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) CPU E5-2690 v4 @ 2.60GHz, 28 cores, 251 GB RAM

RAxML-NG was called at 02-Jul-2021 02:00:01 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/2_msa/Q9H2G2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/3_mltree/Q9H2G2 --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/Q9H2G2/2_msa/Q9H2G2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 467 sites

WARNING: Sequences tr_B4QBY0_B4QBY0_DROSI_7240 and tr_Q9W179_Q9W179_DROME_7227 are exactly identical!
WARNING: Sequences tr_B4QE38_B4QE38_DROSI_7240 and tr_B4HPH7_B4HPH7_DROSE_7238 are exactly identical!
WARNING: Sequences tr_A0A2I3G2I6_A0A2I3G2I6_NOMLE_61853 and tr_A0A2I3SVA8_A0A2I3SVA8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I3G2I6_A0A2I3G2I6_NOMLE_61853 and tr_G7PCA9_G7PCA9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A2I3G2I6_A0A2I3G2I6_NOMLE_61853 and tr_A0A2K5L7J1_A0A2K5L7J1_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3G2I6_A0A2I3G2I6_NOMLE_61853 and tr_A0A2K6B7S5_A0A2K6B7S5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3G2I6_A0A2I3G2I6_NOMLE_61853 and tr_A0A2K5XZ51_A0A2K5XZ51_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_G3RY59_G3RY59_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_H2P6F4_H2P6F4_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_K7BKY5_K7BKY5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_H9EU76_H9EU76_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_A0A2I3M2U3_A0A2I3M2U3_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_A0A0D9RJ11_A0A0D9RJ11_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_A0A2K5MKX0_A0A2K5MKX0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_A0A2K6D539_A0A2K6D539_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1S3J1_G1S3J1_NOMLE_61853 and tr_A0A2R9AAI2_A0A2R9AAI2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_B6Q8M4_B6Q8M4_TALMQ_441960 and tr_A0A093VC69_A0A093VC69_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_A0A2J8UF55_A0A2J8UF55_PONAB_9601 and tr_A0A0D9RIR7_A0A0D9RIR7_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_H2NBI4_H2NBI4_PONAB_9601 and tr_H2Q2J3_H2Q2J3_PANTR_9598 are exactly identical!
WARNING: Sequences tr_H2NBI4_H2NBI4_PONAB_9601 and sp_Q9H2G2_SLK_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2NBI4_H2NBI4_PONAB_9601 and tr_A0A2R9CSE7_A0A2R9CSE7_PANPA_9597 are exactly identical!
WARNING: Sequences tr_Q290P0_Q290P0_DROPS_46245 and tr_B4GBG4_B4GBG4_DROPE_7234 are exactly identical!
WARNING: Sequences tr_F6URD2_F6URD2_CANLF_9615 and tr_A0A2U3XFR8_A0A2U3XFR8_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_A0A2I3T3U0_A0A2I3T3U0_PANTR_9598 and tr_A0A2R8ZUF2_A0A2R8ZUF2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A088AHT1_A0A088AHT1_APIME_7460 and tr_A0A2A3EA21_A0A2A3EA21_APICC_94128 are exactly identical!
WARNING: Sequences tr_F6PXY9_F6PXY9_MACMU_9544 and tr_G7PDW9_G7PDW9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6PXY9_F6PXY9_MACMU_9544 and tr_A0A2K6C168_A0A2K6C168_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H9ETH7_H9ETH7_MACMU_9544 and tr_A0A2I3N9J7_A0A2I3N9J7_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_H9ETH7_H9ETH7_MACMU_9544 and tr_A0A2K6B3Q6_A0A2K6B3Q6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_I1PFL5_I1PFL5_ORYGL_4538 and tr_A0A0D3FP84_A0A0D3FP84_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_I1PFL5_I1PFL5_ORYGL_4538 and tr_Q10CN6_Q10CN6_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F4X6R2_F4X6R2_ACREC_103372 and tr_A0A195E7M5_A0A195E7M5_9HYME_471704 are exactly identical!
WARNING: Sequences tr_F4X6R2_F4X6R2_ACREC_103372 and tr_A0A195F1Q0_A0A195F1Q0_9HYME_34720 are exactly identical!
WARNING: Sequences tr_F6ZBG2_F6ZBG2_CALJA_9483 and tr_A0A2I3LXY2_A0A2I3LXY2_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F6ZBG2_F6ZBG2_CALJA_9483 and tr_A0A0D9QZ33_A0A0D9QZ33_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F6ZBG2_F6ZBG2_CALJA_9483 and tr_A0A2K5LRI3_A0A2K5LRI3_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F6ZBG2_F6ZBG2_CALJA_9483 and tr_A0A2K5XPV7_A0A2K5XPV7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0JN96_A0JN96_BOVIN_9913 and tr_A0A1S3EVM6_A0A1S3EVM6_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_A0JN96_A0JN96_BOVIN_9913 and tr_A0A2U4AIA2_A0A2U4AIA2_TURTR_9739 are exactly identical!
WARNING: Sequences tr_A0JN96_A0JN96_BOVIN_9913 and tr_A0A2Y9PD37_A0A2Y9PD37_DELLE_9749 are exactly identical!
WARNING: Sequences sp_E1BK52_STK10_BOVIN_9913 and tr_H2XJF0_H2XJF0_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A337RV51_A0A337RV51_FELCA_9685 and tr_A0A2U3WM59_A0A2U3WM59_ODORO_9708 are exactly identical!
WARNING: Sequences tr_A0A337RV51_A0A337RV51_FELCA_9685 and tr_A0A2U3X9S7_A0A2U3X9S7_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_R1C5Q2_R1C5Q2_EMIHU_2903 and tr_R1DD94_R1DD94_EMIHU_2903 are exactly identical!
WARNING: Sequences tr_A0A2K6VYR1_A0A2K6VYR1_ONCVO_6282 and tr_A0A182EDH7_A0A182EDH7_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A096N5S6_A0A096N5S6_PAPAN_9555 and tr_A0A2K5MM21_A0A2K5MM21_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096NX80_A0A096NX80_PAPAN_9555 and tr_A0A0D9RP63_A0A0D9RP63_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A096NX80_A0A096NX80_PAPAN_9555 and tr_A0A2K5YCM9_A0A2K5YCM9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A091J6U2_A0A091J6U2_EGRGA_188379 and tr_A0A093GFH4_A0A093GFH4_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A091J6U2_A0A091J6U2_EGRGA_188379 and tr_A0A091J6Z5_A0A091J6Z5_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A0V0RVV3_A0A0V0RVV3_9BILA_6336 and tr_A0A0V1L179_A0A0V1L179_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1D7M8_A0A0V1D7M8_TRIBR_45882 and tr_A0A0V1PMW1_A0A0V1PMW1_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A226MRR0_A0A226MRR0_CALSU_9009 and tr_A0A226PNG8_A0A226PNG8_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2K5LRL3_A0A2K5LRL3_CERAT_9531 and tr_A0A2K6AS00_A0A2K6AS00_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2U4BYP1_A0A2U4BYP1_TURTR_9739 and tr_A0A2Y9N633_A0A2Y9N633_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4C223_A0A2U4C223_TURTR_9739 and tr_A0A2Y9PXE7_A0A2Y9PXE7_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4C223_A0A2U4C223_TURTR_9739 and tr_A0A2Y9T1A9_A0A2Y9T1A9_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_A0A2Y9NLC2_A0A2Y9NLC2_DELLE_9749 and tr_A0A2Y9T749_A0A2Y9T749_PHYCD_9755 are exactly identical!
WARNING: Duplicate sequences found: 58

