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 13-Jul-2021 22:10:26 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/2_msa/Q9P2P6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/3_mltree/Q9P2P6 --seed 2 --threads 9 --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 (9 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/2_msa/Q9P2P6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 1039 sites

WARNING: Sequences tr_B4QIF3_B4QIF3_DROSI_7240 and tr_B4HT85_B4HT85_DROSE_7238 are exactly identical!
WARNING: Sequences tr_H2Q998_H2Q998_PANTR_9598 and tr_A0A2R8Z965_A0A2R8Z965_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9F7S0_F9F7S0_FUSOF_660025 and tr_A0A0D2XMN8_A0A0D2XMN8_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9F7S0_F9F7S0_FUSOF_660025 and tr_N4TGA3_N4TGA3_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9F7S0_F9F7S0_FUSOF_660025 and tr_X0CHF8_X0CHF8_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9F7S0_F9F7S0_FUSOF_660025 and tr_A0A2H3GX80_A0A2H3GX80_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_A0A088A1K2_A0A088A1K2_APIME_7460 and tr_A0A2A3EHV1_A0A2A3EHV1_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158NW85_A0A158NW85_ATTCE_12957 and tr_A0A195BD68_A0A195BD68_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A2R5D8_A2R5D8_ASPNC_425011 and tr_G3XY40_G3XY40_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2R5D8_A2R5D8_ASPNC_425011 and tr_A0A319A7V4_A0A319A7V4_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_F6YCK6_F6YCK6_MACMU_9544 and tr_A0A2K6BFI0_A0A2K6BFI0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G2YBP8_G2YBP8_BOTF4_999810 and tr_M7UN95_M7UN95_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_A0A094EUB0_A0A094EUB0_9PEZI_1420912 and tr_A0A1B8GKF9_A0A1B8GKF9_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0D9R0V1_A0A0D9R0V1_CHLSB_60711 and tr_A0A2K5MW88_A0A2K5MW88_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A0D9R0V1_A0A0D9R0V1_CHLSB_60711 and tr_A0A2K5XE42_A0A2K5XE42_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A0F8UH45_A0A0F8UH45_9EURO_308745 and tr_A0A2T5LUS4_A0A2T5LUS4_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0V1CHM6_A0A0V1CHM6_TRIBR_45882 and tr_A0A0V0V2J5_A0A0V0V2J5_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A1V8TXF8_A0A1V8TXF8_9PEZI_1974281 and tr_A0A1V8UHM9_A0A1V8UHM9_9PEZI_1974281 are exactly identical!
WARNING: Sequences tr_A0A2D0SK91_A0A2D0SK91_ICTPU_7998 and tr_A0A2D0SKU7_A0A2D0SKU7_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0SVP5_A0A2D0SVP5_ICTPU_7998 and tr_A0A2D0SVP8_A0A2D0SVP8_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0SVP5_A0A2D0SVP5_ICTPU_7998 and tr_A0A2D0SVQ8_A0A2D0SVQ8_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0SVP5_A0A2D0SVP5_ICTPU_7998 and tr_A0A2D0SWS0_A0A2D0SWS0_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0SVR3_A0A2D0SVR3_ICTPU_7998 and tr_A0A2D0SW71_A0A2D0SW71_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2V5I383_A0A2V5I383_9EURO_1450541 and tr_A0A2V5GXV5_A0A2V5GXV5_9EURO_1450538 are exactly identical!
WARNING: Duplicate sequences found: 24

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/Q9P2P6/3_mltree/Q9P2P6.raxml.reduced.phy

Alignment comprises 1 partitions and 1039 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1039 / 1039
Gaps: 13.62 %
Invariant sites: 0.29 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/3_mltree/Q9P2P6.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 9 thread(s)

Parallel reduction/worker buffer size: 1 KB  / 0 KB

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 116 / 9280
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1581561.255626] Initial branch length optimization
[00:00:06 -1330441.411329] Model parameter optimization (eps = 10.000000)
[00:00:36 -1329455.246892] AUTODETECT spr round 1 (radius: 5)
[00:02:35 -863616.445494] AUTODETECT spr round 2 (radius: 10)
[00:04:43 -576828.295923] AUTODETECT spr round 3 (radius: 15)
[00:06:55 -478942.648869] AUTODETECT spr round 4 (radius: 20)
[00:09:39 -431504.326289] AUTODETECT spr round 5 (radius: 25)
[00:12:45 -420882.000995] SPR radius for FAST iterations: 25 (autodetect)
[00:12:45 -420882.000995] Model parameter optimization (eps = 3.000000)
[00:13:11 -420549.697259] FAST spr round 1 (radius: 25)
[00:15:47 -353151.533174] FAST spr round 2 (radius: 25)
[00:17:54 -347490.654856] FAST spr round 3 (radius: 25)
[00:19:48 -347367.241909] FAST spr round 4 (radius: 25)
[00:21:29 -347352.350785] FAST spr round 5 (radius: 25)
[00:23:07 -347351.416115] FAST spr round 6 (radius: 25)
[00:24:43 -347349.050461] FAST spr round 7 (radius: 25)
[00:26:18 -347349.048613] Model parameter optimization (eps = 1.000000)
[00:26:34 -347342.396763] SLOW spr round 1 (radius: 5)
[00:28:43 -347288.136438] SLOW spr round 2 (radius: 5)
[00:30:51 -347272.018749] SLOW spr round 3 (radius: 5)
[00:32:55 -347271.248960] SLOW spr round 4 (radius: 5)
[00:34:56 -347271.248807] SLOW spr round 5 (radius: 10)
[00:37:03 -347271.248754] SLOW spr round 6 (radius: 15)
[00:40:13 -347271.248710] SLOW spr round 7 (radius: 20)
[00:44:50 -347271.248670] SLOW spr round 8 (radius: 25)
[00:51:11 -347265.421418] SLOW spr round 9 (radius: 5)
[00:54:02 -347265.420756] SLOW spr round 10 (radius: 10)
[00:56:34 -347265.420706] SLOW spr round 11 (radius: 15)
[00:59:36 -347265.420674] SLOW spr round 12 (radius: 20)
[01:04:22 -347265.420643] SLOW spr round 13 (radius: 25)
[01:10:46 -347265.420612] Model parameter optimization (eps = 0.100000)

