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 05-Jul-2021 07:39:56 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/2_msa/Q9GZV3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/3_mltree/Q9GZV3 --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/Q9GZV3/2_msa/Q9GZV3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 457 taxa and 619 sites

WARNING: Sequences tr_B4QTZ8_B4QTZ8_DROSI_7240 and sp_Q9VE46_SC5A7_DROME_7227 are exactly identical!
WARNING: Sequences tr_A0A158NA23_A0A158NA23_ATTCE_12957 and tr_A0A195BJ16_A0A195BJ16_9HYME_520822 are exactly identical!
WARNING: Sequences tr_H0ZHD3_H0ZHD3_TAEGU_59729 and tr_A0A218V503_A0A218V503_9PASE_299123 are exactly identical!
WARNING: Sequences tr_G0NTE3_G0NTE3_CAEBE_135651 and tr_G0PJH5_G0PJH5_CAEBE_135651 are exactly identical!
WARNING: Sequences tr_A0A096MSA7_A0A096MSA7_PAPAN_9555 and tr_A0A2K6D761_A0A2K6D761_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A0V0X0J4_A0A0V0X0J4_9BILA_92179 and tr_A0A0V0ZFY2_A0A0V0ZFY2_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V0X0J4_A0A0V0X0J4_9BILA_92179 and tr_A0A0V1P7D9_A0A0V1P7D9_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1MUG7_A0A0V1MUG7_9BILA_268474 and tr_A0A0V1HCW4_A0A0V1HCW4_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A2K5KQL0_A0A2K5KQL0_CERAT_9531 and tr_A0A2K6AJG3_A0A2K6AJG3_MANLE_9568 are exactly identical!
WARNING: Duplicate sequences found: 9

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/Q9GZV3/3_mltree/Q9GZV3.raxml.reduced.phy

Alignment comprises 1 partitions and 619 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 619 / 619
Gaps: 20.91 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/3_mltree/Q9GZV3.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 457 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 89 / 7120
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -350728.572893] Initial branch length optimization
[00:00:01 -290309.392451] Model parameter optimization (eps = 10.000000)
[00:00:19 -289539.381449] AUTODETECT spr round 1 (radius: 5)
[00:00:47 -214201.545824] AUTODETECT spr round 2 (radius: 10)
[00:01:18 -171423.061879] AUTODETECT spr round 3 (radius: 15)
[00:01:55 -143858.449721] AUTODETECT spr round 4 (radius: 20)
[00:02:42 -140598.403691] AUTODETECT spr round 5 (radius: 25)
[00:03:43 -140362.956189] SPR radius for FAST iterations: 25 (autodetect)
[00:03:43 -140362.956189] Model parameter optimization (eps = 3.000000)
[00:03:57 -140019.798810] FAST spr round 1 (radius: 25)
[00:04:34 -128595.795367] FAST spr round 2 (radius: 25)
[00:05:05 -128093.870625] FAST spr round 3 (radius: 25)
[00:05:32 -128048.274681] FAST spr round 4 (radius: 25)
[00:05:58 -128034.973476] FAST spr round 5 (radius: 25)
[00:06:21 -128034.421213] FAST spr round 6 (radius: 25)
[00:06:43 -128034.418581] Model parameter optimization (eps = 1.000000)
[00:06:53 -128015.386560] SLOW spr round 1 (radius: 5)
[00:07:30 -127986.378069] SLOW spr round 2 (radius: 5)
[00:08:03 -127984.971663] SLOW spr round 3 (radius: 5)
[00:08:37 -127982.594651] SLOW spr round 4 (radius: 5)
[00:09:09 -127982.594609] SLOW spr round 5 (radius: 10)
[00:09:47 -127978.549874] SLOW spr round 6 (radius: 5)
[00:10:34 -127974.318655] SLOW spr round 7 (radius: 5)
[00:11:12 -127973.048350] SLOW spr round 8 (radius: 5)
[00:11:48 -127973.047698] SLOW spr round 9 (radius: 10)
[00:12:25 -127972.845641] SLOW spr round 10 (radius: 5)
[00:13:11 -127972.777952] SLOW spr round 11 (radius: 10)
[00:13:54 -127972.775843] SLOW spr round 12 (radius: 15)
[00:14:57 -127972.775161] SLOW spr round 13 (radius: 20)
[00:16:29 -127972.774945] SLOW spr round 14 (radius: 25)
[00:18:11 -127972.774875] Model parameter optimization (eps = 0.100000)

[00:18:18] ML tree search #1, logLikelihood: -127971.052813

[00:18:18 -354547.672212] Initial branch length optimization
[00:18:19 -292342.362847] Model parameter optimization (eps = 10.000000)
[00:18:34 -291612.592273] AUTODETECT spr round 1 (radius: 5)
[00:19:04 -221613.736213] AUTODETECT spr round 2 (radius: 10)
[00:19:36 -175598.626589] AUTODETECT spr round 3 (radius: 15)
[00:20:14 -161505.721859] AUTODETECT spr round 4 (radius: 20)
[00:20:58 -143627.414805] AUTODETECT spr round 5 (radius: 25)
[00:21:46 -142851.944235] SPR radius for FAST iterations: 25 (autodetect)
[00:21:46 -142851.944235] Model parameter optimization (eps = 3.000000)
[00:22:00 -142423.986032] FAST spr round 1 (radius: 25)
[00:22:36 -128497.357599] FAST spr round 2 (radius: 25)
[00:23:06 -128060.243678] FAST spr round 3 (radius: 25)
[00:23:32 -128039.634443] FAST spr round 4 (radius: 25)
[00:23:55 -128037.710342] FAST spr round 5 (radius: 25)
[00:24:17 -128037.709482] Model parameter optimization (eps = 1.000000)
[00:24:26 -128031.210905] SLOW spr round 1 (radius: 5)
[00:25:02 -127997.689851] SLOW spr round 2 (radius: 5)
[00:25:37 -127987.839060] SLOW spr round 3 (radius: 5)
[00:26:11 -127987.503508] SLOW spr round 4 (radius: 5)
[00:26:46 -127977.611874] SLOW spr round 5 (radius: 5)
[00:27:19 -127976.738967] SLOW spr round 6 (radius: 5)
[00:27:53 -127976.738742] SLOW spr round 7 (radius: 10)
[00:28:31 -127974.251006] SLOW spr round 8 (radius: 5)
[00:29:18 -127973.998227] SLOW spr round 9 (radius: 5)
[00:29:58 -127973.997996] SLOW spr round 10 (radius: 10)
[00:30:38 -127973.997911] SLOW spr round 11 (radius: 15)
[00:31:55 -127973.832673] SLOW spr round 12 (radius: 5)
[00:32:44 -127973.825784] SLOW spr round 13 (radius: 10)
[00:33:32 -127973.825402] SLOW spr round 14 (radius: 15)
[00:34:43 -127973.825376] SLOW spr round 15 (radius: 20)
[00:36:30 -127973.825372] SLOW spr round 16 (radius: 25)
[00:38:14 -127973.825371] Model parameter optimization (eps = 0.100000)

