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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM

RAxML-NG was called at 31-Jul-2021 05:39:24 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/2_msa/Q8TEQ0_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/2_msa/Q8TEQ0_trimmed_msa.fasta
[00:00:00] Loaded alignment with 776 taxa and 1282 sites

WARNING: Sequences tr_G3SKQ3_G3SKQ3_GORGO_9595 and tr_H2PMZ7_H2PMZ7_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3SKQ3_G3SKQ3_GORGO_9595 and tr_A0A2I3S077_A0A2I3S077_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3SKQ3_G3SKQ3_GORGO_9595 and sp_Q96NL0_RUN3B_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A179ULN7_A0A179ULN7_BLAGS_559298 and tr_C5GAD1_C5GAD1_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_H2QD91_H2QD91_PANTR_9598 and tr_A0A2R9C6Q4_A0A2R9C6Q4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F6UUH3_F6UUH3_MACMU_9544 and tr_A0A2K6C681_A0A2K6C681_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7H3W4_F7H3W4_MACMU_9544 and tr_G7P1V7_G7P1V7_MACFA_9541 are exactly identical!
WARNING: Sequences tr_H0ZUH3_H0ZUH3_TAEGU_59729 and tr_A0A091ENP5_A0A091ENP5_CORBR_85066 are exactly identical!
WARNING: Sequences tr_A0A096NZX7_A0A096NZX7_PAPAN_9555 and tr_A0A2K5LUH7_A0A2K5LUH7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096NZX7_A0A096NZX7_PAPAN_9555 and tr_A0A2K6A262_A0A2K6A262_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A091J5X2_A0A091J5X2_EGRGA_188379 and tr_A0A0A0AWG2_A0A0A0AWG2_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091URB8_A0A091URB8_NIPNI_128390 and tr_A0A087QT95_A0A087QT95_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A1S3I2R1_A0A1S3I2R1_LINUN_7574 and tr_A0A1S3I3Z6_A0A1S3I3Z6_LINUN_7574 are exactly identical!
WARNING: Sequences tr_A0A2D0PHW0_A0A2D0PHW0_ICTPU_7998 and tr_A0A2D0PJC5_A0A2D0PJC5_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0RAB2_A0A2D0RAB2_ICTPU_7998 and tr_A0A2D0RBI9_A0A2D0RBI9_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 15

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.raxml.reduced.phy

Alignment comprises 1 partitions and 1282 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1282 / 1282
Gaps: 48.97 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.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 776 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 143 / 11440
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1173253.473930] Initial branch length optimization
[00:00:04 -968458.805016] Model parameter optimization (eps = 10.000000)
[00:00:47 -963951.847753] AUTODETECT spr round 1 (radius: 5)
[00:02:18 -690614.796593] AUTODETECT spr round 2 (radius: 10)
[00:04:01 -512049.213047] AUTODETECT spr round 3 (radius: 15)
[00:05:56 -450938.747264] AUTODETECT spr round 4 (radius: 20)
[00:08:15 -415221.055115] AUTODETECT spr round 5 (radius: 25)
[00:11:33 -404805.353003] SPR radius for FAST iterations: 25 (autodetect)
[00:11:33 -404805.353003] Model parameter optimization (eps = 3.000000)
[00:12:08 -403903.774672] FAST spr round 1 (radius: 25)
[00:14:41 -358101.461905] FAST spr round 2 (radius: 25)
[00:16:36 -356131.754478] FAST spr round 3 (radius: 25)
[00:18:09 -355937.508336] FAST spr round 4 (radius: 25)
[00:19:30 -355919.938219] FAST spr round 5 (radius: 25)
[00:20:43 -355916.877058] FAST spr round 6 (radius: 25)
[00:21:53 -355916.875373] Model parameter optimization (eps = 1.000000)
[00:22:06 -355910.749549] SLOW spr round 1 (radius: 5)
[00:23:51 -355834.016920] SLOW spr round 2 (radius: 5)
[00:25:36 -355820.824647] SLOW spr round 3 (radius: 5)
[00:27:15 -355820.257594] SLOW spr round 4 (radius: 5)
[00:28:51 -355820.254869] SLOW spr round 5 (radius: 10)
[00:30:39 -355818.242662] SLOW spr round 6 (radius: 5)
[00:32:45 -355816.817181] SLOW spr round 7 (radius: 5)
[00:34:34 -355816.815602] SLOW spr round 8 (radius: 10)
[00:36:26 -355816.740791] SLOW spr round 9 (radius: 15)
[00:40:12 -355816.737612] SLOW spr round 10 (radius: 20)
[00:45:49 -355816.737008] SLOW spr round 11 (radius: 25)
[00:52:25 -355816.736891] Model parameter optimization (eps = 0.100000)

[00:52:30] ML tree search #1, logLikelihood: -355816.638253

[00:52:30 -1165057.639030] Initial branch length optimization
[00:52:34 -964771.167697] Model parameter optimization (eps = 10.000000)
[00:53:28 -959928.026708] AUTODETECT spr round 1 (radius: 5)
[00:55:01 -695927.765582] AUTODETECT spr round 2 (radius: 10)
[00:56:47 -497888.531843] AUTODETECT spr round 3 (radius: 15)
[00:58:46 -415690.270041] AUTODETECT spr round 4 (radius: 20)
[01:00:55 -393669.002238] AUTODETECT spr round 5 (radius: 25)
[01:03:30 -391804.408519] SPR radius for FAST iterations: 25 (autodetect)
[01:03:30 -391804.408519] Model parameter optimization (eps = 3.000000)
[01:03:59 -390897.492065] FAST spr round 1 (radius: 25)
[01:06:25 -357121.556027] FAST spr round 2 (radius: 25)
[01:08:09 -356101.245341] FAST spr round 3 (radius: 25)
[01:09:37 -355952.179996] FAST spr round 4 (radius: 25)
[01:10:55 -355930.263110] FAST spr round 5 (radius: 25)
[01:12:06 -355929.920773] FAST spr round 6 (radius: 25)
[01:13:17 -355929.473259] FAST spr round 7 (radius: 25)
[01:14:26 -355929.471059] Model parameter optimization (eps = 1.000000)
[01:14:35 -355924.722367] SLOW spr round 1 (radius: 5)
[01:16:15 -355839.282621] SLOW spr round 2 (radius: 5)
[01:17:56 -355832.129651] SLOW spr round 3 (radius: 5)
[01:19:34 -355832.125953] SLOW spr round 4 (radius: 10)
[01:21:20 -355830.714486] SLOW spr round 5 (radius: 5)
[01:23:27 -355830.256735] SLOW spr round 6 (radius: 5)
[01:25:16 -355830.255471] SLOW spr round 7 (radius: 10)
[01:27:09 -355828.982820] SLOW spr round 8 (radius: 5)
[01:29:12 -355828.975587] SLOW spr round 9 (radius: 10)
[01:31:17 -355828.974119] SLOW spr round 10 (radius: 15)
[01:34:45 -355828.973740] SLOW spr round 11 (radius: 20)
[01:40:14 -355828.973647] SLOW spr round 12 (radius: 25)
[01:46:38 -355828.973625] Model parameter optimization (eps = 0.100000)