[01:11:11] ML tree search #1, logLikelihood: -347258.215941

[01:11:11 -1566636.866509] Initial branch length optimization
[01:11:18 -1328837.780977] Model parameter optimization (eps = 10.000000)
[01:11:49 -1327907.116115] AUTODETECT spr round 1 (radius: 5)
[01:14:11 -842590.826875] AUTODETECT spr round 2 (radius: 10)
[01:16:46 -584841.397847] AUTODETECT spr round 3 (radius: 15)
[01:19:23 -474221.539189] AUTODETECT spr round 4 (radius: 20)
[01:22:23 -412220.888159] AUTODETECT spr round 5 (radius: 25)
[01:25:38 -404274.574504] SPR radius for FAST iterations: 25 (autodetect)
[01:25:39 -404274.574504] Model parameter optimization (eps = 3.000000)
[01:26:03 -403978.324676] FAST spr round 1 (radius: 25)
[01:28:40 -350264.670391] FAST spr round 2 (radius: 25)
[01:30:42 -347657.053317] FAST spr round 3 (radius: 25)
[01:32:35 -347391.884814] FAST spr round 4 (radius: 25)
[01:34:20 -347350.139153] FAST spr round 5 (radius: 25)
[01:36:00 -347350.138844] Model parameter optimization (eps = 1.000000)
[01:36:15 -347346.639678] SLOW spr round 1 (radius: 5)
[01:38:30 -347272.189969] SLOW spr round 2 (radius: 5)
[01:40:40 -347264.142692] SLOW spr round 3 (radius: 5)
[01:42:44 -347264.139909] SLOW spr round 4 (radius: 10)
[01:44:53 -347261.731855] SLOW spr round 5 (radius: 5)
[01:47:33 -347261.731312] SLOW spr round 6 (radius: 10)
[01:49:56 -347261.731277] SLOW spr round 7 (radius: 15)
[01:53:04 -347261.731264] SLOW spr round 8 (radius: 20)
[01:57:50 -347261.731252] SLOW spr round 9 (radius: 25)
[02:04:20 -347255.509416] SLOW spr round 10 (radius: 5)
[02:07:13 -347249.887337] SLOW spr round 11 (radius: 5)
[02:09:45 -347249.887200] SLOW spr round 12 (radius: 10)
[02:12:05 -347249.887187] SLOW spr round 13 (radius: 15)
[02:15:21 -347249.887176] SLOW spr round 14 (radius: 20)
[02:20:03 -347249.887166] SLOW spr round 15 (radius: 25)
[02:26:18 -347249.887155] Model parameter optimization (eps = 0.100000)

[02:26:33] ML tree search #2, logLikelihood: -347242.386948

[02:26:33 -1576829.735414] Initial branch length optimization
[02:26:42 -1336636.226277] Model parameter optimization (eps = 10.000000)
[02:27:11 -1335618.957961] AUTODETECT spr round 1 (radius: 5)
[02:29:37 -866593.555483] AUTODETECT spr round 2 (radius: 10)
[02:32:23 -585042.165416] AUTODETECT spr round 3 (radius: 15)
[02:34:59 -476893.522396] AUTODETECT spr round 4 (radius: 20)
[02:37:54 -419668.737513] AUTODETECT spr round 5 (radius: 25)
[02:41:13 -402303.127294] SPR radius for FAST iterations: 25 (autodetect)
[02:41:13 -402303.127294] Model parameter optimization (eps = 3.000000)
[02:41:36 -402081.040685] FAST spr round 1 (radius: 25)
[02:44:08 -350572.610278] FAST spr round 2 (radius: 25)
[02:46:14 -347510.646183] FAST spr round 3 (radius: 25)
[02:48:12 -347364.994623] FAST spr round 4 (radius: 25)
[02:49:56 -347347.888466] FAST spr round 5 (radius: 25)
[02:51:36 -347347.888094] Model parameter optimization (eps = 1.000000)
[02:51:55 -347331.427580] SLOW spr round 1 (radius: 5)
[02:54:09 -347259.514486] SLOW spr round 2 (radius: 5)
[02:56:18 -347256.680415] SLOW spr round 3 (radius: 5)
[02:58:20 -347256.680067] SLOW spr round 4 (radius: 10)
[03:00:28 -347256.680049] SLOW spr round 5 (radius: 15)
[03:03:39 -347256.680035] SLOW spr round 6 (radius: 20)
[03:08:11 -347256.680023] SLOW spr round 7 (radius: 25)
[03:14:23 -347252.707127] SLOW spr round 8 (radius: 5)
[03:17:12 -347247.589940] SLOW spr round 9 (radius: 5)
[03:19:39 -347247.589804] SLOW spr round 10 (radius: 10)
[03:21:52 -347247.589791] SLOW spr round 11 (radius: 15)
[03:25:01 -347247.589779] SLOW spr round 12 (radius: 20)
[03:29:39 -347247.589767] SLOW spr round 13 (radius: 25)
[03:35:46 -347247.589755] Model parameter optimization (eps = 0.100000)

[03:35:55] ML tree search #3, logLikelihood: -347247.318287

[03:35:55 -1590457.890336] Initial branch length optimization
[03:36:01 -1340381.995407] Model parameter optimization (eps = 10.000000)
[03:36:42 -1339353.520951] AUTODETECT spr round 1 (radius: 5)
[03:39:11 -861585.413231] AUTODETECT spr round 2 (radius: 10)
[03:41:51 -587418.429456] AUTODETECT spr round 3 (radius: 15)
[03:44:32 -446400.922117] AUTODETECT spr round 4 (radius: 20)
[03:47:57 -400742.182485] AUTODETECT spr round 5 (radius: 25)
[03:51:52 -399461.991947] SPR radius for FAST iterations: 25 (autodetect)
[03:51:52 -399461.991947] Model parameter optimization (eps = 3.000000)
[03:52:17 -399082.856014] FAST spr round 1 (radius: 25)
[03:54:49 -349129.217497] FAST spr round 2 (radius: 25)
[03:56:54 -347486.258167] FAST spr round 3 (radius: 25)
[03:58:46 -347334.268080] FAST spr round 4 (radius: 25)
[04:00:27 -347332.490977] FAST spr round 5 (radius: 25)
[04:02:06 -347332.490449] Model parameter optimization (eps = 1.000000)
[04:02:26 -347321.688702] SLOW spr round 1 (radius: 5)
[04:04:36 -347266.748533] SLOW spr round 2 (radius: 5)
[04:06:44 -347255.262920] SLOW spr round 3 (radius: 5)
[04:08:52 -347250.854238] SLOW spr round 4 (radius: 5)
[04:10:56 -347250.853689] SLOW spr round 5 (radius: 10)
[04:13:02 -347250.853343] SLOW spr round 6 (radius: 15)
[04:16:18 -347250.853070] SLOW spr round 7 (radius: 20)
[04:20:57 -347250.852840] SLOW spr round 8 (radius: 25)
[04:27:24 -347242.395571] SLOW spr round 9 (radius: 5)
[04:30:15 -347242.394988] SLOW spr round 10 (radius: 10)
[04:32:47 -347242.394808] SLOW spr round 11 (radius: 15)
[04:35:57 -347242.394636] SLOW spr round 12 (radius: 20)
[04:40:45 -347242.394464] SLOW spr round 13 (radius: 25)
[04:47:06 -347242.394292] Model parameter optimization (eps = 0.100000)

