round 2 (radius: 25)
[06:56:13 -249675.211861] FAST spr round 3 (radius: 25)
[06:57:59 -249537.476240] FAST spr round 4 (radius: 25)
[06:59:35 -249501.899905] FAST spr round 5 (radius: 25)
[07:01:02 -249501.856201] Model parameter optimization (eps = 1.000000)
[07:01:15 -249493.027962] SLOW spr round 1 (radius: 5)
[07:03:02 -249439.983988] SLOW spr round 2 (radius: 5)
[07:04:48 -249437.884242] SLOW spr round 3 (radius: 5)
[07:06:30 -249437.869446] SLOW spr round 4 (radius: 10)
[07:08:18 -249430.899389] SLOW spr round 5 (radius: 5)
[07:10:22 -249425.068098] SLOW spr round 6 (radius: 5)
[07:12:14 -249425.066922] SLOW spr round 7 (radius: 10)
[07:14:05 -249425.066571] SLOW spr round 8 (radius: 15)
[07:16:50 -249425.066356] SLOW spr round 9 (radius: 20)
[07:20:42 -249423.751307] SLOW spr round 10 (radius: 5)
[07:22:51 -249423.750952] SLOW spr round 11 (radius: 10)
[07:24:54 -249423.750798] SLOW spr round 12 (radius: 15)
[07:27:34 -249423.750676] SLOW spr round 13 (radius: 20)
[07:31:23 -249423.750576] SLOW spr round 14 (radius: 25)
[07:35:56 -249333.190020] SLOW spr round 15 (radius: 5)
[07:38:14 -249226.553564] SLOW spr round 16 (radius: 5)
[07:40:11 -249226.377546] SLOW spr round 17 (radius: 5)
[07:42:02 -249224.714824] SLOW spr round 18 (radius: 5)
[07:43:46 -249224.455393] SLOW spr round 19 (radius: 5)
[07:45:32 -249222.227512] SLOW spr round 20 (radius: 5)
[07:47:17 -249220.840685] SLOW spr round 21 (radius: 5)
[07:49:01 -249216.044373] SLOW spr round 22 (radius: 5)
[07:50:37 -249204.296566] SLOW spr round 23 (radius: 5)
[07:52:13 -249202.665760] SLOW spr round 24 (radius: 5)
[07:53:44 -249202.664462] SLOW spr round 25 (radius: 10)
[07:55:17 -249202.664025] SLOW spr round 26 (radius: 15)
[07:57:49 -249202.663816] SLOW spr round 27 (radius: 20)
[08:01:13 -249199.542127] SLOW spr round 28 (radius: 5)
[08:03:08 -249199.221158] SLOW spr round 29 (radius: 5)
[08:04:47 -249199.220130] SLOW spr round 30 (radius: 10)
[08:06:24 -249199.220119] SLOW spr round 31 (radius: 15)
[08:08:46 -249199.220112] SLOW spr round 32 (radius: 20)
[08:12:07 -249199.220105] SLOW spr round 33 (radius: 25)
[08:16:59 -249199.220099] Model parameter optimization (eps = 0.100000)

[08:17:12] ML tree search #5, logLikelihood: -249197.725223

[08:17:12 -906398.311426] Initial branch length optimization
[08:17:16 -752682.646825] Model parameter optimization (eps = 10.000000)
[08:18:05 -749300.970026] AUTODETECT spr round 1 (radius: 5)
[08:19:57 -518801.994274] AUTODETECT spr round 2 (radius: 10)
[08:21:57 -393418.561593] AUTODETECT spr round 3 (radius: 15)
[08:24:07 -314281.256888] AUTODETECT spr round 4 (radius: 20)
[08:26:38 -286338.960815] AUTODETECT spr round 5 (radius: 25)
[08:29:29 -280282.184264] SPR radius for FAST iterations: 25 (autodetect)
[08:29:29 -280282.184264] Model parameter optimization (eps = 3.000000)
[08:29:50 -279883.336398] FAST spr round 1 (radius: 25)
[08:32:29 -250821.799251] FAST spr round 2 (radius: 25)
[08:34:37 -249544.205933] FAST spr round 3 (radius: 25)
[08:36:31 -249358.586610] FAST spr round 4 (radius: 25)
[08:38:12 -249304.222229] FAST spr round 5 (radius: 25)
[08:39:46 -249297.019867] FAST spr round 6 (radius: 25)
[08:41:19 -249297.018665] Model parameter optimization (eps = 1.000000)
[08:41:32 -249281.114763] SLOW spr round 1 (radius: 5)
[08:43:25 -249244.859405] SLOW spr round 2 (radius: 5)
[08:45:17 -249240.573965] SLOW spr round 3 (radius: 5)
[08:47:08 -249238.422286] SLOW spr round 4 (radius: 5)
[08:48:58 -249238.421503] SLOW spr round 5 (radius: 10)
[08:50:53 -249238.031576] SLOW spr round 6 (radius: 5)
[08:53:04 -249235.489105] SLOW spr round 7 (radius: 5)
[08:55:02 -249235.402168] SLOW spr round 8 (radius: 10)
[08:56:59 -249235.400774] SLOW spr round 9 (radius: 15)
[08:59:51 -249234.969111] SLOW spr round 10 (radius: 5)
[09:02:03 -249234.957331] SLOW spr round 11 (radius: 10)
[09:04:09 -249234.956475] SLOW spr round 12 (radius: 15)
[09:06:56 -249234.955613] SLOW spr round 13 (radius: 20)
[09:10:47 -249230.780851] SLOW spr round 14 (radius: 5)
[09:13:00 -249230.768141] SLOW spr round 15 (radius: 10)
[09:15:11 -249230.767186] SLOW spr round 16 (radius: 15)
[09:18:05 -249230.766230] SLOW spr round 17 (radius: 20)
[09:22:07 -249230.765270] SLOW spr round 18 (radius: 25)
[09:26:56 -249230.764307] Model parameter optimization (eps = 0.100000)