[01:46:46] ML tree search #2, logLikelihood: -355828.765399

[01:46:46 -1165980.452433] Initial branch length optimization
[01:46:51 -967981.336140] Model parameter optimization (eps = 10.000000)
[01:47:33 -963363.941637] AUTODETECT spr round 1 (radius: 5)
[01:49:06 -698616.257604] AUTODETECT spr round 2 (radius: 10)
[01:50:52 -505499.617211] AUTODETECT spr round 3 (radius: 15)
[01:52:49 -416906.289043] AUTODETECT spr round 4 (radius: 20)
[01:55:09 -398341.005458] AUTODETECT spr round 5 (radius: 25)
[01:57:45 -395156.519419] SPR radius for FAST iterations: 25 (autodetect)
[01:57:45 -395156.519419] Model parameter optimization (eps = 3.000000)
[01:58:10 -394390.207770] FAST spr round 1 (radius: 25)
[02:00:29 -357186.659614] FAST spr round 2 (radius: 25)
[02:02:20 -356105.287196] FAST spr round 3 (radius: 25)
[02:03:52 -355972.528925] FAST spr round 4 (radius: 25)
[02:05:14 -355946.870535] FAST spr round 5 (radius: 25)
[02:06:26 -355946.870000] Model parameter optimization (eps = 1.000000)
[02:06:40 -355932.949174] SLOW spr round 1 (radius: 5)
[02:08:31 -355841.713113] SLOW spr round 2 (radius: 5)
[02:10:13 -355834.933517] SLOW spr round 3 (radius: 5)
[02:11:53 -355834.866330] SLOW spr round 4 (radius: 10)
[02:13:39 -355834.029989] SLOW spr round 5 (radius: 5)
[02:15:46 -355834.024800] SLOW spr round 6 (radius: 10)
[02:17:51 -355834.024230] SLOW spr round 7 (radius: 15)
[02:21:16 -355834.024164] SLOW spr round 8 (radius: 20)
[02:26:32 -355834.024156] SLOW spr round 9 (radius: 25)
[02:32:42 -355834.024155] Model parameter optimization (eps = 0.100000)

[02:32:50] ML tree search #3, logLikelihood: -355833.881066

[02:32:50 -1171406.516095] Initial branch length optimization
[02:32:54 -972072.580948] Model parameter optimization (eps = 10.000000)
[02:33:50 -967617.996786] AUTODETECT spr round 1 (radius: 5)
[02:35:23 -695736.155170] AUTODETECT spr round 2 (radius: 10)
[02:37:08 -502154.508961] AUTODETECT spr round 3 (radius: 15)
[02:39:02 -438889.912871] AUTODETECT spr round 4 (radius: 20)
[02:41:15 -401859.072919] AUTODETECT spr round 5 (radius: 25)
[02:44:07 -396327.790096] SPR radius for FAST iterations: 25 (autodetect)
[02:44:07 -396327.790096] Model parameter optimization (eps = 3.000000)
[02:44:44 -395568.443756] FAST spr round 1 (radius: 25)
[02:47:15 -357764.939436] FAST spr round 2 (radius: 25)
[02:49:10 -356053.675091] FAST spr round 3 (radius: 25)
[02:50:45 -355942.148905] FAST spr round 4 (radius: 25)
[02:52:05 -355921.921946] FAST spr round 5 (radius: 25)
[02:53:18 -355914.523509] FAST spr round 6 (radius: 25)
[02:54:28 -355914.523240] Model parameter optimization (eps = 1.000000)
[02:54:43 -355909.368108] SLOW spr round 1 (radius: 5)
[02:56:32 -355828.842819] SLOW spr round 2 (radius: 5)
[02:58:15 -355826.560541] SLOW spr round 3 (radius: 5)
[02:59:52 -355826.552132] SLOW spr round 4 (radius: 10)
[03:01:40 -355826.154738] SLOW spr round 5 (radius: 5)
[03:03:45 -355826.154084] SLOW spr round 6 (radius: 10)
[03:05:51 -355826.153865] SLOW spr round 7 (radius: 15)
[03:09:15 -355826.153784] SLOW spr round 8 (radius: 20)
[03:14:35 -355826.153752] SLOW spr round 9 (radius: 25)
[03:20:56 -355826.153738] Model parameter optimization (eps = 0.100000)

[03:21:06] ML tree search #4, logLikelihood: -355826.018750

[03:21:07 -1162440.111923] Initial branch length optimization
[03:21:11 -967296.776737] Model parameter optimization (eps = 10.000000)
[03:22:01 -962702.552296] AUTODETECT spr round 1 (radius: 5)
[03:23:35 -683886.893256] AUTODETECT spr round 2 (radius: 10)
[03:25:18 -493472.036244] AUTODETECT spr round 3 (radius: 15)
[03:27:23 -413641.263478] AUTODETECT spr round 4 (radius: 20)
[03:29:43 -396596.421039] AUTODETECT spr round 5 (radius: 25)
[03:32:49 -390170.075802] SPR radius for FAST iterations: 25 (autodetect)
[03:32:49 -390170.075802] Model parameter optimization (eps = 3.000000)
[03:33:18 -389454.721014] FAST spr round 1 (radius: 25)
[03:35:44 -357613.257654] FAST spr round 2 (radius: 25)
[03:37:35 -355986.107584] FAST spr round 3 (radius: 25)
[03:39:04 -355958.302617] FAST spr round 4 (radius: 25)
[03:40:24 -355917.953343] FAST spr round 5 (radius: 25)
[03:41:38 -355917.118167] FAST spr round 6 (radius: 25)
[03:42:49 -355915.386451] FAST spr round 7 (radius: 25)
[03:43:59 -355912.714329] FAST spr round 8 (radius: 25)
[03:45:21 -355904.619605] FAST spr round 9 (radius: 25)
[03:46:31 -355904.618741] Model parameter optimization (eps = 1.000000)
[03:46:50 -355889.369198] SLOW spr round 1 (radius: 5)
[03:48:37 -355826.995933] SLOW spr round 2 (radius: 5)
[03:50:16 -355823.816769] SLOW spr round 3 (radius: 5)
[03:51:54 -355823.815855] SLOW spr round 4 (radius: 10)
[03:53:42 -355823.083370] SLOW spr round 5 (radius: 5)
[03:55:50 -355821.861862] SLOW spr round 6 (radius: 5)
[03:57:42 -355819.647214] SLOW spr round 7 (radius: 5)
[03:59:24 -355819.646974] SLOW spr round 8 (radius: 10)
[04:01:14 -355819.646945] SLOW spr round 9 (radius: 15)
[04:05:14 -355819.646942] SLOW spr round 10 (radius: 20)
[04:10:56 -355819.646941] SLOW spr round 11 (radius: 25)
[04:17:46 -355819.646941] Model parameter optimization (eps = 0.100000)