[04:47:22] ML tree search #4, logLikelihood: -347241.541046

[04:47:22 -1590054.400214] Initial branch length optimization
[04:47:28 -1342517.067597] Model parameter optimization (eps = 10.000000)
[04:47:58 -1341406.347864] AUTODETECT spr round 1 (radius: 5)
[04:50:24 -844126.430054] AUTODETECT spr round 2 (radius: 10)
[04:52:58 -596927.494782] AUTODETECT spr round 3 (radius: 15)
[04:55:37 -497280.082830] AUTODETECT spr round 4 (radius: 20)
[04:58:28 -416368.669648] AUTODETECT spr round 5 (radius: 25)
[05:01:32 -399764.140250] SPR radius for FAST iterations: 25 (autodetect)
[05:01:32 -399764.140250] Model parameter optimization (eps = 3.000000)
[05:02:01 -399317.520999] FAST spr round 1 (radius: 25)
[05:04:35 -349323.999126] FAST spr round 2 (radius: 25)
[05:06:44 -347424.807014] FAST spr round 3 (radius: 25)
[05:08:34 -347362.267762] FAST spr round 4 (radius: 25)
[05:10:18 -347339.722318] FAST spr round 5 (radius: 25)
[05:11:56 -347339.721704] Model parameter optimization (eps = 1.000000)
[05:12:12 -347335.040592] SLOW spr round 1 (radius: 5)
[05:14:26 -347254.149601] SLOW spr round 2 (radius: 5)
[05:16:35 -347251.741493] SLOW spr round 3 (radius: 5)
[05:18:42 -347251.591495] SLOW spr round 4 (radius: 5)
[05:20:47 -347251.591302] SLOW spr round 5 (radius: 10)
[05:22:57 -347251.591138] SLOW spr round 6 (radius: 15)
[05:26:15 -347251.590973] SLOW spr round 7 (radius: 20)
[05:30:54 -347251.590809] SLOW spr round 8 (radius: 25)
[05:37:20 -347245.864259] SLOW spr round 9 (radius: 5)
[05:40:13 -347245.863476] SLOW spr round 10 (radius: 10)
[05:42:49 -347245.863295] SLOW spr round 11 (radius: 15)
[05:46:00 -347245.863130] SLOW spr round 12 (radius: 20)
[05:50:45 -347245.862966] SLOW spr round 13 (radius: 25)
[05:57:01 -347245.862801] Model parameter optimization (eps = 0.100000)

[05:57:23] ML tree search #5, logLikelihood: -347238.995189

[05:57:23 -1583001.030280] Initial branch length optimization
[05:57:29 -1340308.907888] Model parameter optimization (eps = 10.000000)
[05:58:14 -1339241.280444] AUTODETECT spr round 1 (radius: 5)
[06:00:36 -852240.191579] AUTODETECT spr round 2 (radius: 10)
[06:03:08 -620987.192419] AUTODETECT spr round 3 (radius: 15)
[06:05:45 -479303.351666] AUTODETECT spr round 4 (radius: 20)
[06:08:35 -426674.674538] AUTODETECT spr round 5 (radius: 25)
[06:11:45 -408845.270682] SPR radius for FAST iterations: 25 (autodetect)
[06:11:45 -408845.270682] Model parameter optimization (eps = 3.000000)
[06:12:06 -408550.741250] FAST spr round 1 (radius: 25)
[06:14:41 -351911.945055] FAST spr round 2 (radius: 25)
[06:16:50 -347526.355413] FAST spr round 3 (radius: 25)
[06:18:42 -347382.599756] FAST spr round 4 (radius: 25)
[06:20:26 -347361.746939] FAST spr round 5 (radius: 25)
[06:22:07 -347361.121101] FAST spr round 6 (radius: 25)
[06:23:44 -347359.392596] FAST spr round 7 (radius: 25)
[06:25:21 -347359.392030] Model parameter optimization (eps = 1.000000)
[06:25:50 -347341.227354] SLOW spr round 1 (radius: 5)
[06:28:00 -347272.015865] SLOW spr round 2 (radius: 5)
[06:30:08 -347264.828081] SLOW spr round 3 (radius: 5)
[06:32:14 -347260.948111] SLOW spr round 4 (radius: 5)
[06:34:18 -347260.947527] SLOW spr round 5 (radius: 10)
[06:36:28 -347260.947128] SLOW spr round 6 (radius: 15)
[06:39:42 -347260.946821] SLOW spr round 7 (radius: 20)
[06:44:16 -347260.946567] SLOW spr round 8 (radius: 25)
[06:50:30 -347256.961509] SLOW spr round 9 (radius: 5)
[06:53:21 -347251.838625] SLOW spr round 10 (radius: 5)
[06:55:50 -347251.838308] SLOW spr round 11 (radius: 10)
[06:58:07 -347251.838124] SLOW spr round 12 (radius: 15)
[07:01:16 -347251.837941] SLOW spr round 13 (radius: 20)
[07:05:52 -347251.837758] SLOW spr round 14 (radius: 25)
[07:12:03 -347251.837574] Model parameter optimization (eps = 0.100000)

[07:12:14] ML tree search #6, logLikelihood: -347251.536617

[07:12:14 -1588295.657891] Initial branch length optimization
[07:12:20 -1340511.203979] Model parameter optimization (eps = 10.000000)
[07:12:50 -1339488.600125] AUTODETECT spr round 1 (radius: 5)
[07:15:12 -877671.529778] AUTODETECT spr round 2 (radius: 10)
[07:17:35 -606894.655672] AUTODETECT spr round 3 (radius: 15)
[07:19:47 -493382.558502] AUTODETECT spr round 4 (radius: 20)
[07:22:07 -427584.712484] AUTODETECT spr round 5 (radius: 25)
[07:25:04 -413596.750512] SPR radius for FAST iterations: 25 (autodetect)
[07:25:04 -413596.750512] Model parameter optimization (eps = 3.000000)
[07:25:24 -413231.353938] FAST spr round 1 (radius: 25)
[07:27:35 -350011.926166] FAST spr round 2 (radius: 25)
[07:29:23 -347534.177143] FAST spr round 3 (radius: 25)
[07:31:05 -347353.850293] FAST spr round 4 (radius: 25)
[07:32:34 -347332.968993] FAST spr round 5 (radius: 25)
[07:33:59 -347326.741970] FAST spr round 6 (radius: 25)
[07:35:22 -347326.741871] Model parameter optimization (eps = 1.000000)
[07:35:38 -347320.488206] SLOW spr round 1 (radius: 5)
[07:37:29 -347265.248131] SLOW spr round 2 (radius: 5)
[07:39:17 -347251.769966] SLOW spr round 3 (radius: 5)
[07:41:02 -347248.073459] SLOW spr round 4 (radius: 5)
[07:42:45 -347248.073386] SLOW spr round 5 (radius: 10)
[07:44:32 -347248.073333] SLOW spr round 6 (radius: 15)
[07:47:13 -347248.073292] SLOW spr round 7 (radius: 20)
[07:51:00 -347248.073258] SLOW spr round 8 (radius: 25)
[07:56:13 -347245.259473] SLOW spr round 9 (radius: 5)
[07:58:37 -347239.397446] SLOW spr round 10 (radius: 5)
[08:00:43 -347239.031513] SLOW spr round 11 (radius: 5)
[08:02:36 -347239.031354] SLOW spr round 12 (radius: 10)
[08:04:25 -347239.031333] SLOW spr round 13 (radius: 15)
[08:07:06 -347239.031315] SLOW spr round 14 (radius: 20)
[08:10:58 -347239.031297] SLOW spr round 15 (radius: 25)
[08:16:11 -347239.031279] Model parameter optimization (eps = 0.100000)