[09:27:10] ML tree search #6, logLikelihood: -249230.484236

[09:27:10 -908910.242187] Initial branch length optimization
[09:27:14 -756616.517736] Model parameter optimization (eps = 10.000000)
[09:28:03 -753291.372881] AUTODETECT spr round 1 (radius: 5)
[09:29:52 -510070.885408] AUTODETECT spr round 2 (radius: 10)
[09:31:51 -394542.652201] AUTODETECT spr round 3 (radius: 15)
[09:33:59 -333042.065400] AUTODETECT spr round 4 (radius: 20)
[09:36:11 -300089.289886] AUTODETECT spr round 5 (radius: 25)
[09:38:38 -287669.265667] SPR radius for FAST iterations: 25 (autodetect)
[09:38:38 -287669.265667] Model parameter optimization (eps = 3.000000)
[09:39:05 -287305.546098] FAST spr round 1 (radius: 25)
[09:41:48 -251523.460338] FAST spr round 2 (radius: 25)
[09:43:57 -249512.963503] FAST spr round 3 (radius: 25)
[09:45:50 -249403.787181] FAST spr round 4 (radius: 25)
[09:47:35 -249374.789831] FAST spr round 5 (radius: 25)
[09:49:12 -249340.559046] FAST spr round 6 (radius: 25)
[09:50:42 -249340.157841] FAST spr round 7 (radius: 25)
[09:52:11 -249340.146655] Model parameter optimization (eps = 1.000000)
[09:52:25 -249327.597729] SLOW spr round 1 (radius: 5)
[09:54:15 -249294.021096] SLOW spr round 2 (radius: 5)
[09:56:06 -249285.263005] SLOW spr round 3 (radius: 5)
[09:57:57 -249280.637178] SLOW spr round 4 (radius: 5)
[09:59:48 -249268.284369] SLOW spr round 5 (radius: 5)
[10:01:37 -249267.124836] SLOW spr round 6 (radius: 5)
[10:03:23 -249267.124735] SLOW spr round 7 (radius: 10)
[10:05:18 -249265.102548] SLOW spr round 8 (radius: 5)
[10:07:26 -249265.102457] SLOW spr round 9 (radius: 10)
[10:09:27 -249265.102448] SLOW spr round 10 (radius: 15)
[10:12:18 -249263.702812] SLOW spr round 11 (radius: 5)
[10:14:29 -249263.677012] SLOW spr round 12 (radius: 10)
[10:16:34 -249263.675179] SLOW spr round 13 (radius: 15)
[10:19:23 -249263.674336] SLOW spr round 14 (radius: 20)
[10:23:19 -249263.299765] SLOW spr round 15 (radius: 5)
[10:25:30 -249263.299545] SLOW spr round 16 (radius: 10)
[10:27:38 -249263.299531] SLOW spr round 17 (radius: 15)
[10:30:26 -249263.299528] SLOW spr round 18 (radius: 20)
[10:34:22 -249263.299527] SLOW spr round 19 (radius: 25)
[10:39:15 -249262.730849] SLOW spr round 20 (radius: 5)
[10:41:31 -249262.726022] SLOW spr round 21 (radius: 10)
[10:43:42 -249262.724461] SLOW spr round 22 (radius: 15)
[10:46:32 -249262.723817] SLOW spr round 23 (radius: 20)
[10:50:30 -249262.723512] SLOW spr round 24 (radius: 25)
[10:55:23 -249262.621584] SLOW spr round 25 (radius: 5)
[10:57:42 -249259.380628] SLOW spr round 26 (radius: 5)
[10:59:43 -249258.493162] SLOW spr round 27 (radius: 5)
[11:01:35 -249258.492655] SLOW spr round 28 (radius: 10)
[11:03:29 -249256.471150] SLOW spr round 29 (radius: 5)
[11:05:38 -249253.261154] SLOW spr round 30 (radius: 5)
[11:07:34 -249253.259917] SLOW spr round 31 (radius: 10)
[11:09:30 -249253.259723] SLOW spr round 32 (radius: 15)
[11:12:32 -249253.259693] SLOW spr round 33 (radius: 20)
[11:16:53 -249249.942752] SLOW spr round 34 (radius: 5)
[11:19:10 -249245.069277] SLOW spr round 35 (radius: 5)
[11:21:10 -249245.069204] SLOW spr round 36 (radius: 10)
[11:23:11 -249245.069187] SLOW spr round 37 (radius: 15)
[11:26:16 -249245.069180] SLOW spr round 38 (radius: 20)
[11:30:38 -249245.069173] SLOW spr round 39 (radius: 25)
[11:35:59 -249245.069171] Model parameter optimization (eps = 0.100000)

[11:36:09] ML tree search #7, logLikelihood: -249244.218693

[11:36:10 -900568.678941] Initial branch length optimization
[11:36:14 -747146.406282] Model parameter optimization (eps = 10.000000)
[11:36:52 -743706.516644] AUTODETECT spr round 1 (radius: 5)
[11:38:43 -509500.744486] AUTODETECT spr round 2 (radius: 10)
[11:40:40 -377151.764547] AUTODETECT spr round 3 (radius: 15)
[11:42:49 -299742.666304] AUTODETECT spr round 4 (radius: 20)
[11:45:14 -284949.345719] AUTODETECT spr round 5 (radius: 25)
[11:48:09 -280507.253711] SPR radius for FAST iterations: 25 (autodetect)
[11:48:09 -280507.253711] Model parameter optimization (eps = 3.000000)
[11:48:37 -280192.906938] FAST spr round 1 (radius: 25)
[11:51:24 -250520.125158] FAST spr round 2 (radius: 25)
[11:53:35 -249478.687720] FAST spr round 3 (radius: 25)
[11:55:29 -249383.428646] FAST spr round 4 (radius: 25)
[11:57:09 -249362.615828] FAST spr round 5 (radius: 25)
[11:58:44 -249360.642501] FAST spr round 6 (radius: 25)
[12:00:17 -249360.639796] Model parameter optimization (eps = 1.000000)
[12:00:30 -249350.265691] SLOW spr round 1 (radius: 5)
[12:02:24 -249303.285893] SLOW spr round 2 (radius: 5)
[12:04:19 -249299.851908] SLOW spr round 3 (radius: 5)
[12:06:15 -249297.010221] SLOW spr round 4 (radius: 5)
[12:08:08 -249294.810805] SLOW spr round 5 (radius: 5)
[12:10:00 -249294.810257] SLOW spr round 6 (radius: 10)
[12:11:59 -249292.886215] SLOW spr round 7 (radius: 5)
[12:14:13 -249292.884313] SLOW spr round 8 (radius: 10)
[12:16:22 -249292.883848] SLOW spr round 9 (radius: 15)
[12:19:22 -249292.112558] SLOW spr round 10 (radius: 5)
[12:21:42 -249291.692412] SLOW spr round 11 (radius: 5)
[12:23:46 -249291.617047] SLOW spr round 12 (radius: 10)
[12:25:47 -249291.616272] SLOW spr round 13 (radius: 15)
[12:28:45 -249291.615851] SLOW spr round 14 (radius: 20)
[12:32:55 -249275.361199] SLOW spr round 15 (radius: 5)
[12:35:11 -249272.945562] SLOW spr round 16 (radius: 5)
[12:37:11 -249272.944822] SLOW spr round 17 (radius: 10)
[12:39:08 -249272.944324] SLOW spr round 18 (radius: 15)
[12:42:01 -249269.326859] SLOW spr round 19 (radius: 5)
[12:44:13 -249268.986236] SLOW spr round 20 (radius: 5)
[12:46:11 -249268.926804] SLOW spr round 21 (radius: 10)
[12:48:06 -249267.266748] SLOW spr round 22 (radius: 5)
[12:50:11 -249266.788520] SLOW spr round 23 (radius: 5)
[12:52:04 -249266.787212] SLOW spr round 24 (radius: 10)
[12:53:58 -249266.786465] SLOW spr round 25 (radius: 15)
[12:56:58 -249266.785847] SLOW spr round 26 (radius: 20)
[13:01:16 -249262.940827] SLOW spr round 27 (radius: 5)
[13:03:30 -249261.761020] SLOW spr round 28 (radius: 5)
[13:05:29 -249261.760470] SLOW spr round 29 (radius: 10)
[13:07:27 -249261.759916] SLOW spr round 30 (radius: 15)
[13:10:28 -249261.759359] SLOW spr round 31 (radius: 20)
[13:14:47 -249261.758798] SLOW spr round 32 (radius: 25)
[13:20:08 -249261.758233] Model parameter optimization (eps = 0.100000)