[04:17:51] ML tree search #5, logLikelihood: -355819.616759

[04:17:51 -1165521.069903] Initial branch length optimization
[04:17:55 -966331.551169] Model parameter optimization (eps = 10.000000)
[04:18:43 -961829.998604] AUTODETECT spr round 1 (radius: 5)
[04:20:17 -704914.568994] AUTODETECT spr round 2 (radius: 10)
[04:22:04 -492777.453529] AUTODETECT spr round 3 (radius: 15)
[04:23:59 -433436.866445] AUTODETECT spr round 4 (radius: 20)
[04:25:58 -421186.287175] AUTODETECT spr round 5 (radius: 25)
[04:28:28 -409123.765782] SPR radius for FAST iterations: 25 (autodetect)
[04:28:28 -409123.765782] Model parameter optimization (eps = 3.000000)
[04:28:58 -408302.103976] FAST spr round 1 (radius: 25)
[04:31:30 -360963.578936] FAST spr round 2 (radius: 25)
[04:33:17 -356233.389706] FAST spr round 3 (radius: 25)
[04:34:48 -355992.777511] FAST spr round 4 (radius: 25)
[04:36:10 -355956.328455] FAST spr round 5 (radius: 25)
[04:37:34 -355925.975745] FAST spr round 6 (radius: 25)
[04:38:50 -355919.986679] FAST spr round 7 (radius: 25)
[04:40:01 -355919.983570] Model parameter optimization (eps = 1.000000)
[04:40:15 -355916.014173] SLOW spr round 1 (radius: 5)
[04:41:58 -355834.969910] SLOW spr round 2 (radius: 5)
[04:43:42 -355831.131358] SLOW spr round 3 (radius: 5)
[04:45:32 -355831.125338] SLOW spr round 4 (radius: 10)
[04:47:27 -355829.919682] SLOW spr round 5 (radius: 5)
[04:49:35 -355829.167846] SLOW spr round 6 (radius: 5)
[04:51:26 -355829.167240] SLOW spr round 7 (radius: 10)
[04:53:21 -355828.380794] SLOW spr round 8 (radius: 5)
[04:55:25 -355828.380589] SLOW spr round 9 (radius: 10)
[04:57:32 -355828.380571] SLOW spr round 10 (radius: 15)
[05:00:59 -355828.380565] SLOW spr round 11 (radius: 20)
[05:06:30 -355828.380561] SLOW spr round 12 (radius: 25)
[05:12:56 -355828.380558] Model parameter optimization (eps = 0.100000)

[05:13:04] ML tree search #6, logLikelihood: -355828.203847

[05:13:04 -1163441.254980] Initial branch length optimization
[05:13:08 -966555.205519] Model parameter optimization (eps = 10.000000)
[05:13:59 -961906.436805] AUTODETECT spr round 1 (radius: 5)
[05:15:33 -705843.199977] AUTODETECT spr round 2 (radius: 10)
[05:17:20 -530598.231429] AUTODETECT spr round 3 (radius: 15)
[05:19:20 -447836.416707] AUTODETECT spr round 4 (radius: 20)
[05:21:39 -411481.126666] AUTODETECT spr round 5 (radius: 25)
[05:24:39 -402685.339221] SPR radius for FAST iterations: 25 (autodetect)
[05:24:39 -402685.339221] Model parameter optimization (eps = 3.000000)
[05:25:09 -401852.509352] FAST spr round 1 (radius: 25)
[05:27:34 -357822.235740] FAST spr round 2 (radius: 25)
[05:29:25 -356061.992828] FAST spr round 3 (radius: 25)
[05:30:59 -355942.016374] FAST spr round 4 (radius: 25)
[05:32:16 -355938.011682] FAST spr round 5 (radius: 25)
[05:33:28 -355938.009215] Model parameter optimization (eps = 1.000000)
[05:33:41 -355934.471078] SLOW spr round 1 (radius: 5)
[05:35:29 -355837.801061] SLOW spr round 2 (radius: 5)
[05:37:13 -355827.082308] SLOW spr round 3 (radius: 5)
[05:38:51 -355827.077142] SLOW spr round 4 (radius: 10)
[05:40:37 -355826.680105] SLOW spr round 5 (radius: 5)
[05:42:43 -355826.680089] SLOW spr round 6 (radius: 10)
[05:44:47 -355826.680088] SLOW spr round 7 (radius: 15)
[05:48:14 -355826.680088] SLOW spr round 8 (radius: 20)
[05:53:39 -355826.680088] SLOW spr round 9 (radius: 25)
[05:59:51 -355825.938735] SLOW spr round 10 (radius: 5)
[06:02:08 -355825.928593] SLOW spr round 11 (radius: 10)
[06:04:31 -355825.926830] SLOW spr round 12 (radius: 15)
[06:07:52 -355825.926524] SLOW spr round 13 (radius: 20)
[06:13:18 -355825.926470] SLOW spr round 14 (radius: 25)
[06:19:29 -355825.926461] Model parameter optimization (eps = 0.100000)

