RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab.
Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth.
Latest version: https://github.com/amkozlov/raxml-ng
Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml

System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 01-Jul-2021 01:53:08 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/2_msa/Q6UWY5_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/3_mltree/Q6UWY5 --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/Q6UWY5/2_msa/Q6UWY5_trimmed_msa.fasta
[00:00:00] Loaded alignment with 783 taxa and 584 sites

WARNING: Sequences sp_P63056_NOE3_MOUSE_10090 and sp_P63057_NOE3_RAT_10116 are exactly identical!
WARNING: Sequences tr_A0A2I3HZQ9_A0A2I3HZQ9_NOMLE_61853 and tr_F7C0V2_F7C0V2_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1RMV4_G1RMV4_NOMLE_61853 and tr_G3RLQ0_G3RLQ0_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1RMV4_G1RMV4_NOMLE_61853 and tr_H2PZI2_H2PZI2_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1RMV4_G1RMV4_NOMLE_61853 and sp_Q96PB7_NOE3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1RMV4_G1RMV4_NOMLE_61853 and tr_A0A2R9BAK3_A0A2R9BAK3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1NTH5_G1NTH5_MYOLU_59463 and tr_E2R3S4_E2R3S4_CANLF_9615 are exactly identical!
WARNING: Sequences tr_G1NTH5_G1NTH5_MYOLU_59463 and tr_A0A2U3VUI5_A0A2U3VUI5_ODORO_9708 are exactly identical!
WARNING: Sequences tr_H2NXS9_H2NXS9_PONAB_9601 and tr_U3FRU9_U3FRU9_CALJA_9483 are exactly identical!
WARNING: Sequences tr_H2NXS9_H2NXS9_PONAB_9601 and tr_A0A0D9R202_A0A0D9R202_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_H2NXS9_H2NXS9_PONAB_9601 and tr_A0A2K6A057_A0A2K6A057_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H2PZQ2_H2PZQ2_PANTR_9598 and sp_Q9NRN5_OLFL3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2PZQ2_H2PZQ2_PANTR_9598 and tr_A0A2R9BK47_A0A2R9BK47_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2Q339_H2Q339_PANTR_9598 and tr_A0A2R9BT49_A0A2R9BT49_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2R1M0_H2R1M0_PANTR_9598 and sp_Q99784_NOE1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2R1M0_H2R1M0_PANTR_9598 and tr_A0A2R8PE66_A0A2R8PE66_CALJA_9483 are exactly identical!
WARNING: Sequences tr_H2R1M0_H2R1M0_PANTR_9598 and tr_A0A2I3LPX1_A0A2I3LPX1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_K7BM93_K7BM93_PANTR_9598 and tr_A0A2R9A075_A0A2R9A075_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A3B5QZM7_A0A3B5QZM7_XIPMA_8083 and tr_A0A087YEH7_A0A087YEH7_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A1D5Q6D5_A0A1D5Q6D5_MACMU_9544 and tr_A0A096NAK7_A0A096NAK7_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q6D5_A0A1D5Q6D5_MACMU_9544 and tr_A0A2K6DME6_A0A2K6DME6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5QCB9_A0A1D5QCB9_MACMU_9544 and tr_A0A2K6CHL5_A0A2K6CHL5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7FB04_F7FB04_MACMU_9544 and tr_A0A096MKK3_A0A096MKK3_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7FB04_F7FB04_MACMU_9544 and tr_A0A2K5NKV5_A0A2K5NKV5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7H3M5_F7H3M5_MACMU_9544 and tr_G7NV38_G7NV38_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7H3M5_F7H3M5_MACMU_9544 and tr_A0A096MRZ8_A0A096MRZ8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7H3M5_F7H3M5_MACMU_9544 and tr_A0A2K5KH60_A0A2K5KH60_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7H3M5_F7H3M5_MACMU_9544 and tr_A0A2K6DK30_A0A2K6DK30_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7H3M5_F7H3M5_MACMU_9544 and tr_A0A2K6A4D5_A0A2K6A4D5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7HED3_F7HED3_MACMU_9544 and tr_G7NX23_G7NX23_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7HED3_F7HED3_MACMU_9544 and tr_A0A2K6DDZ5_A0A2K6DDZ5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A096N7V9_A0A096N7V9_PAPAN_9555 and tr_A0A2K5KWD1_A0A2K5KWD1_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A0A0MU59_A0A0A0MU59_PAPAN_9555 and tr_A0A2K6AUX8_A0A2K6AUX8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3NA02_A0A2I3NA02_PAPAN_9555 and tr_A0A2K5LIV9_A0A2K5LIV9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2U3V962_A0A2U3V962_TURTR_9739 and tr_A0A2Y9NXN8_A0A2Y9NXN8_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4A2B1_A0A2U4A2B1_TURTR_9739 and tr_A0A2Y9NNG2_A0A2Y9NNG2_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U3WNV9_A0A2U3WNV9_ODORO_9708 and tr_A0A2U3Y7J1_A0A2U3Y7J1_LEPWE_9713 are exactly identical!
WARNING: Duplicate sequences found: 37

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/Q6UWY5/3_mltree/Q6UWY5.raxml.reduced.phy

Alignment comprises 1 partitions and 584 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 584 / 584
Gaps: 30.36 %
Invariant sites: 0.34 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/3_mltree/Q6UWY5.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 783 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 84 / 6720
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -654660.719897] Initial branch length optimization
[00:00:02 -538429.707320] Model parameter optimization (eps = 10.000000)
[00:00:21 -536530.273171] AUTODETECT spr round 1 (radius: 5)
[00:01:28 -303506.906519] AUTODETECT spr round 2 (radius: 10)
[00:02:37 -207121.429388] AUTODETECT spr round 3 (radius: 15)
[00:03:58 -159738.731586] AUTODETECT spr round 4 (radius: 20)
[00:05:27 -141054.470026] AUTODETECT spr round 5 (radius: 25)
[00:07:17 -140857.936212] SPR radius for FAST iterations: 25 (autodetect)
[00:07:17 -140857.936212] Model parameter optimization (eps = 3.000000)
[00:07:31 -140801.534408] FAST spr round 1 (radius: 25)
[00:08:49 -120764.099024] FAST spr round 2 (radius: 25)
[00:09:54 -119856.020432] FAST spr round 3 (radius: 25)
[00:10:54 -119713.239648] FAST spr round 4 (radius: 25)
[00:11:51 -119699.182630] FAST spr round 5 (radius: 25)
[00:12:44 -119698.553486] FAST spr round 6 (radius: 25)
[00:13:36 -119698.542160] Model parameter optimization (eps = 1.000000)
[00:13:49 -119671.238545] SLOW spr round 1 (radius: 5)
[00:15:03 -119640.504246] SLOW spr round 2 (radius: 5)
[00:16:11 -119635.134188] SLOW spr round 3 (radius: 5)
[00:17:16 -119635.134110] SLOW spr round 4 (radius: 10)
[00:18:25 -119629.029184] SLOW spr round 5 (radius: 5)
[00:19:47 -119626.417104] SLOW spr round 6 (radius: 5)
[00:20:59 -119626.403407] SLOW spr round 7 (radius: 10)
[00:22:09 -119626.403399] SLOW spr round 8 (radius: 15)
[00:23:50 -119619.042200] SLOW spr round 9 (radius: 5)
[00:25:17 -119616.327469] SLOW spr round 10 (radius: 5)
[00:26:34 -119616.327457] SLOW spr round 11 (radius: 10)
[00:27:47 -119613.490660] SLOW spr round 12 (radius: 5)
[00:29:12 -119613.490594] SLOW spr round 13 (radius: 10)
[00:30:27 -119613.490589] SLOW spr round 14 (radius: 15)
[00:32:06 -119613.490585] SLOW spr round 15 (radius: 20)
[00:34:35 -119612.298192] SLOW spr round 16 (radius: 5)
[00:36:04 -119612.298068] SLOW spr round 17 (radius: 10)
[00:37:27 -119612.298065] SLOW spr round 18 (radius: 15)
[00:39:04 -119612.298061] SLOW spr round 19 (radius: 20)
[00:41:31 -119612.298058] SLOW spr round 20 (radius: 25)
[00:44:56 -119612.298055] Model parameter optimization (eps = 0.100000)