[13:20:19] ML tree search #8, logLikelihood: -249261.238622

[13:20:19 -893736.243366] Initial branch length optimization
[13:20:23 -742165.274661] Model parameter optimization (eps = 10.000000)
[13:21:04 -738849.430791] AUTODETECT spr round 1 (radius: 5)
[13:22:58 -502355.396892] AUTODETECT spr round 2 (radius: 10)
[13:24:59 -376658.245684] AUTODETECT spr round 3 (radius: 15)
[13:27:11 -311996.354936] AUTODETECT spr round 4 (radius: 20)
[13:29:37 -287114.467324] AUTODETECT spr round 5 (radius: 25)
[13:32:42 -281632.232273] SPR radius for FAST iterations: 25 (autodetect)
[13:32:42 -281632.232273] Model parameter optimization (eps = 3.000000)
[13:33:05 -281347.120629] FAST spr round 1 (radius: 25)
[13:35:45 -250853.205271] FAST spr round 2 (radius: 25)
[13:37:47 -249358.342147] FAST spr round 3 (radius: 25)
[13:39:37 -249283.000738] FAST spr round 4 (radius: 25)
[13:41:14 -249278.276992] FAST spr round 5 (radius: 25)
[13:42:48 -249276.214728] FAST spr round 6 (radius: 25)
[13:44:18 -249276.213672] Model parameter optimization (eps = 1.000000)
[13:44:34 -249263.905125] SLOW spr round 1 (radius: 5)
[13:46:20 -249171.466036] SLOW spr round 2 (radius: 5)
[13:48:11 -249164.197685] SLOW spr round 3 (radius: 5)
[13:50:01 -249158.619731] SLOW spr round 4 (radius: 5)
[13:51:50 -249158.447143] SLOW spr round 5 (radius: 5)
[13:53:38 -249158.446100] SLOW spr round 6 (radius: 10)
[13:55:32 -249158.445016] SLOW spr round 7 (radius: 15)
[13:58:27 -249158.444878] SLOW spr round 8 (radius: 20)
[14:02:23 -249157.767994] SLOW spr round 9 (radius: 5)
[14:04:39 -249156.425178] SLOW spr round 10 (radius: 5)
[14:06:38 -249156.423906] SLOW spr round 11 (radius: 10)
[14:08:35 -249151.589478] SLOW spr round 12 (radius: 5)
[14:10:48 -249140.308768] SLOW spr round 13 (radius: 5)
[14:12:46 -249140.308324] SLOW spr round 14 (radius: 10)
[14:14:44 -249140.308048] SLOW spr round 15 (radius: 15)
[14:17:43 -249140.307860] SLOW spr round 16 (radius: 20)
[14:21:52 -249140.151095] SLOW spr round 17 (radius: 5)
[14:24:13 -249137.495824] SLOW spr round 18 (radius: 5)
[14:26:20 -249135.829844] SLOW spr round 19 (radius: 5)
[14:28:17 -249135.829374] SLOW spr round 20 (radius: 10)
[14:30:14 -249135.829297] SLOW spr round 21 (radius: 15)
[14:33:19 -249135.166079] SLOW spr round 22 (radius: 5)
[14:35:33 -249135.165285] SLOW spr round 23 (radius: 10)
[14:37:39 -249135.165078] SLOW spr round 24 (radius: 15)
[14:40:32 -249135.165000] SLOW spr round 25 (radius: 20)
[14:44:46 -249135.164964] SLOW spr round 26 (radius: 25)
[14:49:56 -249135.164945] Model parameter optimization (eps = 0.100000)

[14:50:07] ML tree search #9, logLikelihood: -249133.392610

[14:50:07 -898530.556720] Initial branch length optimization
[14:50:11 -747224.566542] Model parameter optimization (eps = 10.000000)
[14:50:56 -743846.753568] AUTODETECT spr round 1 (radius: 5)
[14:52:50 -505412.420241] AUTODETECT spr round 2 (radius: 10)
[14:54:54 -383175.358377] AUTODETECT spr round 3 (radius: 15)
[14:57:09 -317015.441200] AUTODETECT spr round 4 (radius: 20)
[14:59:33 -290844.998275] AUTODETECT spr round 5 (radius: 25)
[15:02:34 -283786.569166] SPR radius for FAST iterations: 25 (autodetect)
[15:02:34 -283786.569166] Model parameter optimization (eps = 3.000000)
[15:02:57 -283524.075181] FAST spr round 1 (radius: 25)
[15:05:43 -250377.899500] FAST spr round 2 (radius: 25)
[15:07:51 -249657.395579] FAST spr round 3 (radius: 25)
[15:09:45 -249559.127924] FAST spr round 4 (radius: 25)
[15:11:26 -249253.326860] FAST spr round 5 (radius: 25)
[15:13:01 -249253.046866] FAST spr round 6 (radius: 25)
[15:14:34 -249253.046173] Model parameter optimization (eps = 1.000000)
[15:14:52 -249231.148358] SLOW spr round 1 (radius: 5)
[15:16:42 -249179.506797] SLOW spr round 2 (radius: 5)
[15:18:34 -249167.893734] SLOW spr round 3 (radius: 5)
[15:20:26 -249164.660708] SLOW spr round 4 (radius: 5)
[15:22:17 -249164.649394] SLOW spr round 5 (radius: 10)
[15:24:18 -249160.255670] SLOW spr round 6 (radius: 5)
[15:26:32 -249159.393653] SLOW spr round 7 (radius: 5)
[15:28:33 -249159.382432] SLOW spr round 8 (radius: 10)
[15:30:35 -249157.559580] SLOW spr round 9 (radius: 5)
[15:32:46 -249157.436791] SLOW spr round 10 (radius: 5)
[15:34:45 -249157.413003] SLOW spr round 11 (radius: 10)
[15:36:42 -249157.410576] SLOW spr round 12 (radius: 15)
[15:39:34 -249156.692048] SLOW spr round 13 (radius: 5)
[15:41:46 -249155.655592] SLOW spr round 14 (radius: 5)
[15:43:43 -249155.655342] SLOW spr round 15 (radius: 10)
[15:45:40 -249155.655299] SLOW spr round 16 (radius: 15)
[15:48:34 -249155.655273] SLOW spr round 17 (radius: 20)
[15:52:40 -249135.734484] SLOW spr round 18 (radius: 5)
[15:55:00 -249131.415742] SLOW spr round 19 (radius: 5)
[15:57:03 -249131.317744] SLOW spr round 20 (radius: 10)
[15:59:05 -249130.310964] SLOW spr round 21 (radius: 5)
[16:01:16 -249126.120185] SLOW spr round 22 (radius: 5)
[16:03:14 -249124.779384] SLOW spr round 23 (radius: 5)
[16:05:07 -249124.779050] SLOW spr round 24 (radius: 10)
[16:07:02 -249124.779013] SLOW spr round 25 (radius: 15)
[16:10:05 -249122.395259] SLOW spr round 26 (radius: 5)
[16:12:18 -249122.364268] SLOW spr round 27 (radius: 10)
[16:14:27 -249122.364260] SLOW spr round 28 (radius: 15)
[16:17:25 -249122.364254] SLOW spr round 29 (radius: 20)
[16:21:37 -249122.364249] SLOW spr round 30 (radius: 25)
[16:26:40 -249121.144009] SLOW spr round 31 (radius: 5)
[16:28:58 -249120.923306] SLOW spr round 32 (radius: 5)
[16:30:59 -249120.923205] SLOW spr round 33 (radius: 10)
[16:32:58 -249120.923202] SLOW spr round 34 (radius: 15)
[16:35:53 -249120.923198] SLOW spr round 35 (radius: 20)
[16:39:54 -249120.923195] SLOW spr round 36 (radius: 25)
[16:44:47 -249120.923189] Model parameter optimization (eps = 0.100000)