[08:16:26] ML tree search #7, logLikelihood: -347227.060276

[08:16:27 -1589777.690059] Initial branch length optimization
[08:16:33 -1340795.335327] Model parameter optimization (eps = 10.000000)
[08:17:00 -1339742.925572] AUTODETECT spr round 1 (radius: 5)
[08:19:00 -868056.350489] AUTODETECT spr round 2 (radius: 10)
[08:21:07 -610759.740047] AUTODETECT spr round 3 (radius: 15)
[08:23:18 -471095.236657] AUTODETECT spr round 4 (radius: 20)
[08:25:37 -421971.660251] AUTODETECT spr round 5 (radius: 25)
[08:28:18 -409115.895042] SPR radius for FAST iterations: 25 (autodetect)
[08:28:18 -409115.895042] Model parameter optimization (eps = 3.000000)
[08:28:41 -408737.256861] FAST spr round 1 (radius: 25)
[08:30:54 -349348.166164] FAST spr round 2 (radius: 25)
[08:32:41 -347635.213327] FAST spr round 3 (radius: 25)
[08:34:17 -347478.211676] FAST spr round 4 (radius: 25)
[08:35:44 -347438.998055] FAST spr round 5 (radius: 25)
[08:37:10 -347319.754377] FAST spr round 6 (radius: 25)
[08:38:33 -347317.011969] FAST spr round 7 (radius: 25)
[08:39:55 -347317.011771] Model parameter optimization (eps = 1.000000)
[08:40:11 -347307.407049] SLOW spr round 1 (radius: 5)
[08:42:04 -347242.463649] SLOW spr round 2 (radius: 5)
[08:43:52 -347234.673580] SLOW spr round 3 (radius: 5)
[08:45:37 -347233.060390] SLOW spr round 4 (radius: 5)
[08:47:20 -347233.059824] SLOW spr round 5 (radius: 10)
[08:49:09 -347233.059438] SLOW spr round 6 (radius: 15)
[08:51:49 -347233.059142] SLOW spr round 7 (radius: 20)
[08:55:37 -347233.058898] SLOW spr round 8 (radius: 25)
[09:00:52 -347224.966023] SLOW spr round 9 (radius: 5)
[09:03:14 -347224.965395] SLOW spr round 10 (radius: 10)
[09:05:20 -347224.965215] SLOW spr round 11 (radius: 15)
[09:07:53 -347224.965044] SLOW spr round 12 (radius: 20)
[09:11:46 -347224.964873] SLOW spr round 13 (radius: 25)
[09:17:00 -347224.964702] Model parameter optimization (eps = 0.100000)

[09:17:14] ML tree search #8, logLikelihood: -347224.332335

[09:17:14 -1564828.227284] Initial branch length optimization
[09:17:20 -1323811.008895] Model parameter optimization (eps = 10.000000)
[09:17:45 -1322802.096706] AUTODETECT spr round 1 (radius: 5)
[09:19:41 -850865.336403] AUTODETECT spr round 2 (radius: 10)
[09:21:45 -627895.806975] AUTODETECT spr round 3 (radius: 15)
[09:23:56 -491427.941178] AUTODETECT spr round 4 (radius: 20)
[09:26:12 -447180.515759] AUTODETECT spr round 5 (radius: 25)
[09:28:57 -416194.915725] SPR radius for FAST iterations: 25 (autodetect)
[09:28:57 -416194.915725] Model parameter optimization (eps = 3.000000)
[09:29:27 -415914.006527] FAST spr round 1 (radius: 25)
[09:31:45 -351771.876915] FAST spr round 2 (radius: 25)
[09:33:33 -347665.570245] FAST spr round 3 (radius: 25)
[09:35:08 -347341.658706] FAST spr round 4 (radius: 25)
[09:36:35 -347336.828362] FAST spr round 5 (radius: 25)
[09:37:57 -347336.828180] Model parameter optimization (eps = 1.000000)
[09:38:15 -347324.442278] SLOW spr round 1 (radius: 5)
[09:40:06 -347272.598411] SLOW spr round 2 (radius: 5)
[09:41:55 -347261.547645] SLOW spr round 3 (radius: 5)
[09:43:39 -347261.547414] SLOW spr round 4 (radius: 10)
[09:45:26 -347261.547208] SLOW spr round 5 (radius: 15)
[09:48:06 -347261.547015] SLOW spr round 6 (radius: 20)
[09:51:54 -347261.546829] SLOW spr round 7 (radius: 25)
[09:57:06 -347258.095056] SLOW spr round 8 (radius: 5)
[09:59:31 -347252.237276] SLOW spr round 9 (radius: 5)
[10:01:35 -347252.236629] SLOW spr round 10 (radius: 10)
[10:03:29 -347252.236448] SLOW spr round 11 (radius: 15)
[10:06:03 -347252.236279] SLOW spr round 12 (radius: 20)
[10:09:54 -347252.236111] SLOW spr round 13 (radius: 25)
[10:15:00 -347252.235943] Model parameter optimization (eps = 0.100000)