[00:45:01] ML tree search #1, logLikelihood: -119612.213332

[00:45:01 -656043.577934] Initial branch length optimization
[00:45:04 -540707.638323] Model parameter optimization (eps = 10.000000)
[00:45:29 -538506.847209] AUTODETECT spr round 1 (radius: 5)
[00:46:38 -297292.665529] AUTODETECT spr round 2 (radius: 10)
[00:47:49 -185677.348208] AUTODETECT spr round 3 (radius: 15)
[00:49:04 -150904.622606] AUTODETECT spr round 4 (radius: 20)
[00:50:40 -141789.375212] AUTODETECT spr round 5 (radius: 25)
[00:52:24 -139713.940317] SPR radius for FAST iterations: 25 (autodetect)
[00:52:24 -139713.940317] Model parameter optimization (eps = 3.000000)
[00:52:37 -139628.795586] FAST spr round 1 (radius: 25)
[00:53:51 -121366.750841] FAST spr round 2 (radius: 25)
[00:54:56 -119814.209653] FAST spr round 3 (radius: 25)
[00:55:56 -119705.111213] FAST spr round 4 (radius: 25)
[00:56:52 -119695.894649] FAST spr round 5 (radius: 25)
[00:57:45 -119695.894502] Model parameter optimization (eps = 1.000000)
[00:58:01 -119674.169994] SLOW spr round 1 (radius: 5)
[00:59:13 -119621.686996] SLOW spr round 2 (radius: 5)
[01:00:24 -119621.043346] SLOW spr round 3 (radius: 5)
[01:01:32 -119621.042848] SLOW spr round 4 (radius: 10)
[01:02:43 -119614.918961] SLOW spr round 5 (radius: 5)
[01:04:07 -119613.862316] SLOW spr round 6 (radius: 5)
[01:05:23 -119613.862257] SLOW spr round 7 (radius: 10)
[01:06:36 -119613.862236] SLOW spr round 8 (radius: 15)
[01:08:21 -119613.862218] SLOW spr round 9 (radius: 20)
[01:10:51 -119613.862200] SLOW spr round 10 (radius: 25)
[01:14:05 -119613.862184] Model parameter optimization (eps = 0.100000)

[01:14:11] ML tree search #2, logLikelihood: -119613.692982

[01:14:11 -653664.373768] Initial branch length optimization
[01:14:13 -540192.269186] Model parameter optimization (eps = 10.000000)
[01:14:33 -538208.585121] AUTODETECT spr round 1 (radius: 5)
[01:15:41 -294715.267879] AUTODETECT spr round 2 (radius: 10)
[01:16:52 -193668.486762] AUTODETECT spr round 3 (radius: 15)
[01:18:14 -153724.163725] AUTODETECT spr round 4 (radius: 20)
[01:19:43 -139742.615479] AUTODETECT spr round 5 (radius: 25)
[01:21:33 -135221.828631] SPR radius for FAST iterations: 25 (autodetect)
[01:21:33 -135221.828631] Model parameter optimization (eps = 3.000000)
[01:21:47 -135156.644331] FAST spr round 1 (radius: 25)
[01:23:00 -120323.193545] FAST spr round 2 (radius: 25)
[01:24:04 -119735.151015] FAST spr round 3 (radius: 25)
[01:25:03 -119678.012967] FAST spr round 4 (radius: 25)
[01:25:58 -119668.755740] FAST spr round 5 (radius: 25)
[01:26:51 -119668.744272] Model parameter optimization (eps = 1.000000)
[01:27:02 -119656.446545] SLOW spr round 1 (radius: 5)
[01:28:15 -119622.119515] SLOW spr round 2 (radius: 5)
[01:29:23 -119620.110228] SLOW spr round 3 (radius: 5)
[01:30:31 -119620.110006] SLOW spr round 4 (radius: 10)
[01:31:40 -119616.969270] SLOW spr round 5 (radius: 5)
[01:33:02 -119616.968562] SLOW spr round 6 (radius: 10)
[01:34:18 -119616.968508] SLOW spr round 7 (radius: 15)
[01:35:58 -119611.726338] SLOW spr round 8 (radius: 5)
[01:37:26 -119611.726196] SLOW spr round 9 (radius: 10)
[01:38:47 -119611.725839] SLOW spr round 10 (radius: 15)
[01:40:29 -119611.725836] SLOW spr round 11 (radius: 20)
[01:43:05 -119611.725833] SLOW spr round 12 (radius: 25)
[01:46:39 -119611.725831] Model parameter optimization (eps = 0.100000)

[01:46:44] ML tree search #3, logLikelihood: -119611.513795

[01:46:44 -662918.775688] Initial branch length optimization
[01:46:47 -547772.890865] Model parameter optimization (eps = 10.000000)
[01:47:15 -545597.066565] AUTODETECT spr round 1 (radius: 5)
[01:48:26 -296569.279211] AUTODETECT spr round 2 (radius: 10)
[01:49:37 -208886.186174] AUTODETECT spr round 3 (radius: 15)
[01:50:56 -173141.402282] AUTODETECT spr round 4 (radius: 20)
[01:52:41 -147500.586206] AUTODETECT spr round 5 (radius: 25)
[01:54:26 -141591.676589] SPR radius for FAST iterations: 25 (autodetect)
[01:54:26 -141591.676589] Model parameter optimization (eps = 3.000000)
[01:54:41 -141531.463641] FAST spr round 1 (radius: 25)
[01:55:53 -121056.221080] FAST spr round 2 (radius: 25)
[01:56:58 -119803.757925] FAST spr round 3 (radius: 25)
[01:57:58 -119690.358351] FAST spr round 4 (radius: 25)
[01:58:53 -119686.271250] FAST spr round 5 (radius: 25)
[01:59:45 -119686.270231] Model parameter optimization (eps = 1.000000)
[01:59:57 -119672.962796] SLOW spr round 1 (radius: 5)
[02:01:08 -119626.626535] SLOW spr round 2 (radius: 5)
[02:02:18 -119625.477626] SLOW spr round 3 (radius: 5)
[02:03:25 -119625.477416] SLOW spr round 4 (radius: 10)
[02:04:35 -119620.816465] SLOW spr round 5 (radius: 5)
[02:06:00 -119617.909817] SLOW spr round 6 (radius: 5)
[02:07:14 -119617.908676] SLOW spr round 7 (radius: 10)
[02:08:26 -119616.408147] SLOW spr round 8 (radius: 5)
[02:09:49 -119616.407832] SLOW spr round 9 (radius: 10)
[02:11:05 -119616.407778] SLOW spr round 10 (radius: 15)
[02:12:46 -119616.407727] SLOW spr round 11 (radius: 20)
[02:15:20 -119616.407680] SLOW spr round 12 (radius: 25)
[02:18:55 -119616.407635] Model parameter optimization (eps = 0.100000)