[06:19:37] ML tree search #7, logLikelihood: -355825.683656

[06:19:37 -1171024.216214] Initial branch length optimization
[06:19:41 -963105.663381] Model parameter optimization (eps = 10.000000)
[06:20:34 -958467.157050] AUTODETECT spr round 1 (radius: 5)
[06:22:07 -705908.495712] AUTODETECT spr round 2 (radius: 10)
[06:23:54 -523984.292058] AUTODETECT spr round 3 (radius: 15)
[06:25:53 -448002.220888] AUTODETECT spr round 4 (radius: 20)
[06:28:23 -410256.211135] AUTODETECT spr round 5 (radius: 25)
[06:31:22 -407416.246353] SPR radius for FAST iterations: 25 (autodetect)
[06:31:22 -407416.246353] Model parameter optimization (eps = 3.000000)
[06:31:50 -406552.606576] FAST spr round 1 (radius: 25)
[06:34:14 -358675.964606] FAST spr round 2 (radius: 25)
[06:35:59 -356030.819728] FAST spr round 3 (radius: 25)
[06:37:26 -355922.729630] FAST spr round 4 (radius: 25)
[06:38:44 -355910.121454] FAST spr round 5 (radius: 25)
[06:39:57 -355907.024151] FAST spr round 6 (radius: 25)
[06:41:07 -355907.023784] Model parameter optimization (eps = 1.000000)
[06:41:21 -355895.167461] SLOW spr round 1 (radius: 5)
[06:43:04 -355827.456438] SLOW spr round 2 (radius: 5)
[06:44:45 -355826.246070] SLOW spr round 3 (radius: 5)
[06:46:23 -355826.245928] SLOW spr round 4 (radius: 10)
[06:48:11 -355824.938952] SLOW spr round 5 (radius: 5)
[06:50:18 -355824.938036] SLOW spr round 6 (radius: 10)
[06:52:27 -355824.172859] SLOW spr round 7 (radius: 5)
[06:54:30 -355824.171786] SLOW spr round 8 (radius: 10)
[06:56:32 -355824.171687] SLOW spr round 9 (radius: 15)
[07:00:11 -355824.171658] SLOW spr round 10 (radius: 20)
[07:05:55 -355824.171647] SLOW spr round 11 (radius: 25)
[07:12:33 -355824.171643] Model parameter optimization (eps = 0.100000)

[07:12:45] ML tree search #8, logLikelihood: -355823.893536

[07:12:45 -1163933.850874] Initial branch length optimization
[07:12:50 -961952.888053] Model parameter optimization (eps = 10.000000)
[07:13:30 -957333.949321] AUTODETECT spr round 1 (radius: 5)
[07:15:05 -689336.113206] AUTODETECT spr round 2 (radius: 10)
[07:16:51 -514383.332748] AUTODETECT spr round 3 (radius: 15)
[07:18:50 -448452.883658] AUTODETECT spr round 4 (radius: 20)
[07:21:07 -406184.307023] AUTODETECT spr round 5 (radius: 25)
[07:23:37 -395468.330043] SPR radius for FAST iterations: 25 (autodetect)
[07:23:37 -395468.330043] Model parameter optimization (eps = 3.000000)
[07:24:05 -394599.479898] FAST spr round 1 (radius: 25)
[07:26:30 -358870.092372] FAST spr round 2 (radius: 25)
[07:28:24 -356150.923447] FAST spr round 3 (radius: 25)
[07:30:00 -355951.063947] FAST spr round 4 (radius: 25)
[07:31:18 -355945.114615] FAST spr round 5 (radius: 25)
[07:32:31 -355933.151387] FAST spr round 6 (radius: 25)
[07:33:42 -355933.149241] Model parameter optimization (eps = 1.000000)
[07:33:56 -355927.821059] SLOW spr round 1 (radius: 5)
[07:35:37 -355857.944992] SLOW spr round 2 (radius: 5)
[07:37:21 -355836.763023] SLOW spr round 3 (radius: 5)
[07:39:02 -355827.976487] SLOW spr round 4 (radius: 5)
[07:40:41 -355827.092335] SLOW spr round 5 (radius: 5)
[07:42:19 -355827.092297] SLOW spr round 6 (radius: 10)
[07:44:08 -355824.513413] SLOW spr round 7 (radius: 5)
[07:46:15 -355824.070285] SLOW spr round 8 (radius: 5)
[07:48:06 -355824.069905] SLOW spr round 9 (radius: 10)
[07:49:59 -355823.931936] SLOW spr round 10 (radius: 5)
[07:52:06 -355823.603703] SLOW spr round 11 (radius: 5)
[07:53:57 -355823.565323] SLOW spr round 12 (radius: 10)
[07:55:50 -355823.564510] SLOW spr round 13 (radius: 15)
[07:59:37 -355823.564211] SLOW spr round 14 (radius: 20)
[08:05:16 -355823.564051] SLOW spr round 15 (radius: 25)
[08:11:59 -355823.563967] Model parameter optimization (eps = 0.100000)

[08:12:08] ML tree search #9, logLikelihood: -355823.359239

[08:12:08 -1173853.985999] Initial branch length optimization
[08:12:13 -966559.860891] Model parameter optimization (eps = 10.000000)
[08:13:02 -962045.834407] AUTODETECT spr round 1 (radius: 5)
[08:14:35 -682330.595258] AUTODETECT spr round 2 (radius: 10)
[08:16:18 -516474.789293] AUTODETECT spr round 3 (radius: 15)
[08:18:18 -431140.039963] AUTODETECT spr round 4 (radius: 20)
[08:20:47 -400125.018236] AUTODETECT spr round 5 (radius: 25)
[08:24:41 -397701.354416] SPR radius for FAST iterations: 25 (autodetect)
[08:24:41 -397701.354416] Model parameter optimization (eps = 3.000000)
[08:25:10 -396977.853407] FAST spr round 1 (radius: 25)
[08:27:54 -358076.306001] FAST spr round 2 (radius: 25)
[08:29:44 -355977.050503] FAST spr round 3 (radius: 25)
[08:31:12 -355943.396134] FAST spr round 4 (radius: 25)
[08:32:32 -355925.178172] FAST spr round 5 (radius: 25)
[08:33:44 -355925.177587] Model parameter optimization (eps = 1.000000)
[08:34:01 -355917.410977] SLOW spr round 1 (radius: 5)
[08:35:48 -355823.993254] SLOW spr round 2 (radius: 5)
[08:37:30 -355823.968271] SLOW spr round 3 (radius: 10)
[08:39:18 -355822.551160] SLOW spr round 4 (radius: 5)
[08:41:25 -355822.382713] SLOW spr round 5 (radius: 5)
[08:43:15 -355822.381943] SLOW spr round 6 (radius: 10)
[08:45:07 -355821.793398] SLOW spr round 7 (radius: 5)
[08:47:14 -355821.338127] SLOW spr round 8 (radius: 5)
[08:49:06 -355821.325986] SLOW spr round 9 (radius: 10)
[08:50:56 -355821.325575] SLOW spr round 10 (radius: 15)
[08:54:35 -355821.325431] SLOW spr round 11 (radius: 20)
[08:59:49 -355821.325382] SLOW spr round 12 (radius: 25)
[09:05:52 -355821.325364] Model parameter optimization (eps = 0.100000)

