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 06-Jul-2021 12:49:10 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/2_msa/P49821_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821 --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/P49821/2_msa/P49821_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1000 taxa and 484 sites

WARNING: Sequences tr_B6QQD2_B6QQD2_TALMQ_441960 and tr_A0A093VEY3_A0A093VEY3_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_G2X5E6_G2X5E6_VERDV_498257 and tr_C9SSL0_C9SSL0_VERA1_526221 are exactly identical!
WARNING: Sequences tr_G2X5E6_G2X5E6_VERDV_498257 and tr_A0A0G4KHI1_A0A0G4KHI1_9PEZI_100787 are exactly identical!
WARNING: Sequences tr_C0NJX0_C0NJX0_AJECG_447093 and tr_F0UCB1_F0UCB1_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_B8N390_B8N390_ASPFN_332952 and tr_Q2UJQ8_Q2UJQ8_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8N390_B8N390_ASPFN_332952 and tr_A0A1S9DLI2_A0A1S9DLI2_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A179UHT7_A0A179UHT7_BLAGS_559298 and tr_C5GUA6_C5GUA6_AJEDR_559297 are exactly identical!
WARNING: Sequences sp_Q0MQI6_NDUV1_PANTR_9598 and tr_A0A2R9CIY9_A0A2R9CIY9_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_A0A0D2XPV4_A0A0D2XPV4_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_S0DQB1_S0DQB1_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_N4UE62_N4UE62_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_X0CZ97_X0CZ97_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_A0A2H3TAQ9_A0A2H3TAQ9_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_A0A2H3HL73_A0A2H3HL73_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_A0A2K0WU81_A0A2K0WU81_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_F9FNX3_F9FNX3_FUSOF_660025 and tr_A0A365NDT2_A0A365NDT2_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_E9ENY7_E9ENY7_METRA_655844 and tr_A0A0B4HWJ8_A0A0B4HWJ8_METMF_1276143 are exactly identical!
WARNING: Sequences tr_E9ENY7_E9ENY7_METRA_655844 and tr_A0A0D9P653_A0A0D9P653_METAN_1291518 are exactly identical!
WARNING: Sequences tr_J4KPK3_J4KPK3_BEAB2_655819 and tr_A0A0A2VPB0_A0A0A2VPB0_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_J4KPK3_J4KPK3_BEAB2_655819 and tr_A0A2N6NXU9_A0A2N6NXU9_BEABA_176275 are exactly identical!
WARNING: Sequences tr_A2QJ32_A2QJ32_ASPNC_425011 and tr_G3Y9E2_G3Y9E2_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QJ32_A2QJ32_ASPNC_425011 and tr_A0A319AGN9_A0A319AGN9_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_G7X837_G7X837_ASPKW_1033177 and tr_A0A146FJN0_A0A146FJN0_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_I1QCP0_I1QCP0_ORYGL_4538 and tr_A0A0E0EF73_A0A0E0EF73_9ORYZ_40149 are exactly identical!
WARNING: Sequences tr_I1QCP0_I1QCP0_ORYGL_4538 and tr_A0A0D3GU79_A0A0D3GU79_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_I1QCP0_I1QCP0_ORYGL_4538 and tr_A0A0E0ANH6_A0A0E0ANH6_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0QBZ3_A0A0E0QBZ3_ORYRU_4529 and tr_Q8H2T7_Q8H2T7_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_G2XPM1_G2XPM1_BOTF4_999810 and tr_M7TNP7_M7TNP7_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_E3LFF7_E3LFF7_CAERE_31234 and tr_A0A261AVQ6_A0A261AVQ6_9PELO_1503980 are exactly identical!
WARNING: Sequences tr_F2SXB0_F2SXB0_TRIRC_559305 and tr_D4B1G8_D4B1G8_ARTBC_663331 are exactly identical!
WARNING: Sequences tr_F2SXB0_F2SXB0_TRIRC_559305 and tr_A0A059JH77_A0A059JH77_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_F2SXB0_F2SXB0_TRIRC_559305 and tr_A0A178F831_A0A178F831_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_U5H062_U5H062_USTV1_683840 and tr_A0A2X0MCI6_A0A2X0MCI6_9BASI_796604 are exactly identical!
WARNING: Sequences tr_W2PIH3_W2PIH3_PHYPN_761204 and tr_W2K122_W2K122_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A2X0S595_A0A2X0S595_WHEAT_4565 and tr_A0A3B6C7H1_A0A3B6C7H1_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A015K1E8_A0A015K1E8_9GLOM_1432141 and tr_A0A2H5TP08_A0A2H5TP08_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A094E336_A0A094E336_9PEZI_1420912 and tr_A0A1B8GTU8_A0A1B8GTU8_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0F0IDW7_A0A0F0IDW7_ASPPU_1403190 and tr_A0A2G7FMI1_A0A2G7FMI1_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A0A0G4PBR0_A0A0G4PBR0_PENCA_1429867 and tr_A0A1V6RCW6_A0A1V6RCW6_9EURO_60172 are exactly identical!
WARNING: Sequences tr_W6Z1L9_W6Z1L9_COCCA_930089 and tr_W6YUY8_W6YUY8_COCMI_930090 are exactly identical!
WARNING: Sequences tr_A0A0V1D666_A0A0V1D666_TRIBR_45882 and tr_A0A0V0VBW5_A0A0V0VBW5_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1D666_A0A0V1D666_TRIBR_45882 and tr_A0A0V1PC66_A0A0V1PC66_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0P1BI51_A0A0P1BI51_9BASI_401625 and tr_A0A316W7Y1_A0A316W7Y1_9BASI_1522189 are exactly identical!
WARNING: Sequences tr_A0A101MJT4_A0A101MJT4_9EURO_48697 and tr_A0A1V6NLZ4_A0A1V6NLZ4_9EURO_60169 are exactly identical!
WARNING: Sequences tr_I1RY21_I1RY21_GIBZE_229533 and tr_A0A2T4GD52_A0A2T4GD52_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_A0A1S4AAX1_A0A1S4AAX1_TOBAC_4097 and tr_A0A314L6R2_A0A314L6R2_NICAT_49451 are exactly identical!
WARNING: Sequences tr_A0A1B8AHV5_A0A1B8AHV5_FUSPO_36050 and tr_A0A2L2T5Z2_A0A2L2T5Z2_9HYPO_56646 are exactly identical!
WARNING: Sequences tr_A0A1B7MQF3_A0A1B7MQF3_9HOMO_1314800 and tr_A0A1J8R725_A0A1J8R725_9HOMO_180088 are exactly identical!
WARNING: Sequences tr_A0A1L9MVN3_A0A1L9MVN3_ASPTU_767770 and tr_A0A317URU3_A0A317URU3_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_A0A1V8UXF1_A0A1V8UXF1_9PEZI_1974281 and tr_A0A1V8UZ04_A0A1V8UZ04_9PEZI_1974281 are exactly identical!
WARNING: Sequences tr_A0A1V8UXF1_A0A1V8UXF1_9PEZI_1974281 and tr_A0A1V8TQ23_A0A1V8TQ23_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A2K5L8V7_A0A2K5L8V7_CERAT_9531 and tr_A0A2K6A345_A0A2K6A345_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2U1MJ86_A0A2U1MJ86_ARTAN_35608 and tr_A0A2U1Q2H1_A0A2U1Q2H1_ARTAN_35608 are exactly identical!
WARNING: Sequences tr_A0A2V5IF55_A0A2V5IF55_9EURO_1450541 and tr_A0A2V5IRG0_A0A2V5IRG0_9EURO_1450538 are exactly identical!
WARNING: Duplicate sequences found: 54