[00:38:19] ML tree search #2, logLikelihood: -127973.554188

[00:38:19 -351880.535448] Initial branch length optimization
[00:38:21 -291137.804821] Model parameter optimization (eps = 10.000000)
[00:38:38 -290361.772177] AUTODETECT spr round 1 (radius: 5)
[00:39:05 -221197.627713] AUTODETECT spr round 2 (radius: 10)
[00:39:37 -158099.392337] AUTODETECT spr round 3 (radius: 15)
[00:40:15 -140121.625838] AUTODETECT spr round 4 (radius: 20)
[00:41:05 -138389.945703] AUTODETECT spr round 5 (radius: 25)
[00:42:03 -138283.363102] SPR radius for FAST iterations: 25 (autodetect)
[00:42:03 -138283.363102] Model parameter optimization (eps = 3.000000)
[00:42:17 -137894.465781] FAST spr round 1 (radius: 25)
[00:42:55 -128540.177250] FAST spr round 2 (radius: 25)
[00:43:27 -128054.270206] FAST spr round 3 (radius: 25)
[00:43:52 -128024.013955] FAST spr round 4 (radius: 25)
[00:44:15 -128023.971258] Model parameter optimization (eps = 1.000000)
[00:44:22 -128015.988000] SLOW spr round 1 (radius: 5)
[00:44:58 -127977.484988] SLOW spr round 2 (radius: 5)
[00:45:33 -127971.236806] SLOW spr round 3 (radius: 5)
[00:46:07 -127969.227812] SLOW spr round 4 (radius: 5)
[00:46:39 -127969.216422] SLOW spr round 5 (radius: 10)
[00:47:16 -127969.168044] SLOW spr round 6 (radius: 15)
[00:48:30 -127967.566761] SLOW spr round 7 (radius: 5)
[00:49:19 -127965.990275] SLOW spr round 8 (radius: 5)
[00:49:59 -127965.989529] SLOW spr round 9 (radius: 10)
[00:50:39 -127965.894512] SLOW spr round 10 (radius: 15)
[00:51:50 -127965.742550] SLOW spr round 11 (radius: 5)
[00:52:40 -127965.198114] SLOW spr round 12 (radius: 5)
[00:53:21 -127965.198111] SLOW spr round 13 (radius: 10)
[00:54:01 -127965.198111] SLOW spr round 14 (radius: 15)
[00:55:14 -127965.198111] SLOW spr round 15 (radius: 20)
[00:56:55 -127965.198111] SLOW spr round 16 (radius: 25)
[00:58:40 -127965.198111] Model parameter optimization (eps = 0.100000)

[00:58:46] ML tree search #3, logLikelihood: -127964.930979

[00:58:46 -351845.783348] Initial branch length optimization
[00:58:48 -291202.430642] Model parameter optimization (eps = 10.000000)
[00:59:01 -290427.203672] AUTODETECT spr round 1 (radius: 5)
[00:59:31 -218760.998266] AUTODETECT spr round 2 (radius: 10)
[01:00:03 -161233.551011] AUTODETECT spr round 3 (radius: 15)
[01:00:40 -143415.866969] AUTODETECT spr round 4 (radius: 20)
[01:01:28 -141992.722510] AUTODETECT spr round 5 (radius: 25)
[01:02:23 -141903.328519] SPR radius for FAST iterations: 25 (autodetect)
[01:02:23 -141903.328519] Model parameter optimization (eps = 3.000000)
[01:02:37 -141512.417650] FAST spr round 1 (radius: 25)
[01:03:16 -128673.732715] FAST spr round 2 (radius: 25)
[01:03:47 -128060.155139] FAST spr round 3 (radius: 25)
[01:04:13 -128016.643231] FAST spr round 4 (radius: 25)
[01:04:37 -128014.355342] FAST spr round 5 (radius: 25)
[01:05:00 -128014.355258] Model parameter optimization (eps = 1.000000)
[01:05:18 -128002.830876] SLOW spr round 1 (radius: 5)
[01:06:30 -127972.040718] SLOW spr round 2 (radius: 5)
[01:07:39 -127967.561727] SLOW spr round 3 (radius: 5)
[01:08:44 -127967.499074] SLOW spr round 4 (radius: 10)
[01:09:57 -127967.262485] SLOW spr round 5 (radius: 5)
[01:11:27 -127967.260318] SLOW spr round 6 (radius: 10)
[01:12:52 -127967.259251] SLOW spr round 7 (radius: 15)
[01:15:11 -127967.013406] SLOW spr round 8 (radius: 5)
[01:16:09 -127966.707880] SLOW spr round 9 (radius: 5)
[01:16:50 -127966.706940] SLOW spr round 10 (radius: 10)
[01:17:30 -127965.619112] SLOW spr round 11 (radius: 5)
[01:18:16 -127965.618237] SLOW spr round 12 (radius: 10)
[01:18:59 -127965.617357] SLOW spr round 13 (radius: 15)
[01:20:10 -127965.603278] SLOW spr round 14 (radius: 20)
[01:21:50 -127965.603277] SLOW spr round 15 (radius: 25)
[01:23:33 -127965.603277] Model parameter optimization (eps = 0.100000)