[09:05:59] ML tree search #10, logLikelihood: -355821.121682

[09:05:59 -1171048.929211] Initial branch length optimization
[09:06:03 -970698.793194] Model parameter optimization (eps = 10.000000)
[09:06:41 -966001.271337] AUTODETECT spr round 1 (radius: 5)
[09:08:16 -704506.593621] AUTODETECT spr round 2 (radius: 10)
[09:10:04 -519746.486010] AUTODETECT spr round 3 (radius: 15)
[09:11:59 -438861.597678] AUTODETECT spr round 4 (radius: 20)
[09:14:15 -399832.237701] AUTODETECT spr round 5 (radius: 25)
[09:17:10 -393644.267731] SPR radius for FAST iterations: 25 (autodetect)
[09:17:10 -393644.267731] Model parameter optimization (eps = 3.000000)
[09:17:40 -392887.218325] FAST spr round 1 (radius: 25)
[09:20:11 -357269.360094] FAST spr round 2 (radius: 25)
[09:22:04 -356186.826814] FAST spr round 3 (radius: 25)
[09:23:37 -355997.308444] FAST spr round 4 (radius: 25)
[09:24:57 -355977.762264] FAST spr round 5 (radius: 25)
[09:26:09 -355977.760664] Model parameter optimization (eps = 1.000000)
[09:26:23 -355968.145173] SLOW spr round 1 (radius: 5)
[09:28:08 -355848.248192] SLOW spr round 2 (radius: 5)
[09:29:49 -355843.881981] SLOW spr round 3 (radius: 5)
[09:31:26 -355843.126073] SLOW spr round 4 (radius: 5)
[09:33:05 -355842.860605] SLOW spr round 5 (radius: 5)
[09:34:42 -355842.860154] SLOW spr round 6 (radius: 10)
[09:36:28 -355842.860137] SLOW spr round 7 (radius: 15)
[09:40:30 -355842.860135] SLOW spr round 8 (radius: 20)
[09:46:07 -355839.428505] SLOW spr round 9 (radius: 5)
[09:48:23 -355836.046462] SLOW spr round 10 (radius: 5)
[09:50:19 -355835.804475] SLOW spr round 11 (radius: 5)
[09:52:04 -355835.804095] SLOW spr round 12 (radius: 10)
[09:53:53 -355835.804063] SLOW spr round 13 (radius: 15)
[09:57:48 -355835.804058] SLOW spr round 14 (radius: 20)
[10:03:25 -355835.804057] SLOW spr round 15 (radius: 25)
[10:10:09 -355835.804057] Model parameter optimization (eps = 0.100000)

[10:10:19] ML tree search #11, logLikelihood: -355835.688342

[10:10:19 -1171372.507026] Initial branch length optimization
[10:10:24 -962048.852182] Model parameter optimization (eps = 10.000000)
[10:11:00 -957412.377544] AUTODETECT spr round 1 (radius: 5)
[10:12:34 -711605.191111] AUTODETECT spr round 2 (radius: 10)
[10:14:20 -509188.929249] AUTODETECT spr round 3 (radius: 15)
[10:16:20 -434424.257093] AUTODETECT spr round 4 (radius: 20)
[10:18:52 -405680.872820] AUTODETECT spr round 5 (radius: 25)
[10:21:47 -391905.384406] SPR radius for FAST iterations: 25 (autodetect)
[10:21:47 -391905.384406] Model parameter optimization (eps = 3.000000)
[10:22:16 -391017.507072] FAST spr round 1 (radius: 25)
[10:24:43 -357130.441384] FAST spr round 2 (radius: 25)
[10:26:32 -356037.546313] FAST spr round 3 (radius: 25)
[10:28:00 -355944.888685] FAST spr round 4 (radius: 25)
[10:29:24 -355925.570577] FAST spr round 5 (radius: 25)
[10:30:38 -355922.255876] FAST spr round 6 (radius: 25)
[10:31:50 -355920.286444] FAST spr round 7 (radius: 25)
[10:33:00 -355920.286010] Model parameter optimization (eps = 1.000000)
[10:33:13 -355917.107359] SLOW spr round 1 (radius: 5)
[10:35:02 -355848.097543] SLOW spr round 2 (radius: 5)
[10:36:44 -355845.086316] SLOW spr round 3 (radius: 5)
[10:38:24 -355843.990940] SLOW spr round 4 (radius: 5)
[10:40:04 -355842.944232] SLOW spr round 5 (radius: 5)
[10:41:43 -355842.935550] SLOW spr round 6 (radius: 10)
[10:43:33 -355836.302565] SLOW spr round 7 (radius: 5)
[10:45:44 -355829.043371] SLOW spr round 8 (radius: 5)
[10:47:36 -355829.005889] SLOW spr round 9 (radius: 10)
[10:49:30 -355829.005112] SLOW spr round 10 (radius: 15)
[10:53:15 -355829.004696] SLOW spr round 11 (radius: 20)
[10:58:49 -355829.004474] SLOW spr round 12 (radius: 25)
[11:05:21 -355829.004356] Model parameter optimization (eps = 0.100000)