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/P49821/3_mltree/P49821.raxml.reduced.phy

Alignment comprises 1 partitions and 484 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 484 / 484
Gaps: 9.02 %
Invariant sites: 0.41 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821.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 1000 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 70 / 5600
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -403462.074994] Initial branch length optimization
[00:00:04 -351923.287690] Model parameter optimization (eps = 10.000000)
[00:00:31 -351438.784061] AUTODETECT spr round 1 (radius: 5)
[00:02:13 -236592.817086] AUTODETECT spr round 2 (radius: 10)
[00:04:00 -177636.998231] AUTODETECT spr round 3 (radius: 15)
[00:05:53 -156745.400458] AUTODETECT spr round 4 (radius: 20)
[00:08:01 -147787.980918] AUTODETECT spr round 5 (radius: 25)
[00:10:46 -142114.696779] SPR radius for FAST iterations: 25 (autodetect)
[00:10:46 -142114.696779] Model parameter optimization (eps = 3.000000)
[00:11:01 -142012.603989] FAST spr round 1 (radius: 25)
[00:13:04 -121070.259861] FAST spr round 2 (radius: 25)
[00:14:38 -120290.491289] FAST spr round 3 (radius: 25)
[00:16:07 -120241.999459] FAST spr round 4 (radius: 25)
[00:17:59 -120234.945288] FAST spr round 5 (radius: 25)
[00:19:52 -120233.476095] FAST spr round 6 (radius: 25)
[00:21:08 -120230.843805] FAST spr round 7 (radius: 25)
[00:22:23 -120230.843799] Model parameter optimization (eps = 1.000000)
[00:22:34 -120228.442644] SLOW spr round 1 (radius: 5)
[00:24:16 -120182.745679] SLOW spr round 2 (radius: 5)
[00:25:53 -120177.116593] SLOW spr round 3 (radius: 5)
[00:27:30 -120176.697805] SLOW spr round 4 (radius: 5)
[00:29:05 -120176.697793] SLOW spr round 5 (radius: 10)
[00:30:44 -120176.680986] SLOW spr round 6 (radius: 15)
[00:33:13 -120176.680754] SLOW spr round 7 (radius: 20)
[00:36:20 -120176.680556] SLOW spr round 8 (radius: 25)
[00:40:05 -120176.680384] Model parameter optimization (eps = 0.100000)

[00:40:10] ML tree search #1, logLikelihood: -120176.624957

[00:40:10 -402522.174561] Initial branch length optimization
[00:40:14 -350499.585914] Model parameter optimization (eps = 10.000000)
[00:40:35 -350034.668765] AUTODETECT spr round 1 (radius: 5)
[00:42:16 -241080.059699] AUTODETECT spr round 2 (radius: 10)
[00:43:57 -174234.622002] AUTODETECT spr round 3 (radius: 15)
[00:45:48 -148664.508259] AUTODETECT spr round 4 (radius: 20)
[00:48:09 -137822.294220] AUTODETECT spr round 5 (radius: 25)
[00:50:38 -135672.703741] SPR radius for FAST iterations: 25 (autodetect)
[00:50:38 -135672.703741] Model parameter optimization (eps = 3.000000)
[00:50:55 -135574.132326] FAST spr round 1 (radius: 25)
[00:52:59 -120977.601515] FAST spr round 2 (radius: 25)
[00:54:39 -120273.803007] FAST spr round 3 (radius: 25)
[00:56:08 -120203.203714] FAST spr round 4 (radius: 25)
[00:57:29 -120187.956213] FAST spr round 5 (radius: 25)
[00:58:46 -120184.994112] FAST spr round 6 (radius: 25)
[01:00:01 -120183.136368] FAST spr round 7 (radius: 25)
[01:01:16 -120183.136200] Model parameter optimization (eps = 1.000000)
[01:01:28 -120175.514088] SLOW spr round 1 (radius: 5)
[01:03:08 -120149.006564] SLOW spr round 2 (radius: 5)
[01:04:45 -120148.666869] SLOW spr round 3 (radius: 5)
[01:06:20 -120148.666393] SLOW spr round 4 (radius: 10)
[01:07:59 -120145.345177] SLOW spr round 5 (radius: 5)
[01:10:00 -120144.277908] SLOW spr round 6 (radius: 5)
[01:11:50 -120142.724923] SLOW spr round 7 (radius: 5)
[01:13:30 -120142.262861] SLOW spr round 8 (radius: 5)
[01:15:06 -120142.262709] SLOW spr round 9 (radius: 10)
[01:16:44 -120142.262625] SLOW spr round 10 (radius: 15)
[01:19:14 -120142.262552] SLOW spr round 11 (radius: 20)
[01:22:21 -120142.262489] SLOW spr round 12 (radius: 25)
[01:26:21 -120142.262433] Model parameter optimization (eps = 0.100000)

[01:26:27] ML tree search #2, logLikelihood: -120142.175294

[01:26:27 -405079.669079] Initial branch length optimization
[01:26:32 -353516.243379] Model parameter optimization (eps = 10.000000)
[01:26:54 -353063.026632] AUTODETECT spr round 1 (radius: 5)
[01:28:29 -240968.127679] AUTODETECT spr round 2 (radius: 10)
[01:30:11 -180276.065170] AUTODETECT spr round 3 (radius: 15)
[01:32:04 -145412.639686] AUTODETECT spr round 4 (radius: 20)
[01:34:22 -138312.863385] AUTODETECT spr round 5 (radius: 25)
[01:36:50 -136554.660496] SPR radius for FAST iterations: 25 (autodetect)
[01:36:50 -136554.660496] Model parameter optimization (eps = 3.000000)
[01:37:08 -136445.133079] FAST spr round 1 (radius: 25)
[01:39:11 -121108.295503] FAST spr round 2 (radius: 25)
[01:40:52 -120316.416879] FAST spr round 3 (radius: 25)
[01:42:20 -120230.082269] FAST spr round 4 (radius: 25)
[01:43:38 -120225.898469] FAST spr round 5 (radius: 25)
[01:44:55 -120225.897783] Model parameter optimization (eps = 1.000000)
[01:45:07 -120221.934190] SLOW spr round 1 (radius: 5)
[01:46:54 -120179.168352] SLOW spr round 2 (radius: 5)
[01:48:37 -120174.932371] SLOW spr round 3 (radius: 5)
[01:50:15 -120174.927531] SLOW spr round 4 (radius: 10)
[01:51:57 -120164.552569] SLOW spr round 5 (radius: 5)
[01:54:03 -120162.200253] SLOW spr round 6 (radius: 5)
[01:55:53 -120162.199568] SLOW spr round 7 (radius: 10)
[01:57:37 -120162.199452] SLOW spr round 8 (radius: 15)
[02:00:11 -120162.199426] SLOW spr round 9 (radius: 20)
[02:03:51 -120162.199420] SLOW spr round 10 (radius: 25)
[02:08:34 -120162.199418] Model parameter optimization (eps = 0.100000)