[01:23:38] ML tree search #4, logLikelihood: -127965.496238

[01:23:38 -351863.938781] Initial branch length optimization
[01:23:40 -291938.972560] Model parameter optimization (eps = 10.000000)
[01:23:55 -291171.792657] AUTODETECT spr round 1 (radius: 5)
[01:24:24 -219134.973194] AUTODETECT spr round 2 (radius: 10)
[01:24:57 -166159.721896] AUTODETECT spr round 3 (radius: 15)
[01:25:40 -145355.883400] AUTODETECT spr round 4 (radius: 20)
[01:26:34 -143384.394151] AUTODETECT spr round 5 (radius: 25)
[01:27:40 -142714.503115] SPR radius for FAST iterations: 25 (autodetect)
[01:27:40 -142714.503115] Model parameter optimization (eps = 3.000000)
[01:27:53 -142350.671009] FAST spr round 1 (radius: 25)
[01:28:34 -128401.094923] FAST spr round 2 (radius: 25)
[01:29:06 -128081.439210] FAST spr round 3 (radius: 25)
[01:29:34 -128056.941080] FAST spr round 4 (radius: 25)
[01:29:58 -128047.942733] FAST spr round 5 (radius: 25)
[01:30:21 -128047.939941] Model parameter optimization (eps = 1.000000)
[01:30:30 -128025.149325] SLOW spr round 1 (radius: 5)
[01:31:06 -127991.992366] SLOW spr round 2 (radius: 5)
[01:31:41 -127972.875641] SLOW spr round 3 (radius: 5)
[01:32:15 -127970.536395] SLOW spr round 4 (radius: 5)
[01:32:48 -127970.533340] SLOW spr round 5 (radius: 10)
[01:33:25 -127965.420412] SLOW spr round 6 (radius: 5)
[01:34:11 -127964.474260] SLOW spr round 7 (radius: 5)
[01:34:50 -127964.473166] SLOW spr round 8 (radius: 10)
[01:35:28 -127964.472992] SLOW spr round 9 (radius: 15)
[01:36:38 -127964.276080] SLOW spr round 10 (radius: 5)
[01:37:27 -127964.188973] SLOW spr round 11 (radius: 10)
[01:38:13 -127963.900022] SLOW spr round 12 (radius: 5)
[01:38:58 -127963.891111] SLOW spr round 13 (radius: 10)
[01:39:40 -127963.891099] SLOW spr round 14 (radius: 15)
[01:40:47 -127963.891098] SLOW spr round 15 (radius: 20)
[01:42:26 -127963.891098] SLOW spr round 16 (radius: 25)
[01:44:11 -127963.891098] Model parameter optimization (eps = 0.100000)

[01:44:15] ML tree search #5, logLikelihood: -127963.772618

[01:44:15 -347959.620359] Initial branch length optimization
[01:44:16 -288960.625604] Model parameter optimization (eps = 10.000000)
[01:44:29 -288230.839574] AUTODETECT spr round 1 (radius: 5)
[01:44:57 -222027.050927] AUTODETECT spr round 2 (radius: 10)
[01:45:27 -173205.732973] AUTODETECT spr round 3 (radius: 15)
[01:46:04 -142525.590361] AUTODETECT spr round 4 (radius: 20)
[01:46:50 -139331.679762] AUTODETECT spr round 5 (radius: 25)
[01:47:37 -137533.435331] SPR radius for FAST iterations: 25 (autodetect)
[01:47:37 -137533.435331] Model parameter optimization (eps = 3.000000)
[01:47:50 -137176.983709] FAST spr round 1 (radius: 25)
[01:48:24 -128400.980818] FAST spr round 2 (radius: 25)
[01:48:54 -128075.979979] FAST spr round 3 (radius: 25)
[01:49:22 -128006.387858] FAST spr round 4 (radius: 25)
[01:49:46 -127998.932074] FAST spr round 5 (radius: 25)
[01:50:09 -127998.897384] Model parameter optimization (eps = 1.000000)
[01:50:18 -127994.059935] SLOW spr round 1 (radius: 5)
[01:50:54 -127965.897184] SLOW spr round 2 (radius: 5)
[01:51:29 -127962.873314] SLOW spr round 3 (radius: 5)
[01:52:02 -127962.871600] SLOW spr round 4 (radius: 10)
[01:52:41 -127961.327187] SLOW spr round 5 (radius: 5)
[01:53:27 -127960.669627] SLOW spr round 6 (radius: 5)
[01:54:07 -127960.668561] SLOW spr round 7 (radius: 10)
[01:54:46 -127960.668400] SLOW spr round 8 (radius: 15)
[01:55:57 -127960.668379] SLOW spr round 9 (radius: 20)
[01:57:38 -127960.668377] SLOW spr round 10 (radius: 25)
[01:59:21 -127960.668376] Model parameter optimization (eps = 0.100000)

[01:59:26] ML tree search #6, logLikelihood: -127960.247009

[01:59:26 -350139.659973] Initial branch length optimization
[01:59:28 -290846.359195] Model parameter optimization (eps = 10.000000)
[01:59:41 -290152.113151] AUTODETECT spr round 1 (radius: 5)
[02:00:09 -221108.065722] AUTODETECT spr round 2 (radius: 10)
[02:00:41 -168612.687530] AUTODETECT spr round 3 (radius: 15)
[02:01:19 -146532.619439] AUTODETECT spr round 4 (radius: 20)
[02:02:06 -143684.708500] AUTODETECT spr round 5 (radius: 25)
[02:02:57 -142935.691750] SPR radius for FAST iterations: 25 (autodetect)
[02:02:57 -142935.691750] Model parameter optimization (eps = 3.000000)
[02:03:10 -142475.889049] FAST spr round 1 (radius: 25)
[02:03:48 -128606.937149] FAST spr round 2 (radius: 25)
[02:04:19 -128029.292542] FAST spr round 3 (radius: 25)
[02:04:45 -128016.129071] FAST spr round 4 (radius: 25)
[02:05:09 -128016.055226] Model parameter optimization (eps = 1.000000)
[02:05:17 -128008.543539] SLOW spr round 1 (radius: 5)
[02:05:52 -127978.817504] SLOW spr round 2 (radius: 5)
[02:06:28 -127974.739495] SLOW spr round 3 (radius: 5)
[02:07:02 -127973.967892] SLOW spr round 4 (radius: 5)
[02:07:35 -127973.967827] SLOW spr round 5 (radius: 10)
[02:08:12 -127973.796468] SLOW spr round 6 (radius: 5)
[02:08:57 -127973.795800] SLOW spr round 7 (radius: 10)
[02:09:39 -127973.795730] SLOW spr round 8 (radius: 15)
[02:10:47 -127973.389923] SLOW spr round 9 (radius: 5)
[02:11:36 -127973.324243] SLOW spr round 10 (radius: 10)
[02:12:22 -127973.323881] SLOW spr round 11 (radius: 15)
[02:13:29 -127973.323844] SLOW spr round 12 (radius: 20)
[02:15:09 -127973.323841] SLOW spr round 13 (radius: 25)
[02:16:58 -127973.323840] Model parameter optimization (eps = 0.100000)