[02:18:59] ML tree search #4, logLikelihood: -119616.362223

[02:18:59 -661546.530205] Initial branch length optimization
[02:19:01 -547379.514516] Model parameter optimization (eps = 10.000000)
[02:19:25 -545193.426372] AUTODETECT spr round 1 (radius: 5)
[02:20:34 -311392.042211] AUTODETECT spr round 2 (radius: 10)
[02:21:46 -210427.735690] AUTODETECT spr round 3 (radius: 15)
[02:23:04 -166105.302958] AUTODETECT spr round 4 (radius: 20)
[02:24:31 -143445.996714] AUTODETECT spr round 5 (radius: 25)
[02:26:22 -141910.033396] SPR radius for FAST iterations: 25 (autodetect)
[02:26:22 -141910.033396] Model parameter optimization (eps = 3.000000)
[02:26:36 -141814.784854] FAST spr round 1 (radius: 25)
[02:27:51 -120820.871247] FAST spr round 2 (radius: 25)
[02:28:57 -119835.266096] FAST spr round 3 (radius: 25)
[02:29:56 -119743.221092] FAST spr round 4 (radius: 25)
[02:30:51 -119717.224614] FAST spr round 5 (radius: 25)
[02:31:44 -119712.782832] FAST spr round 6 (radius: 25)
[02:32:36 -119712.782025] Model parameter optimization (eps = 1.000000)
[02:32:53 -119681.389260] SLOW spr round 1 (radius: 5)
[02:34:00 -119637.235481] SLOW spr round 2 (radius: 5)
[02:35:10 -119634.180649] SLOW spr round 3 (radius: 5)
[02:36:17 -119633.959273] SLOW spr round 4 (radius: 5)
[02:37:23 -119633.959162] SLOW spr round 5 (radius: 10)
[02:38:33 -119626.919868] SLOW spr round 6 (radius: 5)
[02:39:55 -119626.918792] SLOW spr round 7 (radius: 10)
[02:41:11 -119626.918693] SLOW spr round 8 (radius: 15)
[02:42:54 -119626.918654] SLOW spr round 9 (radius: 20)
[02:45:34 -119626.918623] SLOW spr round 10 (radius: 25)
[02:49:10 -119626.918596] Model parameter optimization (eps = 0.100000)

[02:49:16] ML tree search #5, logLikelihood: -119626.693745

[02:49:16 -656161.687347] Initial branch length optimization
[02:49:18 -542394.798753] Model parameter optimization (eps = 10.000000)
[02:49:37 -540293.664578] AUTODETECT spr round 1 (radius: 5)
[02:50:44 -295601.733474] AUTODETECT spr round 2 (radius: 10)
[02:51:53 -197835.391719] AUTODETECT spr round 3 (radius: 15)
[02:53:10 -163054.781141] AUTODETECT spr round 4 (radius: 20)
[02:54:39 -147451.228948] AUTODETECT spr round 5 (radius: 25)
[02:56:18 -140164.262510] SPR radius for FAST iterations: 25 (autodetect)
[02:56:18 -140164.262510] Model parameter optimization (eps = 3.000000)
[02:56:34 -140097.924591] FAST spr round 1 (radius: 25)
[02:57:47 -121382.222749] FAST spr round 2 (radius: 25)
[02:58:54 -119995.209238] FAST spr round 3 (radius: 25)
[02:59:56 -119696.721986] FAST spr round 4 (radius: 25)
[03:00:51 -119674.580569] FAST spr round 5 (radius: 25)
[03:01:45 -119672.936733] FAST spr round 6 (radius: 25)
[03:02:37 -119671.894594] FAST spr round 7 (radius: 25)
[03:03:28 -119671.894536] Model parameter optimization (eps = 1.000000)
[03:03:42 -119651.166326] SLOW spr round 1 (radius: 5)
[03:04:53 -119628.962909] SLOW spr round 2 (radius: 5)
[03:06:03 -119625.779988] SLOW spr round 3 (radius: 5)
[03:07:09 -119625.779758] SLOW spr round 4 (radius: 10)
[03:08:18 -119620.395470] SLOW spr round 5 (radius: 5)
[03:09:40 -119620.394027] SLOW spr round 6 (radius: 10)
[03:10:57 -119619.892206] SLOW spr round 7 (radius: 5)
[03:12:17 -119619.892157] SLOW spr round 8 (radius: 10)
[03:13:32 -119619.892128] SLOW spr round 9 (radius: 15)
[03:15:14 -119618.630832] SLOW spr round 10 (radius: 5)
[03:16:41 -119618.630417] SLOW spr round 11 (radius: 10)
[03:18:02 -119618.044141] SLOW spr round 12 (radius: 5)
[03:19:22 -119618.043995] SLOW spr round 13 (radius: 10)
[03:20:37 -119618.043935] SLOW spr round 14 (radius: 15)
[03:22:20 -119618.043932] SLOW spr round 15 (radius: 20)
[03:24:55 -119618.043928] SLOW spr round 16 (radius: 25)
[03:28:30 -119618.043926] Model parameter optimization (eps = 0.100000)

[03:28:38] ML tree search #6, logLikelihood: -119617.774904

[03:28:38 -654501.271506] Initial branch length optimization
[03:28:41 -536488.746611] Model parameter optimization (eps = 10.000000)
[03:29:04 -534429.495846] AUTODETECT spr round 1 (radius: 5)
[03:30:12 -307355.710859] AUTODETECT spr round 2 (radius: 10)
[03:31:22 -209809.120308] AUTODETECT spr round 3 (radius: 15)
[03:32:42 -163973.213157] AUTODETECT spr round 4 (radius: 20)
[03:34:06 -140282.613534] AUTODETECT spr round 5 (radius: 25)
[03:35:46 -136726.960909] SPR radius for FAST iterations: 25 (autodetect)
[03:35:46 -136726.960909] Model parameter optimization (eps = 3.000000)
[03:35:57 -136662.530977] FAST spr round 1 (radius: 25)
[03:37:14 -120832.933265] FAST spr round 2 (radius: 25)
[03:38:18 -119714.191830] FAST spr round 3 (radius: 25)
[03:39:16 -119679.305044] FAST spr round 4 (radius: 25)
[03:40:12 -119673.079534] FAST spr round 5 (radius: 25)
[03:41:04 -119673.078367] Model parameter optimization (eps = 1.000000)
[03:41:18 -119655.805573] SLOW spr round 1 (radius: 5)
[03:42:29 -119631.367584] SLOW spr round 2 (radius: 5)
[03:43:38 -119627.335479] SLOW spr round 3 (radius: 5)
[03:44:40 -119627.335407] SLOW spr round 4 (radius: 10)
[03:45:46 -119624.444171] SLOW spr round 5 (radius: 5)
[03:47:05 -119624.443291] SLOW spr round 6 (radius: 10)
[03:48:21 -119624.443219] SLOW spr round 7 (radius: 15)
[03:50:02 -119619.125892] SLOW spr round 8 (radius: 5)
[03:51:29 -119617.428380] SLOW spr round 9 (radius: 5)
[03:52:46 -119617.428214] SLOW spr round 10 (radius: 10)
[03:53:58 -119617.428210] SLOW spr round 11 (radius: 15)
[03:55:40 -119617.428206] SLOW spr round 12 (radius: 20)
[03:58:15 -119617.428203] SLOW spr round 13 (radius: 25)
[04:01:51 -119617.428200] Model parameter optimization (eps = 0.100000)