[02:08:42] ML tree search #3, logLikelihood: -120161.910564

[02:08:42 -402357.830510] Initial branch length optimization
[02:08:47 -350797.879015] Model parameter optimization (eps = 10.000000)
[02:09:09 -350317.368910] AUTODETECT spr round 1 (radius: 5)
[02:10:47 -239449.051912] AUTODETECT spr round 2 (radius: 10)
[02:12:34 -171675.435224] AUTODETECT spr round 3 (radius: 15)
[02:14:30 -146600.255792] AUTODETECT spr round 4 (radius: 20)
[02:16:36 -138930.615390] AUTODETECT spr round 5 (radius: 25)
[02:19:11 -135454.217540] SPR radius for FAST iterations: 25 (autodetect)
[02:19:11 -135454.217540] Model parameter optimization (eps = 3.000000)
[02:19:27 -135328.246568] FAST spr round 1 (radius: 25)
[02:21:25 -120788.629195] FAST spr round 2 (radius: 25)
[02:23:06 -120193.483191] FAST spr round 3 (radius: 25)
[02:24:34 -120114.681518] FAST spr round 4 (radius: 25)
[02:25:56 -120072.656463] FAST spr round 5 (radius: 25)
[02:27:14 -120067.765873] FAST spr round 6 (radius: 25)
[02:28:30 -120067.765371] Model parameter optimization (eps = 1.000000)
[02:28:37 -120067.266383] SLOW spr round 1 (radius: 5)
[02:30:21 -120035.172566] SLOW spr round 2 (radius: 5)
[02:32:02 -120029.591986] SLOW spr round 3 (radius: 5)
[02:33:40 -120023.718914] SLOW spr round 4 (radius: 5)
[02:35:16 -120023.718884] SLOW spr round 5 (radius: 10)
[02:36:56 -120020.566720] SLOW spr round 6 (radius: 5)
[02:38:58 -120020.566701] SLOW spr round 7 (radius: 10)
[02:40:48 -120020.566700] SLOW spr round 8 (radius: 15)
[02:43:14 -120020.566700] SLOW spr round 9 (radius: 20)
[02:46:30 -120020.566700] SLOW spr round 10 (radius: 25)
[02:50:33 -120020.566699] Model parameter optimization (eps = 0.100000)

[02:50:39] ML tree search #4, logLikelihood: -120020.368985

[02:50:39 -402058.807548] Initial branch length optimization
[02:50:44 -350328.772053] Model parameter optimization (eps = 10.000000)
[02:51:05 -349823.485724] AUTODETECT spr round 1 (radius: 5)
[02:52:44 -244007.271948] AUTODETECT spr round 2 (radius: 10)
[02:54:30 -172750.798137] AUTODETECT spr round 3 (radius: 15)
[02:56:24 -144035.844224] AUTODETECT spr round 4 (radius: 20)
[02:58:38 -137083.792786] AUTODETECT spr round 5 (radius: 25)
[03:01:17 -135216.897014] SPR radius for FAST iterations: 25 (autodetect)
[03:01:17 -135216.897014] Model parameter optimization (eps = 3.000000)
[03:01:36 -135108.301498] FAST spr round 1 (radius: 25)
[03:03:36 -121177.322701] FAST spr round 2 (radius: 25)
[03:05:16 -120154.255619] FAST spr round 3 (radius: 25)
[03:06:47 -120050.530484] FAST spr round 4 (radius: 25)
[03:08:06 -120050.235943] FAST spr round 5 (radius: 25)
[03:09:22 -120050.235295] Model parameter optimization (eps = 1.000000)
[03:09:33 -120046.504466] SLOW spr round 1 (radius: 5)
[03:11:16 -120017.071470] SLOW spr round 2 (radius: 5)
[03:12:57 -120009.729942] SLOW spr round 3 (radius: 5)
[03:14:34 -120009.729342] SLOW spr round 4 (radius: 10)
[03:16:14 -120002.365010] SLOW spr round 5 (radius: 5)
[03:18:18 -119994.949086] SLOW spr round 6 (radius: 5)
[03:20:07 -119994.948736] SLOW spr round 7 (radius: 10)
[03:21:49 -119994.948590] SLOW spr round 8 (radius: 15)
[03:24:19 -119994.948515] SLOW spr round 9 (radius: 20)
[03:27:52 -119994.948471] SLOW spr round 10 (radius: 25)
[03:32:15 -119994.948441] Model parameter optimization (eps = 0.100000)

[03:32:23] ML tree search #5, logLikelihood: -119994.782195

[03:32:23 -403994.924733] Initial branch length optimization
[03:32:26 -350302.966448] Model parameter optimization (eps = 10.000000)
[03:32:51 -349887.407243] AUTODETECT spr round 1 (radius: 5)
[03:34:26 -234521.805494] AUTODETECT spr round 2 (radius: 10)
[03:36:12 -169606.346435] AUTODETECT spr round 3 (radius: 15)
[03:37:58 -145612.429131] AUTODETECT spr round 4 (radius: 20)
[03:40:05 -136517.212338] AUTODETECT spr round 5 (radius: 25)
[03:42:33 -135223.371941] SPR radius for FAST iterations: 25 (autodetect)
[03:42:33 -135223.371941] Model parameter optimization (eps = 3.000000)
[03:42:49 -135091.844066] FAST spr round 1 (radius: 25)
[03:44:56 -121000.322203] FAST spr round 2 (radius: 25)
[03:46:36 -120222.978569] FAST spr round 3 (radius: 25)
[03:48:08 -120098.847256] FAST spr round 4 (radius: 25)
[03:49:34 -120080.055591] FAST spr round 5 (radius: 25)
[03:50:53 -120075.313993] FAST spr round 6 (radius: 25)
[03:52:09 -120075.313705] Model parameter optimization (eps = 1.000000)
[03:52:22 -120066.809011] SLOW spr round 1 (radius: 5)
[03:54:07 -120029.282297] SLOW spr round 2 (radius: 5)
[03:55:46 -120026.995062] SLOW spr round 3 (radius: 5)
[03:57:24 -120026.156499] SLOW spr round 4 (radius: 5)
[03:59:00 -120026.155342] SLOW spr round 5 (radius: 10)
[04:00:39 -120020.967267] SLOW spr round 6 (radius: 5)
[04:02:43 -120016.410945] SLOW spr round 7 (radius: 5)
[04:04:32 -120016.408307] SLOW spr round 8 (radius: 10)
[04:06:14 -120016.406763] SLOW spr round 9 (radius: 15)
[04:08:43 -120016.114738] SLOW spr round 10 (radius: 5)
[04:10:49 -120016.031584] SLOW spr round 11 (radius: 10)
[04:12:45 -120014.314897] SLOW spr round 12 (radius: 5)
[04:14:45 -120011.120048] SLOW spr round 13 (radius: 5)
[04:16:32 -120011.119394] SLOW spr round 14 (radius: 10)
[04:18:13 -120011.119292] SLOW spr round 15 (radius: 15)
[04:20:41 -120011.119274] SLOW spr round 16 (radius: 20)
[04:23:55 -120011.119271] SLOW spr round 17 (radius: 25)
[04:28:02 -120011.119271] Model parameter optimization (eps = 0.100000)