[11:05:31] ML tree search #12, logLikelihood: -355828.782142

[11:05:31 -1166306.431292] Initial branch length optimization
[11:05:36 -970568.774141] Model parameter optimization (eps = 10.000000)
[11:06:27 -965920.013182] AUTODETECT spr round 1 (radius: 5)
[11:08:01 -702077.062427] AUTODETECT spr round 2 (radius: 10)
[11:09:45 -504661.179881] AUTODETECT spr round 3 (radius: 15)
[11:11:42 -423779.580881] AUTODETECT spr round 4 (radius: 20)
[11:13:54 -402532.647471] AUTODETECT spr round 5 (radius: 25)
[11:16:25 -396172.608580] SPR radius for FAST iterations: 25 (autodetect)
[11:16:25 -396172.608580] Model parameter optimization (eps = 3.000000)
[11:16:53 -395387.940489] FAST spr round 1 (radius: 25)
[11:19:22 -357032.588315] FAST spr round 2 (radius: 25)
[11:21:14 -355954.213522] FAST spr round 3 (radius: 25)
[11:22:45 -355908.945859] FAST spr round 4 (radius: 25)
[11:24:01 -355905.635209] FAST spr round 5 (radius: 25)
[11:25:12 -355905.635205] Model parameter optimization (eps = 1.000000)
[11:25:25 -355901.121154] SLOW spr round 1 (radius: 5)
[11:27:15 -355821.385981] SLOW spr round 2 (radius: 5)
[11:28:57 -355818.499088] SLOW spr round 3 (radius: 5)
[11:30:35 -355818.497663] SLOW spr round 4 (radius: 10)
[11:32:22 -355818.497007] SLOW spr round 5 (radius: 15)
[11:36:17 -355818.496463] SLOW spr round 6 (radius: 20)
[11:41:50 -355818.495939] SLOW spr round 7 (radius: 25)
[11:48:29 -355818.495417] Model parameter optimization (eps = 0.100000)

[11:48:37] ML tree search #13, logLikelihood: -355818.391663

[11:48:37 -1178765.082237] Initial branch length optimization
[11:48:42 -978476.249441] Model parameter optimization (eps = 10.000000)
[11:49:29 -973702.300477] AUTODETECT spr round 1 (radius: 5)
[11:51:03 -690471.230114] AUTODETECT spr round 2 (radius: 10)
[11:52:47 -508507.730357] AUTODETECT spr round 3 (radius: 15)
[11:54:41 -439924.284582] AUTODETECT spr round 4 (radius: 20)
[11:57:11 -404436.145653] AUTODETECT spr round 5 (radius: 25)
[11:59:59 -395757.433610] SPR radius for FAST iterations: 25 (autodetect)
[11:59:59 -395757.433610] Model parameter optimization (eps = 3.000000)
[12:00:28 -394919.605583] FAST spr round 1 (radius: 25)
[12:02:48 -357624.609689] FAST spr round 2 (radius: 25)
[12:04:35 -356117.938578] FAST spr round 3 (radius: 25)
[12:06:04 -355981.958636] FAST spr round 4 (radius: 25)
[12:07:21 -355966.268020] FAST spr round 5 (radius: 25)
[12:08:34 -355964.006291] FAST spr round 6 (radius: 25)
[12:09:44 -355964.003879] Model parameter optimization (eps = 1.000000)
[12:10:03 -355955.429353] SLOW spr round 1 (radius: 5)
[12:11:44 -355862.638686] SLOW spr round 2 (radius: 5)
[12:13:26 -355858.163783] SLOW spr round 3 (radius: 5)
[12:15:06 -355857.496970] SLOW spr round 4 (radius: 5)
[12:16:44 -355857.496430] SLOW spr round 5 (radius: 10)
[12:18:32 -355849.772362] SLOW spr round 6 (radius: 5)
[12:20:39 -355849.660867] SLOW spr round 7 (radius: 5)
[12:22:30 -355849.660626] SLOW spr round 8 (radius: 10)
[12:24:23 -355849.433893] SLOW spr round 9 (radius: 5)
[12:26:27 -355849.433812] SLOW spr round 10 (radius: 10)
[12:28:33 -355849.371135] SLOW spr round 11 (radius: 15)
[12:32:13 -355849.353472] SLOW spr round 12 (radius: 20)
[12:38:08 -355848.816408] SLOW spr round 13 (radius: 5)
[12:40:26 -355846.746422] SLOW spr round 14 (radius: 5)
[12:42:24 -355838.882082] SLOW spr round 15 (radius: 5)
[12:44:12 -355837.247226] SLOW spr round 16 (radius: 5)
[12:45:52 -355837.246827] SLOW spr round 17 (radius: 10)
[12:47:40 -355837.246742] SLOW spr round 18 (radius: 15)
[12:51:42 -355837.246724] SLOW spr round 19 (radius: 20)
[12:57:28 -355837.246721] SLOW spr round 20 (radius: 25)
[13:04:15 -355837.246720] Model parameter optimization (eps = 0.100000)

[13:04:23] ML tree search #14, logLikelihood: -355836.971898

[13:04:24 -1168698.403795] Initial branch length optimization
[13:04:29 -969798.361417] Model parameter optimization (eps = 10.000000)
[13:05:12 -965152.441590] AUTODETECT spr round 1 (radius: 5)
[13:06:45 -688857.039271] AUTODETECT spr round 2 (radius: 10)
[13:08:32 -512284.011230] AUTODETECT spr round 3 (radius: 15)
[13:10:33 -436205.275295] AUTODETECT spr round 4 (radius: 20)
[13:12:46 -414110.439612] AUTODETECT spr round 5 (radius: 25)
[13:15:35 -402822.729349] SPR radius for FAST iterations: 25 (autodetect)
[13:15:35 -402822.729349] Model parameter optimization (eps = 3.000000)
[13:16:06 -402054.621038] FAST spr round 1 (radius: 25)
[13:18:38 -357424.206462] FAST spr round 2 (radius: 25)
[13:20:27 -356120.199078] FAST spr round 3 (radius: 25)
[13:21:57 -355906.352579] FAST spr round 4 (radius: 25)
[13:23:14 -355895.451915] FAST spr round 5 (radius: 25)
[13:24:25 -355895.451565] Model parameter optimization (eps = 1.000000)
[13:24:41 -355882.409980] SLOW spr round 1 (radius: 5)
[13:26:29 -355831.855700] SLOW spr round 2 (radius: 5)
[13:28:09 -355831.849995] SLOW spr round 3 (radius: 10)
[13:29:55 -355831.450158] SLOW spr round 4 (radius: 5)
[13:32:01 -355831.449465] SLOW spr round 5 (radius: 10)
[13:34:06 -355831.449103] SLOW spr round 6 (radius: 15)
[13:37:30 -355831.448913] SLOW spr round 7 (radius: 20)
[13:42:48 -355831.448812] SLOW spr round 8 (radius: 25)
[13:48:50 -355831.448759] Model parameter optimization (eps = 0.100000)