[04:01:58] ML tree search #7, logLikelihood: -119617.192691

[04:01:58 -656967.901822] Initial branch length optimization
[04:02:01 -543288.638534] Model parameter optimization (eps = 10.000000)
[04:02:20 -540906.117547] AUTODETECT spr round 1 (radius: 5)
[04:03:29 -310873.635725] AUTODETECT spr round 2 (radius: 10)
[04:04:39 -210366.574158] AUTODETECT spr round 3 (radius: 15)
[04:06:01 -153719.516043] AUTODETECT spr round 4 (radius: 20)
[04:07:27 -137695.205911] AUTODETECT spr round 5 (radius: 25)
[04:09:03 -136309.751450] SPR radius for FAST iterations: 25 (autodetect)
[04:09:03 -136309.751450] Model parameter optimization (eps = 3.000000)
[04:09:16 -136264.898536] FAST spr round 1 (radius: 25)
[04:10:33 -120475.241570] FAST spr round 2 (radius: 25)
[04:11:36 -119717.460839] FAST spr round 3 (radius: 25)
[04:12:34 -119694.233580] FAST spr round 4 (radius: 25)
[04:13:29 -119684.951390] FAST spr round 5 (radius: 25)
[04:14:21 -119684.949993] Model parameter optimization (eps = 1.000000)
[04:14:32 -119680.024343] SLOW spr round 1 (radius: 5)
[04:15:44 -119646.407107] SLOW spr round 2 (radius: 5)
[04:16:53 -119641.535546] SLOW spr round 3 (radius: 5)
[04:18:01 -119641.534113] SLOW spr round 4 (radius: 10)
[04:19:09 -119636.833164] SLOW spr round 5 (radius: 5)
[04:20:31 -119636.831426] SLOW spr round 6 (radius: 10)
[04:21:47 -119636.830476] SLOW spr round 7 (radius: 15)
[04:23:31 -119636.756880] SLOW spr round 8 (radius: 20)
[04:26:03 -119636.756648] SLOW spr round 9 (radius: 25)
[04:29:24 -119636.756641] Model parameter optimization (eps = 0.100000)

[04:29:28] ML tree search #8, logLikelihood: -119636.726171

[04:29:28 -653973.107641] Initial branch length optimization
[04:29:30 -538948.664602] Model parameter optimization (eps = 10.000000)
[04:29:55 -536814.988039] AUTODETECT spr round 1 (radius: 5)
[04:31:04 -287324.145920] AUTODETECT spr round 2 (radius: 10)
[04:32:14 -196121.029930] AUTODETECT spr round 3 (radius: 15)
[04:33:31 -162925.382234] AUTODETECT spr round 4 (radius: 20)
[04:35:04 -140592.882823] AUTODETECT spr round 5 (radius: 25)
[04:36:50 -136474.916844] SPR radius for FAST iterations: 25 (autodetect)
[04:36:50 -136474.916844] Model parameter optimization (eps = 3.000000)
[04:37:03 -136401.140375] FAST spr round 1 (radius: 25)
[04:38:20 -120471.018246] FAST spr round 2 (radius: 25)
[04:39:27 -119815.164818] FAST spr round 3 (radius: 25)
[04:40:28 -119708.230502] FAST spr round 4 (radius: 25)
[04:41:24 -119693.293402] FAST spr round 5 (radius: 25)
[04:42:16 -119693.293189] Model parameter optimization (eps = 1.000000)
[04:42:29 -119667.448209] SLOW spr round 1 (radius: 5)
[04:43:41 -119636.051974] SLOW spr round 2 (radius: 5)
[04:44:51 -119632.741358] SLOW spr round 3 (radius: 5)
[04:45:58 -119632.740492] SLOW spr round 4 (radius: 10)
[04:47:04 -119625.495599] SLOW spr round 5 (radius: 5)
[04:48:26 -119625.494713] SLOW spr round 6 (radius: 10)
[04:49:42 -119625.494615] SLOW spr round 7 (radius: 15)
[04:51:22 -119625.494582] SLOW spr round 8 (radius: 20)
[04:53:54 -119624.341019] SLOW spr round 9 (radius: 5)
[04:55:23 -119624.340883] SLOW spr round 10 (radius: 10)
[04:56:47 -119624.340873] SLOW spr round 11 (radius: 15)
[04:58:26 -119624.340865] SLOW spr round 12 (radius: 20)
[05:00:58 -119624.340859] SLOW spr round 13 (radius: 25)
[05:04:22 -119624.340854] Model parameter optimization (eps = 0.100000)

[05:04:26] ML tree search #9, logLikelihood: -119624.271407

[05:04:26 -661120.576866] Initial branch length optimization
[05:04:29 -545372.697951] Model parameter optimization (eps = 10.000000)
[05:05:02 -543303.708426] AUTODETECT spr round 1 (radius: 5)
[05:06:07 -299424.632058] AUTODETECT spr round 2 (radius: 10)
[05:07:18 -197635.490121] AUTODETECT spr round 3 (radius: 15)
[05:08:38 -157609.046231] AUTODETECT spr round 4 (radius: 20)
[05:10:08 -143139.717580] AUTODETECT spr round 5 (radius: 25)
[05:11:44 -137759.643821] SPR radius for FAST iterations: 25 (autodetect)
[05:11:44 -137759.643821] Model parameter optimization (eps = 3.000000)
[05:12:00 -137703.664044] FAST spr round 1 (radius: 25)
[05:13:16 -120345.888322] FAST spr round 2 (radius: 25)
[05:14:21 -119781.226605] FAST spr round 3 (radius: 25)
[05:15:19 -119674.159725] FAST spr round 4 (radius: 25)
[05:16:14 -119667.341527] FAST spr round 5 (radius: 25)
[05:17:06 -119667.340164] Model parameter optimization (eps = 1.000000)
[05:17:19 -119647.493000] SLOW spr round 1 (radius: 5)
[05:18:29 -119619.821144] SLOW spr round 2 (radius: 5)
[05:19:38 -119617.288407] SLOW spr round 3 (radius: 5)
[05:20:44 -119615.587252] SLOW spr round 4 (radius: 5)
[05:21:49 -119615.587212] SLOW spr round 5 (radius: 10)
[05:22:57 -119611.405471] SLOW spr round 6 (radius: 5)
[05:24:18 -119609.706720] SLOW spr round 7 (radius: 5)
[05:25:31 -119609.706627] SLOW spr round 8 (radius: 10)
[05:26:40 -119609.706595] SLOW spr round 9 (radius: 15)
[05:28:22 -119609.706570] SLOW spr round 10 (radius: 20)
[05:30:55 -119609.706547] SLOW spr round 11 (radius: 25)
[05:34:24 -119609.706525] Model parameter optimization (eps = 0.100000)