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/Q9H2G2/3_mltree/Q9H2G2.raxml.reduced.phy

Alignment comprises 1 partitions and 467 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 467 / 467
Gaps: 10.38 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/3_mltree/Q9H2G2.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 / 67 / 5360
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -766377.131182] Initial branch length optimization
[00:00:03 -638305.056115] Model parameter optimization (eps = 10.000000)
[00:00:38 -636042.001431] AUTODETECT spr round 1 (radius: 5)
[00:02:29 -412709.863693] AUTODETECT spr round 2 (radius: 10)
[00:04:30 -299687.992835] AUTODETECT spr round 3 (radius: 15)
[00:06:37 -234718.369741] AUTODETECT spr round 4 (radius: 20)
[00:09:01 -205301.386777] AUTODETECT spr round 5 (radius: 25)
[00:11:36 -196919.997239] SPR radius for FAST iterations: 25 (autodetect)
[00:11:36 -196919.997239] Model parameter optimization (eps = 3.000000)
[00:11:57 -196838.649251] FAST spr round 1 (radius: 25)
[00:14:09 -169661.345482] FAST spr round 2 (radius: 25)
[00:15:55 -168100.607708] FAST spr round 3 (radius: 25)
[00:17:31 -168043.361450] FAST spr round 4 (radius: 25)
[00:19:03 -168034.071835] FAST spr round 5 (radius: 25)
[00:20:32 -168034.071791] Model parameter optimization (eps = 1.000000)
[00:20:46 -168024.149502] SLOW spr round 1 (radius: 5)
[00:22:39 -168003.251482] SLOW spr round 2 (radius: 5)
[00:24:31 -167991.527033] SLOW spr round 3 (radius: 5)
[00:26:21 -167988.008627] SLOW spr round 4 (radius: 5)
[00:28:08 -167988.007302] SLOW spr round 5 (radius: 10)
[00:29:58 -167982.968759] SLOW spr round 6 (radius: 5)
[00:32:07 -167982.968680] SLOW spr round 7 (radius: 10)
[00:34:08 -167982.968646] SLOW spr round 8 (radius: 15)
[00:36:49 -167982.968617] SLOW spr round 9 (radius: 20)
[00:40:37 -167982.968614] SLOW spr round 10 (radius: 25)
[00:45:21 -167982.968614] Model parameter optimization (eps = 0.100000)

[00:45:28] ML tree search #1, logLikelihood: -167982.855468

[00:45:29 -763103.335098] Initial branch length optimization
[00:45:32 -638618.161789] Model parameter optimization (eps = 10.000000)
[00:46:05 -636385.399546] AUTODETECT spr round 1 (radius: 5)
[00:48:00 -405886.141443] AUTODETECT spr round 2 (radius: 10)
[00:50:01 -287234.111821] AUTODETECT spr round 3 (radius: 15)
[00:52:01 -226155.920540] AUTODETECT spr round 4 (radius: 20)
[00:54:15 -201113.217357] AUTODETECT spr round 5 (radius: 25)
[00:56:47 -194140.704004] SPR radius for FAST iterations: 25 (autodetect)
[00:56:47 -194140.704004] Model parameter optimization (eps = 3.000000)
[00:57:05 -194048.988177] FAST spr round 1 (radius: 25)
[00:59:18 -169554.495930] FAST spr round 2 (radius: 25)
[01:01:06 -168226.987841] FAST spr round 3 (radius: 25)
[01:02:46 -168069.027632] FAST spr round 4 (radius: 25)
[01:04:20 -168056.949339] FAST spr round 5 (radius: 25)
[01:05:48 -168056.948857] Model parameter optimization (eps = 1.000000)
[01:06:04 -168050.490230] SLOW spr round 1 (radius: 5)
[01:07:56 -167999.373709] SLOW spr round 2 (radius: 5)
[01:09:47 -167985.416437] SLOW spr round 3 (radius: 5)
[01:11:34 -167983.364875] SLOW spr round 4 (radius: 5)
[01:13:19 -167983.364853] SLOW spr round 5 (radius: 10)
[01:15:07 -167977.536627] SLOW spr round 6 (radius: 5)
[01:17:19 -167976.015583] SLOW spr round 7 (radius: 5)
[01:19:17 -167976.014596] SLOW spr round 8 (radius: 10)
[01:21:10 -167976.014563] SLOW spr round 9 (radius: 15)
[01:23:51 -167976.014542] SLOW spr round 10 (radius: 20)
[01:27:38 -167976.014522] SLOW spr round 11 (radius: 25)
[01:32:13 -167976.014502] Model parameter optimization (eps = 0.100000)

[01:32:23] ML tree search #2, logLikelihood: -167975.851352

[01:32:23 -762743.771540] Initial branch length optimization
[01:32:26 -639157.487055] Model parameter optimization (eps = 10.000000)
[01:32:58 -636874.660682] AUTODETECT spr round 1 (radius: 5)
[01:34:49 -415955.304405] AUTODETECT spr round 2 (radius: 10)
[01:36:50 -302293.716672] AUTODETECT spr round 3 (radius: 15)
[01:38:58 -236801.552306] AUTODETECT spr round 4 (radius: 20)
[01:41:18 -216891.644263] AUTODETECT spr round 5 (radius: 25)
[01:43:42 -203695.538992] SPR radius for FAST iterations: 25 (autodetect)
[01:43:42 -203695.538992] Model parameter optimization (eps = 3.000000)
[01:44:03 -203632.391945] FAST spr round 1 (radius: 25)
[01:46:17 -169643.565440] FAST spr round 2 (radius: 25)
[01:48:06 -168154.100172] FAST spr round 3 (radius: 25)
[01:49:46 -168036.031886] FAST spr round 4 (radius: 25)
[01:51:17 -168019.282098] FAST spr round 5 (radius: 25)
[01:52:45 -168015.957479] FAST spr round 6 (radius: 25)
[01:54:11 -168015.957416] Model parameter optimization (eps = 1.000000)
[01:54:25 -168011.756338] SLOW spr round 1 (radius: 5)
[01:56:15 -167971.096239] SLOW spr round 2 (radius: 5)
[01:58:03 -167970.708932] SLOW spr round 3 (radius: 5)
[01:59:47 -167970.708889] SLOW spr round 4 (radius: 10)
[02:01:34 -167970.708888] SLOW spr round 5 (radius: 15)
[02:04:18 -167970.708887] SLOW spr round 6 (radius: 20)
[02:07:57 -167970.708886] SLOW spr round 7 (radius: 25)
[02:12:27 -167970.708886] Model parameter optimization (eps = 0.100000)