[13:48:58] ML tree search #15, logLikelihood: -355831.333644

[13:48:58 -1168610.469080] Initial branch length optimization
[13:49:03 -970747.965774] Model parameter optimization (eps = 10.000000)
[13:49:32 -965965.434385] AUTODETECT spr round 1 (radius: 5)
[13:51:06 -699094.455490] AUTODETECT spr round 2 (radius: 10)
[13:52:52 -505636.310845] AUTODETECT spr round 3 (radius: 15)
[13:54:49 -438579.526580] AUTODETECT spr round 4 (radius: 20)
[13:56:52 -411107.438915] AUTODETECT spr round 5 (radius: 25)
[13:59:34 -403359.641002] SPR radius for FAST iterations: 25 (autodetect)
[13:59:34 -403359.641002] Model parameter optimization (eps = 3.000000)
[14:00:05 -402469.702871] FAST spr round 1 (radius: 25)
[14:02:35 -357558.619791] FAST spr round 2 (radius: 25)
[14:04:23 -356200.434008] FAST spr round 3 (radius: 25)
[14:05:51 -356052.244728] FAST spr round 4 (radius: 25)
[14:07:14 -355910.425535] FAST spr round 5 (radius: 25)
[14:08:30 -355903.282434] FAST spr round 6 (radius: 25)
[14:09:41 -355903.131491] FAST spr round 7 (radius: 25)
[14:10:51 -355903.131187] Model parameter optimization (eps = 1.000000)
[14:11:05 -355896.748395] SLOW spr round 1 (radius: 5)
[14:12:47 -355839.126792] SLOW spr round 2 (radius: 5)
[14:14:30 -355835.466680] SLOW spr round 3 (radius: 5)
[14:16:12 -355831.262911] SLOW spr round 4 (radius: 5)
[14:17:51 -355828.990967] SLOW spr round 5 (radius: 5)
[14:19:30 -355828.184610] SLOW spr round 6 (radius: 5)
[14:21:07 -355828.183344] SLOW spr round 7 (radius: 10)
[14:22:53 -355825.379144] SLOW spr round 8 (radius: 5)
[14:24:59 -355825.373828] SLOW spr round 9 (radius: 10)
[14:27:05 -355825.239515] SLOW spr round 10 (radius: 5)
[14:29:08 -355824.498368] SLOW spr round 11 (radius: 5)
[14:30:57 -355824.496499] SLOW spr round 12 (radius: 10)
[14:32:49 -355824.391760] SLOW spr round 13 (radius: 5)
[14:34:55 -355823.540394] SLOW spr round 14 (radius: 5)
[14:36:46 -355822.428747] SLOW spr round 15 (radius: 5)
[14:38:29 -355822.293742] SLOW spr round 16 (radius: 5)
[14:40:08 -355822.293688] SLOW spr round 17 (radius: 10)
[14:41:55 -355822.293684] SLOW spr round 18 (radius: 15)
[14:45:42 -355822.293683] SLOW spr round 19 (radius: 20)
[14:51:05 -355822.293682] SLOW spr round 20 (radius: 25)
[14:57:33 -355822.293682] Model parameter optimization (eps = 0.100000)

[14:57:41] ML tree search #16, logLikelihood: -355821.845495

[14:57:41 -1164945.312545] Initial branch length optimization
[14:57:45 -962083.252137] Model parameter optimization (eps = 10.000000)
[14:58:19 -957231.759918] AUTODETECT spr round 1 (radius: 5)
[14:59:51 -692536.207335] AUTODETECT spr round 2 (radius: 10)
[15:01:35 -494408.056089] AUTODETECT spr round 3 (radius: 15)
[15:03:35 -422950.126134] AUTODETECT spr round 4 (radius: 20)
[15:06:00 -402019.601874] AUTODETECT spr round 5 (radius: 25)
[15:09:03 -398898.966225] SPR radius for FAST iterations: 25 (autodetect)
[15:09:03 -398898.966225] Model parameter optimization (eps = 3.000000)
[15:09:41 -397956.110606] FAST spr round 1 (radius: 25)
[15:12:12 -357938.047824] FAST spr round 2 (radius: 25)
[15:14:01 -356067.536284] FAST spr round 3 (radius: 25)
[15:15:34 -355933.175623] FAST spr round 4 (radius: 25)
[15:16:52 -355920.865351] FAST spr round 5 (radius: 25)
[15:18:04 -355920.504658] FAST spr round 6 (radius: 25)
[15:19:15 -355912.780261] FAST spr round 7 (radius: 25)
[15:20:25 -355912.780173] Model parameter optimization (eps = 1.000000)
[15:20:39 -355909.082975] SLOW spr round 1 (radius: 5)
[15:22:22 -355843.797318] SLOW spr round 2 (radius: 5)
[15:24:03 -355827.690159] SLOW spr round 3 (radius: 5)
[15:25:43 -355825.724804] SLOW spr round 4 (radius: 5)
[15:27:21 -355825.724487] SLOW spr round 5 (radius: 10)
[15:29:08 -355825.650467] SLOW spr round 6 (radius: 15)
[15:32:57 -355825.649949] SLOW spr round 7 (radius: 20)
[15:38:08 -355825.649915] SLOW spr round 8 (radius: 25)
[15:44:11 -355825.649912] Model parameter optimization (eps = 0.100000)

[15:44:20] ML tree search #17, logLikelihood: -355825.366454

[15:44:20 -1168252.412970] Initial branch length optimization
[15:44:24 -970026.862314] Model parameter optimization (eps = 10.000000)
[15:45:05 -965648.017844] AUTODETECT spr round 1 (radius: 5)
[15:46:39 -705731.534985] AUTODETECT spr round 2 (radius: 10)
[15:48:25 -509568.790616] AUTODETECT spr round 3 (radius: 15)
[15:50:25 -424292.530944] AUTODETECT spr round 4 (radius: 20)
[15:52:58 -398180.165725] AUTODETECT spr round 5 (radius: 25)
[15:56:02 -393612.278209] SPR radius for FAST iterations: 25 (autodetect)
[15:56:02 -393612.278209] Model parameter optimization (eps = 3.000000)
[15:56:29 -392857.125983] FAST spr round 1 (radius: 25)
[15:58:52 -356920.803441] FAST spr round 2 (radius: 25)
[16:00:41 -356147.989070] FAST spr round 3 (radius: 25)
[16:02:12 -355966.353504] FAST spr round 4 (radius: 25)
[16:03:32 -355951.802949] FAST spr round 5 (radius: 25)
[16:04:44 -355950.582178] FAST spr round 6 (radius: 25)
[16:05:59 -355948.735625] FAST spr round 7 (radius: 25)
[16:07:10 -355948.727374] Model parameter optimization (eps = 1.000000)
[16:07:21 -355943.077242] SLOW spr round 1 (radius: 5)
[16:09:07 -355833.484864] SLOW spr round 2 (radius: 5)
[16:10:50 -355830.122245] SLOW spr round 3 (radius: 5)
[16:12:29 -355828.462284] SLOW spr round 4 (radius: 5)
[16:14:07 -355828.461872] SLOW spr round 5 (radius: 10)
[16:15:53 -355826.540123] SLOW spr round 6 (radius: 5)
[16:17:59 -355826.539729] SLOW spr round 7 (radius: 10)
[16:20:06 -355826.539706] SLOW spr round 8 (radius: 15)
[16:23:39 -355826.539701] SLOW spr round 9 (radius: 20)
[16:29:21 -355826.539699] SLOW spr round 10 (radius: 25)
[16:36:14 -355826.539698] Model parameter optimization (eps = 0.100000)