[02:17:03] ML tree search #7, logLikelihood: -127973.167956

[02:17:03 -349932.959857] Initial branch length optimization
[02:17:05 -288879.114432] Model parameter optimization (eps = 10.000000)
[02:17:21 -288167.224249] AUTODETECT spr round 1 (radius: 5)
[02:17:51 -223986.362751] AUTODETECT spr round 2 (radius: 10)
[02:18:24 -168292.935679] AUTODETECT spr round 3 (radius: 15)
[02:19:05 -144177.865762] AUTODETECT spr round 4 (radius: 20)
[02:20:05 -140364.479724] AUTODETECT spr round 5 (radius: 25)
[02:21:04 -139217.993842] SPR radius for FAST iterations: 25 (autodetect)
[02:21:04 -139217.993842] Model parameter optimization (eps = 3.000000)
[02:21:20 -138800.580440] FAST spr round 1 (radius: 25)
[02:22:01 -128495.667549] FAST spr round 2 (radius: 25)
[02:22:33 -128051.925561] FAST spr round 3 (radius: 25)
[02:23:00 -128039.245015] FAST spr round 4 (radius: 25)
[02:23:24 -128037.282822] FAST spr round 5 (radius: 25)
[02:23:47 -128037.281535] Model parameter optimization (eps = 1.000000)
[02:23:55 -128026.970249] SLOW spr round 1 (radius: 5)
[02:24:32 -127999.983031] SLOW spr round 2 (radius: 5)
[02:25:07 -127996.596584] SLOW spr round 3 (radius: 5)
[02:25:40 -127996.578419] SLOW spr round 4 (radius: 10)
[02:26:19 -127991.378648] SLOW spr round 5 (radius: 5)
[02:27:06 -127990.143735] SLOW spr round 6 (radius: 5)
[02:27:45 -127990.142786] SLOW spr round 7 (radius: 10)
[02:28:26 -127988.357126] SLOW spr round 8 (radius: 5)
[02:29:13 -127974.155910] SLOW spr round 9 (radius: 5)
[02:29:53 -127971.441273] SLOW spr round 10 (radius: 5)
[02:30:29 -127971.439844] SLOW spr round 11 (radius: 10)
[02:31:08 -127970.018554] SLOW spr round 12 (radius: 5)
[02:31:54 -127969.641305] SLOW spr round 13 (radius: 5)
[02:32:34 -127969.604293] SLOW spr round 14 (radius: 10)
[02:33:15 -127968.547022] SLOW spr round 15 (radius: 5)
[02:34:01 -127968.439151] SLOW spr round 16 (radius: 5)
[02:34:40 -127968.437192] SLOW spr round 17 (radius: 10)
[02:35:20 -127968.437107] SLOW spr round 18 (radius: 15)
[02:36:33 -127968.437103] SLOW spr round 19 (radius: 20)
[02:38:16 -127968.437103] SLOW spr round 20 (radius: 25)
[02:40:00 -127968.437103] Model parameter optimization (eps = 0.100000)

[02:40:06] ML tree search #8, logLikelihood: -127968.075625

[02:40:06 -348028.038171] Initial branch length optimization
[02:40:07 -289229.613992] Model parameter optimization (eps = 10.000000)
[02:40:20 -288444.283196] AUTODETECT spr round 1 (radius: 5)
[02:40:49 -215824.246578] AUTODETECT spr round 2 (radius: 10)
[02:41:20 -170834.074764] AUTODETECT spr round 3 (radius: 15)
[02:41:58 -146821.182550] AUTODETECT spr round 4 (radius: 20)
[02:42:45 -142614.701820] AUTODETECT spr round 5 (radius: 25)
[02:43:31 -142230.257657] SPR radius for FAST iterations: 25 (autodetect)
[02:43:31 -142230.257657] Model parameter optimization (eps = 3.000000)
[02:43:45 -141813.100562] FAST spr round 1 (radius: 25)
[02:44:24 -128639.825912] FAST spr round 2 (radius: 25)
[02:44:53 -128030.890270] FAST spr round 3 (radius: 25)
[02:45:20 -128009.006813] FAST spr round 4 (radius: 25)
[02:45:45 -127998.975786] FAST spr round 5 (radius: 25)
[02:46:07 -127998.975370] Model parameter optimization (eps = 1.000000)
[02:46:13 -127994.668411] SLOW spr round 1 (radius: 5)
[02:46:48 -127973.726185] SLOW spr round 2 (radius: 5)
[02:47:24 -127967.404133] SLOW spr round 3 (radius: 5)
[02:47:56 -127967.403482] SLOW spr round 4 (radius: 10)
[02:48:33 -127967.135568] SLOW spr round 5 (radius: 5)
[02:49:19 -127963.255679] SLOW spr round 6 (radius: 5)
[02:49:57 -127962.900749] SLOW spr round 7 (radius: 5)
[02:50:32 -127962.897980] SLOW spr round 8 (radius: 10)
[02:51:09 -127962.897684] SLOW spr round 9 (radius: 15)
[02:52:21 -127962.897652] SLOW spr round 10 (radius: 20)
[02:54:00 -127962.897649] SLOW spr round 11 (radius: 25)
[02:55:45 -127962.897649] Model parameter optimization (eps = 0.100000)

[02:55:48] ML tree search #9, logLikelihood: -127962.845068

[02:55:48 -351919.030899] Initial branch length optimization
[02:55:50 -291565.235497] Model parameter optimization (eps = 10.000000)
[02:56:03 -290800.467173] AUTODETECT spr round 1 (radius: 5)
[02:56:33 -218443.347900] AUTODETECT spr round 2 (radius: 10)
[02:57:05 -167561.081053] AUTODETECT spr round 3 (radius: 15)
[02:57:49 -144910.286687] AUTODETECT spr round 4 (radius: 20)
[02:58:38 -140451.441660] AUTODETECT spr round 5 (radius: 25)
[02:59:36 -140298.587628] SPR radius for FAST iterations: 25 (autodetect)
[02:59:37 -140298.587628] Model parameter optimization (eps = 3.000000)
[02:59:50 -139910.039070] FAST spr round 1 (radius: 25)
[03:00:27 -128491.988022] FAST spr round 2 (radius: 25)
[03:00:58 -128054.984442] FAST spr round 3 (radius: 25)
[03:01:25 -128021.547756] FAST spr round 4 (radius: 25)
[03:01:47 -128020.710514] FAST spr round 5 (radius: 25)
[03:02:09 -128020.710409] Model parameter optimization (eps = 1.000000)
[03:02:16 -128017.926870] SLOW spr round 1 (radius: 5)
[03:02:51 -127988.485366] SLOW spr round 2 (radius: 5)
[03:03:25 -127985.058988] SLOW spr round 3 (radius: 5)
[03:03:57 -127985.058795] SLOW spr round 4 (radius: 10)
[03:04:34 -127983.303133] SLOW spr round 5 (radius: 5)
[03:05:19 -127980.288879] SLOW spr round 6 (radius: 5)
[03:05:58 -127978.705839] SLOW spr round 7 (radius: 5)
[03:06:32 -127978.705482] SLOW spr round 8 (radius: 10)
[03:07:09 -127977.721510] SLOW spr round 9 (radius: 5)
[03:07:54 -127977.721282] SLOW spr round 10 (radius: 10)
[03:08:37 -127977.721259] SLOW spr round 11 (radius: 15)
[03:09:47 -127976.806394] SLOW spr round 12 (radius: 5)
[03:10:35 -127976.802008] SLOW spr round 13 (radius: 10)
[03:11:22 -127975.757616] SLOW spr round 14 (radius: 5)
[03:12:06 -127975.663940] SLOW spr round 15 (radius: 10)
[03:12:47 -127975.662348] SLOW spr round 16 (radius: 15)
[03:13:56 -127975.662286] SLOW spr round 17 (radius: 20)
[03:15:38 -127975.662283] SLOW spr round 18 (radius: 25)
[03:17:20 -127975.662283] Model parameter optimization (eps = 0.100000)