[02:12:37] ML tree search #3, logLikelihood: -167970.601814

[02:12:37 -767084.048626] Initial branch length optimization
[02:12:39 -637805.515461] Model parameter optimization (eps = 10.000000)
[02:13:04 -635605.591036] AUTODETECT spr round 1 (radius: 5)
[02:14:55 -421037.062348] AUTODETECT spr round 2 (radius: 10)
[02:16:55 -318494.811972] AUTODETECT spr round 3 (radius: 15)
[02:19:01 -245067.855059] AUTODETECT spr round 4 (radius: 20)
[02:21:25 -201306.423022] AUTODETECT spr round 5 (radius: 25)
[02:24:05 -196858.819600] SPR radius for FAST iterations: 25 (autodetect)
[02:24:05 -196858.819600] Model parameter optimization (eps = 3.000000)
[02:24:23 -196798.608158] FAST spr round 1 (radius: 25)
[02:26:39 -169413.246199] FAST spr round 2 (radius: 25)
[02:28:28 -168157.402180] FAST spr round 3 (radius: 25)
[02:30:10 -168092.038873] FAST spr round 4 (radius: 25)
[02:31:44 -168059.584384] FAST spr round 5 (radius: 25)
[02:33:12 -168056.993471] FAST spr round 6 (radius: 25)
[02:34:39 -168054.375214] FAST spr round 7 (radius: 25)
[02:36:06 -168054.375137] Model parameter optimization (eps = 1.000000)
[02:36:22 -168044.585647] SLOW spr round 1 (radius: 5)
[02:38:14 -168003.922244] SLOW spr round 2 (radius: 5)
[02:40:01 -168003.921932] SLOW spr round 3 (radius: 10)
[02:41:50 -167996.388434] SLOW spr round 4 (radius: 5)
[02:43:59 -167995.849316] SLOW spr round 5 (radius: 5)
[02:45:55 -167995.849239] SLOW spr round 6 (radius: 10)
[02:47:48 -167995.525518] SLOW spr round 7 (radius: 5)
[02:49:56 -167995.522658] SLOW spr round 8 (radius: 10)
[02:51:54 -167995.522462] SLOW spr round 9 (radius: 15)
[02:54:31 -167995.522448] SLOW spr round 10 (radius: 20)
[02:58:16 -167995.522446] SLOW spr round 11 (radius: 25)
[03:02:49 -167995.522445] Model parameter optimization (eps = 0.100000)

[03:02:58] ML tree search #4, logLikelihood: -167995.407907

[03:02:58 -762327.565483] Initial branch length optimization
[03:03:02 -636365.127850] Model parameter optimization (eps = 10.000000)
[03:03:26 -634184.801710] AUTODETECT spr round 1 (radius: 5)
[03:05:18 -421503.513578] AUTODETECT spr round 2 (radius: 10)
[03:07:21 -304314.886551] AUTODETECT spr round 3 (radius: 15)
[03:09:28 -253558.692464] AUTODETECT spr round 4 (radius: 20)
[03:11:49 -217391.140937] AUTODETECT spr round 5 (radius: 25)
[03:14:25 -201511.626484] SPR radius for FAST iterations: 25 (autodetect)
[03:14:25 -201511.626484] Model parameter optimization (eps = 3.000000)
[03:14:40 -201478.545417] FAST spr round 1 (radius: 25)
[03:16:56 -169537.093977] FAST spr round 2 (radius: 25)
[03:18:49 -168172.226990] FAST spr round 3 (radius: 25)
[03:20:31 -168038.646236] FAST spr round 4 (radius: 25)
[03:22:02 -168025.391444] FAST spr round 5 (radius: 25)
[03:23:30 -168025.390517] Model parameter optimization (eps = 1.000000)
[03:23:43 -168018.172361] SLOW spr round 1 (radius: 5)
[03:25:38 -167988.182217] SLOW spr round 2 (radius: 5)
[03:27:26 -167986.229561] SLOW spr round 3 (radius: 5)
[03:29:13 -167986.229489] SLOW spr round 4 (radius: 10)
[03:31:00 -167986.229484] SLOW spr round 5 (radius: 15)
[03:33:47 -167986.229483] SLOW spr round 6 (radius: 20)
[03:37:23 -167986.229483] SLOW spr round 7 (radius: 25)
[03:41:49 -167986.229482] Model parameter optimization (eps = 0.100000)

[03:41:55] ML tree search #5, logLikelihood: -167986.210547

[03:41:55 -766305.490580] Initial branch length optimization
[03:41:58 -637928.028368] Model parameter optimization (eps = 10.000000)
[03:42:28 -635671.331028] AUTODETECT spr round 1 (radius: 5)
[03:44:21 -416881.558416] AUTODETECT spr round 2 (radius: 10)
[03:46:20 -289744.672188] AUTODETECT spr round 3 (radius: 15)
[03:48:22 -241730.983847] AUTODETECT spr round 4 (radius: 20)
[03:50:44 -207548.701523] AUTODETECT spr round 5 (radius: 25)
[03:53:15 -192609.339867] SPR radius for FAST iterations: 25 (autodetect)
[03:53:15 -192609.339867] Model parameter optimization (eps = 3.000000)
[03:53:34 -192561.594365] FAST spr round 1 (radius: 25)
[03:55:49 -169222.139846] FAST spr round 2 (radius: 25)
[03:57:41 -168188.278447] FAST spr round 3 (radius: 25)
[03:59:20 -168042.580180] FAST spr round 4 (radius: 25)
[04:00:52 -168038.179327] FAST spr round 5 (radius: 25)
[04:02:20 -168038.179092] Model parameter optimization (eps = 1.000000)
[04:02:35 -168030.776867] SLOW spr round 1 (radius: 5)
[04:04:27 -168000.126525] SLOW spr round 2 (radius: 5)
[04:06:16 -167997.448429] SLOW spr round 3 (radius: 5)
[04:08:02 -167997.448137] SLOW spr round 4 (radius: 10)
[04:09:52 -167995.553203] SLOW spr round 5 (radius: 5)
[04:12:02 -167994.189443] SLOW spr round 6 (radius: 5)
[04:13:59 -167994.189338] SLOW spr round 7 (radius: 10)
[04:15:52 -167994.189314] SLOW spr round 8 (radius: 15)
[04:18:37 -167993.749729] SLOW spr round 9 (radius: 5)
[04:20:53 -167993.749183] SLOW spr round 10 (radius: 10)
[04:22:57 -167993.749159] SLOW spr round 11 (radius: 15)
[04:25:34 -167993.749136] SLOW spr round 12 (radius: 20)
[04:29:19 -167993.749112] SLOW spr round 13 (radius: 25)
[04:33:43 -167993.749089] Model parameter optimization (eps = 0.100000)