[05:34:31] ML tree search #10, logLikelihood: -119609.597769

[05:34:31 -658220.030178] Initial branch length optimization
[05:34:34 -540197.329453] Model parameter optimization (eps = 10.000000)
[05:34:58 -538093.951097] AUTODETECT spr round 1 (radius: 5)
[05:36:06 -292289.686059] AUTODETECT spr round 2 (radius: 10)
[05:37:18 -196687.483808] AUTODETECT spr round 3 (radius: 15)
[05:38:38 -162558.436628] AUTODETECT spr round 4 (radius: 20)
[05:40:09 -146051.028276] AUTODETECT spr round 5 (radius: 25)
[05:41:59 -140333.544556] SPR radius for FAST iterations: 25 (autodetect)
[05:41:59 -140333.544556] Model parameter optimization (eps = 3.000000)
[05:42:20 -140259.673044] FAST spr round 1 (radius: 25)
[05:43:31 -120384.888675] FAST spr round 2 (radius: 25)
[05:44:33 -119752.942072] FAST spr round 3 (radius: 25)
[05:45:31 -119719.304588] FAST spr round 4 (radius: 25)
[05:46:25 -119707.706045] FAST spr round 5 (radius: 25)
[05:47:17 -119707.706018] Model parameter optimization (eps = 1.000000)
[05:47:31 -119686.662308] SLOW spr round 1 (radius: 5)
[05:48:39 -119634.177555] SLOW spr round 2 (radius: 5)
[05:49:48 -119627.175658] SLOW spr round 3 (radius: 5)
[05:50:54 -119627.175239] SLOW spr round 4 (radius: 10)
[05:52:02 -119622.959691] SLOW spr round 5 (radius: 5)
[05:53:25 -119622.157352] SLOW spr round 6 (radius: 5)
[05:54:37 -119622.157315] SLOW spr round 7 (radius: 10)
[05:55:48 -119622.157282] SLOW spr round 8 (radius: 15)
[05:57:31 -119621.285604] SLOW spr round 9 (radius: 5)
[05:58:57 -119621.285566] SLOW spr round 10 (radius: 10)
[06:00:16 -119620.992286] SLOW spr round 11 (radius: 5)
[06:01:35 -119620.992243] SLOW spr round 12 (radius: 10)
[06:02:49 -119620.992216] SLOW spr round 13 (radius: 15)
[06:04:30 -119620.992190] SLOW spr round 14 (radius: 20)
[06:06:55 -119620.992164] SLOW spr round 15 (radius: 25)
[06:10:15 -119620.992138] Model parameter optimization (eps = 0.100000)

[06:10:21] ML tree search #11, logLikelihood: -119620.723614

[06:10:21 -652316.850512] Initial branch length optimization
[06:10:24 -540517.906691] Model parameter optimization (eps = 10.000000)
[06:10:45 -538570.887601] AUTODETECT spr round 1 (radius: 5)
[06:11:54 -298223.936240] AUTODETECT spr round 2 (radius: 10)
[06:13:03 -204969.221418] AUTODETECT spr round 3 (radius: 15)
[06:14:23 -161190.332256] AUTODETECT spr round 4 (radius: 20)
[06:15:49 -143651.824820] AUTODETECT spr round 5 (radius: 25)
[06:17:19 -141345.820576] SPR radius for FAST iterations: 25 (autodetect)
[06:17:19 -141345.820576] Model parameter optimization (eps = 3.000000)
[06:17:31 -141289.836505] FAST spr round 1 (radius: 25)
[06:18:42 -120721.285491] FAST spr round 2 (radius: 25)
[06:19:42 -119736.868922] FAST spr round 3 (radius: 25)
[06:20:39 -119670.578242] FAST spr round 4 (radius: 25)
[06:21:33 -119668.587271] FAST spr round 5 (radius: 25)
[06:22:25 -119668.586657] Model parameter optimization (eps = 1.000000)
[06:22:37 -119651.751494] SLOW spr round 1 (radius: 5)
[06:23:47 -119625.458593] SLOW spr round 2 (radius: 5)
[06:24:56 -119623.894520] SLOW spr round 3 (radius: 5)
[06:26:02 -119623.891799] SLOW spr round 4 (radius: 10)
[06:27:10 -119623.243272] SLOW spr round 5 (radius: 5)
[06:28:32 -119621.785414] SLOW spr round 6 (radius: 5)
[06:29:45 -119621.780467] SLOW spr round 7 (radius: 10)
[06:30:55 -119621.780465] SLOW spr round 8 (radius: 15)
[06:32:39 -119620.900493] SLOW spr round 9 (radius: 5)
[06:34:05 -119620.900235] SLOW spr round 10 (radius: 10)
[06:35:22 -119620.900233] SLOW spr round 11 (radius: 15)
[06:36:43 -119620.900231] SLOW spr round 12 (radius: 20)
[06:38:49 -119620.900230] SLOW spr round 13 (radius: 25)
[06:41:42 -119620.900228] Model parameter optimization (eps = 0.100000)

[06:41:48] ML tree search #12, logLikelihood: -119620.754318

[06:41:48 -656246.326711] Initial branch length optimization
[06:41:50 -537513.734776] Model parameter optimization (eps = 10.000000)
[06:42:08 -535539.173349] AUTODETECT spr round 1 (radius: 5)
[06:43:03 -307054.569990] AUTODETECT spr round 2 (radius: 10)
[06:44:00 -191479.195188] AUTODETECT spr round 3 (radius: 15)
[06:45:01 -161514.238412] AUTODETECT spr round 4 (radius: 20)
[06:46:17 -145835.427443] AUTODETECT spr round 5 (radius: 25)
[06:47:31 -138419.248154] SPR radius for FAST iterations: 25 (autodetect)
[06:47:31 -138419.248154] Model parameter optimization (eps = 3.000000)
[06:47:43 -138345.634543] FAST spr round 1 (radius: 25)
[06:48:46 -120412.894354] FAST spr round 2 (radius: 25)
[06:49:40 -119735.698193] FAST spr round 3 (radius: 25)
[06:50:28 -119695.541613] FAST spr round 4 (radius: 25)
[06:51:12 -119686.066908] FAST spr round 5 (radius: 25)
[06:51:53 -119685.041548] FAST spr round 6 (radius: 25)
[06:52:34 -119685.040386] Model parameter optimization (eps = 1.000000)
[06:52:44 -119663.137987] SLOW spr round 1 (radius: 5)
[06:53:43 -119637.767722] SLOW spr round 2 (radius: 5)
[06:54:39 -119633.911553] SLOW spr round 3 (radius: 5)
[06:55:33 -119633.910774] SLOW spr round 4 (radius: 10)
[06:56:28 -119626.613874] SLOW spr round 5 (radius: 5)
[06:57:35 -119626.612480] SLOW spr round 6 (radius: 10)
[06:58:36 -119626.611980] SLOW spr round 7 (radius: 15)
[06:59:58 -119621.976521] SLOW spr round 8 (radius: 5)
[07:01:09 -119621.969216] SLOW spr round 9 (radius: 10)
[07:02:15 -119621.969189] SLOW spr round 10 (radius: 15)
[07:03:37 -119621.523738] SLOW spr round 11 (radius: 5)
[07:04:47 -119621.523648] SLOW spr round 12 (radius: 10)
[07:05:53 -119621.456895] SLOW spr round 13 (radius: 15)
[07:07:15 -119621.456850] SLOW spr round 14 (radius: 20)
[07:09:23 -119621.456843] SLOW spr round 15 (radius: 25)
[07:12:18 -119621.456836] Model parameter optimization (eps = 0.100000)