[03:17:23] ML tree search #10, logLikelihood: -127975.613491

[03:17:23 -350989.000105] Initial branch length optimization
[03:17:25 -290758.620250] Model parameter optimization (eps = 10.000000)
[03:17:44 -289999.783596] AUTODETECT spr round 1 (radius: 5)
[03:18:13 -222493.858394] AUTODETECT spr round 2 (radius: 10)
[03:18:43 -178966.997042] AUTODETECT spr round 3 (radius: 15)
[03:19:25 -144521.753824] AUTODETECT spr round 4 (radius: 20)
[03:20:13 -141897.131830] AUTODETECT spr round 5 (radius: 25)
[03:21:09 -141590.053844] SPR radius for FAST iterations: 25 (autodetect)
[03:21:09 -141590.053844] Model parameter optimization (eps = 3.000000)
[03:21:24 -141197.218584] FAST spr round 1 (radius: 25)
[03:22:04 -128827.049077] FAST spr round 2 (radius: 25)
[03:22:35 -128072.902087] FAST spr round 3 (radius: 25)
[03:23:00 -128046.962766] FAST spr round 4 (radius: 25)
[03:23:24 -128035.552692] FAST spr round 5 (radius: 25)
[03:23:46 -128035.550915] Model parameter optimization (eps = 1.000000)
[03:23:55 -128019.745872] SLOW spr round 1 (radius: 5)
[03:24:32 -127991.965809] SLOW spr round 2 (radius: 5)
[03:25:07 -127980.012085] SLOW spr round 3 (radius: 5)
[03:25:40 -127980.002482] SLOW spr round 4 (radius: 10)
[03:26:19 -127979.188818] SLOW spr round 5 (radius: 5)
[03:27:06 -127977.775777] SLOW spr round 6 (radius: 5)
[03:27:46 -127977.275914] SLOW spr round 7 (radius: 5)
[03:28:22 -127977.275161] SLOW spr round 8 (radius: 10)
[03:29:01 -127975.254633] SLOW spr round 9 (radius: 5)
[03:29:47 -127975.252810] SLOW spr round 10 (radius: 10)
[03:30:31 -127975.126690] SLOW spr round 11 (radius: 5)
[03:31:17 -127974.047748] SLOW spr round 12 (radius: 5)
[03:31:56 -127974.047675] SLOW spr round 13 (radius: 10)
[03:32:35 -127974.047672] SLOW spr round 14 (radius: 15)
[03:33:46 -127974.047672] SLOW spr round 15 (radius: 20)
[03:35:27 -127974.047672] SLOW spr round 16 (radius: 25)
[03:37:12 -127974.047671] Model parameter optimization (eps = 0.100000)

[03:37:15] ML tree search #11, logLikelihood: -127973.982824

[03:37:15 -352118.979145] Initial branch length optimization
[03:37:16 -290420.715288] Model parameter optimization (eps = 10.000000)
[03:37:32 -289677.355010] AUTODETECT spr round 1 (radius: 5)
[03:38:02 -216969.228478] AUTODETECT spr round 2 (radius: 10)
[03:38:35 -163405.290886] AUTODETECT spr round 3 (radius: 15)
[03:39:10 -144882.418711] AUTODETECT spr round 4 (radius: 20)
[03:39:58 -142405.284698] AUTODETECT spr round 5 (radius: 25)
[03:40:48 -142286.185468] SPR radius for FAST iterations: 25 (autodetect)
[03:40:48 -142286.185468] Model parameter optimization (eps = 3.000000)
[03:41:06 -141917.204068] FAST spr round 1 (radius: 25)
[03:41:44 -128564.118997] FAST spr round 2 (radius: 25)
[03:42:17 -128054.183900] FAST spr round 3 (radius: 25)
[03:42:43 -128017.284878] FAST spr round 4 (radius: 25)
[03:43:07 -128015.439044] FAST spr round 5 (radius: 25)
[03:43:29 -128015.437878] Model parameter optimization (eps = 1.000000)
[03:43:37 -128012.119718] SLOW spr round 1 (radius: 5)
[03:44:13 -127985.026602] SLOW spr round 2 (radius: 5)
[03:44:46 -127985.026082] SLOW spr round 3 (radius: 10)
[03:45:25 -127983.030884] SLOW spr round 4 (radius: 5)
[03:46:11 -127980.614720] SLOW spr round 5 (radius: 5)
[03:46:50 -127980.612606] SLOW spr round 6 (radius: 10)
[03:47:30 -127980.334586] SLOW spr round 7 (radius: 5)
[03:48:17 -127976.953626] SLOW spr round 8 (radius: 5)
[03:48:57 -127973.389827] SLOW spr round 9 (radius: 5)
[03:49:35 -127971.628569] SLOW spr round 10 (radius: 5)
[03:50:10 -127971.316934] SLOW spr round 11 (radius: 5)
[03:50:43 -127971.316664] SLOW spr round 12 (radius: 10)
[03:51:21 -127971.316645] SLOW spr round 13 (radius: 15)
[03:52:39 -127971.121871] SLOW spr round 14 (radius: 5)
[03:53:28 -127970.579916] SLOW spr round 15 (radius: 5)
[03:54:10 -127966.389016] SLOW spr round 16 (radius: 5)
[03:54:46 -127966.387849] SLOW spr round 17 (radius: 10)
[03:55:25 -127965.051015] SLOW spr round 18 (radius: 5)
[03:56:11 -127965.046511] SLOW spr round 19 (radius: 10)
[03:56:55 -127965.045820] SLOW spr round 20 (radius: 15)
[03:58:09 -127965.045711] SLOW spr round 21 (radius: 20)
[03:59:55 -127965.045694] SLOW spr round 22 (radius: 25)
[04:01:35 -127965.045690] Model parameter optimization (eps = 0.100000)