[10:15:19] ML tree search #9, logLikelihood: -347242.433132

[10:15:19 -1586399.303132] Initial branch length optimization
[10:15:25 -1330091.297522] Model parameter optimization (eps = 10.000000)
[10:15:52 -1329018.839730] AUTODETECT spr round 1 (radius: 5)
[10:17:49 -845628.354916] AUTODETECT spr round 2 (radius: 10)
[10:19:58 -601793.179099] AUTODETECT spr round 3 (radius: 15)
[10:22:06 -483022.123599] AUTODETECT spr round 4 (radius: 20)
[10:24:27 -440634.865239] AUTODETECT spr round 5 (radius: 25)
[10:27:08 -412212.047746] SPR radius for FAST iterations: 25 (autodetect)
[10:27:08 -412212.047746] Model parameter optimization (eps = 3.000000)
[10:27:26 -411797.597777] FAST spr round 1 (radius: 25)
[10:29:31 -350738.674936] FAST spr round 2 (radius: 25)
[10:31:16 -347567.674931] FAST spr round 3 (radius: 25)
[10:32:50 -347354.751424] FAST spr round 4 (radius: 25)
[10:34:18 -347344.185993] FAST spr round 5 (radius: 25)
[10:35:43 -347342.329248] FAST spr round 6 (radius: 25)
[10:37:05 -347342.328532] Model parameter optimization (eps = 1.000000)
[10:37:19 -347335.273601] SLOW spr round 1 (radius: 5)
[10:39:08 -347269.043958] SLOW spr round 2 (radius: 5)
[10:40:56 -347260.285982] SLOW spr round 3 (radius: 5)
[10:42:41 -347258.594084] SLOW spr round 4 (radius: 5)
[10:44:25 -347258.593866] SLOW spr round 5 (radius: 10)
[10:46:13 -347258.593684] SLOW spr round 6 (radius: 15)
[10:48:53 -347258.593507] SLOW spr round 7 (radius: 20)
[10:52:41 -347258.593332] SLOW spr round 8 (radius: 25)
[10:57:52 -347255.835407] SLOW spr round 9 (radius: 5)
[11:00:15 -347249.906299] SLOW spr round 10 (radius: 5)
[11:02:20 -347249.617688] SLOW spr round 11 (radius: 5)
[11:04:13 -347249.617420] SLOW spr round 12 (radius: 10)
[11:06:03 -347249.617246] SLOW spr round 13 (radius: 15)
[11:08:44 -347249.617074] SLOW spr round 14 (radius: 20)
[11:12:35 -347249.616903] SLOW spr round 15 (radius: 25)
[11:17:45 -347249.616731] Model parameter optimization (eps = 0.100000)

[11:18:01] ML tree search #10, logLikelihood: -347236.816355

[11:18:01 -1585811.125824] Initial branch length optimization
[11:18:06 -1334551.372528] Model parameter optimization (eps = 10.000000)
[11:18:40 -1333601.541337] AUTODETECT spr round 1 (radius: 5)
[11:20:39 -867034.152083] AUTODETECT spr round 2 (radius: 10)
[11:22:49 -584168.346426] AUTODETECT spr round 3 (radius: 15)
[11:24:53 -487954.698646] AUTODETECT spr round 4 (radius: 20)
[11:27:25 -429289.592862] AUTODETECT spr round 5 (radius: 25)
[11:30:00 -419255.801944] SPR radius for FAST iterations: 25 (autodetect)
[11:30:00 -419255.801944] Model parameter optimization (eps = 3.000000)
[11:30:18 -419060.899253] FAST spr round 1 (radius: 25)
[11:32:33 -352240.929387] FAST spr round 2 (radius: 25)
[11:34:22 -347595.947158] FAST spr round 3 (radius: 25)
[11:35:57 -347394.595432] FAST spr round 4 (radius: 25)
[11:37:28 -347349.986947] FAST spr round 5 (radius: 25)
[11:38:52 -347343.155139] FAST spr round 6 (radius: 25)
[11:40:15 -347343.154896] Model parameter optimization (eps = 1.000000)
[11:40:30 -347332.791985] SLOW spr round 1 (radius: 5)
[11:42:24 -347268.925045] SLOW spr round 2 (radius: 5)
[11:44:10 -347261.626773] SLOW spr round 3 (radius: 5)
[11:45:55 -347261.626018] SLOW spr round 4 (radius: 10)
[11:47:43 -347261.625759] SLOW spr round 5 (radius: 15)
[11:50:24 -347261.625525] SLOW spr round 6 (radius: 20)
[11:54:13 -347261.625312] SLOW spr round 7 (radius: 25)
[11:59:30 -347256.056372] SLOW spr round 8 (radius: 5)
[12:01:52 -347256.055562] SLOW spr round 9 (radius: 10)
[12:03:59 -347256.055371] SLOW spr round 10 (radius: 15)
[12:06:33 -347256.055199] SLOW spr round 11 (radius: 20)
[12:10:29 -347256.055027] SLOW spr round 12 (radius: 25)
[12:15:44 -347256.054855] Model parameter optimization (eps = 0.100000)

[12:16:02] ML tree search #11, logLikelihood: -347247.898451

[12:16:02 -1586464.757638] Initial branch length optimization
[12:16:09 -1336211.254448] Model parameter optimization (eps = 10.000000)
[12:16:32 -1335251.157798] AUTODETECT spr round 1 (radius: 5)
[12:18:32 -863169.529631] AUTODETECT spr round 2 (radius: 10)
[12:20:49 -607095.322474] AUTODETECT spr round 3 (radius: 15)
[12:23:03 -477176.058455] AUTODETECT spr round 4 (radius: 20)
[12:25:19 -420123.115377] AUTODETECT spr round 5 (radius: 25)
[12:27:54 -407533.392129] SPR radius for FAST iterations: 25 (autodetect)
[12:27:54 -407533.392129] Model parameter optimization (eps = 3.000000)
[12:28:15 -407193.486629] FAST spr round 1 (radius: 25)
[12:30:28 -349120.346759] FAST spr round 2 (radius: 25)
[12:32:13 -347449.610881] FAST spr round 3 (radius: 25)
[12:33:52 -347355.191439] FAST spr round 4 (radius: 25)
[12:35:18 -347348.358211] FAST spr round 5 (radius: 25)
[12:36:41 -347348.356371] Model parameter optimization (eps = 1.000000)
[12:37:05 -347340.151215] SLOW spr round 1 (radius: 5)
[12:38:56 -347273.680323] SLOW spr round 2 (radius: 5)
[12:40:45 -347265.457776] SLOW spr round 3 (radius: 5)
[12:42:31 -347263.447162] SLOW spr round 4 (radius: 5)
[12:44:15 -347263.446652] SLOW spr round 5 (radius: 10)
[12:46:03 -347263.446340] SLOW spr round 6 (radius: 15)
[12:48:44 -347263.446088] SLOW spr round 7 (radius: 20)
[12:52:33 -347263.445870] SLOW spr round 8 (radius: 25)
[12:57:46 -347255.892905] SLOW spr round 9 (radius: 5)
[13:00:10 -347254.268654] SLOW spr round 10 (radius: 5)
[13:02:15 -347254.267763] SLOW spr round 11 (radius: 10)
[13:04:08 -347254.267584] SLOW spr round 12 (radius: 15)
[13:06:44 -347254.267416] SLOW spr round 13 (radius: 20)
[13:10:35 -347254.267247] SLOW spr round 14 (radius: 25)
[13:15:43 -347254.267078] Model parameter optimization (eps = 0.100000)