[04:28:15] ML tree search #6, logLikelihood: -120010.331356

[04:28:15 -402035.538069] Initial branch length optimization
[04:28:20 -349853.628093] Model parameter optimization (eps = 10.000000)
[04:28:40 -349381.488383] AUTODETECT spr round 1 (radius: 5)
[04:30:17 -245571.863469] AUTODETECT spr round 2 (radius: 10)
[04:32:00 -188208.883509] AUTODETECT spr round 3 (radius: 15)
[04:33:55 -157010.268406] AUTODETECT spr round 4 (radius: 20)
[04:36:33 -142045.167878] AUTODETECT spr round 5 (radius: 25)
[04:39:21 -139390.675607] SPR radius for FAST iterations: 25 (autodetect)
[04:39:21 -139390.675607] Model parameter optimization (eps = 3.000000)
[04:39:37 -139242.036501] FAST spr round 1 (radius: 25)
[04:41:40 -121167.332039] FAST spr round 2 (radius: 25)
[04:43:21 -120237.936333] FAST spr round 3 (radius: 25)
[04:44:47 -120152.603267] FAST spr round 4 (radius: 25)
[04:46:10 -120145.844090] FAST spr round 5 (radius: 25)
[04:47:27 -120143.259707] FAST spr round 6 (radius: 25)
[04:48:42 -120143.259694] Model parameter optimization (eps = 1.000000)
[04:48:58 -120124.292963] SLOW spr round 1 (radius: 5)
[04:50:43 -120071.260872] SLOW spr round 2 (radius: 5)
[04:52:23 -120035.699750] SLOW spr round 3 (radius: 5)
[04:54:01 -120028.771047] SLOW spr round 4 (radius: 5)
[04:55:39 -120018.734072] SLOW spr round 5 (radius: 5)
[04:57:16 -120018.508162] SLOW spr round 6 (radius: 5)
[04:58:51 -120018.507240] SLOW spr round 7 (radius: 10)
[05:00:29 -120017.261868] SLOW spr round 8 (radius: 5)
[05:02:30 -120015.946037] SLOW spr round 9 (radius: 5)
[05:04:17 -120015.946034] SLOW spr round 10 (radius: 10)
[05:05:58 -120015.946034] SLOW spr round 11 (radius: 15)
[05:08:24 -120015.946034] SLOW spr round 12 (radius: 20)
[05:11:43 -120015.946034] SLOW spr round 13 (radius: 25)
[05:16:01 -120015.946034] Model parameter optimization (eps = 0.100000)

[05:16:13] ML tree search #7, logLikelihood: -120014.041376

[05:16:13 -402760.036021] Initial branch length optimization
[05:16:17 -350293.216743] Model parameter optimization (eps = 10.000000)
[05:16:41 -349852.368156] AUTODETECT spr round 1 (radius: 5)
[05:18:18 -243784.330175] AUTODETECT spr round 2 (radius: 10)
[05:20:05 -172758.719040] AUTODETECT spr round 3 (radius: 15)
[05:22:06 -144554.931651] AUTODETECT spr round 4 (radius: 20)
[05:24:20 -135470.093994] AUTODETECT spr round 5 (radius: 25)
[05:26:51 -134709.422213] SPR radius for FAST iterations: 25 (autodetect)
[05:26:51 -134709.422213] Model parameter optimization (eps = 3.000000)
[05:27:09 -134597.560699] FAST spr round 1 (radius: 25)
[05:29:11 -120985.378445] FAST spr round 2 (radius: 25)
[05:30:49 -120293.473121] FAST spr round 3 (radius: 25)
[05:32:22 -120216.352204] FAST spr round 4 (radius: 25)
[05:33:42 -120209.912080] FAST spr round 5 (radius: 25)
[05:34:57 -120203.171604] FAST spr round 6 (radius: 25)
[05:36:12 -120203.150746] Model parameter optimization (eps = 1.000000)
[05:36:29 -120195.442125] SLOW spr round 1 (radius: 5)
[05:38:12 -120164.867454] SLOW spr round 2 (radius: 5)
[05:39:50 -120162.464422] SLOW spr round 3 (radius: 5)
[05:41:27 -120161.035535] SLOW spr round 4 (radius: 5)
[05:43:03 -120161.034570] SLOW spr round 5 (radius: 10)
[05:44:44 -120155.544525] SLOW spr round 6 (radius: 5)
[05:46:46 -120155.455661] SLOW spr round 7 (radius: 10)
[05:48:37 -120151.891592] SLOW spr round 8 (radius: 5)
[05:50:36 -120147.150070] SLOW spr round 9 (radius: 5)
[05:52:22 -120147.146619] SLOW spr round 10 (radius: 10)
[05:54:04 -120143.689060] SLOW spr round 11 (radius: 5)
[05:56:05 -120142.555268] SLOW spr round 12 (radius: 5)
[05:57:52 -120142.555203] SLOW spr round 13 (radius: 10)
[05:59:33 -120142.555152] SLOW spr round 14 (radius: 15)
[06:02:06 -120142.555107] SLOW spr round 15 (radius: 20)
[06:05:50 -120142.555067] SLOW spr round 16 (radius: 25)
[06:10:24 -120142.555031] Model parameter optimization (eps = 0.100000)

[06:10:28] ML tree search #8, logLikelihood: -120142.542988

[06:10:28 -401691.459984] Initial branch length optimization
[06:10:34 -350336.876219] Model parameter optimization (eps = 10.000000)
[06:10:57 -349859.485730] AUTODETECT spr round 1 (radius: 5)
[06:12:32 -241667.764292] AUTODETECT spr round 2 (radius: 10)
[06:14:13 -176948.012380] AUTODETECT spr round 3 (radius: 15)
[06:16:12 -155046.882345] AUTODETECT spr round 4 (radius: 20)
[06:18:31 -141951.127293] AUTODETECT spr round 5 (radius: 25)
[06:20:53 -138597.469248] SPR radius for FAST iterations: 25 (autodetect)
[06:20:53 -138597.469248] Model parameter optimization (eps = 3.000000)
[06:21:09 -138502.225517] FAST spr round 1 (radius: 25)
[06:23:12 -121135.118199] FAST spr round 2 (radius: 25)
[06:24:50 -120278.547136] FAST spr round 3 (radius: 25)
[06:26:18 -120064.141766] FAST spr round 4 (radius: 25)
[06:27:40 -120043.806177] FAST spr round 5 (radius: 25)
[06:29:00 -120037.011135] FAST spr round 6 (radius: 25)
[06:30:15 -120037.011100] Model parameter optimization (eps = 1.000000)
[06:30:28 -120027.260379] SLOW spr round 1 (radius: 5)
[06:32:10 -119996.420490] SLOW spr round 2 (radius: 5)
[06:33:48 -119988.746385] SLOW spr round 3 (radius: 5)
[06:35:26 -119982.697852] SLOW spr round 4 (radius: 5)
[06:37:01 -119981.458560] SLOW spr round 5 (radius: 5)
[06:38:36 -119981.458504] SLOW spr round 6 (radius: 10)
[06:40:17 -119975.136459] SLOW spr round 7 (radius: 5)
[06:42:20 -119974.435142] SLOW spr round 8 (radius: 5)
[06:44:09 -119974.435099] SLOW spr round 9 (radius: 10)
[06:45:53 -119973.786108] SLOW spr round 10 (radius: 5)
[06:47:54 -119973.786068] SLOW spr round 11 (radius: 10)
[06:49:45 -119973.786060] SLOW spr round 12 (radius: 15)
[06:52:15 -119973.786053] SLOW spr round 13 (radius: 20)
[06:56:00 -119973.786047] SLOW spr round 14 (radius: 25)
[07:00:39 -119973.786042] Model parameter optimization (eps = 0.100000)