[16:44:57] ML tree search #10, logLikelihood: -249119.962053

[16:44:57 -898648.966270] Initial branch length optimization
[16:45:01 -745672.026325] Model parameter optimization (eps = 10.000000)
[16:45:47 -742168.898418] AUTODETECT spr round 1 (radius: 5)
[16:47:34 -518032.937277] AUTODETECT spr round 2 (radius: 10)
[16:49:29 -383279.124793] AUTODETECT spr round 3 (radius: 15)
[16:51:30 -326467.201835] AUTODETECT spr round 4 (radius: 20)
[16:53:42 -294507.010957] AUTODETECT spr round 5 (radius: 25)
[16:56:12 -286406.044263] SPR radius for FAST iterations: 25 (autodetect)
[16:56:12 -286406.044263] Model parameter optimization (eps = 3.000000)
[16:56:32 -286132.707886] FAST spr round 1 (radius: 25)
[16:59:05 -251637.859784] FAST spr round 2 (radius: 25)
[17:01:11 -249678.621948] FAST spr round 3 (radius: 25)
[17:02:59 -249320.195317] FAST spr round 4 (radius: 25)
[17:04:39 -249266.892136] FAST spr round 5 (radius: 25)
[17:06:14 -249245.680059] FAST spr round 6 (radius: 25)
[17:07:44 -249245.676441] Model parameter optimization (eps = 1.000000)
[17:07:58 -249233.237016] SLOW spr round 1 (radius: 5)
[17:09:47 -249198.074078] SLOW spr round 2 (radius: 5)
[17:11:36 -249190.405965] SLOW spr round 3 (radius: 5)
[17:13:26 -249182.364080] SLOW spr round 4 (radius: 5)
[17:15:15 -249180.658668] SLOW spr round 5 (radius: 5)
[17:17:02 -249180.657181] SLOW spr round 6 (radius: 10)
[17:18:57 -249178.835868] SLOW spr round 7 (radius: 5)
[17:21:06 -249178.834811] SLOW spr round 8 (radius: 10)
[17:23:09 -249178.833785] SLOW spr round 9 (radius: 15)
[17:25:56 -249177.629212] SLOW spr round 10 (radius: 5)
[17:28:12 -249174.946933] SLOW spr round 11 (radius: 5)
[17:30:13 -249174.872538] SLOW spr round 12 (radius: 10)
[17:32:11 -249174.870927] SLOW spr round 13 (radius: 15)
[17:35:06 -249174.870613] SLOW spr round 14 (radius: 20)
[17:39:03 -249173.224408] SLOW spr round 15 (radius: 5)
[17:41:23 -249173.223631] SLOW spr round 16 (radius: 10)
[17:43:34 -249173.223592] SLOW spr round 17 (radius: 15)
[17:46:24 -249173.223589] SLOW spr round 18 (radius: 20)
[17:50:20 -249173.223588] SLOW spr round 19 (radius: 25)
[17:55:06 -249171.414566] SLOW spr round 20 (radius: 5)
[17:57:27 -249171.414023] SLOW spr round 21 (radius: 10)
[17:59:42 -249171.413993] SLOW spr round 22 (radius: 15)
[18:02:38 -249171.413985] SLOW spr round 23 (radius: 20)
[18:06:47 -249171.413981] SLOW spr round 24 (radius: 25)
[18:11:53 -249171.413979] Model parameter optimization (eps = 0.100000)

[18:12:03] ML tree search #11, logLikelihood: -249170.905026

[18:12:04 -894762.955520] Initial branch length optimization
[18:12:07 -742014.069204] Model parameter optimization (eps = 10.000000)
[18:12:52 -738763.968052] AUTODETECT spr round 1 (radius: 5)
[18:14:46 -519409.861656] AUTODETECT spr round 2 (radius: 10)
[18:16:49 -395848.021476] AUTODETECT spr round 3 (radius: 15)
[18:19:07 -337234.444979] AUTODETECT spr round 4 (radius: 20)
[18:21:28 -291119.304510] AUTODETECT spr round 5 (radius: 25)
[18:23:59 -282104.303342] SPR radius for FAST iterations: 25 (autodetect)
[18:23:59 -282104.303342] Model parameter optimization (eps = 3.000000)
[18:24:27 -281790.752445] FAST spr round 1 (radius: 25)
[18:27:19 -250935.988366] FAST spr round 2 (radius: 25)
[18:29:35 -249452.477007] FAST spr round 3 (radius: 25)
[18:31:28 -249332.149943] FAST spr round 4 (radius: 25)
[18:33:11 -249313.707759] FAST spr round 5 (radius: 25)
[18:34:46 -249312.218093] FAST spr round 6 (radius: 25)
[18:36:20 -249311.882503] FAST spr round 7 (radius: 25)
[18:37:52 -249311.881573] Model parameter optimization (eps = 1.000000)
[18:38:06 -249298.096315] SLOW spr round 1 (radius: 5)
[18:40:01 -249255.453832] SLOW spr round 2 (radius: 5)
[18:41:57 -249250.349849] SLOW spr round 3 (radius: 5)
[18:43:51 -249247.917952] SLOW spr round 4 (radius: 5)
[18:45:43 -249247.906026] SLOW spr round 5 (radius: 10)
[18:47:42 -249247.466568] SLOW spr round 6 (radius: 5)
[18:49:55 -249247.455579] SLOW spr round 7 (radius: 10)
[18:52:03 -249247.454575] SLOW spr round 8 (radius: 15)
[18:55:05 -249245.582912] SLOW spr round 9 (radius: 5)
[18:57:21 -249245.041690] SLOW spr round 10 (radius: 5)
[18:59:23 -249245.039024] SLOW spr round 11 (radius: 10)
[19:01:25 -249245.037541] SLOW spr round 12 (radius: 15)
[19:04:27 -249245.037279] SLOW spr round 13 (radius: 20)
[19:08:35 -249244.603202] SLOW spr round 14 (radius: 5)
[19:10:52 -249244.603088] SLOW spr round 15 (radius: 10)
[19:13:05 -249244.603074] SLOW spr round 16 (radius: 15)
[19:16:02 -249244.603068] SLOW spr round 17 (radius: 20)
[19:20:10 -249244.603065] SLOW spr round 18 (radius: 25)
[19:25:14 -249243.919162] SLOW spr round 19 (radius: 5)
[19:27:31 -249243.914932] SLOW spr round 20 (radius: 10)
[19:29:45 -249243.914157] SLOW spr round 21 (radius: 15)
[19:32:38 -249243.913981] SLOW spr round 22 (radius: 20)
[19:36:37 -249243.913923] SLOW spr round 23 (radius: 25)
[19:41:28 -249243.913898] Model parameter optimization (eps = 0.100000)