[13:15:51] ML tree search #12, logLikelihood: -347253.734952

[13:15:51 -1583283.561402] Initial branch length optimization
[13:15:58 -1331333.216846] Model parameter optimization (eps = 10.000000)
[13:16:26 -1330271.425673] AUTODETECT spr round 1 (radius: 5)
[13:18:27 -850647.496825] AUTODETECT spr round 2 (radius: 10)
[13:20:32 -575053.216862] AUTODETECT spr round 3 (radius: 15)
[13:22:44 -479261.568959] AUTODETECT spr round 4 (radius: 20)
[13:25:05 -448441.399128] AUTODETECT spr round 5 (radius: 25)
[13:28:16 -418375.661484] SPR radius for FAST iterations: 25 (autodetect)
[13:28:16 -418375.661484] Model parameter optimization (eps = 3.000000)
[13:28:39 -418091.507285] FAST spr round 1 (radius: 25)
[13:30:55 -349758.832977] FAST spr round 2 (radius: 25)
[13:32:46 -347540.884405] FAST spr round 3 (radius: 25)
[13:34:23 -347364.602609] FAST spr round 4 (radius: 25)
[13:35:51 -347340.092759] FAST spr round 5 (radius: 25)
[13:37:15 -347336.084178] FAST spr round 6 (radius: 25)
[13:38:38 -347336.082911] Model parameter optimization (eps = 1.000000)
[13:39:08 -347329.008182] SLOW spr round 1 (radius: 5)
[13:41:01 -347258.554102] SLOW spr round 2 (radius: 5)
[13:42:52 -347246.869471] SLOW spr round 3 (radius: 5)
[13:44:38 -347246.829515] SLOW spr round 4 (radius: 10)
[13:46:27 -347245.742017] SLOW spr round 5 (radius: 5)
[13:48:44 -347239.135408] SLOW spr round 6 (radius: 5)
[13:50:43 -347239.133501] SLOW spr round 7 (radius: 10)
[13:52:34 -347236.741420] SLOW spr round 8 (radius: 5)
[13:54:48 -347236.740807] SLOW spr round 9 (radius: 10)
[13:56:46 -347236.740712] SLOW spr round 10 (radius: 15)
[13:59:20 -347236.740642] SLOW spr round 11 (radius: 20)
[14:03:14 -347236.740578] SLOW spr round 12 (radius: 25)
[14:08:29 -347228.157512] SLOW spr round 13 (radius: 5)
[14:10:51 -347228.157180] SLOW spr round 14 (radius: 10)
[14:12:58 -347228.157122] SLOW spr round 15 (radius: 15)
[14:15:32 -347228.157069] SLOW spr round 16 (radius: 20)
[14:19:28 -347228.157016] SLOW spr round 17 (radius: 25)
[14:24:42 -347228.156964] Model parameter optimization (eps = 0.100000)

[14:24:49] ML tree search #13, logLikelihood: -347227.731474

[14:24:49 -1573868.781494] Initial branch length optimization
[14:24:55 -1328288.533180] Model parameter optimization (eps = 10.000000)
[14:25:22 -1327276.228542] AUTODETECT spr round 1 (radius: 5)
[14:27:21 -869642.134079] AUTODETECT spr round 2 (radius: 10)
[14:29:33 -616373.454283] AUTODETECT spr round 3 (radius: 15)
[14:31:43 -502431.157196] AUTODETECT spr round 4 (radius: 20)
[14:34:14 -435013.631388] AUTODETECT spr round 5 (radius: 25)
[14:37:31 -409327.527718] SPR radius for FAST iterations: 25 (autodetect)
[14:37:31 -409327.527718] Model parameter optimization (eps = 3.000000)
[14:37:52 -409000.671952] FAST spr round 1 (radius: 25)
[14:40:04 -350682.464160] FAST spr round 2 (radius: 25)
[14:41:52 -347592.537064] FAST spr round 3 (radius: 25)
[14:43:30 -347358.267868] FAST spr round 4 (radius: 25)
[14:44:59 -347347.674931] FAST spr round 5 (radius: 25)
[14:46:23 -347347.670194] Model parameter optimization (eps = 1.000000)
[14:46:40 -347339.847881] SLOW spr round 1 (radius: 5)
[14:48:33 -347261.226285] SLOW spr round 2 (radius: 5)
[14:50:23 -347250.311283] SLOW spr round 3 (radius: 5)
[14:52:10 -347250.271454] SLOW spr round 4 (radius: 10)
[14:53:58 -347250.271209] SLOW spr round 5 (radius: 15)
[14:56:42 -347250.270968] SLOW spr round 6 (radius: 20)
[15:00:31 -347250.270728] SLOW spr round 7 (radius: 25)
[15:05:54 -347241.880731] SLOW spr round 8 (radius: 5)
[15:08:20 -347241.880147] SLOW spr round 9 (radius: 10)
[15:10:32 -347241.879905] SLOW spr round 10 (radius: 15)
[15:13:17 -347241.879669] SLOW spr round 11 (radius: 20)
[15:17:15 -347241.879434] SLOW spr round 12 (radius: 25)
[15:22:38 -347241.879200] Model parameter optimization (eps = 0.100000)

[15:22:47] ML tree search #14, logLikelihood: -347241.514717

[15:22:47 -1575031.350221] Initial branch length optimization
[15:22:54 -1323819.927771] Model parameter optimization (eps = 10.000000)
[15:23:24 -1322851.072712] AUTODETECT spr round 1 (radius: 5)
[15:25:28 -879804.914380] AUTODETECT spr round 2 (radius: 10)
[15:27:47 -630677.167381] AUTODETECT spr round 3 (radius: 15)
[15:30:11 -500173.548172] AUTODETECT spr round 4 (radius: 20)
[15:32:49 -465223.865650] AUTODETECT spr round 5 (radius: 25)
[15:35:42 -416675.137605] SPR radius for FAST iterations: 25 (autodetect)
[15:35:42 -416675.137605] Model parameter optimization (eps = 3.000000)
[15:35:59 -416325.046687] FAST spr round 1 (radius: 25)
[15:38:15 -351090.542057] FAST spr round 2 (radius: 25)
[15:40:04 -347582.396622] FAST spr round 3 (radius: 25)
[15:41:39 -347388.939170] FAST spr round 4 (radius: 25)
[15:43:09 -347368.865375] FAST spr round 5 (radius: 25)
[15:44:32 -347368.865322] Model parameter optimization (eps = 1.000000)
[15:44:54 -347346.102264] SLOW spr round 1 (radius: 5)
[15:46:47 -347275.807050] SLOW spr round 2 (radius: 5)
[15:48:36 -347271.279558] SLOW spr round 3 (radius: 5)
[15:50:22 -347271.278962] SLOW spr round 4 (radius: 10)
[15:52:11 -347271.278724] SLOW spr round 5 (radius: 15)
[15:54:53 -347271.278589] SLOW spr round 6 (radius: 20)
[15:58:43 -347271.278502] SLOW spr round 7 (radius: 25)
[16:03:57 -347266.143002] SLOW spr round 8 (radius: 5)
[16:06:22 -347261.075613] SLOW spr round 9 (radius: 5)
[16:08:27 -347261.075461] SLOW spr round 10 (radius: 10)
[16:10:21 -347261.075448] SLOW spr round 11 (radius: 15)
[16:12:58 -347261.075435] SLOW spr round 12 (radius: 20)
[16:16:51 -347261.075423] SLOW spr round 13 (radius: 25)
[16:21:59 -347261.075411] Model parameter optimization (eps = 0.100000)