[04:33:54] ML tree search #6, logLikelihood: -167993.715485

[04:33:54 -763260.041414] Initial branch length optimization
[04:33:57 -636893.129907] Model parameter optimization (eps = 10.000000)
[04:34:21 -634681.427171] AUTODETECT spr round 1 (radius: 5)
[04:36:12 -418735.117392] AUTODETECT spr round 2 (radius: 10)
[04:38:15 -296779.527919] AUTODETECT spr round 3 (radius: 15)
[04:40:18 -234203.814748] AUTODETECT spr round 4 (radius: 20)
[04:42:29 -207504.925567] AUTODETECT spr round 5 (radius: 25)
[04:45:11 -197578.328191] SPR radius for FAST iterations: 25 (autodetect)
[04:45:11 -197578.328191] Model parameter optimization (eps = 3.000000)
[04:45:32 -197517.723895] FAST spr round 1 (radius: 25)
[04:47:51 -169450.872641] FAST spr round 2 (radius: 25)
[04:49:43 -168172.824156] FAST spr round 3 (radius: 25)
[04:51:23 -168061.613279] FAST spr round 4 (radius: 25)
[04:52:58 -168044.872944] FAST spr round 5 (radius: 25)
[04:54:26 -168044.176205] FAST spr round 6 (radius: 25)
[04:55:53 -168044.175847] Model parameter optimization (eps = 1.000000)
[04:56:09 -168043.010358] SLOW spr round 1 (radius: 5)
[04:58:02 -167988.550396] SLOW spr round 2 (radius: 5)
[04:59:50 -167980.286226] SLOW spr round 3 (radius: 5)
[05:01:40 -167980.260386] SLOW spr round 4 (radius: 10)
[05:03:29 -167980.259963] SLOW spr round 5 (radius: 15)
[05:06:14 -167980.259828] SLOW spr round 6 (radius: 20)
[05:09:48 -167980.259785] SLOW spr round 7 (radius: 25)
[05:14:05 -167980.259771] Model parameter optimization (eps = 0.100000)

[05:14:11] ML tree search #7, logLikelihood: -167980.240578

[05:14:11 -757795.111142] Initial branch length optimization
[05:14:15 -633278.950619] Model parameter optimization (eps = 10.000000)
[05:14:44 -630982.865441] AUTODETECT spr round 1 (radius: 5)
[05:16:36 -417142.588785] AUTODETECT spr round 2 (radius: 10)
[05:18:41 -300448.879805] AUTODETECT spr round 3 (radius: 15)
[05:20:49 -250287.696853] AUTODETECT spr round 4 (radius: 20)
[05:23:00 -217893.558522] AUTODETECT spr round 5 (radius: 25)
[05:25:29 -204203.541325] SPR radius for FAST iterations: 25 (autodetect)
[05:25:29 -204203.541325] Model parameter optimization (eps = 3.000000)
[05:25:48 -204024.903483] FAST spr round 1 (radius: 25)
[05:28:04 -170360.642051] FAST spr round 2 (radius: 25)
[05:29:55 -168221.006142] FAST spr round 3 (radius: 25)
[05:31:28 -168051.574268] FAST spr round 4 (radius: 25)
[05:32:59 -168042.745796] FAST spr round 5 (radius: 25)
[05:34:25 -168039.059537] FAST spr round 6 (radius: 25)
[05:35:49 -168039.058384] Model parameter optimization (eps = 1.000000)
[05:36:06 -168030.691350] SLOW spr round 1 (radius: 5)
[05:37:58 -167984.416707] SLOW spr round 2 (radius: 5)
[05:39:45 -167984.273784] SLOW spr round 3 (radius: 5)
[05:41:28 -167984.273340] SLOW spr round 4 (radius: 10)
[05:43:12 -167984.273300] SLOW spr round 5 (radius: 15)
[05:45:55 -167984.273295] SLOW spr round 6 (radius: 20)
[05:49:30 -167984.273294] SLOW spr round 7 (radius: 25)
[05:53:52 -167984.273294] Model parameter optimization (eps = 0.100000)

[05:54:03] ML tree search #8, logLikelihood: -167983.785690

[05:54:03 -759448.090096] Initial branch length optimization
[05:54:06 -632192.986566] Model parameter optimization (eps = 10.000000)
[05:54:30 -630083.653121] AUTODETECT spr round 1 (radius: 5)
[05:56:20 -400519.417560] AUTODETECT spr round 2 (radius: 10)
[05:58:16 -306236.304616] AUTODETECT spr round 3 (radius: 15)
[06:00:17 -247732.981137] AUTODETECT spr round 4 (radius: 20)
[06:02:29 -227384.318788] AUTODETECT spr round 5 (radius: 25)
[06:04:49 -210506.711361] SPR radius for FAST iterations: 25 (autodetect)
[06:04:49 -210506.711361] Model parameter optimization (eps = 3.000000)
[06:05:05 -210473.837200] FAST spr round 1 (radius: 25)
[06:07:19 -170339.519359] FAST spr round 2 (radius: 25)
[06:09:12 -168220.178096] FAST spr round 3 (radius: 25)
[06:10:55 -168038.852881] FAST spr round 4 (radius: 25)
[06:12:25 -168030.694522] FAST spr round 5 (radius: 25)
[06:13:52 -168028.680790] FAST spr round 6 (radius: 25)
[06:15:16 -168028.679260] Model parameter optimization (eps = 1.000000)
[06:15:29 -168026.658921] SLOW spr round 1 (radius: 5)
[06:17:17 -167991.643124] SLOW spr round 2 (radius: 5)
[06:19:05 -167989.715567] SLOW spr round 3 (radius: 5)
[06:20:49 -167989.715504] SLOW spr round 4 (radius: 10)
[06:22:35 -167988.216341] SLOW spr round 5 (radius: 5)
[06:24:42 -167983.245604] SLOW spr round 6 (radius: 5)
[06:26:37 -167983.245407] SLOW spr round 7 (radius: 10)
[06:28:27 -167983.245404] SLOW spr round 8 (radius: 15)
[06:31:09 -167983.245403] SLOW spr round 9 (radius: 20)
[06:34:49 -167983.245403] SLOW spr round 10 (radius: 25)
[06:39:18 -167983.245403] Model parameter optimization (eps = 0.100000)