[19:41:38] ML tree search #12, logLikelihood: -249243.577407

[19:41:38 -897718.040928] Initial branch length optimization
[19:41:41 -747525.845787] Model parameter optimization (eps = 10.000000)
[19:42:22 -744183.412542] AUTODETECT spr round 1 (radius: 5)
[19:44:14 -505128.462192] AUTODETECT spr round 2 (radius: 10)
[19:46:14 -367047.232401] AUTODETECT spr round 3 (radius: 15)
[19:48:22 -295659.124078] AUTODETECT spr round 4 (radius: 20)
[19:50:28 -279160.995088] AUTODETECT spr round 5 (radius: 25)
[19:52:44 -276708.023143] SPR radius for FAST iterations: 25 (autodetect)
[19:52:44 -276708.023143] Model parameter optimization (eps = 3.000000)
[19:53:12 -276309.861970] FAST spr round 1 (radius: 25)
[19:55:39 -252197.577213] FAST spr round 2 (radius: 25)
[19:57:43 -250390.318918] FAST spr round 3 (radius: 25)
[19:59:34 -249296.512017] FAST spr round 4 (radius: 25)
[20:01:14 -249222.592979] FAST spr round 5 (radius: 25)
[20:02:48 -249199.238006] FAST spr round 6 (radius: 25)
[20:04:17 -249195.776627] FAST spr round 7 (radius: 25)
[20:05:45 -249193.738246] FAST spr round 8 (radius: 25)
[20:07:11 -249190.832146] FAST spr round 9 (radius: 25)
[20:08:36 -249190.820276] Model parameter optimization (eps = 1.000000)
[20:08:48 -249185.275724] SLOW spr round 1 (radius: 5)
[20:10:32 -249147.804974] SLOW spr round 2 (radius: 5)
[20:12:17 -249146.727516] SLOW spr round 3 (radius: 5)
[20:14:04 -249146.715245] SLOW spr round 4 (radius: 10)
[20:15:58 -249143.958938] SLOW spr round 5 (radius: 5)
[20:18:07 -249141.879404] SLOW spr round 6 (radius: 5)
[20:20:03 -249141.879077] SLOW spr round 7 (radius: 10)
[20:21:56 -249141.878950] SLOW spr round 8 (radius: 15)
[20:24:50 -249141.878893] SLOW spr round 9 (radius: 20)
[20:28:58 -249141.315662] SLOW spr round 10 (radius: 5)
[20:31:09 -249141.305553] SLOW spr round 11 (radius: 10)
[20:33:14 -249141.304664] SLOW spr round 12 (radius: 15)
[20:36:04 -249141.304342] SLOW spr round 13 (radius: 20)
[20:40:07 -249141.304199] SLOW spr round 14 (radius: 25)
[20:45:08 -249141.304125] Model parameter optimization (eps = 0.100000)

[20:45:15] ML tree search #13, logLikelihood: -249140.971191

[20:45:15 -902247.220251] Initial branch length optimization
[20:45:20 -751108.780152] Model parameter optimization (eps = 10.000000)
[20:45:55 -747670.880386] AUTODETECT spr round 1 (radius: 5)
[20:47:41 -506975.850624] AUTODETECT spr round 2 (radius: 10)
[20:49:36 -390590.638277] AUTODETECT spr round 3 (radius: 15)
[20:51:38 -327122.577680] AUTODETECT spr round 4 (radius: 20)
[20:53:48 -304667.263944] AUTODETECT spr round 5 (radius: 25)
[20:56:19 -293435.725799] SPR radius for FAST iterations: 25 (autodetect)
[20:56:19 -293435.725799] Model parameter optimization (eps = 3.000000)
[20:56:47 -293162.224109] FAST spr round 1 (radius: 25)
[20:59:17 -251595.642732] FAST spr round 2 (radius: 25)
[21:01:23 -249840.846806] FAST spr round 3 (radius: 25)
[21:03:08 -249579.400985] FAST spr round 4 (radius: 25)
[21:04:44 -249559.631601] FAST spr round 5 (radius: 25)
[21:06:13 -249552.897406] FAST spr round 6 (radius: 25)
[21:07:39 -249552.896774] Model parameter optimization (eps = 1.000000)
[21:07:52 -249538.165488] SLOW spr round 1 (radius: 5)
[21:09:37 -249485.710600] SLOW spr round 2 (radius: 5)
[21:11:25 -249479.845625] SLOW spr round 3 (radius: 5)
[21:13:12 -249479.805582] SLOW spr round 4 (radius: 10)
[21:15:03 -249475.929957] SLOW spr round 5 (radius: 5)
[21:17:07 -249475.916702] SLOW spr round 6 (radius: 10)
[21:19:06 -249475.915928] SLOW spr round 7 (radius: 15)
[21:21:50 -249475.915150] SLOW spr round 8 (radius: 20)
[21:25:43 -249475.501450] SLOW spr round 9 (radius: 5)
[21:27:53 -249475.500501] SLOW spr round 10 (radius: 10)
[21:29:59 -249475.499708] SLOW spr round 11 (radius: 15)
[21:32:42 -249475.498914] SLOW spr round 12 (radius: 20)
[21:36:31 -249475.498115] SLOW spr round 13 (radius: 25)
[21:41:16 -249309.037443] SLOW spr round 14 (radius: 5)
[21:43:34 -249272.683598] SLOW spr round 15 (radius: 5)
[21:45:32 -249270.754469] SLOW spr round 16 (radius: 5)
[21:47:22 -249270.753521] SLOW spr round 17 (radius: 10)
[21:49:13 -249270.753035] SLOW spr round 18 (radius: 15)
[21:52:03 -249270.099593] SLOW spr round 19 (radius: 5)
[21:54:11 -249270.098607] SLOW spr round 20 (radius: 10)
[21:56:13 -249270.098307] SLOW spr round 21 (radius: 15)
[21:58:58 -249270.098184] SLOW spr round 22 (radius: 20)
[22:02:52 -249270.098125] SLOW spr round 23 (radius: 25)
[22:07:41 -249270.098093] Model parameter optimization (eps = 0.100000)