[16:36:21] ML tree search #18, logLikelihood: -355825.719850

[16:36:21 -1172466.391171] Initial branch length optimization
[16:36:26 -967042.336444] Model parameter optimization (eps = 10.000000)
[16:37:12 -962314.904730] AUTODETECT spr round 1 (radius: 5)
[16:38:47 -710805.324667] AUTODETECT spr round 2 (radius: 10)
[16:40:34 -496143.624177] AUTODETECT spr round 3 (radius: 15)
[16:42:32 -413818.022591] AUTODETECT spr round 4 (radius: 20)
[16:44:46 -396784.082401] AUTODETECT spr round 5 (radius: 25)
[16:47:10 -393262.533408] SPR radius for FAST iterations: 25 (autodetect)
[16:47:11 -393262.533408] Model parameter optimization (eps = 3.000000)
[16:47:47 -392434.791481] FAST spr round 1 (radius: 25)
[16:50:16 -357005.286394] FAST spr round 2 (radius: 25)
[16:52:07 -356039.028506] FAST spr round 3 (radius: 25)
[16:53:39 -355949.009687] FAST spr round 4 (radius: 25)
[16:54:57 -355948.996461] Model parameter optimization (eps = 1.000000)
[16:55:09 -355945.123840] SLOW spr round 1 (radius: 5)
[16:56:54 -355833.990868] SLOW spr round 2 (radius: 5)
[16:58:39 -355822.192539] SLOW spr round 3 (radius: 5)
[17:00:18 -355821.535429] SLOW spr round 4 (radius: 5)
[17:01:56 -355821.535176] SLOW spr round 5 (radius: 10)
[17:03:44 -355821.041255] SLOW spr round 6 (radius: 5)
[17:05:50 -355821.040698] SLOW spr round 7 (radius: 10)
[17:07:57 -355821.040674] SLOW spr round 8 (radius: 15)
[17:11:31 -355821.040673] SLOW spr round 9 (radius: 20)
[17:17:11 -355821.040672] SLOW spr round 10 (radius: 25)
[17:23:50 -355820.261911] SLOW spr round 11 (radius: 5)
[17:26:08 -355820.250397] SLOW spr round 12 (radius: 10)
[17:28:35 -355820.248171] SLOW spr round 13 (radius: 15)
[17:32:04 -355820.247740] SLOW spr round 14 (radius: 20)
[17:37:44 -355820.247657] SLOW spr round 15 (radius: 25)
[17:44:23 -355820.247640] Model parameter optimization (eps = 0.100000)

[17:44:31] ML tree search #19, logLikelihood: -355819.762841

[17:44:31 -1175570.600498] Initial branch length optimization
[17:44:36 -969986.081138] Model parameter optimization (eps = 10.000000)
[17:45:17 -965118.819754] AUTODETECT spr round 1 (radius: 5)
[17:46:51 -687768.601739] AUTODETECT spr round 2 (radius: 10)
[17:48:35 -500635.394415] AUTODETECT spr round 3 (radius: 15)
[17:50:38 -428575.560463] AUTODETECT spr round 4 (radius: 20)
[17:52:56 -402661.450255] AUTODETECT spr round 5 (radius: 25)
[17:55:45 -398490.188666] SPR radius for FAST iterations: 25 (autodetect)
[17:55:45 -398490.188666] Model parameter optimization (eps = 3.000000)
[17:56:15 -397649.413508] FAST spr round 1 (radius: 25)
[17:58:45 -357595.877692] FAST spr round 2 (radius: 25)
[18:00:35 -356004.780366] FAST spr round 3 (radius: 25)
[18:02:11 -355923.266300] FAST spr round 4 (radius: 25)
[18:03:35 -355894.896288] FAST spr round 5 (radius: 25)
[18:04:47 -355893.372632] FAST spr round 6 (radius: 25)
[18:05:57 -355893.372432] Model parameter optimization (eps = 1.000000)
[18:06:09 -355884.776277] SLOW spr round 1 (radius: 5)
[18:07:59 -355822.666870] SLOW spr round 2 (radius: 5)
[18:09:41 -355819.113243] SLOW spr round 3 (radius: 5)
[18:11:21 -355817.674171] SLOW spr round 4 (radius: 5)
[18:12:58 -355817.673325] SLOW spr round 5 (radius: 10)
[18:14:45 -355817.673304] SLOW spr round 6 (radius: 15)
[18:18:41 -355817.673301] SLOW spr round 7 (radius: 20)
[18:24:11 -355817.673299] SLOW spr round 8 (radius: 25)
[18:30:46 -355816.933373] SLOW spr round 9 (radius: 5)
[18:33:03 -355816.923155] SLOW spr round 10 (radius: 10)
[18:35:29 -355816.921374] SLOW spr round 11 (radius: 15)
[18:38:56 -355816.921063] SLOW spr round 12 (radius: 20)
[18:44:35 -355816.921008] SLOW spr round 13 (radius: 25)
[18:51:07 -355816.920999] Model parameter optimization (eps = 0.100000)

[18:51:21] ML tree search #20, logLikelihood: -355816.512276


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.148621,0.831021) (0.077755,1.014201) (0.425660,0.654501) (0.347964,1.491645) 
   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: -355816.512276

AIC score: 714743.024553 / AICc score: 5553903.024553 / BIC score: 722760.879224
Free parameters (model + branch lengths): 1555

WARNING: Number of free parameters (K=1555) is larger than alignment size (n=1282).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8TEQ0/3_mltree/Q8TEQ0.raxml.log

Analysis started: 31-Jul-2021 05:39:24 / finished: 01-Aug-2021 00:30:46

Elapsed time: 67881.669 seconds