[06:39:23] ML tree search #9, logLikelihood: -167983.178771

[06:39:24 -762540.303132] Initial branch length optimization
[06:39:26 -637026.544636] Model parameter optimization (eps = 10.000000)
[06:39:54 -634834.041175] AUTODETECT spr round 1 (radius: 5)
[06:41:42 -423364.312430] AUTODETECT spr round 2 (radius: 10)
[06:43:43 -307082.023455] AUTODETECT spr round 3 (radius: 15)
[06:45:46 -242156.365186] AUTODETECT spr round 4 (radius: 20)
[06:47:59 -200874.073451] AUTODETECT spr round 5 (radius: 25)
[06:50:17 -193618.412426] SPR radius for FAST iterations: 25 (autodetect)
[06:50:17 -193618.412426] Model parameter optimization (eps = 3.000000)
[06:50:33 -193557.400322] FAST spr round 1 (radius: 25)
[06:52:32 -169275.806569] FAST spr round 2 (radius: 25)
[06:54:20 -168142.694244] FAST spr round 3 (radius: 25)
[06:55:55 -168047.677043] FAST spr round 4 (radius: 25)
[06:57:30 -168044.919913] FAST spr round 5 (radius: 25)
[06:59:04 -168040.321436] FAST spr round 6 (radius: 25)
[07:00:35 -168040.263290] Model parameter optimization (eps = 1.000000)
[07:00:51 -168029.463886] SLOW spr round 1 (radius: 5)
[07:02:46 -167989.375622] SLOW spr round 2 (radius: 5)
[07:04:42 -167978.706262] SLOW spr round 3 (radius: 5)
[07:06:32 -167978.705797] SLOW spr round 4 (radius: 10)
[07:08:27 -167977.526591] SLOW spr round 5 (radius: 5)
[07:10:48 -167972.260285] SLOW spr round 6 (radius: 5)
[07:12:50 -167972.259575] SLOW spr round 7 (radius: 10)
[07:14:47 -167972.259561] SLOW spr round 8 (radius: 15)
[07:17:37 -167972.243437] SLOW spr round 9 (radius: 20)
[07:21:32 -167972.243436] SLOW spr round 10 (radius: 25)
[07:26:20 -167972.243436] Model parameter optimization (eps = 0.100000)

[07:26:31] ML tree search #10, logLikelihood: -167972.076595

[07:26:31 -759086.089720] Initial branch length optimization
[07:26:34 -636476.821298] Model parameter optimization (eps = 10.000000)
[07:27:04 -634176.292270] AUTODETECT spr round 1 (radius: 5)
[07:29:00 -407710.697980] AUTODETECT spr round 2 (radius: 10)
[07:31:01 -302742.346543] AUTODETECT spr round 3 (radius: 15)
[07:33:08 -255640.847633] AUTODETECT spr round 4 (radius: 20)
[07:35:29 -232525.922574] AUTODETECT spr round 5 (radius: 25)
[07:38:05 -203124.005462] SPR radius for FAST iterations: 25 (autodetect)
[07:38:05 -203124.005462] Model parameter optimization (eps = 3.000000)
[07:38:25 -203070.353026] FAST spr round 1 (radius: 25)
[07:40:49 -169580.901093] FAST spr round 2 (radius: 25)
[07:42:44 -168194.003404] FAST spr round 3 (radius: 25)
[07:44:30 -168065.815568] FAST spr round 4 (radius: 25)
[07:46:09 -168034.740748] FAST spr round 5 (radius: 25)
[07:47:42 -168034.740671] Model parameter optimization (eps = 1.000000)
[07:47:54 -168033.483952] SLOW spr round 1 (radius: 5)
[07:49:51 -167995.950510] SLOW spr round 2 (radius: 5)
[07:51:45 -167992.208214] SLOW spr round 3 (radius: 5)
[07:53:35 -167992.208145] SLOW spr round 4 (radius: 10)
[07:55:29 -167990.751929] SLOW spr round 5 (radius: 5)
[07:57:46 -167984.200787] SLOW spr round 6 (radius: 5)
[07:59:48 -167982.278626] SLOW spr round 7 (radius: 5)
[08:01:42 -167982.277341] SLOW spr round 8 (radius: 10)
[08:03:36 -167982.277139] SLOW spr round 9 (radius: 15)
[08:06:25 -167982.265450] SLOW spr round 10 (radius: 20)
[08:10:07 -167982.265449] SLOW spr round 11 (radius: 25)
[08:14:44 -167982.265449] Model parameter optimization (eps = 0.100000)

[08:14:52] ML tree search #11, logLikelihood: -167982.173935

[08:14:52 -758811.438864] Initial branch length optimization
[08:14:55 -635146.208343] Model parameter optimization (eps = 10.000000)
[08:15:25 -632845.734522] AUTODETECT spr round 1 (radius: 5)
[08:17:22 -419492.821132] AUTODETECT spr round 2 (radius: 10)
[08:19:28 -308447.151455] AUTODETECT spr round 3 (radius: 15)
[08:21:36 -244623.668228] AUTODETECT spr round 4 (radius: 20)
[08:23:55 -203118.339377] AUTODETECT spr round 5 (radius: 25)
[08:26:35 -196317.113509] SPR radius for FAST iterations: 25 (autodetect)
[08:26:35 -196317.113509] Model parameter optimization (eps = 3.000000)
[08:26:53 -196228.866570] FAST spr round 1 (radius: 25)
[08:29:14 -169560.666470] FAST spr round 2 (radius: 25)
[08:31:07 -168152.529810] FAST spr round 3 (radius: 25)
[08:32:51 -168041.825869] FAST spr round 4 (radius: 25)
[08:34:28 -168032.055768] FAST spr round 5 (radius: 25)
[08:36:01 -168032.055154] Model parameter optimization (eps = 1.000000)
[08:36:19 -168028.743923] SLOW spr round 1 (radius: 5)
[08:38:16 -167987.635253] SLOW spr round 2 (radius: 5)
[08:40:10 -167986.774610] SLOW spr round 3 (radius: 5)
[08:42:02 -167986.774469] SLOW spr round 4 (radius: 10)
[08:43:56 -167981.734590] SLOW spr round 5 (radius: 5)
[08:46:10 -167980.964439] SLOW spr round 6 (radius: 5)
[08:48:12 -167980.964349] SLOW spr round 7 (radius: 10)
[08:50:08 -167980.964345] SLOW spr round 8 (radius: 15)
[08:52:57 -167980.528222] SLOW spr round 9 (radius: 5)
[08:55:15 -167980.527704] SLOW spr round 10 (radius: 10)
[08:57:22 -167980.527703] SLOW spr round 11 (radius: 15)
[09:00:03 -167980.527702] SLOW spr round 12 (radius: 20)
[09:03:57 -167980.527701] SLOW spr round 13 (radius: 25)
[09:08:39 -167980.527700] Model parameter optimization (eps = 0.100000)