[07:00:45] ML tree search #9, logLikelihood: -119973.755518

[07:00:45 -402284.613909] Initial branch length optimization
[07:00:50 -350456.619735] Model parameter optimization (eps = 10.000000)
[07:01:16 -350009.435336] AUTODETECT spr round 1 (radius: 5)
[07:02:52 -235405.328795] AUTODETECT spr round 2 (radius: 10)
[07:04:35 -183343.099569] AUTODETECT spr round 3 (radius: 15)
[07:06:31 -149851.013574] AUTODETECT spr round 4 (radius: 20)
[07:08:39 -140091.674448] AUTODETECT spr round 5 (radius: 25)
[07:11:05 -137616.260914] SPR radius for FAST iterations: 25 (autodetect)
[07:11:05 -137616.260914] Model parameter optimization (eps = 3.000000)
[07:11:21 -137487.174327] FAST spr round 1 (radius: 25)
[07:13:25 -121023.202377] FAST spr round 2 (radius: 25)
[07:15:03 -120136.755587] FAST spr round 3 (radius: 25)
[07:16:29 -120055.012550] FAST spr round 4 (radius: 25)
[07:17:51 -120037.561955] FAST spr round 5 (radius: 25)
[07:19:06 -120035.748635] FAST spr round 6 (radius: 25)
[07:20:21 -120035.748043] Model parameter optimization (eps = 1.000000)
[07:20:34 -120031.581757] SLOW spr round 1 (radius: 5)
[07:22:18 -120017.586290] SLOW spr round 2 (radius: 5)
[07:23:59 -120007.239332] SLOW spr round 3 (radius: 5)
[07:25:37 -119998.710872] SLOW spr round 4 (radius: 5)
[07:27:15 -119996.713526] SLOW spr round 5 (radius: 5)
[07:28:50 -119996.712941] SLOW spr round 6 (radius: 10)
[07:30:29 -119993.331544] SLOW spr round 7 (radius: 5)
[07:32:30 -119993.330827] SLOW spr round 8 (radius: 10)
[07:34:19 -119993.330363] SLOW spr round 9 (radius: 15)
[07:36:43 -119993.330310] SLOW spr round 10 (radius: 20)
[07:40:14 -119993.330309] SLOW spr round 11 (radius: 25)
[07:44:32 -119993.330309] Model parameter optimization (eps = 0.100000)

[07:44:39] ML tree search #10, logLikelihood: -119993.010359

[07:44:39 -406271.906541] Initial branch length optimization
[07:44:43 -352860.816863] Model parameter optimization (eps = 10.000000)
[07:45:03 -352391.581538] AUTODETECT spr round 1 (radius: 5)
[07:46:39 -238090.773131] AUTODETECT spr round 2 (radius: 10)
[07:48:23 -176214.971642] AUTODETECT spr round 3 (radius: 15)
[07:50:16 -150289.279058] AUTODETECT spr round 4 (radius: 20)
[07:52:29 -141106.075215] AUTODETECT spr round 5 (radius: 25)
[07:54:52 -139400.857328] SPR radius for FAST iterations: 25 (autodetect)
[07:54:52 -139400.857328] Model parameter optimization (eps = 3.000000)
[07:55:09 -139249.241245] FAST spr round 1 (radius: 25)
[07:57:06 -121367.637348] FAST spr round 2 (radius: 25)
[07:58:47 -120161.428157] FAST spr round 3 (radius: 25)
[08:00:16 -120072.416026] FAST spr round 4 (radius: 25)
[08:01:39 -120045.881094] FAST spr round 5 (radius: 25)
[08:02:56 -120043.071605] FAST spr round 6 (radius: 25)
[08:04:10 -120043.071570] Model parameter optimization (eps = 1.000000)
[08:04:22 -120038.048671] SLOW spr round 1 (radius: 5)
[08:06:04 -120017.472005] SLOW spr round 2 (radius: 5)
[08:07:45 -120009.521445] SLOW spr round 3 (radius: 5)
[08:09:22 -120009.023716] SLOW spr round 4 (radius: 5)
[08:10:57 -120009.023194] SLOW spr round 5 (radius: 10)
[08:12:36 -120007.402465] SLOW spr round 6 (radius: 5)
[08:14:37 -120007.402256] SLOW spr round 7 (radius: 10)
[08:16:28 -120007.402155] SLOW spr round 8 (radius: 15)
[08:18:56 -120006.638776] SLOW spr round 9 (radius: 5)
[08:21:04 -120006.631105] SLOW spr round 10 (radius: 10)
[08:23:02 -120006.630142] SLOW spr round 11 (radius: 15)
[08:25:28 -120006.629984] SLOW spr round 12 (radius: 20)
[08:29:13 -120006.629920] SLOW spr round 13 (radius: 25)
[08:33:56 -120006.629871] Model parameter optimization (eps = 0.100000)

[08:34:04] ML tree search #11, logLikelihood: -120006.551346

[08:34:04 -400069.497194] Initial branch length optimization
[08:34:07 -348582.079041] Model parameter optimization (eps = 10.000000)
[08:34:30 -348115.047832] AUTODETECT spr round 1 (radius: 5)
[08:36:11 -234097.533030] AUTODETECT spr round 2 (radius: 10)
[08:38:00 -172347.394283] AUTODETECT spr round 3 (radius: 15)
[08:40:05 -156514.288013] AUTODETECT spr round 4 (radius: 20)
[08:42:39 -152189.275798] AUTODETECT spr round 5 (radius: 25)
[08:45:31 -141889.606698] SPR radius for FAST iterations: 25 (autodetect)
[08:45:31 -141889.606698] Model parameter optimization (eps = 3.000000)
[08:45:43 -141772.104385] FAST spr round 1 (radius: 25)
[08:47:52 -120948.235148] FAST spr round 2 (radius: 25)
[08:49:30 -120145.994129] FAST spr round 3 (radius: 25)
[08:51:00 -120079.380799] FAST spr round 4 (radius: 25)
[08:52:23 -120063.850706] FAST spr round 5 (radius: 25)
[08:53:41 -120061.775080] FAST spr round 6 (radius: 25)
[08:54:56 -120061.004500] FAST spr round 7 (radius: 25)
[08:56:10 -120061.004474] Model parameter optimization (eps = 1.000000)
[08:56:19 -120058.774857] SLOW spr round 1 (radius: 5)
[08:58:00 -120043.922688] SLOW spr round 2 (radius: 5)
[08:59:37 -120040.969389] SLOW spr round 3 (radius: 5)
[09:01:13 -120039.546460] SLOW spr round 4 (radius: 5)
[09:02:49 -120036.392511] SLOW spr round 5 (radius: 5)
[09:04:25 -120035.755352] SLOW spr round 6 (radius: 5)
[09:05:59 -120035.754907] SLOW spr round 7 (radius: 10)
[09:07:38 -120033.456401] SLOW spr round 8 (radius: 5)
[09:09:40 -120027.944040] SLOW spr round 9 (radius: 5)
[09:11:31 -120026.560020] SLOW spr round 10 (radius: 5)
[09:13:12 -120026.560013] SLOW spr round 11 (radius: 10)
[09:14:51 -120024.028139] SLOW spr round 12 (radius: 5)
[09:16:50 -120024.028073] SLOW spr round 13 (radius: 10)
[09:18:37 -120024.028071] SLOW spr round 14 (radius: 15)
[09:21:03 -120023.296561] SLOW spr round 15 (radius: 5)
[09:23:09 -120022.555320] SLOW spr round 16 (radius: 5)
[09:24:59 -120022.546691] SLOW spr round 17 (radius: 10)
[09:26:42 -120022.541067] SLOW spr round 18 (radius: 15)
[09:29:10 -120022.541033] SLOW spr round 19 (radius: 20)
[09:32:42 -120022.541033] SLOW spr round 20 (radius: 25)
[09:37:03 -120022.541033] Model parameter optimization (eps = 0.100000)