[22:07:46] ML tree search #14, logLikelihood: -249270.005829

[22:07:46 -906765.763573] Initial branch length optimization
[22:07:50 -753474.418173] Model parameter optimization (eps = 10.000000)
[22:08:26 -750162.155795] AUTODETECT spr round 1 (radius: 5)
[22:10:10 -498503.482252] AUTODETECT spr round 2 (radius: 10)
[22:12:02 -370518.614364] AUTODETECT spr round 3 (radius: 15)
[22:13:58 -330607.266400] AUTODETECT spr round 4 (radius: 20)
[22:16:03 -290928.684105] AUTODETECT spr round 5 (radius: 25)
[22:18:25 -282203.482355] SPR radius for FAST iterations: 25 (autodetect)
[22:18:25 -282203.482355] Model parameter optimization (eps = 3.000000)
[22:18:42 -281916.314558] FAST spr round 1 (radius: 25)
[22:21:20 -251234.527997] FAST spr round 2 (radius: 25)
[22:23:18 -249552.049132] FAST spr round 3 (radius: 25)
[22:25:03 -249303.544314] FAST spr round 4 (radius: 25)
[22:26:37 -249294.086830] FAST spr round 5 (radius: 25)
[22:28:05 -249292.635330] FAST spr round 6 (radius: 25)
[22:29:31 -249292.631620] Model parameter optimization (eps = 1.000000)
[22:29:47 -249265.927728] SLOW spr round 1 (radius: 5)
[22:31:30 -249186.587793] SLOW spr round 2 (radius: 5)
[22:33:15 -249183.155951] SLOW spr round 3 (radius: 5)
[22:35:00 -249182.612128] SLOW spr round 4 (radius: 5)
[22:36:42 -249182.611399] SLOW spr round 5 (radius: 10)
[22:38:36 -249168.208063] SLOW spr round 6 (radius: 5)
[22:40:41 -249165.614519] SLOW spr round 7 (radius: 5)
[22:42:37 -249161.607373] SLOW spr round 8 (radius: 5)
[22:44:26 -249159.900959] SLOW spr round 9 (radius: 5)
[22:46:14 -249154.676197] SLOW spr round 10 (radius: 5)
[22:47:57 -249152.749028] SLOW spr round 11 (radius: 5)
[22:49:39 -249152.748168] SLOW spr round 12 (radius: 10)
[22:51:26 -249152.747303] SLOW spr round 13 (radius: 15)
[22:54:17 -249150.258792] SLOW spr round 14 (radius: 5)
[22:56:24 -249150.257870] SLOW spr round 15 (radius: 10)
[22:58:25 -249150.256943] SLOW spr round 16 (radius: 15)
[23:01:07 -249148.531955] SLOW spr round 17 (radius: 5)
[23:03:15 -249148.529738] SLOW spr round 18 (radius: 10)
[23:05:15 -249148.528500] SLOW spr round 19 (radius: 15)
[23:07:57 -249148.527452] SLOW spr round 20 (radius: 20)
[23:11:47 -249148.096863] SLOW spr round 21 (radius: 5)
[23:13:56 -249148.095697] SLOW spr round 22 (radius: 10)
[23:15:59 -249148.094670] SLOW spr round 23 (radius: 15)
[23:18:40 -249148.093641] SLOW spr round 24 (radius: 20)
[23:22:30 -249147.873382] SLOW spr round 25 (radius: 5)
[23:24:40 -249143.819656] SLOW spr round 26 (radius: 5)
[23:26:34 -249143.819119] SLOW spr round 27 (radius: 10)
[23:28:26 -249143.819100] SLOW spr round 28 (radius: 15)
[23:31:17 -249143.819093] SLOW spr round 29 (radius: 20)
[23:35:19 -249140.409979] SLOW spr round 30 (radius: 5)
[23:37:31 -249139.307376] SLOW spr round 31 (radius: 5)
[23:39:27 -249139.235847] SLOW spr round 32 (radius: 10)
[23:41:20 -249139.235589] SLOW spr round 33 (radius: 15)
[23:44:10 -249139.235438] SLOW spr round 34 (radius: 20)
[23:48:11 -249139.235345] SLOW spr round 35 (radius: 25)
[23:53:04 -249138.459260] SLOW spr round 36 (radius: 5)
[23:55:16 -249138.455335] SLOW spr round 37 (radius: 10)
[23:57:23 -249138.454456] SLOW spr round 38 (radius: 15)
[24:00:11 -249138.454291] SLOW spr round 39 (radius: 20)
[24:04:15 -249138.454259] SLOW spr round 40 (radius: 25)
[24:09:06 -249138.454250] Model parameter optimization (eps = 0.100000)

[24:09:15] ML tree search #15, logLikelihood: -249138.042754

[24:09:15 -901913.153810] Initial branch length optimization
[24:09:19 -751121.857333] Model parameter optimization (eps = 10.000000)
[24:09:52 -747752.405830] AUTODETECT spr round 1 (radius: 5)
[24:11:38 -508067.446973] AUTODETECT spr round 2 (radius: 10)
[24:13:30 -386275.330334] AUTODETECT spr round 3 (radius: 15)
[24:15:29 -322349.541986] AUTODETECT spr round 4 (radius: 20)
[24:17:43 -287430.645398] AUTODETECT spr round 5 (radius: 25)
[24:20:05 -279975.256710] SPR radius for FAST iterations: 25 (autodetect)
[24:20:05 -279975.256710] Model parameter optimization (eps = 3.000000)
[24:20:28 -279690.823605] FAST spr round 1 (radius: 25)
[24:22:52 -251442.637875] FAST spr round 2 (radius: 25)
[24:24:45 -249878.983557] FAST spr round 3 (radius: 25)
[24:26:28 -249463.190194] FAST spr round 4 (radius: 25)
[24:28:04 -249409.540386] FAST spr round 5 (radius: 25)
[24:29:30 -249408.311022] FAST spr round 6 (radius: 25)
[24:30:54 -249408.309618] Model parameter optimization (eps = 1.000000)
[24:31:06 -249396.355137] SLOW spr round 1 (radius: 5)
[24:32:49 -249347.896228] SLOW spr round 2 (radius: 5)
[24:34:34 -249339.334322] SLOW spr round 3 (radius: 5)
[24:36:18 -249339.333345] SLOW spr round 4 (radius: 10)
[24:38:07 -249338.857248] SLOW spr round 5 (radius: 5)
[24:40:12 -249338.855613] SLOW spr round 6 (radius: 10)
[24:42:11 -249338.855234] SLOW spr round 7 (radius: 15)
[24:44:51 -249338.770887] SLOW spr round 8 (radius: 20)
[24:48:38 -249335.475022] SLOW spr round 9 (radius: 5)
[24:50:57 -249250.100078] SLOW spr round 10 (radius: 5)
[24:52:56 -249238.007032] SLOW spr round 11 (radius: 5)
[24:54:46 -249236.802617] SLOW spr round 12 (radius: 5)
[24:56:32 -249236.771462] SLOW spr round 13 (radius: 10)
[24:58:20 -249236.770252] SLOW spr round 14 (radius: 15)
[25:01:04 -249236.277766] SLOW spr round 15 (radius: 5)
[25:03:13 -249235.019499] SLOW spr round 16 (radius: 5)
[25:05:07 -249234.708905] SLOW spr round 17 (radius: 5)
[25:06:55 -249234.679693] SLOW spr round 18 (radius: 10)
[25:08:43 -249234.679648] SLOW spr round 19 (radius: 15)
[25:11:26 -249234.679647] SLOW spr round 20 (radius: 20)
[25:15:06 -249234.679646] SLOW spr round 21 (radius: 25)
[25:19:37 -249230.235566] SLOW spr round 22 (radius: 5)
[25:21:48 -249230.235472] SLOW spr round 23 (radius: 10)
[25:23:53 -249230.235438] SLOW spr round 24 (radius: 15)
[25:26:37 -249229.592681] SLOW spr round 25 (radius: 5)
[25:28:45 -249229.592517] SLOW spr round 26 (radius: 10)
[25:30:44 -249229.592459] SLOW spr round 27 (radius: 15)
[25:33:27 -249229.592433] SLOW spr round 28 (radius: 20)
[25:37:16 -249229.394030] SLOW spr round 29 (radius: 5)
[25:39:26 -249229.250179] SLOW spr round 30 (radius: 5)
[25:41:20 -249229.250128] SLOW spr round 31 (radius: 10)
[25:43:11 -249229.250126] SLOW spr round 32 (radius: 15)
[25:45:56 -249229.250126] SLOW spr round 33 (radius: 20)
[25:49:46 -249229.250124] SLOW spr round 34 (radius: 25)
[25:54:29 -249229.221002] Model parameter optimization (eps = 0.100000)