[09:08:51] ML tree search #12, logLikelihood: -167980.161789

[09:08:51 -762661.588065] Initial branch length optimization
[09:08:55 -638892.755479] Model parameter optimization (eps = 10.000000)
[09:09:22 -636640.227127] AUTODETECT spr round 1 (radius: 5)
[09:11:20 -413145.362835] AUTODETECT spr round 2 (radius: 10)
[09:13:28 -307452.523856] AUTODETECT spr round 3 (radius: 15)
[09:15:42 -255140.341443] AUTODETECT spr round 4 (radius: 20)
[09:18:10 -223761.061937] AUTODETECT spr round 5 (radius: 25)
[09:20:51 -208033.859593] SPR radius for FAST iterations: 25 (autodetect)
[09:20:51 -208033.859593] Model parameter optimization (eps = 3.000000)
[09:21:08 -207987.180982] FAST spr round 1 (radius: 25)
[09:23:28 -170836.090811] FAST spr round 2 (radius: 25)
[09:25:18 -168290.822431] FAST spr round 3 (radius: 25)
[09:27:01 -168058.912580] FAST spr round 4 (radius: 25)
[09:28:39 -168044.243602] FAST spr round 5 (radius: 25)
[09:30:13 -168039.784491] FAST spr round 6 (radius: 25)
[09:31:45 -168039.784426] Model parameter optimization (eps = 1.000000)
[09:32:01 -168033.451401] SLOW spr round 1 (radius: 5)
[09:33:58 -167995.903442] SLOW spr round 2 (radius: 5)
[09:35:53 -167992.144720] SLOW spr round 3 (radius: 5)
[09:37:44 -167992.144354] SLOW spr round 4 (radius: 10)
[09:39:41 -167990.520395] SLOW spr round 5 (radius: 5)
[09:42:02 -167984.060396] SLOW spr round 6 (radius: 5)
[09:44:07 -167982.914875] SLOW spr round 7 (radius: 5)
[09:46:03 -167982.913122] SLOW spr round 8 (radius: 10)
[09:48:01 -167982.912839] SLOW spr round 9 (radius: 15)
[09:50:49 -167982.912790] SLOW spr round 10 (radius: 20)
[09:54:29 -167982.912768] SLOW spr round 11 (radius: 25)
[09:59:03 -167982.912748] Model parameter optimization (eps = 0.100000)

[09:59:09] ML tree search #13, logLikelihood: -167982.860818

[09:59:09 -767729.654369] Initial branch length optimization
[09:59:12 -637997.272546] Model parameter optimization (eps = 10.000000)
[09:59:38 -635747.379104] AUTODETECT spr round 1 (radius: 5)
[10:01:27 -416047.718780] AUTODETECT spr round 2 (radius: 10)
[10:03:28 -311318.027170] AUTODETECT spr round 3 (radius: 15)
[10:05:40 -250011.092971] AUTODETECT spr round 4 (radius: 20)
[10:08:00 -214776.450287] AUTODETECT spr round 5 (radius: 25)
[10:10:36 -204314.505166] SPR radius for FAST iterations: 25 (autodetect)
[10:10:36 -204314.505166] Model parameter optimization (eps = 3.000000)
[10:10:53 -204283.453006] FAST spr round 1 (radius: 25)
[10:13:08 -169697.652704] FAST spr round 2 (radius: 25)
[10:14:57 -168165.881486] FAST spr round 3 (radius: 25)
[10:16:35 -168063.932360] FAST spr round 4 (radius: 25)
[10:18:07 -168054.284544] FAST spr round 5 (radius: 25)
[10:19:35 -168054.283623] Model parameter optimization (eps = 1.000000)
[10:19:51 -168049.552441] SLOW spr round 1 (radius: 5)
[10:21:42 -168016.299064] SLOW spr round 2 (radius: 5)
[10:23:32 -168001.970860] SLOW spr round 3 (radius: 5)
[10:25:19 -167998.609939] SLOW spr round 4 (radius: 5)
[10:27:05 -167998.609418] SLOW spr round 5 (radius: 10)
[10:28:54 -167992.207834] SLOW spr round 6 (radius: 5)
[10:31:04 -167991.566289] SLOW spr round 7 (radius: 5)
[10:33:00 -167991.566017] SLOW spr round 8 (radius: 10)
[10:34:53 -167991.565977] SLOW spr round 9 (radius: 15)
[10:37:41 -167991.565946] SLOW spr round 10 (radius: 20)
[10:41:25 -167991.565915] SLOW spr round 11 (radius: 25)
[10:46:01 -167991.565884] Model parameter optimization (eps = 0.100000)

[10:46:11] ML tree search #14, logLikelihood: -167991.208034

[10:46:11 -770643.567877] Initial branch length optimization
[10:46:14 -643867.831579] Model parameter optimization (eps = 10.000000)
[10:46:42 -641530.772600] AUTODETECT spr round 1 (radius: 5)
[10:48:33 -402499.949340] AUTODETECT spr round 2 (radius: 10)
[10:50:36 -294446.847316] AUTODETECT spr round 3 (radius: 15)
[10:52:47 -220823.088774] AUTODETECT spr round 4 (radius: 20)
[10:55:05 -199843.722095] AUTODETECT spr round 5 (radius: 25)
[10:57:38 -193029.913998] SPR radius for FAST iterations: 25 (autodetect)
[10:57:38 -193029.913998] Model parameter optimization (eps = 3.000000)
[10:57:58 -192990.701911] FAST spr round 1 (radius: 25)
[11:00:14 -169152.772025] FAST spr round 2 (radius: 25)
[11:02:06 -168186.674463] FAST spr round 3 (radius: 25)
[11:03:48 -168068.384994] FAST spr round 4 (radius: 25)
[11:05:20 -168057.607288] FAST spr round 5 (radius: 25)
[11:06:49 -168057.189446] FAST spr round 6 (radius: 25)
[11:08:15 -168057.188865] Model parameter optimization (eps = 1.000000)
[11:08:31 -168047.242962] SLOW spr round 1 (radius: 5)
[11:10:23 -167999.809657] SLOW spr round 2 (radius: 5)
[11:12:14 -167989.143616] SLOW spr round 3 (radius: 5)
[11:14:00 -167986.835747] SLOW spr round 4 (radius: 5)
[11:15:46 -167986.835533] SLOW spr round 5 (radius: 10)
[11:17:36 -167980.105269] SLOW spr round 6 (radius: 5)
[11:19:48 -167977.511051] SLOW spr round 7 (radius: 5)
[11:21:44 -167977.510952] SLOW spr round 8 (radius: 10)
[11:23:37 -167977.510949] SLOW spr round 9 (radius: 15)
[11:26:20 -167977.510948] SLOW spr round 10 (radius: 20)
[11:30:12 -167977.510947] SLOW spr round 11 (radius: 25)
[11:35:04 -167977.510947] Model parameter optimization (eps = 0.100000)