[07:12:25] ML tree search #13, logLikelihood: -119621.428555

[07:12:25 -644281.945241] Initial branch length optimization
[07:12:28 -533045.260547] Model parameter optimization (eps = 10.000000)
[07:12:45 -530975.833380] AUTODETECT spr round 1 (radius: 5)
[07:13:39 -302082.555227] AUTODETECT spr round 2 (radius: 10)
[07:14:35 -206150.695121] AUTODETECT spr round 3 (radius: 15)
[07:15:39 -170397.880289] AUTODETECT spr round 4 (radius: 20)
[07:16:58 -145590.724912] AUTODETECT spr round 5 (radius: 25)
[07:18:24 -143187.678759] SPR radius for FAST iterations: 25 (autodetect)
[07:18:24 -143187.678759] Model parameter optimization (eps = 3.000000)
[07:18:35 -143128.462929] FAST spr round 1 (radius: 25)
[07:19:35 -120608.622293] FAST spr round 2 (radius: 25)
[07:20:26 -119750.671368] FAST spr round 3 (radius: 25)
[07:21:15 -119712.149990] FAST spr round 4 (radius: 25)
[07:21:58 -119708.097850] FAST spr round 5 (radius: 25)
[07:22:40 -119708.096554] Model parameter optimization (eps = 1.000000)
[07:22:51 -119685.790173] SLOW spr round 1 (radius: 5)
[07:23:57 -119653.751817] SLOW spr round 2 (radius: 5)
[07:25:08 -119644.018134] SLOW spr round 3 (radius: 5)
[07:26:17 -119644.016900] SLOW spr round 4 (radius: 10)
[07:27:29 -119636.556248] SLOW spr round 5 (radius: 5)
[07:28:54 -119635.077767] SLOW spr round 6 (radius: 5)
[07:30:11 -119635.077689] SLOW spr round 7 (radius: 10)
[07:31:25 -119635.077676] SLOW spr round 8 (radius: 15)
[07:33:17 -119632.125845] SLOW spr round 9 (radius: 5)
[07:34:48 -119629.180877] SLOW spr round 10 (radius: 5)
[07:36:07 -119629.180737] SLOW spr round 11 (radius: 10)
[07:37:21 -119629.180733] SLOW spr round 12 (radius: 15)
[07:39:11 -119628.763016] SLOW spr round 13 (radius: 5)
[07:40:43 -119628.762999] SLOW spr round 14 (radius: 10)
[07:42:08 -119628.762991] SLOW spr round 15 (radius: 15)
[07:43:55 -119628.572200] SLOW spr round 16 (radius: 5)
[07:45:26 -119626.681433] SLOW spr round 17 (radius: 5)
[07:46:44 -119626.681402] SLOW spr round 18 (radius: 10)
[07:47:59 -119621.860435] SLOW spr round 19 (radius: 5)
[07:49:23 -119621.860417] SLOW spr round 20 (radius: 10)
[07:50:42 -119621.394832] SLOW spr round 21 (radius: 5)
[07:52:06 -119621.394399] SLOW spr round 22 (radius: 10)
[07:53:25 -119621.394398] SLOW spr round 23 (radius: 15)
[07:55:12 -119621.394398] SLOW spr round 24 (radius: 20)
[07:57:57 -119619.383636] SLOW spr round 25 (radius: 5)
[07:59:30 -119619.383444] SLOW spr round 26 (radius: 10)
[08:00:58 -119619.383443] SLOW spr round 27 (radius: 15)
[08:02:46 -119619.383443] SLOW spr round 28 (radius: 20)
[08:05:33 -119618.198404] SLOW spr round 29 (radius: 5)
[08:07:04 -119618.198282] SLOW spr round 30 (radius: 10)
[08:08:31 -119618.198281] SLOW spr round 31 (radius: 15)
[08:10:18 -119618.198280] SLOW spr round 32 (radius: 20)
[08:13:06 -119618.198279] SLOW spr round 33 (radius: 25)
[08:16:53 -119618.198279] Model parameter optimization (eps = 0.100000)

[08:16:58] ML tree search #14, logLikelihood: -119618.057058

[08:16:58 -652407.558592] Initial branch length optimization
[08:17:01 -539276.438547] Model parameter optimization (eps = 10.000000)
[08:17:27 -537227.468506] AUTODETECT spr round 1 (radius: 5)
[08:18:38 -298024.373150] AUTODETECT spr round 2 (radius: 10)
[08:19:51 -192765.691853] AUTODETECT spr round 3 (radius: 15)
[08:21:16 -152061.928863] AUTODETECT spr round 4 (radius: 20)
[08:22:51 -139721.798845] AUTODETECT spr round 5 (radius: 25)
[08:24:39 -137840.017844] SPR radius for FAST iterations: 25 (autodetect)
[08:24:39 -137840.017844] Model parameter optimization (eps = 3.000000)
[08:24:56 -137767.710640] FAST spr round 1 (radius: 25)
[08:26:12 -120449.431166] FAST spr round 2 (radius: 25)
[08:27:16 -119743.478910] FAST spr round 3 (radius: 25)
[08:28:18 -119706.421536] FAST spr round 4 (radius: 25)
[08:29:16 -119694.414825] FAST spr round 5 (radius: 25)
[08:30:10 -119694.413362] Model parameter optimization (eps = 1.000000)
[08:30:22 -119668.284474] SLOW spr round 1 (radius: 5)
[08:31:35 -119635.655137] SLOW spr round 2 (radius: 5)
[08:32:48 -119633.663428] SLOW spr round 3 (radius: 5)
[08:33:57 -119633.663197] SLOW spr round 4 (radius: 10)
[08:35:10 -119625.255714] SLOW spr round 5 (radius: 5)
[08:36:35 -119620.924957] SLOW spr round 6 (radius: 5)
[08:37:50 -119620.924794] SLOW spr round 7 (radius: 10)
[08:39:04 -119620.924659] SLOW spr round 8 (radius: 15)
[08:40:55 -119620.924534] SLOW spr round 9 (radius: 20)
[08:43:43 -119620.924415] SLOW spr round 10 (radius: 25)
[08:47:34 -119620.924303] Model parameter optimization (eps = 0.100000)