[25:54:33] ML tree search #16, logLikelihood: -249229.192531

[25:54:33 -893513.993675] Initial branch length optimization
[25:54:37 -743780.348128] Model parameter optimization (eps = 10.000000)
[25:55:19 -740657.148773] AUTODETECT spr round 1 (radius: 5)
[25:57:03 -505831.130432] AUTODETECT spr round 2 (radius: 10)
[25:58:58 -372972.649081] AUTODETECT spr round 3 (radius: 15)
[26:00:58 -315631.787442] AUTODETECT spr round 4 (radius: 20)
[26:03:22 -286643.995742] AUTODETECT spr round 5 (radius: 25)
[26:06:16 -279886.327213] SPR radius for FAST iterations: 25 (autodetect)
[26:06:16 -279886.327213] Model parameter optimization (eps = 3.000000)
[26:06:41 -279538.295538] FAST spr round 1 (radius: 25)
[26:09:05 -250761.662777] FAST spr round 2 (radius: 25)
[26:11:04 -249550.374658] FAST spr round 3 (radius: 25)
[26:12:48 -249385.274430] FAST spr round 4 (radius: 25)
[26:14:22 -249357.791385] FAST spr round 5 (radius: 25)
[26:15:48 -249349.686693] FAST spr round 6 (radius: 25)
[26:17:11 -249349.685535] Model parameter optimization (eps = 1.000000)
[26:17:23 -249338.494310] SLOW spr round 1 (radius: 5)
[26:19:06 -249288.822075] SLOW spr round 2 (radius: 5)
[26:20:49 -249285.048875] SLOW spr round 3 (radius: 5)
[26:22:30 -249285.048073] SLOW spr round 4 (radius: 10)
[26:24:18 -249284.352645] SLOW spr round 5 (radius: 5)
[26:26:20 -249284.352266] SLOW spr round 6 (radius: 10)
[26:28:16 -249284.351895] SLOW spr round 7 (radius: 15)
[26:31:05 -249284.021011] SLOW spr round 8 (radius: 5)
[26:33:11 -249284.019523] SLOW spr round 9 (radius: 10)
[26:35:11 -249284.018646] SLOW spr round 10 (radius: 15)
[26:37:58 -249284.018032] SLOW spr round 11 (radius: 20)
[26:41:57 -249283.575302] SLOW spr round 12 (radius: 5)
[26:44:06 -249283.413384] SLOW spr round 13 (radius: 5)
[26:46:00 -249283.412931] SLOW spr round 14 (radius: 10)
[26:47:51 -249283.412525] SLOW spr round 15 (radius: 15)
[26:50:40 -249283.412125] SLOW spr round 16 (radius: 20)
[26:54:36 -249283.411726] SLOW spr round 17 (radius: 25)
[26:59:25 -249283.411326] Model parameter optimization (eps = 0.100000)

[26:59:33] ML tree search #17, logLikelihood: -249283.258839

[26:59:33 -902137.370880] Initial branch length optimization
[26:59:38 -750962.376190] Model parameter optimization (eps = 10.000000)
[27:00:17 -747391.423896] AUTODETECT spr round 1 (radius: 5)
[27:01:59 -514200.662326] AUTODETECT spr round 2 (radius: 10)
[27:03:48 -372052.884777] AUTODETECT spr round 3 (radius: 15)
[27:05:44 -307180.284231] AUTODETECT spr round 4 (radius: 20)
[27:07:53 -290763.714468] AUTODETECT spr round 5 (radius: 25)
[27:10:23 -282435.599456] SPR radius for FAST iterations: 25 (autodetect)
[27:10:23 -282435.599456] Model parameter optimization (eps = 3.000000)
[27:10:48 -282121.022417] FAST spr round 1 (radius: 25)
[27:13:02 -252652.215154] FAST spr round 2 (radius: 25)
[27:14:57 -249949.326155] FAST spr round 3 (radius: 25)
[27:16:42 -249454.529780] FAST spr round 4 (radius: 25)
[27:18:19 -249233.045555] FAST spr round 5 (radius: 25)
[27:19:46 -249219.314970] FAST spr round 6 (radius: 25)
[27:21:12 -249208.107336] FAST spr round 7 (radius: 25)
[27:22:34 -249208.074788] Model parameter optimization (eps = 1.000000)
[27:22:47 -249203.331292] SLOW spr round 1 (radius: 5)
[27:24:26 -249156.512155] SLOW spr round 2 (radius: 5)
[27:26:08 -249152.733848] SLOW spr round 3 (radius: 5)
[27:27:49 -249152.732953] SLOW spr round 4 (radius: 10)
[27:29:36 -249148.026542] SLOW spr round 5 (radius: 5)
[27:31:30 -249144.847809] SLOW spr round 6 (radius: 5)
[27:33:14 -249144.068810] SLOW spr round 7 (radius: 5)
[27:34:52 -249143.907854] SLOW spr round 8 (radius: 5)
[27:36:27 -249143.906991] SLOW spr round 9 (radius: 10)
[27:38:07 -249143.906467] SLOW spr round 10 (radius: 15)
[27:40:45 -249141.456370] SLOW spr round 11 (radius: 5)
[27:42:43 -249141.369947] SLOW spr round 12 (radius: 10)
[27:44:35 -249141.369161] SLOW spr round 13 (radius: 15)
[27:47:07 -249141.368729] SLOW spr round 14 (radius: 20)
[27:50:47 -249140.977642] SLOW spr round 15 (radius: 5)
[27:52:45 -249140.943819] SLOW spr round 16 (radius: 10)
[27:54:39 -249140.943490] SLOW spr round 17 (radius: 15)
[27:57:11 -249140.943184] SLOW spr round 18 (radius: 20)
[28:00:49 -249140.942886] SLOW spr round 19 (radius: 25)
[28:05:14 -249136.884040] SLOW spr round 20 (radius: 5)
[28:07:14 -249134.537012] SLOW spr round 21 (radius: 5)
[28:09:05 -249134.480767] SLOW spr round 22 (radius: 10)
[28:10:58 -249134.480297] SLOW spr round 23 (radius: 15)
[28:13:46 -249134.479980] SLOW spr round 24 (radius: 20)
[28:17:43 -249134.479661] SLOW spr round 25 (radius: 25)
[28:22:31 -249134.479340] Model parameter optimization (eps = 0.100000)