[11:35:14] ML tree search #15, logLikelihood: -167976.826385

[11:35:14 -766141.385953] Initial branch length optimization
[11:35:18 -642415.787478] Model parameter optimization (eps = 10.000000)
[11:35:45 -640043.735426] AUTODETECT spr round 1 (radius: 5)
[11:37:36 -413309.700110] AUTODETECT spr round 2 (radius: 10)
[11:39:38 -302584.045171] AUTODETECT spr round 3 (radius: 15)
[11:41:45 -265828.184856] AUTODETECT spr round 4 (radius: 20)
[11:44:03 -223988.478091] AUTODETECT spr round 5 (radius: 25)
[11:46:23 -205467.780978] SPR radius for FAST iterations: 25 (autodetect)
[11:46:23 -205467.780978] Model parameter optimization (eps = 3.000000)
[11:46:40 -205430.227866] FAST spr round 1 (radius: 25)
[11:48:59 -170156.612530] FAST spr round 2 (radius: 25)
[11:50:50 -168136.303731] FAST spr round 3 (radius: 25)
[11:52:26 -168039.913459] FAST spr round 4 (radius: 25)
[11:54:00 -168037.176095] FAST spr round 5 (radius: 25)
[11:55:31 -168037.173907] Model parameter optimization (eps = 1.000000)
[11:55:47 -168028.826996] SLOW spr round 1 (radius: 5)
[11:57:44 -167998.217801] SLOW spr round 2 (radius: 5)
[11:59:37 -167996.293136] SLOW spr round 3 (radius: 5)
[12:01:28 -167996.291626] SLOW spr round 4 (radius: 10)
[12:03:20 -167994.873871] SLOW spr round 5 (radius: 5)
[12:05:37 -167988.085457] SLOW spr round 6 (radius: 5)
[12:07:39 -167986.652297] SLOW spr round 7 (radius: 5)
[12:09:33 -167986.651835] SLOW spr round 8 (radius: 10)
[12:11:27 -167986.651792] SLOW spr round 9 (radius: 15)
[12:14:21 -167986.535043] SLOW spr round 10 (radius: 5)
[12:16:41 -167986.532300] SLOW spr round 11 (radius: 10)
[12:18:50 -167986.531049] SLOW spr round 12 (radius: 15)
[12:21:34 -167986.095230] SLOW spr round 13 (radius: 5)
[12:23:53 -167986.095144] SLOW spr round 14 (radius: 10)
[12:26:01 -167986.095127] SLOW spr round 15 (radius: 15)
[12:28:44 -167986.095111] SLOW spr round 16 (radius: 20)
[12:32:43 -167986.095094] SLOW spr round 17 (radius: 25)
[12:37:33 -167986.095077] Model parameter optimization (eps = 0.100000)

[12:37:41] ML tree search #16, logLikelihood: -167985.927001

[12:37:41 -756508.480777] Initial branch length optimization
[12:37:44 -632322.791095] Model parameter optimization (eps = 10.000000)
[12:38:10 -630082.760291] AUTODETECT spr round 1 (radius: 5)
[12:40:04 -409649.940365] AUTODETECT spr round 2 (radius: 10)
[12:42:08 -288335.884927] AUTODETECT spr round 3 (radius: 15)
[12:44:13 -240531.564245] AUTODETECT spr round 4 (radius: 20)
[12:46:35 -209058.924572] AUTODETECT spr round 5 (radius: 25)
[12:49:36 -197304.442116] SPR radius for FAST iterations: 25 (autodetect)
[12:49:36 -197304.442116] Model parameter optimization (eps = 3.000000)
[12:49:54 -197251.851972] FAST spr round 1 (radius: 25)
[12:52:12 -169187.096781] FAST spr round 2 (radius: 25)
[12:54:04 -168137.978764] FAST spr round 3 (radius: 25)
[12:55:47 -168043.078603] FAST spr round 4 (radius: 25)
[12:57:24 -168033.137932] FAST spr round 5 (radius: 25)
[12:58:56 -168032.234619] FAST spr round 6 (radius: 25)
[13:00:26 -168032.233732] Model parameter optimization (eps = 1.000000)
[13:00:40 -168026.239384] SLOW spr round 1 (radius: 5)
[13:02:37 -168006.117970] SLOW spr round 2 (radius: 5)
[13:04:26 -168006.117403] SLOW spr round 3 (radius: 10)
[13:06:18 -168004.915340] SLOW spr round 4 (radius: 5)
[13:08:31 -168003.592685] SLOW spr round 5 (radius: 5)
[13:10:30 -168003.592532] SLOW spr round 6 (radius: 10)
[13:12:26 -168003.592511] SLOW spr round 7 (radius: 15)
[13:15:15 -168003.231519] SLOW spr round 8 (radius: 5)
[13:17:32 -168003.228998] SLOW spr round 9 (radius: 10)
[13:19:37 -168003.228871] SLOW spr round 10 (radius: 15)
[13:22:21 -168002.795197] SLOW spr round 11 (radius: 5)
[13:24:38 -168002.794674] SLOW spr round 12 (radius: 10)
[13:26:47 -168002.794657] SLOW spr round 13 (radius: 15)
[13:29:29 -168002.794641] SLOW spr round 14 (radius: 20)
[13:33:27 -168002.794625] SLOW spr round 15 (radius: 25)
[13:38:17 -168002.794609] Model parameter optimization (eps = 0.100000)