[08:47:41] ML tree search #15, logLikelihood: -119620.812120

[08:47:41 -655074.640579] Initial branch length optimization
[08:47:44 -537880.000616] Model parameter optimization (eps = 10.000000)
[08:48:08 -535679.478322] AUTODETECT spr round 1 (radius: 5)
[08:49:19 -305279.481744] AUTODETECT spr round 2 (radius: 10)
[08:50:31 -202502.068756] AUTODETECT spr round 3 (radius: 15)
[08:51:53 -158278.608161] AUTODETECT spr round 4 (radius: 20)
[08:53:24 -145866.895289] AUTODETECT spr round 5 (radius: 25)
[08:55:09 -143310.584362] SPR radius for FAST iterations: 25 (autodetect)
[08:55:09 -143310.584362] Model parameter optimization (eps = 3.000000)
[08:55:25 -143255.295108] FAST spr round 1 (radius: 25)
[08:56:41 -120763.456803] FAST spr round 2 (radius: 25)
[08:57:47 -119766.912160] FAST spr round 3 (radius: 25)
[08:58:48 -119692.954668] FAST spr round 4 (radius: 25)
[08:59:42 -119692.317224] FAST spr round 5 (radius: 25)
[09:00:35 -119692.316855] Model parameter optimization (eps = 1.000000)
[09:00:50 -119669.729529] SLOW spr round 1 (radius: 5)
[09:02:03 -119639.065142] SLOW spr round 2 (radius: 5)
[09:03:15 -119633.821553] SLOW spr round 3 (radius: 5)
[09:04:24 -119632.877519] SLOW spr round 4 (radius: 5)
[09:05:30 -119632.877219] SLOW spr round 5 (radius: 10)
[09:06:40 -119626.666326] SLOW spr round 6 (radius: 5)
[09:08:07 -119622.462022] SLOW spr round 7 (radius: 5)
[09:09:25 -119622.460445] SLOW spr round 8 (radius: 10)
[09:10:39 -119622.051590] SLOW spr round 9 (radius: 5)
[09:12:04 -119622.051353] SLOW spr round 10 (radius: 10)
[09:13:23 -119621.661012] SLOW spr round 11 (radius: 5)
[09:14:46 -119621.660889] SLOW spr round 12 (radius: 10)
[09:16:01 -119621.660865] SLOW spr round 13 (radius: 15)
[09:17:44 -119621.660845] SLOW spr round 14 (radius: 20)
[09:20:24 -119621.660826] SLOW spr round 15 (radius: 25)
[09:24:04 -119621.660808] Model parameter optimization (eps = 0.100000)

[09:24:11] ML tree search #16, logLikelihood: -119621.447066

[09:24:11 -655510.259240] Initial branch length optimization
[09:24:14 -542477.660502] Model parameter optimization (eps = 10.000000)
[09:24:40 -540247.931917] AUTODETECT spr round 1 (radius: 5)
[09:25:50 -312329.194255] AUTODETECT spr round 2 (radius: 10)
[09:27:02 -214447.288294] AUTODETECT spr round 3 (radius: 15)
[09:28:24 -176954.339505] AUTODETECT spr round 4 (radius: 20)
[09:29:53 -160568.193281] AUTODETECT spr round 5 (radius: 25)
[09:31:39 -145018.928075] SPR radius for FAST iterations: 25 (autodetect)
[09:31:39 -145018.928075] Model parameter optimization (eps = 3.000000)
[09:31:55 -144939.744039] FAST spr round 1 (radius: 25)
[09:33:17 -123192.765150] FAST spr round 2 (radius: 25)
[09:34:25 -119811.780219] FAST spr round 3 (radius: 25)
[09:35:27 -119719.884908] FAST spr round 4 (radius: 25)
[09:36:23 -119681.483934] FAST spr round 5 (radius: 25)
[09:37:14 -119681.482406] Model parameter optimization (eps = 1.000000)
[09:37:30 -119659.202121] SLOW spr round 1 (radius: 5)
[09:38:47 -119624.346236] SLOW spr round 2 (radius: 5)
[09:40:00 -119619.844963] SLOW spr round 3 (radius: 5)
[09:41:10 -119619.844696] SLOW spr round 4 (radius: 10)
[09:42:21 -119613.403527] SLOW spr round 5 (radius: 5)
[09:43:46 -119613.402787] SLOW spr round 6 (radius: 10)
[09:45:03 -119613.017720] SLOW spr round 7 (radius: 5)
[09:46:25 -119611.851821] SLOW spr round 8 (radius: 5)
[09:47:41 -119610.830136] SLOW spr round 9 (radius: 5)
[09:48:53 -119610.829086] SLOW spr round 10 (radius: 10)
[09:50:04 -119607.950076] SLOW spr round 11 (radius: 5)
[09:51:30 -119607.949997] SLOW spr round 12 (radius: 10)
[09:52:47 -119607.949994] SLOW spr round 13 (radius: 15)
[09:54:29 -119607.949992] SLOW spr round 14 (radius: 20)
[09:57:02 -119606.763494] SLOW spr round 15 (radius: 5)
[09:58:35 -119606.763370] SLOW spr round 16 (radius: 10)
[10:00:00 -119606.763368] SLOW spr round 17 (radius: 15)
[10:01:42 -119606.763365] SLOW spr round 18 (radius: 20)
[10:04:15 -119606.763363] SLOW spr round 19 (radius: 25)
[10:07:47 -119606.763361] Model parameter optimization (eps = 0.100000)

[10:07:52] ML tree search #17, logLikelihood: -119606.594221

[10:07:52 -657621.190047] Initial branch length optimization
[10:07:55 -543840.445612] Model parameter optimization (eps = 10.000000)
[10:08:22 -541582.483992] AUTODETECT spr round 1 (radius: 5)
[10:09:33 -290175.687199] AUTODETECT spr round 2 (radius: 10)
[10:10:43 -193855.157571] AUTODETECT spr round 3 (radius: 15)
[10:12:01 -156673.550174] AUTODETECT spr round 4 (radius: 20)
[10:13:25 -139637.404559] AUTODETECT spr round 5 (radius: 25)
[10:15:06 -137711.348112] SPR radius for FAST iterations: 25 (autodetect)
[10:15:06 -137711.348112] Model parameter optimization (eps = 3.000000)
[10:15:22 -137660.526314] FAST spr round 1 (radius: 25)
[10:16:43 -120319.229209] FAST spr round 2 (radius: 25)
[10:17:53 -119752.448616] FAST spr round 3 (radius: 25)
[10:18:52 -119707.150460] FAST spr round 4 (radius: 25)
[10:19:48 -119688.840178] FAST spr round 5 (radius: 25)
[10:20:41 -119688.471652] FAST spr round 6 (radius: 25)
[10:21:34 -119688.471577] Model parameter optimization (eps = 1.000000)
[10:21:48 -119673.904674] SLOW spr round 1 (radius: 5)
[10:23:00 -119630.161555] SLOW spr round 2 (radius: 5)
[10:24:11 -119626.879776] SLOW spr round 3 (radius: 5)
[10:25:20 -119626.879678] SLOW spr round 4 (radius: 10)
[10:26:33 -119619.971877] SLOW spr round 5 (radius: 5)
[10:27:59 -119615.868161] SLOW spr round 6 (radius: 5)
[10:29:14 -119615.868065] SLOW spr round 7 (radius: 10)
[10:30:27 -119615.837159] SLOW spr round 8 (radius: 15)
[10:32:12 -119615.081814] SLOW spr round 9 (radius: 5)
[10:33:43 -119615.081809] SLOW spr round 10 (radius: 10)
[10:35:07 -119614.677014] SLOW spr round 11 (radius: 5)
[10:36:30 -119614.676999] SLOW spr round 12 (radius: 10)
[10:37:46 -119614.117960] SLOW spr round 13 (radius: 5)
[10:39:09 -119614.117957] SLOW spr round 14 (radius: 10)
[10:40:24 -119614.117956] SLOW spr round 15 (radius: 15)
[10:42:10 -119613.401532] SLOW spr round 16 (radius: 5)
[10:43:42 -119613.401517] SLOW spr round 17 (radius: 10)
[10:45:05 -119613.401516] SLOW spr round 18 (radius: 15)
[10:46:49 -119613.401516] SLOW spr round 19 (radius: 20)
[10:49:30 -119613.401515] SLOW spr round 20 (radius: 25)
[10:53:22 -119613.401515] Model parameter optimization (eps = 0.100000)