[16:22:05] ML tree search #15, logLikelihood: -347260.919091

[16:22:05 -1589111.194793] Initial branch length optimization
[16:22:11 -1339823.194303] Model parameter optimization (eps = 10.000000)
[16:22:39 -1338759.878522] AUTODETECT spr round 1 (radius: 5)
[16:24:38 -846104.541933] AUTODETECT spr round 2 (radius: 10)
[16:26:46 -567058.982623] AUTODETECT spr round 3 (radius: 15)
[16:28:53 -473594.121627] AUTODETECT spr round 4 (radius: 20)
[16:31:29 -412537.053979] AUTODETECT spr round 5 (radius: 25)
[16:34:28 -404007.858465] SPR radius for FAST iterations: 25 (autodetect)
[16:34:28 -404007.858465] Model parameter optimization (eps = 3.000000)
[16:34:46 -403691.468249] FAST spr round 1 (radius: 25)
[16:37:06 -349360.108013] FAST spr round 2 (radius: 25)
[16:38:53 -347634.541475] FAST spr round 3 (radius: 25)
[16:40:30 -347378.774854] FAST spr round 4 (radius: 25)
[16:42:00 -347350.344148] FAST spr round 5 (radius: 25)
[16:43:26 -347346.929862] FAST spr round 6 (radius: 25)
[16:44:50 -347346.929782] Model parameter optimization (eps = 1.000000)
[16:45:15 -347324.619643] SLOW spr round 1 (radius: 5)
[16:47:09 -347248.752634] SLOW spr round 2 (radius: 5)
[16:49:02 -347241.271191] SLOW spr round 3 (radius: 5)
[16:50:51 -347236.844447] SLOW spr round 4 (radius: 5)
[16:52:37 -347236.844194] SLOW spr round 5 (radius: 10)
[16:54:24 -347236.844017] SLOW spr round 6 (radius: 15)
[16:57:06 -347236.843845] SLOW spr round 7 (radius: 20)
[17:00:55 -347236.843676] SLOW spr round 8 (radius: 25)
[17:06:09 -347228.350691] SLOW spr round 9 (radius: 5)
[17:08:31 -347228.350222] SLOW spr round 10 (radius: 10)
[17:10:36 -347228.350051] SLOW spr round 11 (radius: 15)
[17:13:08 -347228.349886] SLOW spr round 12 (radius: 20)
[17:17:01 -347228.349721] SLOW spr round 13 (radius: 25)
[17:22:15 -347228.349556] Model parameter optimization (eps = 0.100000)

[17:22:26] ML tree search #16, logLikelihood: -347227.875671

[17:22:26 -1569580.222302] Initial branch length optimization
[17:22:34 -1331013.969984] Model parameter optimization (eps = 10.000000)
[17:22:59 -1330017.848087] AUTODETECT spr round 1 (radius: 5)
[17:24:59 -841716.836892] AUTODETECT spr round 2 (radius: 10)
[17:27:03 -587859.356997] AUTODETECT spr round 3 (radius: 15)
[17:29:18 -459704.444575] AUTODETECT spr round 4 (radius: 20)
[17:31:58 -402717.142765] AUTODETECT spr round 5 (radius: 25)
[17:34:38 -399475.279653] SPR radius for FAST iterations: 25 (autodetect)
[17:34:38 -399475.279653] Model parameter optimization (eps = 3.000000)
[17:34:57 -399235.691874] FAST spr round 1 (radius: 25)
[17:37:09 -349919.739476] FAST spr round 2 (radius: 25)
[17:38:57 -347669.145969] FAST spr round 3 (radius: 25)
[17:40:37 -347385.027034] FAST spr round 4 (radius: 25)
[17:42:09 -347357.933448] FAST spr round 5 (radius: 25)
[17:43:36 -347351.832438] FAST spr round 6 (radius: 25)
[17:45:00 -347351.813565] Model parameter optimization (eps = 1.000000)
[17:45:18 -347340.997149] SLOW spr round 1 (radius: 5)
[17:47:10 -347271.239891] SLOW spr round 2 (radius: 5)
[17:49:01 -347263.621843] SLOW spr round 3 (radius: 5)
[17:50:47 -347263.583141] SLOW spr round 4 (radius: 10)
[17:52:35 -347263.582774] SLOW spr round 5 (radius: 15)
[17:55:17 -347263.582496] SLOW spr round 6 (radius: 20)
[17:59:08 -347263.582265] SLOW spr round 7 (radius: 25)
[18:04:21 -347258.938430] SLOW spr round 8 (radius: 5)
[18:06:46 -347254.612801] SLOW spr round 9 (radius: 5)
[18:08:51 -347254.611928] SLOW spr round 10 (radius: 10)
[18:10:44 -347254.611753] SLOW spr round 11 (radius: 15)
[18:13:21 -347254.611589] SLOW spr round 12 (radius: 20)
[18:17:14 -347254.611425] SLOW spr round 13 (radius: 25)
[18:22:22 -347254.611261] Model parameter optimization (eps = 0.100000)

[18:22:33] ML tree search #17, logLikelihood: -347254.042860

[18:22:33 -1592602.774460] Initial branch length optimization
[18:22:39 -1333068.643251] Model parameter optimization (eps = 10.000000)
[18:23:11 -1332092.773367] AUTODETECT spr round 1 (radius: 5)
[18:25:13 -874869.146714] AUTODETECT spr round 2 (radius: 10)
[18:27:34 -611783.147192] AUTODETECT spr round 3 (radius: 15)
[18:29:45 -481996.763897] AUTODETECT spr round 4 (radius: 20)
[18:32:09 -420639.450566] AUTODETECT spr round 5 (radius: 25)
[18:35:02 -411681.119239] SPR radius for FAST iterations: 25 (autodetect)
[18:35:02 -411681.119239] Model parameter optimization (eps = 3.000000)
[18:35:20 -411307.447610] FAST spr round 1 (radius: 25)
[18:37:32 -349926.317534] FAST spr round 2 (radius: 25)
[18:39:16 -347530.743775] FAST spr round 3 (radius: 25)
[18:40:52 -347354.631689] FAST spr round 4 (radius: 25)
[18:42:25 -347329.320791] FAST spr round 5 (radius: 25)
[18:43:49 -347329.319583] Model parameter optimization (eps = 1.000000)
[18:44:08 -347318.446421] SLOW spr round 1 (radius: 5)
[18:46:01 -347259.595385] SLOW spr round 2 (radius: 5)
[18:47:50 -347257.010259] SLOW spr round 3 (radius: 5)
[18:49:52 -347257.009948] SLOW spr round 4 (radius: 10)
[18:51:42 -347257.009662] SLOW spr round 5 (radius: 15)
[18:54:27 -347257.009378] SLOW spr round 6 (radius: 20)
[18:58:22 -347257.009095] SLOW spr round 7 (radius: 25)
[19:03:48 -347249.070852] SLOW spr round 8 (radius: 5)
[19:06:12 -347249.069878] SLOW spr round 9 (radius: 10)
[19:08:21 -347249.069586] SLOW spr round 10 (radius: 15)
[19:10:58 -347249.069308] SLOW spr round 11 (radius: 20)
[19:14:58 -347249.069032] SLOW spr round 12 (radius: 25)
[19:20:22 -347249.068757] Model parameter optimization (eps = 0.100000)