[04:01:40] ML tree search #12, logLikelihood: -127964.744094

[04:01:40 -352916.273275] Initial branch length optimization
[04:01:41 -291818.917640] Model parameter optimization (eps = 10.000000)
[04:01:57 -291048.843120] AUTODETECT spr round 1 (radius: 5)
[04:02:26 -227491.896475] AUTODETECT spr round 2 (radius: 10)
[04:02:59 -173058.262458] AUTODETECT spr round 3 (radius: 15)
[04:03:38 -142800.203060] AUTODETECT spr round 4 (radius: 20)
[04:04:24 -140792.495451] AUTODETECT spr round 5 (radius: 25)
[04:05:15 -140784.733382] SPR radius for FAST iterations: 25 (autodetect)
[04:05:15 -140784.733382] Model parameter optimization (eps = 3.000000)
[04:05:27 -140326.962473] FAST spr round 1 (radius: 25)
[04:06:05 -128440.198513] FAST spr round 2 (radius: 25)
[04:06:35 -128052.621342] FAST spr round 3 (radius: 25)
[04:07:02 -128005.826079] FAST spr round 4 (radius: 25)
[04:07:25 -128001.797597] FAST spr round 5 (radius: 25)
[04:07:48 -128001.796272] Model parameter optimization (eps = 1.000000)
[04:07:55 -127997.938529] SLOW spr round 1 (radius: 5)
[04:08:31 -127977.065486] SLOW spr round 2 (radius: 5)
[04:09:05 -127967.773260] SLOW spr round 3 (radius: 5)
[04:09:39 -127965.795607] SLOW spr round 4 (radius: 5)
[04:10:12 -127965.794479] SLOW spr round 5 (radius: 10)
[04:10:50 -127965.517210] SLOW spr round 6 (radius: 5)
[04:11:37 -127964.803045] SLOW spr round 7 (radius: 5)
[04:12:17 -127964.800671] SLOW spr round 8 (radius: 10)
[04:12:56 -127964.697729] SLOW spr round 9 (radius: 5)
[04:13:42 -127964.697210] SLOW spr round 10 (radius: 10)
[04:14:26 -127964.696949] SLOW spr round 11 (radius: 15)
[04:15:34 -127964.696810] SLOW spr round 12 (radius: 20)
[04:17:14 -127964.696734] SLOW spr round 13 (radius: 25)
[04:18:59 -127964.696694] Model parameter optimization (eps = 0.100000)

[04:19:04] ML tree search #13, logLikelihood: -127964.366570

[04:19:04 -350172.317581] Initial branch length optimization
[04:19:06 -289604.248911] Model parameter optimization (eps = 10.000000)
[04:19:22 -288869.906916] AUTODETECT spr round 1 (radius: 5)
[04:19:51 -218258.718213] AUTODETECT spr round 2 (radius: 10)
[04:20:24 -177207.899956] AUTODETECT spr round 3 (radius: 15)
[04:21:02 -151946.860768] AUTODETECT spr round 4 (radius: 20)
[04:21:48 -144832.833290] AUTODETECT spr round 5 (radius: 25)
[04:22:41 -144302.048366] SPR radius for FAST iterations: 25 (autodetect)
[04:22:41 -144302.048366] Model parameter optimization (eps = 3.000000)
[04:22:54 -143881.134184] FAST spr round 1 (radius: 25)
[04:23:36 -128992.589909] FAST spr round 2 (radius: 25)
[04:24:07 -128089.362420] FAST spr round 3 (radius: 25)
[04:24:35 -128033.967072] FAST spr round 4 (radius: 25)
[04:25:01 -128019.738042] FAST spr round 5 (radius: 25)
[04:25:24 -128013.359342] FAST spr round 6 (radius: 25)
[04:25:46 -128013.357730] Model parameter optimization (eps = 1.000000)
[04:25:56 -128002.515990] SLOW spr round 1 (radius: 5)
[04:26:31 -127984.030412] SLOW spr round 2 (radius: 5)
[04:27:07 -127979.230932] SLOW spr round 3 (radius: 5)
[04:27:42 -127976.351553] SLOW spr round 4 (radius: 5)
[04:28:15 -127976.129853] SLOW spr round 5 (radius: 5)
[04:28:48 -127976.129803] SLOW spr round 6 (radius: 10)
[04:29:26 -127975.532539] SLOW spr round 7 (radius: 5)
[04:30:13 -127974.027235] SLOW spr round 8 (radius: 5)
[04:30:52 -127974.027140] SLOW spr round 9 (radius: 10)
[04:31:32 -127974.027140] SLOW spr round 10 (radius: 15)
[04:32:44 -127971.612165] SLOW spr round 11 (radius: 5)
[04:33:34 -127970.531965] SLOW spr round 12 (radius: 5)
[04:34:15 -127970.530378] SLOW spr round 13 (radius: 10)
[04:34:55 -127968.917588] SLOW spr round 14 (radius: 5)
[04:35:42 -127966.001186] SLOW spr round 15 (radius: 5)
[04:36:20 -127966.001135] SLOW spr round 16 (radius: 10)
[04:36:59 -127966.001128] SLOW spr round 17 (radius: 15)
[04:38:12 -127966.001125] SLOW spr round 18 (radius: 20)
[04:39:55 -127966.001123] SLOW spr round 19 (radius: 25)
[04:41:40 -127966.001122] Model parameter optimization (eps = 0.100000)

[04:41:45] ML tree search #14, logLikelihood: -127965.742508

[04:41:45 -348050.727184] Initial branch length optimization
[04:41:46 -288238.536510] Model parameter optimization (eps = 10.000000)
[04:42:01 -287453.850628] AUTODETECT spr round 1 (radius: 5)
[04:42:30 -213005.498234] AUTODETECT spr round 2 (radius: 10)
[04:43:01 -167068.102706] AUTODETECT spr round 3 (radius: 15)
[04:43:38 -143648.697258] AUTODETECT spr round 4 (radius: 20)
[04:44:25 -140248.773350] AUTODETECT spr round 5 (radius: 25)
[04:45:21 -139950.414726] SPR radius for FAST iterations: 25 (autodetect)
[04:45:21 -139950.414726] Model parameter optimization (eps = 3.000000)
[04:45:37 -139578.002361] FAST spr round 1 (radius: 25)
[04:46:14 -128480.043303] FAST spr round 2 (radius: 25)
[04:46:44 -128066.232648] FAST spr round 3 (radius: 25)
[04:47:11 -128018.080703] FAST spr round 4 (radius: 25)
[04:47:34 -128014.951857] FAST spr round 5 (radius: 25)
[04:47:57 -128014.386584] FAST spr round 6 (radius: 25)
[04:48:19 -128014.386230] Model parameter optimization (eps = 1.000000)
[04:48:26 -128012.741501] SLOW spr round 1 (radius: 5)
[04:49:01 -127987.038676] SLOW spr round 2 (radius: 5)
[04:49:36 -127983.106932] SLOW spr round 3 (radius: 5)
[04:50:09 -127983.106001] SLOW spr round 4 (radius: 10)
[04:50:47 -127982.197186] SLOW spr round 5 (radius: 5)
[04:51:33 -127981.752291] SLOW spr round 6 (radius: 5)
[04:52:12 -127981.751374] SLOW spr round 7 (radius: 10)
[04:52:52 -127980.886792] SLOW spr round 8 (radius: 5)
[04:53:38 -127979.486034] SLOW spr round 9 (radius: 5)
[04:54:17 -127979.485172] SLOW spr round 10 (radius: 10)
[04:54:56 -127979.411434] SLOW spr round 11 (radius: 15)
[04:56:03 -127979.402191] SLOW spr round 12 (radius: 20)
[04:57:39 -127979.402107] SLOW spr round 13 (radius: 25)
[04:59:21 -127979.402088] Model parameter optimization (eps = 0.100000)