[10:53:29] ML tree search #18, logLikelihood: -119613.197302

[10:53:29 -655382.834417] Initial branch length optimization
[10:53:32 -536891.117113] Model parameter optimization (eps = 10.000000)
[10:53:54 -534819.926646] AUTODETECT spr round 1 (radius: 5)
[10:55:06 -317937.696848] AUTODETECT spr round 2 (radius: 10)
[10:56:19 -205305.841367] AUTODETECT spr round 3 (radius: 15)
[10:57:41 -162244.016307] AUTODETECT spr round 4 (radius: 20)
[10:59:12 -139769.466478] AUTODETECT spr round 5 (radius: 25)
[11:00:57 -137243.272830] SPR radius for FAST iterations: 25 (autodetect)
[11:00:57 -137243.272830] Model parameter optimization (eps = 3.000000)
[11:01:14 -137168.179111] FAST spr round 1 (radius: 25)
[11:02:35 -120897.700582] FAST spr round 2 (radius: 25)
[11:03:40 -119771.372186] FAST spr round 3 (radius: 25)
[11:04:38 -119695.699656] FAST spr round 4 (radius: 25)
[11:05:33 -119695.698211] Model parameter optimization (eps = 1.000000)
[11:05:48 -119672.384679] SLOW spr round 1 (radius: 5)
[11:07:01 -119643.677983] SLOW spr round 2 (radius: 5)
[11:08:10 -119637.717208] SLOW spr round 3 (radius: 5)
[11:09:21 -119637.310952] SLOW spr round 4 (radius: 5)
[11:10:31 -119636.006785] SLOW spr round 5 (radius: 5)
[11:11:40 -119636.006618] SLOW spr round 6 (radius: 10)
[11:12:56 -119631.911338] SLOW spr round 7 (radius: 5)
[11:14:21 -119631.910500] SLOW spr round 8 (radius: 10)
[11:15:46 -119631.910399] SLOW spr round 9 (radius: 15)
[11:17:32 -119626.155379] SLOW spr round 10 (radius: 5)
[11:19:05 -119624.457584] SLOW spr round 11 (radius: 5)
[11:20:27 -119624.457568] SLOW spr round 12 (radius: 10)
[11:21:42 -119624.457559] SLOW spr round 13 (radius: 15)
[11:23:29 -119624.057743] SLOW spr round 14 (radius: 5)
[11:24:58 -119624.057736] SLOW spr round 15 (radius: 10)
[11:26:21 -119624.057730] SLOW spr round 16 (radius: 15)
[11:28:08 -119624.057724] SLOW spr round 17 (radius: 20)
[11:30:56 -119624.057719] SLOW spr round 18 (radius: 25)
[11:34:37 -119624.057714] Model parameter optimization (eps = 0.100000)

[11:34:43] ML tree search #19, logLikelihood: -119623.892639

[11:34:43 -652712.131405] Initial branch length optimization
[11:34:46 -535506.898031] Model parameter optimization (eps = 10.000000)
[11:35:15 -533226.943842] AUTODETECT spr round 1 (radius: 5)
[11:36:26 -298651.830526] AUTODETECT spr round 2 (radius: 10)
[11:37:39 -198889.803692] AUTODETECT spr round 3 (radius: 15)
[11:39:03 -158834.610089] AUTODETECT spr round 4 (radius: 20)
[11:40:37 -140414.000783] AUTODETECT spr round 5 (radius: 25)
[11:42:18 -138342.238402] SPR radius for FAST iterations: 25 (autodetect)
[11:42:18 -138342.238402] Model parameter optimization (eps = 3.000000)
[11:42:34 -138275.141906] FAST spr round 1 (radius: 25)
[11:43:50 -120339.758370] FAST spr round 2 (radius: 25)
[11:44:57 -119746.057025] FAST spr round 3 (radius: 25)
[11:45:57 -119693.363658] FAST spr round 4 (radius: 25)
[11:46:54 -119688.083990] FAST spr round 5 (radius: 25)
[11:47:48 -119688.071952] Model parameter optimization (eps = 1.000000)
[11:48:02 -119665.388411] SLOW spr round 1 (radius: 5)
[11:49:16 -119626.432043] SLOW spr round 2 (radius: 5)
[11:50:26 -119622.994154] SLOW spr round 3 (radius: 5)
[11:51:35 -119622.994133] SLOW spr round 4 (radius: 10)
[11:52:44 -119616.479365] SLOW spr round 5 (radius: 5)
[11:54:09 -119615.328490] SLOW spr round 6 (radius: 5)
[11:55:26 -119615.328474] SLOW spr round 7 (radius: 10)
[11:56:40 -119615.328472] SLOW spr round 8 (radius: 15)
[11:58:29 -119613.717922] SLOW spr round 9 (radius: 5)
[11:59:59 -119613.717234] SLOW spr round 10 (radius: 10)
[12:01:22 -119613.717233] SLOW spr round 11 (radius: 15)
[12:03:06 -119613.717233] SLOW spr round 12 (radius: 20)
[12:05:47 -119613.717233] SLOW spr round 13 (radius: 25)
[12:09:31 -119613.717232] Model parameter optimization (eps = 0.100000)

[12:09:38] ML tree search #20, logLikelihood: -119613.378376


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.070512,0.269083) (0.136373,0.331434) (0.429554,0.803414) (0.363561,1.624810) 
   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: -119606.594221

AIC score: 242351.188442 / AICc score: 5169011.188442 / BIC score: 249207.563084
Free parameters (model + branch lengths): 1569

WARNING: Number of free parameters (K=1569) is larger than alignment size (n=584).
         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/Q6UWY5/3_mltree/Q6UWY5.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/3_mltree/Q6UWY5.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/3_mltree/Q6UWY5.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6UWY5/3_mltree/Q6UWY5.raxml.log

Analysis started: 01-Jul-2021 01:53:08 / finished: 01-Jul-2021 14:02:46

Elapsed time: 43778.383 seconds

Consumed energy: 4081.456 Wh (= 20 km in an electric car, or 102 km with an e-scooter!)