[19:20:37] ML tree search #18, logLikelihood: -347247.524599

[19:20:37 -1572830.876837] Initial branch length optimization
[19:20:42 -1331279.763256] Model parameter optimization (eps = 10.000000)
[19:21:08 -1330307.847000] AUTODETECT spr round 1 (radius: 5)
[19:23:10 -850537.616347] AUTODETECT spr round 2 (radius: 10)
[19:25:18 -568722.553656] AUTODETECT spr round 3 (radius: 15)
[19:27:32 -468195.440042] AUTODETECT spr round 4 (radius: 20)
[19:30:04 -417880.590361] AUTODETECT spr round 5 (radius: 25)
[19:32:53 -407580.029364] SPR radius for FAST iterations: 25 (autodetect)
[19:32:53 -407580.029364] Model parameter optimization (eps = 3.000000)
[19:33:15 -407287.046092] FAST spr round 1 (radius: 25)
[19:35:22 -350821.940410] FAST spr round 2 (radius: 25)
[19:37:12 -347425.327595] FAST spr round 3 (radius: 25)
[19:38:52 -347326.724156] FAST spr round 4 (radius: 25)
[19:40:20 -347318.888700] FAST spr round 5 (radius: 25)
[19:41:44 -347318.887914] Model parameter optimization (eps = 1.000000)
[19:41:53 -347318.081967] SLOW spr round 1 (radius: 5)
[19:43:47 -347256.528048] SLOW spr round 2 (radius: 5)
[19:45:37 -347251.231354] SLOW spr round 3 (radius: 5)
[19:47:27 -347250.645104] SLOW spr round 4 (radius: 5)
[19:49:14 -347250.642018] SLOW spr round 5 (radius: 10)
[19:51:01 -347250.641601] SLOW spr round 6 (radius: 15)
[19:53:45 -347250.641401] SLOW spr round 7 (radius: 20)
[19:57:36 -347250.641237] SLOW spr round 8 (radius: 25)
[20:02:54 -347244.200874] SLOW spr round 9 (radius: 5)
[20:05:18 -347244.200254] SLOW spr round 10 (radius: 10)
[20:07:24 -347244.200082] SLOW spr round 11 (radius: 15)
[20:09:58 -347244.199919] SLOW spr round 12 (radius: 20)
[20:13:56 -347244.199757] SLOW spr round 13 (radius: 25)
[20:19:13 -347244.199595] Model parameter optimization (eps = 0.100000)

[20:19:34] ML tree search #19, logLikelihood: -347234.910228

[20:19:34 -1588153.801484] Initial branch length optimization
[20:19:40 -1340910.066598] Model parameter optimization (eps = 10.000000)
[20:20:12 -1339885.499327] AUTODETECT spr round 1 (radius: 5)
[20:22:11 -838299.807391] AUTODETECT spr round 2 (radius: 10)
[20:24:14 -601418.158402] AUTODETECT spr round 3 (radius: 15)
[20:26:28 -471741.028731] AUTODETECT spr round 4 (radius: 20)
[20:29:01 -418921.001863] AUTODETECT spr round 5 (radius: 25)
[20:31:38 -405758.844500] SPR radius for FAST iterations: 25 (autodetect)
[20:31:38 -405758.844500] Model parameter optimization (eps = 3.000000)
[20:32:02 -405480.564071] FAST spr round 1 (radius: 25)
[20:34:14 -349681.115053] FAST spr round 2 (radius: 25)
[20:36:02 -347663.498462] FAST spr round 3 (radius: 25)
[20:37:38 -347414.831597] FAST spr round 4 (radius: 25)
[20:39:10 -347383.378297] FAST spr round 5 (radius: 25)
[20:40:37 -347372.810043] FAST spr round 6 (radius: 25)
[20:42:01 -347371.651474] FAST spr round 7 (radius: 25)
[20:43:24 -347371.650934] Model parameter optimization (eps = 1.000000)
[20:43:30 -347371.458063] SLOW spr round 1 (radius: 5)
[20:45:22 -347300.450307] SLOW spr round 2 (radius: 5)
[20:47:11 -347281.657770] SLOW spr round 3 (radius: 5)
[20:48:56 -347281.617718] SLOW spr round 4 (radius: 10)
[20:50:46 -347281.617455] SLOW spr round 5 (radius: 15)
[20:53:29 -347281.617265] SLOW spr round 6 (radius: 20)
[20:57:22 -347281.617105] SLOW spr round 7 (radius: 25)
[21:02:41 -347278.056444] SLOW spr round 8 (radius: 5)
[21:05:06 -347272.595941] SLOW spr round 9 (radius: 5)
[21:07:12 -347272.595371] SLOW spr round 10 (radius: 10)
[21:09:07 -347272.595264] SLOW spr round 11 (radius: 15)
[21:11:47 -347272.595167] SLOW spr round 12 (radius: 20)
[21:15:42 -347272.595071] SLOW spr round 13 (radius: 25)
[21:20:55 -347272.594976] Model parameter optimization (eps = 0.100000)

[21:21:13] ML tree search #20, logLikelihood: -347263.027779


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.196541,0.246490) (0.161322,0.419631) (0.367048,0.956310) (0.275090,1.936994) 
   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: -347224.332335

AIC score: 698458.664669 / AICc score: 8742518.664669 / BIC score: 708375.422721
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1039).
         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/Q9P2P6/3_mltree/Q9P2P6.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/3_mltree/Q9P2P6.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/3_mltree/Q9P2P6.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2P6/3_mltree/Q9P2P6.raxml.log

Analysis started: 13-Jul-2021 22:10:26 / finished: 14-Jul-2021 19:31:40

Elapsed time: 76873.736 seconds

Consumed energy: 6998.432 Wh (= 35 km in an electric car, or 175 km with an e-scooter!)