[04:59:24] ML tree search #15, logLikelihood: -127979.316698

[04:59:24 -349691.481935] Initial branch length optimization
[04:59:25 -290190.361457] Model parameter optimization (eps = 10.000000)
[04:59:43 -289442.546336] AUTODETECT spr round 1 (radius: 5)
[05:00:12 -216894.735796] AUTODETECT spr round 2 (radius: 10)
[05:00:43 -168397.789178] AUTODETECT spr round 3 (radius: 15)
[05:01:19 -144752.776160] AUTODETECT spr round 4 (radius: 20)
[05:02:10 -142279.658749] AUTODETECT spr round 5 (radius: 25)
[05:03:06 -142266.852923] SPR radius for FAST iterations: 25 (autodetect)
[05:03:06 -142266.852923] Model parameter optimization (eps = 3.000000)
[05:03:20 -141795.448188] FAST spr round 1 (radius: 25)
[05:03:59 -128476.680048] FAST spr round 2 (radius: 25)
[05:04:31 -128064.179930] FAST spr round 3 (radius: 25)
[05:04:59 -128044.708055] FAST spr round 4 (radius: 25)
[05:05:23 -128032.199504] FAST spr round 5 (radius: 25)
[05:05:45 -128032.162046] Model parameter optimization (eps = 1.000000)
[05:05:56 -128023.610204] SLOW spr round 1 (radius: 5)
[05:06:31 -127977.213426] SLOW spr round 2 (radius: 5)
[05:07:05 -127975.304923] SLOW spr round 3 (radius: 5)
[05:07:39 -127974.686120] SLOW spr round 4 (radius: 5)
[05:08:12 -127974.685975] SLOW spr round 5 (radius: 10)
[05:08:50 -127971.188567] SLOW spr round 6 (radius: 5)
[05:09:36 -127971.188010] SLOW spr round 7 (radius: 10)
[05:10:19 -127971.187943] SLOW spr round 8 (radius: 15)
[05:11:27 -127970.370934] SLOW spr round 9 (radius: 5)
[05:12:16 -127970.281546] SLOW spr round 10 (radius: 10)
[05:13:03 -127970.281110] SLOW spr round 11 (radius: 15)
[05:14:11 -127970.281065] SLOW spr round 12 (radius: 20)
[05:15:53 -127970.281060] SLOW spr round 13 (radius: 25)
[05:17:38 -127970.281059] Model parameter optimization (eps = 0.100000)

[05:17:41] ML tree search #16, logLikelihood: -127970.258152

[05:17:41 -350923.791340] Initial branch length optimization
[05:17:43 -290640.576201] Model parameter optimization (eps = 10.000000)
[05:17:59 -289885.625585] AUTODETECT spr round 1 (radius: 5)
[05:18:27 -217749.671789] AUTODETECT spr round 2 (radius: 10)
[05:18:59 -175097.761800] AUTODETECT spr round 3 (radius: 15)
[05:19:37 -148367.706306] AUTODETECT spr round 4 (radius: 20)
[05:20:24 -144708.235270] AUTODETECT spr round 5 (radius: 25)
[05:21:15 -144695.168549] SPR radius for FAST iterations: 25 (autodetect)
[05:21:15 -144695.168549] Model parameter optimization (eps = 3.000000)
[05:21:28 -144302.986207] FAST spr round 1 (radius: 25)
[05:22:10 -128865.605011] FAST spr round 2 (radius: 25)
[05:22:42 -128067.212891] FAST spr round 3 (radius: 25)
[05:23:08 -128045.145968] FAST spr round 4 (radius: 25)
[05:23:31 -128042.021276] FAST spr round 5 (radius: 25)
[05:23:54 -128042.020926] Model parameter optimization (eps = 1.000000)
[05:24:05 -128024.009893] SLOW spr round 1 (radius: 5)
[05:24:42 -127991.591242] SLOW spr round 2 (radius: 5)
[05:25:17 -127990.015650] SLOW spr round 3 (radius: 5)
[05:25:49 -127990.014345] SLOW spr round 4 (radius: 10)
[05:26:26 -127990.014017] SLOW spr round 5 (radius: 15)
[05:27:37 -127990.013927] SLOW spr round 6 (radius: 20)
[05:29:13 -127990.013901] SLOW spr round 7 (radius: 25)
[05:30:56 -127990.013893] Model parameter optimization (eps = 0.100000)

[05:31:00] ML tree search #17, logLikelihood: -127989.871973

[05:31:01 -349291.219691] Initial branch length optimization
[05:31:02 -290021.388318] Model parameter optimization (eps = 10.000000)
[05:31:15 -289267.048105] AUTODETECT spr round 1 (radius: 5)
[05:31:43 -217887.926169] AUTODETECT spr round 2 (radius: 10)
[05:32:14 -170882.545516] AUTODETECT spr round 3 (radius: 15)
[05:32:51 -148416.774152] AUTODETECT spr round 4 (radius: 20)
[05:33:40 -140626.775488] AUTODETECT spr round 5 (radius: 25)
[05:34:30 -140090.102603] SPR radius for FAST iterations: 25 (autodetect)
[05:34:30 -140090.102603] Model parameter optimization (eps = 3.000000)
[05:34:44 -139629.472902] FAST spr round 1 (radius: 25)
[05:35:22 -128494.302212] FAST spr round 2 (radius: 25)
[05:35:52 -128053.112627] FAST spr round 3 (radius: 25)
[05:36:17 -128030.092710] FAST spr round 4 (radius: 25)
[05:36:42 -128015.934369] FAST spr round 5 (radius: 25)
[05:37:04 -128015.307254] FAST spr round 6 (radius: 25)
[05:37:26 -128011.874770] FAST spr round 7 (radius: 25)
[05:37:48 -128011.873623] Model parameter optimization (eps = 1.000000)
[05:37:55 -128006.385628] SLOW spr round 1 (radius: 5)
[05:38:29 -127984.891173] SLOW spr round 2 (radius: 5)
[05:39:04 -127973.804524] SLOW spr round 3 (radius: 5)
[05:39:36 -127973.242760] SLOW spr round 4 (radius: 5)
[05:40:09 -127973.241641] SLOW spr round 5 (radius: 10)
[05:40:46 -127969.944099] SLOW spr round 6 (radius: 5)
[05:41:33 -127968.558972] SLOW spr round 7 (radius: 5)
[05:42:12 -127968.558379] SLOW spr round 8 (radius: 10)
[05:42:51 -127967.652368] SLOW spr round 9 (radius: 5)
[05:43:37 -127967.278176] SLOW spr round 10 (radius: 5)
[05:44:17 -127967.278158] SLOW spr round 11 (radius: 10)
[05:44:56 -127967.278157] SLOW spr round 12 (radius: 15)
[05:46:07 -127967.278157] SLOW spr round 13 (radius: 20)
[05:47:45 -127967.278157] SLOW spr round 14 (radius: 25)
[05:49:30 -127967.278157] Model parameter optimization (eps = 0.100000)