[13:38:22] ML tree search #17, logLikelihood: -168002.774298

[13:38:22 -770291.332255] Initial branch length optimization
[13:38:26 -642976.077485] Model parameter optimization (eps = 10.000000)
[13:39:00 -640671.546766] AUTODETECT spr round 1 (radius: 5)
[13:40:55 -417718.513511] AUTODETECT spr round 2 (radius: 10)
[13:43:01 -300704.567407] AUTODETECT spr round 3 (radius: 15)
[13:45:09 -253808.817306] AUTODETECT spr round 4 (radius: 20)
[13:47:29 -222008.127111] AUTODETECT spr round 5 (radius: 25)
[13:50:03 -204512.842643] SPR radius for FAST iterations: 25 (autodetect)
[13:50:03 -204512.842643] Model parameter optimization (eps = 3.000000)
[13:50:21 -204476.822398] FAST spr round 1 (radius: 25)
[13:52:44 -169705.484856] FAST spr round 2 (radius: 25)
[13:54:40 -168149.830129] FAST spr round 3 (radius: 25)
[13:56:23 -168079.730770] FAST spr round 4 (radius: 25)
[13:57:59 -168069.289963] FAST spr round 5 (radius: 25)
[13:59:32 -168067.419574] FAST spr round 6 (radius: 25)
[14:01:01 -168067.419542] Model parameter optimization (eps = 1.000000)
[14:01:16 -168060.644733] SLOW spr round 1 (radius: 5)
[14:03:10 -168007.102670] SLOW spr round 2 (radius: 5)
[14:05:04 -168000.919824] SLOW spr round 3 (radius: 5)
[14:06:55 -168000.776035] SLOW spr round 4 (radius: 5)
[14:08:44 -168000.775950] SLOW spr round 5 (radius: 10)
[14:10:35 -167997.335329] SLOW spr round 6 (radius: 5)
[14:12:49 -167993.934676] SLOW spr round 7 (radius: 5)
[14:14:51 -167992.584164] SLOW spr round 8 (radius: 5)
[14:16:47 -167991.977727] SLOW spr round 9 (radius: 5)
[14:18:41 -167990.822103] SLOW spr round 10 (radius: 5)
[14:20:31 -167990.819327] SLOW spr round 11 (radius: 10)
[14:22:24 -167990.818949] SLOW spr round 12 (radius: 15)
[14:25:15 -167990.818884] SLOW spr round 13 (radius: 20)
[14:28:57 -167990.818853] SLOW spr round 14 (radius: 25)
[14:33:32 -167990.818826] Model parameter optimization (eps = 0.100000)

[14:33:38] ML tree search #18, logLikelihood: -167990.725759

[14:33:38 -761201.297186] Initial branch length optimization
[14:33:41 -636731.583289] Model parameter optimization (eps = 10.000000)
[14:34:13 -634500.649509] AUTODETECT spr round 1 (radius: 5)
[14:36:09 -412497.069192] AUTODETECT spr round 2 (radius: 10)
[14:38:13 -298936.907136] AUTODETECT spr round 3 (radius: 15)
[14:40:22 -233909.387378] AUTODETECT spr round 4 (radius: 20)
[14:42:32 -206792.264357] AUTODETECT spr round 5 (radius: 25)
[14:45:28 -201430.812429] SPR radius for FAST iterations: 25 (autodetect)
[14:45:28 -201430.812429] Model parameter optimization (eps = 3.000000)
[14:46:06 -201343.467932] FAST spr round 1 (radius: 25)
[14:50:38 -169749.340902] FAST spr round 2 (radius: 25)
[14:54:12 -168218.915499] FAST spr round 3 (radius: 25)
[14:57:20 -168065.272077] FAST spr round 4 (radius: 25)
[15:00:12 -168054.987886] FAST spr round 5 (radius: 25)
[15:02:51 -168054.986018] Model parameter optimization (eps = 1.000000)
[15:03:14 -168048.750596] SLOW spr round 1 (radius: 5)
[15:05:37 -168021.944804] SLOW spr round 2 (radius: 5)
[15:07:25 -168018.469099] SLOW spr round 3 (radius: 5)
[15:09:11 -168017.389827] SLOW spr round 4 (radius: 5)
[15:10:54 -168017.389785] SLOW spr round 5 (radius: 10)
[15:12:42 -168011.689604] SLOW spr round 6 (radius: 5)
[15:14:49 -168011.065774] SLOW spr round 7 (radius: 5)
[15:16:43 -168011.065735] SLOW spr round 8 (radius: 10)
[15:18:33 -168011.065733] SLOW spr round 9 (radius: 15)
[15:21:13 -168011.054527] SLOW spr round 10 (radius: 20)
[15:24:52 -168011.054526] SLOW spr round 11 (radius: 25)
[15:29:21 -168011.054526] Model parameter optimization (eps = 0.100000)

[15:29:29] ML tree search #19, logLikelihood: -168010.948176

[15:29:30 -762371.175043] Initial branch length optimization
[15:29:33 -633872.358780] Model parameter optimization (eps = 10.000000)
[15:29:58 -631411.091713] AUTODETECT spr round 1 (radius: 5)
[15:31:46 -412520.584646] AUTODETECT spr round 2 (radius: 10)
[15:33:43 -316791.241875] AUTODETECT spr round 3 (radius: 15)
[15:36:12 -268509.423723] AUTODETECT spr round 4 (radius: 20)
[15:38:34 -235724.248094] AUTODETECT spr round 5 (radius: 25)
[15:41:18 -230147.919357] SPR radius for FAST iterations: 25 (autodetect)
[15:41:18 -230147.919357] Model parameter optimization (eps = 3.000000)
[15:41:39 -230094.873872] FAST spr round 1 (radius: 25)
[15:44:06 -181826.823588] FAST spr round 2 (radius: 25)
[15:46:02 -170311.994838] FAST spr round 3 (radius: 25)
[15:47:43 -168781.991048] FAST spr round 4 (radius: 25)
[15:49:19 -168054.193528] FAST spr round 5 (radius: 25)
[15:50:51 -168015.992674] FAST spr round 6 (radius: 25)
[15:52:16 -168013.985336] FAST spr round 7 (radius: 25)
[15:53:41 -168013.985255] Model parameter optimization (eps = 1.000000)
[15:53:57 -168007.350265] SLOW spr round 1 (radius: 5)
[15:55:50 -167978.395749] SLOW spr round 2 (radius: 5)
[15:57:37 -167974.178225] SLOW spr round 3 (radius: 5)
[15:59:42 -167974.176202] SLOW spr round 4 (radius: 10)
[16:01:34 -167974.175936] SLOW spr round 5 (radius: 15)
[16:04:31 -167974.175908] SLOW spr round 6 (radius: 20)
[16:08:15 -167974.175905] SLOW spr round 7 (radius: 25)
[16:12:44 -167974.175904] Model parameter optimization (eps = 0.100000)

[16:12:54] ML tree search #20, logLikelihood: -167974.061846


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.171029,0.216121) (0.164328,0.274385) (0.358755,0.895526) (0.305888,1.950629) 
   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: -167970.601814

AIC score: 339951.203628 / AICc score: 8384011.203628 / BIC score: 348264.593790
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=467).
         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/Q9H2G2/3_mltree/Q9H2G2.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/3_mltree/Q9H2G2.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/3_mltree/Q9H2G2.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9H2G2/3_mltree/Q9H2G2.raxml.log

Analysis started: 02-Jul-2021 02:00:01 / finished: 02-Jul-2021 18:12:56

Elapsed time: 58374.854 seconds

Consumed energy: 4289.704 Wh (= 21 km in an electric car, or 107 km with an e-scooter!)