[28:22:39] ML tree search #18, logLikelihood: -249134.368975

[28:22:39 -896071.442101] Initial branch length optimization
[28:22:43 -747658.664865] Model parameter optimization (eps = 10.000000)
[28:23:18 -744134.167952] AUTODETECT spr round 1 (radius: 5)
[28:25:00 -514876.084606] AUTODETECT spr round 2 (radius: 10)
[28:26:54 -386215.852448] AUTODETECT spr round 3 (radius: 15)
[28:28:56 -308594.113601] AUTODETECT spr round 4 (radius: 20)
[28:30:54 -287933.178994] AUTODETECT spr round 5 (radius: 25)
[28:33:10 -281862.910719] SPR radius for FAST iterations: 25 (autodetect)
[28:33:10 -281862.910719] Model parameter optimization (eps = 3.000000)
[28:33:32 -281536.556065] FAST spr round 1 (radius: 25)
[28:35:53 -250881.130068] FAST spr round 2 (radius: 25)
[28:37:47 -249588.375816] FAST spr round 3 (radius: 25)
[28:39:28 -249339.525471] FAST spr round 4 (radius: 25)
[28:41:02 -249284.471539] FAST spr round 5 (radius: 25)
[28:42:26 -249276.889852] FAST spr round 6 (radius: 25)
[28:43:49 -249276.889085] Model parameter optimization (eps = 1.000000)
[28:44:02 -249265.776258] SLOW spr round 1 (radius: 5)
[28:45:43 -249213.505740] SLOW spr round 2 (radius: 5)
[28:47:26 -249209.847836] SLOW spr round 3 (radius: 5)
[28:49:07 -249209.836471] SLOW spr round 4 (radius: 10)
[28:50:57 -249202.255077] SLOW spr round 5 (radius: 5)
[28:52:59 -249200.675730] SLOW spr round 6 (radius: 5)
[28:54:49 -249200.674768] SLOW spr round 7 (radius: 10)
[28:56:39 -249200.663297] SLOW spr round 8 (radius: 15)
[28:59:26 -249200.222529] SLOW spr round 9 (radius: 5)
[29:01:32 -249200.221488] SLOW spr round 10 (radius: 10)
[29:03:32 -249200.221460] SLOW spr round 11 (radius: 15)
[29:06:14 -249200.221459] SLOW spr round 12 (radius: 20)
[29:10:04 -249197.536488] SLOW spr round 13 (radius: 5)
[29:12:13 -249197.536173] SLOW spr round 14 (radius: 10)
[29:14:17 -249197.536132] SLOW spr round 15 (radius: 15)
[29:16:59 -249197.536125] SLOW spr round 16 (radius: 20)
[29:20:49 -249197.536124] SLOW spr round 17 (radius: 25)
[29:25:28 -249195.733187] SLOW spr round 18 (radius: 5)
[29:27:39 -249194.580821] SLOW spr round 19 (radius: 5)
[29:29:34 -249194.384654] SLOW spr round 20 (radius: 5)
[29:31:21 -249194.074701] SLOW spr round 21 (radius: 5)
[29:33:04 -249194.017112] SLOW spr round 22 (radius: 10)
[29:34:53 -249194.014954] SLOW spr round 23 (radius: 15)
[29:37:46 -249194.013843] SLOW spr round 24 (radius: 20)
[29:41:49 -249191.341921] SLOW spr round 25 (radius: 5)
[29:43:57 -249191.311478] SLOW spr round 26 (radius: 10)
[29:46:01 -249191.308965] SLOW spr round 27 (radius: 15)
[29:48:50 -249191.307238] SLOW spr round 28 (radius: 20)
[29:52:54 -249191.306068] SLOW spr round 29 (radius: 25)
[29:57:44 -249191.305285] Model parameter optimization (eps = 0.100000)

[29:57:52] ML tree search #19, logLikelihood: -249191.135576

[29:57:52 -895530.847518] Initial branch length optimization
[29:57:56 -745165.138217] Model parameter optimization (eps = 10.000000)
[29:58:28 -741965.827264] AUTODETECT spr round 1 (radius: 5)
[30:00:11 -506028.880035] AUTODETECT spr round 2 (radius: 10)
[30:02:05 -388250.530888] AUTODETECT spr round 3 (radius: 15)
[30:04:06 -335891.933245] AUTODETECT spr round 4 (radius: 20)
[30:06:21 -292724.820459] AUTODETECT spr round 5 (radius: 25)
[30:08:47 -282226.624046] SPR radius for FAST iterations: 25 (autodetect)
[30:08:47 -282226.624046] Model parameter optimization (eps = 3.000000)
[30:09:10 -281976.708906] FAST spr round 1 (radius: 25)
[30:11:40 -251159.901618] FAST spr round 2 (radius: 25)
[30:13:37 -249699.470620] FAST spr round 3 (radius: 25)
[30:15:19 -249538.844428] FAST spr round 4 (radius: 25)
[30:16:51 -249217.711608] FAST spr round 5 (radius: 25)
[30:18:16 -249216.080972] FAST spr round 6 (radius: 25)
[30:19:38 -249216.047973] Model parameter optimization (eps = 1.000000)
[30:19:54 -249204.392150] SLOW spr round 1 (radius: 5)
[30:21:37 -249154.186723] SLOW spr round 2 (radius: 5)
[30:23:21 -249136.578012] SLOW spr round 3 (radius: 5)
[30:25:03 -249135.850388] SLOW spr round 4 (radius: 5)
[30:26:42 -249135.850254] SLOW spr round 5 (radius: 10)
[30:28:28 -249135.135981] SLOW spr round 6 (radius: 5)
[30:30:30 -249134.562700] SLOW spr round 7 (radius: 5)
[30:32:20 -249134.560608] SLOW spr round 8 (radius: 10)
[30:34:09 -249134.560469] SLOW spr round 9 (radius: 15)
[30:36:55 -249134.560449] SLOW spr round 10 (radius: 20)
[30:40:47 -249129.176617] SLOW spr round 11 (radius: 5)
[30:42:56 -249128.030631] SLOW spr round 12 (radius: 5)
[30:44:50 -249128.030606] SLOW spr round 13 (radius: 10)
[30:46:40 -249128.030602] SLOW spr round 14 (radius: 15)
[30:49:29 -249127.370525] SLOW spr round 15 (radius: 5)
[30:51:34 -249127.359444] SLOW spr round 16 (radius: 10)
[30:53:26 -249127.357800] SLOW spr round 17 (radius: 15)
[30:56:01 -249127.357457] SLOW spr round 18 (radius: 20)
[30:59:45 -249127.357360] SLOW spr round 19 (radius: 25)
[31:04:14 -249127.357321] Model parameter optimization (eps = 0.100000)

[31:04:19] ML tree search #20, logLikelihood: -249127.275573


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.229140,0.472678) (0.227966,0.581452) (0.340138,0.904245) (0.202755,2.227170) 
   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: -249116.745082

AIC score: 502243.490164 / AICc score: 8546303.490164 / BIC score: 510917.419858
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=559).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 1 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75417/3_mltree/O75417.raxml.log

Analysis started: 01-Jul-2021 07:42:27 / finished: 02-Jul-2021 14:46:47

Elapsed time: 111860.094 seconds

Consumed energy: 10402.778 Wh (= 52 km in an electric car, or 260 km with an e-scooter!)