[05:49:34] ML tree search #18, logLikelihood: -127967.137283

[05:49:34 -351084.816741] Initial branch length optimization
[05:49:36 -291728.486223] Model parameter optimization (eps = 10.000000)
[05:49:50 -290948.708187] AUTODETECT spr round 1 (radius: 5)
[05:50:19 -224074.474256] AUTODETECT spr round 2 (radius: 10)
[05:50:51 -178415.903579] AUTODETECT spr round 3 (radius: 15)
[05:51:29 -147790.480670] AUTODETECT spr round 4 (radius: 20)
[05:52:10 -143226.381364] AUTODETECT spr round 5 (radius: 25)
[05:52:54 -141840.893434] SPR radius for FAST iterations: 25 (autodetect)
[05:52:54 -141840.893434] Model parameter optimization (eps = 3.000000)
[05:53:07 -141441.281915] FAST spr round 1 (radius: 25)
[05:53:45 -128327.989871] FAST spr round 2 (radius: 25)
[05:54:17 -128034.158572] FAST spr round 3 (radius: 25)
[05:54:41 -128028.012394] FAST spr round 4 (radius: 25)
[05:55:04 -128028.012148] Model parameter optimization (eps = 1.000000)
[05:55:11 -128025.166524] SLOW spr round 1 (radius: 5)
[05:55:48 -127981.384898] SLOW spr round 2 (radius: 5)
[05:56:24 -127975.850343] SLOW spr round 3 (radius: 5)
[05:56:58 -127975.850062] SLOW spr round 4 (radius: 10)
[05:57:36 -127975.488215] SLOW spr round 5 (radius: 5)
[05:58:24 -127972.804875] SLOW spr round 6 (radius: 5)
[05:59:04 -127968.994536] SLOW spr round 7 (radius: 5)
[05:59:39 -127968.993550] SLOW spr round 8 (radius: 10)
[06:00:17 -127968.993499] SLOW spr round 9 (radius: 15)
[06:01:30 -127968.993493] SLOW spr round 10 (radius: 20)
[06:03:06 -127968.993491] SLOW spr round 11 (radius: 25)
[06:04:52 -127968.993491] Model parameter optimization (eps = 0.100000)

[06:04:59] ML tree search #19, logLikelihood: -127968.537661

[06:04:59 -346120.628427] Initial branch length optimization
[06:05:01 -287405.253152] Model parameter optimization (eps = 10.000000)
[06:05:16 -286538.727565] AUTODETECT spr round 1 (radius: 5)
[06:05:44 -219207.198109] AUTODETECT spr round 2 (radius: 10)
[06:06:15 -168110.956833] AUTODETECT spr round 3 (radius: 15)
[06:06:52 -152124.000839] AUTODETECT spr round 4 (radius: 20)
[06:07:43 -142507.615128] AUTODETECT spr round 5 (radius: 25)
[06:08:35 -142343.247054] SPR radius for FAST iterations: 25 (autodetect)
[06:08:35 -142343.247054] Model parameter optimization (eps = 3.000000)
[06:08:48 -142001.455134] FAST spr round 1 (radius: 25)
[06:09:27 -128629.771854] FAST spr round 2 (radius: 25)
[06:09:58 -128142.200079] FAST spr round 3 (radius: 25)
[06:10:24 -128056.999561] FAST spr round 4 (radius: 25)
[06:10:48 -128047.794275] FAST spr round 5 (radius: 25)
[06:11:12 -128039.744173] FAST spr round 6 (radius: 25)
[06:11:35 -128039.741748] Model parameter optimization (eps = 1.000000)
[06:11:45 -128025.182820] SLOW spr round 1 (radius: 5)
[06:12:20 -127994.183502] SLOW spr round 2 (radius: 5)
[06:12:55 -127988.597411] SLOW spr round 3 (radius: 5)
[06:13:30 -127981.283527] SLOW spr round 4 (radius: 5)
[06:14:03 -127980.708732] SLOW spr round 5 (radius: 5)
[06:14:36 -127980.684196] SLOW spr round 6 (radius: 10)
[06:15:15 -127977.159946] SLOW spr round 7 (radius: 5)
[06:16:02 -127977.157149] SLOW spr round 8 (radius: 10)
[06:16:46 -127976.940710] SLOW spr round 9 (radius: 5)
[06:17:31 -127976.939818] SLOW spr round 10 (radius: 10)
[06:18:14 -127976.939756] SLOW spr round 11 (radius: 15)
[06:19:27 -127975.497823] SLOW spr round 12 (radius: 5)
[06:20:18 -127973.252649] SLOW spr round 13 (radius: 5)
[06:20:59 -127972.920278] SLOW spr round 14 (radius: 5)
[06:21:36 -127972.919636] SLOW spr round 15 (radius: 10)
[06:22:15 -127972.919608] SLOW spr round 16 (radius: 15)
[06:23:30 -127972.919604] SLOW spr round 17 (radius: 20)
[06:25:13 -127972.919604] SLOW spr round 18 (radius: 25)
[06:26:57 -127972.919604] Model parameter optimization (eps = 0.100000)

[06:27:03] ML tree search #20, logLikelihood: -127972.686038


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.319130,0.483221) (0.253162,0.732594) (0.240609,1.153910) (0.187099,2.045352) 
   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: -127960.247009

AIC score: 257754.494018 / AICc score: 1941366.494018 / BIC score: 261815.066553
Free parameters (model + branch lengths): 917

WARNING: Number of free parameters (K=917) is larger than alignment size (n=619).
         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/Q9GZV3/3_mltree/Q9GZV3.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/3_mltree/Q9GZV3.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/3_mltree/Q9GZV3.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9GZV3/3_mltree/Q9GZV3.raxml.log

Analysis started: 05-Jul-2021 07:39:56 / finished: 05-Jul-2021 14:07:00

Elapsed time: 23223.816 seconds

Consumed energy: 2140.091 Wh (= 11 km in an electric car, or 54 km with an e-scooter!)