[09:37:06] ML tree search #12, logLikelihood: -120022.539271

[09:37:06 -400791.489696] Initial branch length optimization
[09:37:10 -348664.691680] Model parameter optimization (eps = 10.000000)
[09:37:38 -348223.963493] AUTODETECT spr round 1 (radius: 5)
[09:39:15 -236924.056345] AUTODETECT spr round 2 (radius: 10)
[09:40:57 -179858.711461] AUTODETECT spr round 3 (radius: 15)
[09:42:48 -153443.290294] AUTODETECT spr round 4 (radius: 20)
[09:45:14 -143434.930823] AUTODETECT spr round 5 (radius: 25)
[09:47:54 -138299.066395] SPR radius for FAST iterations: 25 (autodetect)
[09:47:54 -138299.066395] Model parameter optimization (eps = 3.000000)
[09:48:25 -138179.855978] FAST spr round 1 (radius: 25)
[09:50:30 -120784.636096] FAST spr round 2 (radius: 25)
[09:52:11 -120127.739264] FAST spr round 3 (radius: 25)
[09:53:40 -120092.062714] FAST spr round 4 (radius: 25)
[09:54:58 -120086.363176] FAST spr round 5 (radius: 25)
[09:56:14 -120086.362549] Model parameter optimization (eps = 1.000000)
[09:56:28 -120075.680890] SLOW spr round 1 (radius: 5)
[09:58:11 -120029.165268] SLOW spr round 2 (radius: 5)
[09:59:50 -120004.309112] SLOW spr round 3 (radius: 5)
[10:01:26 -120004.305951] SLOW spr round 4 (radius: 10)
[10:03:06 -119997.645820] SLOW spr round 5 (radius: 5)
[10:05:07 -119995.769905] SLOW spr round 6 (radius: 5)
[10:06:54 -119995.769246] SLOW spr round 7 (radius: 10)
[10:08:36 -119995.768942] SLOW spr round 8 (radius: 15)
[10:11:05 -119995.768744] SLOW spr round 9 (radius: 20)
[10:14:37 -119995.768596] SLOW spr round 10 (radius: 25)
[10:19:02 -119995.768474] Model parameter optimization (eps = 0.100000)

[10:19:13] ML tree search #13, logLikelihood: -119995.155815

[10:19:13 -402631.100441] Initial branch length optimization
[10:19:17 -351278.684380] Model parameter optimization (eps = 10.000000)
[10:19:44 -350809.202169] AUTODETECT spr round 1 (radius: 5)
[10:21:22 -237700.825327] AUTODETECT spr round 2 (radius: 10)
[10:23:04 -174152.034510] AUTODETECT spr round 3 (radius: 15)
[10:24:55 -145861.439854] AUTODETECT spr round 4 (radius: 20)
[10:27:11 -135560.966754] AUTODETECT spr round 5 (radius: 25)
[10:29:34 -135127.697196] SPR radius for FAST iterations: 25 (autodetect)
[10:29:34 -135127.697196] Model parameter optimization (eps = 3.000000)
[10:29:50 -135029.863690] FAST spr round 1 (radius: 25)
[10:31:50 -120755.633194] FAST spr round 2 (radius: 25)
[10:33:30 -120174.890522] FAST spr round 3 (radius: 25)
[10:35:00 -120122.826060] FAST spr round 4 (radius: 25)
[10:36:22 -120113.497288] FAST spr round 5 (radius: 25)
[10:37:41 -120109.619315] FAST spr round 6 (radius: 25)
[10:38:59 -120106.647282] FAST spr round 7 (radius: 25)
[10:40:14 -120106.646420] Model parameter optimization (eps = 1.000000)
[10:40:27 -120104.627145] SLOW spr round 1 (radius: 5)
[10:42:07 -120067.958900] SLOW spr round 2 (radius: 5)
[10:43:47 -120058.565660] SLOW spr round 3 (radius: 5)
[10:45:24 -120054.415447] SLOW spr round 4 (radius: 5)
[10:46:59 -120054.415277] SLOW spr round 5 (radius: 10)
[10:48:37 -120049.378080] SLOW spr round 6 (radius: 5)
[10:50:39 -120043.801222] SLOW spr round 7 (radius: 5)
[10:52:28 -120043.118543] SLOW spr round 8 (radius: 5)
[10:54:09 -120043.118093] SLOW spr round 9 (radius: 10)
[10:55:49 -120042.207243] SLOW spr round 10 (radius: 5)
[10:57:49 -120042.205676] SLOW spr round 11 (radius: 10)
[10:59:36 -120042.205324] SLOW spr round 12 (radius: 15)
[11:02:02 -120038.335305] SLOW spr round 13 (radius: 5)
[11:04:12 -120018.657573] SLOW spr round 14 (radius: 5)
[11:06:04 -120017.898360] SLOW spr round 15 (radius: 5)
[11:07:46 -120017.897949] SLOW spr round 16 (radius: 10)
[11:09:25 -120017.237037] SLOW spr round 17 (radius: 5)
[11:11:27 -120016.436758] SLOW spr round 18 (radius: 5)
[11:13:14 -120016.099500] SLOW spr round 19 (radius: 5)
[11:14:55 -120015.864090] SLOW spr round 20 (radius: 5)
[11:16:33 -120015.864089] SLOW spr round 21 (radius: 10)
[11:18:11 -120015.864089] SLOW spr round 22 (radius: 15)
[11:20:43 -120015.864088] SLOW spr round 23 (radius: 20)
[11:24:04 -120011.621885] SLOW spr round 24 (radius: 5)
[11:26:13 -120011.621867] SLOW spr round 25 (radius: 10)
[11:28:09 -120011.621866] SLOW spr round 26 (radius: 15)
[11:30:31 -120011.621866] SLOW spr round 27 (radius: 20)
[11:33:56 -120011.621866] SLOW spr round 28 (radius: 25)
[11:38:06 -120011.621865] Model parameter optimization (eps = 0.100000)

[11:38:22] ML tree search #14, logLikelihood: -120010.791251

[11:38:22 -402819.916240] Initial branch length optimization
[11:38:25 -350325.821559] Model parameter optimization (eps = 10.000000)
[11:38:49 -349846.253555] AUTODETECT spr round 1 (radius: 5)
[11:40:27 -239296.019599] AUTODETECT spr round 2 (radius: 10)
[11:42:15 -173901.522972] AUTODETECT spr round 3 (radius: 15)
[11:44:09 -145589.391455] AUTODETECT spr round 4 (radius: 20)
[11:46:07 -137988.940569] AUTODETECT spr round 5 (radius: 25)
[11:48:33 -136517.062608] SPR radius for FAST iterations: 25 (autodetect)
[11:48:33 -136517.062608] Model parameter optimization (eps = 3.000000)
[11:48:51 -136409.313675] FAST spr round 1 (radius: 25)
[11:50:51 -121098.055584] FAST spr round 2 (radius: 25)
[11:52:27 -120296.399164] FAST spr round 3 (radius: 25)
[11:53:55 -120208.833858] FAST spr round 4 (radius: 25)
[11:55:15 -120189.658043] FAST spr round 5 (radius: 25)
[11:56:31 -120189.655975] Model parameter optimization (eps = 1.000000)
[11:56:46 -120182.807727] SLOW spr round 1 (radius: 5)
[11:58:29 -120161.932798] SLOW spr round 2 (radius: 5)
[12:00:09 -120152.745893] SLOW spr round 3 (radius: 5)
[12:01:44 -120152.744858] SLOW spr round 4 (radius: 10)
[12:03:22 -120151.799635] SLOW spr round 5 (radius: 5)
[12:05:22 -120151.777545] SLOW spr round 6 (radius: 10)
[12:07:10 -120151.739284] SLOW spr round 7 (radius: 15)
[12:09:29 -120151.581379] SLOW spr round 8 (radius: 5)
[12:11:34 -120151.175820] SLOW spr round 9 (radius: 5)
[12:13:25 -120151.168157] SLOW spr round 10 (radius: 10)
[12:15:07 -120151.162918] SLOW spr round 11 (radius: 15)
[12:17:29 -120151.162905] SLOW spr round 12 (radius: 20)
[12:20:49 -120151.162898] SLOW spr round 13 (radius: 25)
[12:24:50 -120151.162891] Model parameter optimization (eps = 0.100000)

[12:24:57] ML tree search #15, logLikelihood: -120151.038613

[12:24:57 -401516.077638] Initial branch length optimization
[12:25:00 -350884.461764] Model parameter optimization (eps = 10.000000)
[12:25:25 -350368.141515] AUTODETECT spr round 1 (radius: 5)
[12:27:03 -238124.549198] AUTODETECT spr round 2 (radius: 10)
[12:28:51 -176298.199030] AUTODETECT spr round 3 (radius: 15)
[12:30:44 -156962.063023] AUTODETECT spr round 4 (radius: 20)
[12:33:04 -144128.061240] AUTODETECT spr round 5 (radius: 25)
[12:35:31 -139740.594184] SPR radius for FAST iterations: 25 (autodetect)
[12:35:31 -139740.594184] Model parameter optimization (eps = 3.000000)
[12:35:42 -139619.043808] FAST spr round 1 (radius: 25)
[12:37:43 -120931.388815] FAST spr round 2 (radius: 25)
[12:39:24 -120169.783978] FAST spr round 3 (radius: 25)
[12:40:54 -120096.071426] FAST spr round 4 (radius: 25)
[12:42:13 -120088.866730] FAST spr round 5 (radius: 25)
[12:43:29 -120088.866607] Model parameter optimization (eps = 1.000000)
[12:43:39 -120087.178280] SLOW spr round 1 (radius: 5)
[12:45:21 -120069.382407] SLOW spr round 2 (radius: 5)
[12:46:56 -120069.381251] SLOW spr round 3 (radius: 10)
[12:48:32 -120069.381124] SLOW spr round 4 (radius: 15)
[12:51:05 -120069.220911] SLOW spr round 5 (radius: 5)
[12:53:08 -120069.219215] SLOW spr round 6 (radius: 10)
[12:55:02 -120069.219187] SLOW spr round 7 (radius: 15)
[12:57:24 -120069.219165] SLOW spr round 8 (radius: 20)
[13:00:59 -120069.219147] SLOW spr round 9 (radius: 25)
[13:05:23 -120069.219131] Model parameter optimization (eps = 0.100000)

[13:05:27] ML tree search #16, logLikelihood: -120069.175451

[13:05:27 -400642.597889] Initial branch length optimization
[13:05:30 -350468.860928] Model parameter optimization (eps = 10.000000)
[13:05:54 -349964.286357] AUTODETECT spr round 1 (radius: 5)
[13:07:34 -240609.208411] AUTODETECT spr round 2 (radius: 10)
[13:09:21 -180902.309990] AUTODETECT spr round 3 (radius: 15)
[13:11:14 -151625.889959] AUTODETECT spr round 4 (radius: 20)
[13:13:22 -142972.069333] AUTODETECT spr round 5 (radius: 25)
[13:15:37 -139588.544556] SPR radius for FAST iterations: 25 (autodetect)
[13:15:37 -139588.544556] Model parameter optimization (eps = 3.000000)
[13:15:53 -139464.899930] FAST spr round 1 (radius: 25)
[13:17:54 -121051.273269] FAST spr round 2 (radius: 25)
[13:19:32 -120188.149907] FAST spr round 3 (radius: 25)
[13:21:01 -120066.478888] FAST spr round 4 (radius: 25)
[13:22:26 -120033.409869] FAST spr round 5 (radius: 25)
[13:23:44 -120025.571843] FAST spr round 6 (radius: 25)
[13:24:59 -120025.571640] Model parameter optimization (eps = 1.000000)
[13:25:11 -120020.543321] SLOW spr round 1 (radius: 5)
[13:26:52 -119990.101294] SLOW spr round 2 (radius: 5)
[13:28:29 -119985.963845] SLOW spr round 3 (radius: 5)
[13:30:04 -119985.963428] SLOW spr round 4 (radius: 10)
[13:31:42 -119984.684783] SLOW spr round 5 (radius: 5)
[13:33:42 -119984.684713] SLOW spr round 6 (radius: 10)
[13:35:32 -119983.825143] SLOW spr round 7 (radius: 5)
[13:37:30 -119983.819880] SLOW spr round 8 (radius: 10)
[13:39:18 -119983.819181] SLOW spr round 9 (radius: 15)
[13:41:44 -119983.573930] SLOW spr round 10 (radius: 5)
[13:43:51 -119981.861005] SLOW spr round 11 (radius: 5)
[13:45:43 -119980.229165] SLOW spr round 12 (radius: 5)
[13:47:25 -119980.229010] SLOW spr round 13 (radius: 10)
[13:49:05 -119980.228990] SLOW spr round 14 (radius: 15)
[13:51:34 -119980.228976] SLOW spr round 15 (radius: 20)
[13:54:55 -119980.119555] SLOW spr round 16 (radius: 5)
[13:57:02 -119980.087334] SLOW spr round 17 (radius: 10)
[13:58:58 -119980.086515] SLOW spr round 18 (radius: 15)
[14:01:19 -119980.086387] SLOW spr round 19 (radius: 20)
[14:04:46 -119980.086366] SLOW spr round 20 (radius: 25)
[14:09:00 -119980.086361] Model parameter optimization (eps = 0.100000)

[14:09:06] ML tree search #17, logLikelihood: -119980.033517

[14:09:06 -402580.330049] Initial branch length optimization
[14:09:10 -351185.776378] Model parameter optimization (eps = 10.000000)
[14:09:30 -350709.766242] AUTODETECT spr round 1 (radius: 5)
[14:11:10 -242939.633498] AUTODETECT spr round 2 (radius: 10)
[14:12:58 -182332.329754] AUTODETECT spr round 3 (radius: 15)
[14:14:58 -160387.533783] AUTODETECT spr round 4 (radius: 20)
[14:17:26 -141885.132501] AUTODETECT spr round 5 (radius: 25)
[14:19:49 -139402.084139] SPR radius for FAST iterations: 25 (autodetect)
[14:19:49 -139402.084139] Model parameter optimization (eps = 3.000000)
[14:20:04 -139291.405212] FAST spr round 1 (radius: 25)
[14:22:05 -120975.623760] FAST spr round 2 (radius: 25)
[14:23:43 -120169.518294] FAST spr round 3 (radius: 25)
[14:25:10 -120079.453161] FAST spr round 4 (radius: 25)
[14:26:31 -120055.632626] FAST spr round 5 (radius: 25)
[14:27:47 -120053.983807] FAST spr round 6 (radius: 25)
[14:29:01 -120053.983729] Model parameter optimization (eps = 1.000000)
[14:29:16 -120042.671794] SLOW spr round 1 (radius: 5)
[14:30:58 -120012.941556] SLOW spr round 2 (radius: 5)
[14:32:36 -120009.989556] SLOW spr round 3 (radius: 5)
[14:34:11 -120009.018933] SLOW spr round 4 (radius: 5)
[14:35:46 -120009.018683] SLOW spr round 5 (radius: 10)
[14:37:24 -120007.478658] SLOW spr round 6 (radius: 5)
[14:39:25 -120006.159875] SLOW spr round 7 (radius: 5)
[14:41:12 -120006.159705] SLOW spr round 8 (radius: 10)
[14:42:54 -120004.847667] SLOW spr round 9 (radius: 5)
[14:44:53 -120004.847492] SLOW spr round 10 (radius: 10)
[14:46:42 -120004.812503] SLOW spr round 11 (radius: 15)
[14:49:04 -120004.585516] SLOW spr round 12 (radius: 5)
[14:51:11 -120004.509530] SLOW spr round 13 (radius: 10)
[14:53:05 -120004.507776] SLOW spr round 14 (radius: 15)
[14:55:24 -120004.506559] SLOW spr round 15 (radius: 20)
[14:58:50 -120004.505717] SLOW spr round 16 (radius: 25)
[15:03:01 -120004.505428] Model parameter optimization (eps = 0.100000)

[15:03:07] ML tree search #18, logLikelihood: -120004.348062

[15:03:07 -403370.151702] Initial branch length optimization
[15:03:11 -350805.577921] Model parameter optimization (eps = 10.000000)
[15:03:35 -350343.437847] AUTODETECT spr round 1 (radius: 5)
[15:05:11 -242577.866323] AUTODETECT spr round 2 (radius: 10)
[15:06:52 -181250.042545] AUTODETECT spr round 3 (radius: 15)
[15:08:45 -158372.511208] AUTODETECT spr round 4 (radius: 20)
[15:11:26 -147772.840782] AUTODETECT spr round 5 (radius: 25)
[15:14:06 -140774.454797] SPR radius for FAST iterations: 25 (autodetect)
[15:14:06 -140774.454797] Model parameter optimization (eps = 3.000000)
[15:14:21 -140651.993934] FAST spr round 1 (radius: 25)
[15:16:25 -121424.043677] FAST spr round 2 (radius: 25)
[15:18:06 -120309.924929] FAST spr round 3 (radius: 25)
[15:19:38 -120220.293589] FAST spr round 4 (radius: 25)
[15:21:03 -120060.064959] FAST spr round 5 (radius: 25)
[15:22:20 -120058.737681] FAST spr round 6 (radius: 25)
[15:23:35 -120058.737531] Model parameter optimization (eps = 1.000000)
[15:23:45 -120056.280744] SLOW spr round 1 (radius: 5)
[15:25:27 -120020.520352] SLOW spr round 2 (radius: 5)
[15:27:06 -120017.294567] SLOW spr round 3 (radius: 5)
[15:28:42 -120017.293338] SLOW spr round 4 (radius: 10)
[15:30:19 -120017.071273] SLOW spr round 5 (radius: 5)
[15:32:23 -120016.674075] SLOW spr round 6 (radius: 5)
[15:34:12 -120016.672778] SLOW spr round 7 (radius: 10)
[15:35:54 -120016.672646] SLOW spr round 8 (radius: 15)
[15:38:21 -120014.957149] SLOW spr round 9 (radius: 5)
[15:40:27 -120014.957087] SLOW spr round 10 (radius: 10)
[15:42:21 -120014.957036] SLOW spr round 11 (radius: 15)
[15:44:43 -120014.956991] SLOW spr round 12 (radius: 20)
[15:48:03 -120014.956952] SLOW spr round 13 (radius: 25)
[15:52:07 -120014.956917] Model parameter optimization (eps = 0.100000)

[15:52:11] ML tree search #19, logLikelihood: -120014.926775

[15:52:11 -402622.079128] Initial branch length optimization
[15:52:15 -351388.011697] Model parameter optimization (eps = 10.000000)
[15:52:39 -350903.428155] AUTODETECT spr round 1 (radius: 5)
[15:54:20 -237576.664713] AUTODETECT spr round 2 (radius: 10)
[15:56:07 -176404.218975] AUTODETECT spr round 3 (radius: 15)
[15:58:03 -147613.251006] AUTODETECT spr round 4 (radius: 20)
[16:00:37 -137161.462596] AUTODETECT spr round 5 (radius: 25)
[16:03:12 -134785.215568] SPR radius for FAST iterations: 25 (autodetect)
[16:03:12 -134785.215568] Model parameter optimization (eps = 3.000000)
[16:03:29 -134686.040204] FAST spr round 1 (radius: 25)
[16:05:29 -120767.410766] FAST spr round 2 (radius: 25)
[16:07:06 -120158.674269] FAST spr round 3 (radius: 25)
[16:08:32 -120109.598746] FAST spr round 4 (radius: 25)
[16:09:51 -120104.682410] FAST spr round 5 (radius: 25)
[16:11:08 -120103.162287] FAST spr round 6 (radius: 25)
[16:12:23 -120103.161524] Model parameter optimization (eps = 1.000000)
[16:12:31 -120100.533399] SLOW spr round 1 (radius: 5)
[16:14:13 -120055.254142] SLOW spr round 2 (radius: 5)
[16:15:54 -120024.714793] SLOW spr round 3 (radius: 5)
[16:17:33 -120017.376042] SLOW spr round 4 (radius: 5)
[16:19:08 -120017.375920] SLOW spr round 5 (radius: 10)
[16:20:46 -120016.974182] SLOW spr round 6 (radius: 5)
[16:22:47 -120016.973525] SLOW spr round 7 (radius: 10)
[16:24:37 -120016.973462] SLOW spr round 8 (radius: 15)
[16:27:06 -120016.973436] SLOW spr round 9 (radius: 20)
[16:30:43 -120016.973414] SLOW spr round 10 (radius: 25)
[16:35:05 -120016.973395] Model parameter optimization (eps = 0.100000)

[16:35:09] ML tree search #20, logLikelihood: -120016.969543


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.305772,0.317611) (0.377320,0.544800) (0.203160,1.371250) (0.113748,3.681269) 
   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: -119973.755518

AIC score: 243953.511037 / AICc score: 8271977.511037 / BIC score: 252330.227105
Free parameters (model + branch lengths): 2003

WARNING: Number of free parameters (K=2003) is larger than alignment size (n=484).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P49821/3_mltree/P49821.raxml.log

Analysis started: 06-Jul-2021 12:49:10 / finished: 07-Jul-2021 05:24:19

Elapsed time: 59709.354 seconds

Consumed energy: 4965.785 Wh (= 25 km in an electric car, or 124 km with an e-scooter!)