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 18-Jun-2021 13:51:10 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/2_msa/P56192_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192 --seed 2 --threads 7 --tree rand{20} pars{20}

Analysis options:
  run mode: ML tree search
  start tree(s): random (20)
  random seed: 2
  tip-inner: OFF
  pattern compression: ON
  per-rate scalers: OFF
  site repeats: ON
  fast spr radius: AUTO
  spr subtree cutoff: 1.000000
  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
  SIMD kernels: AVX2
  parallelization: coarse-grained (auto), PTHREADS (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/2_msa/P56192_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 540 sites

WARNING: Sequences tr_J3K9S3_J3K9S3_COCIM_246410 and tr_E9CS29_E9CS29_COCPS_443226 are exactly identical!
WARNING: Sequences tr_B2W192_B2W192_PYRTR_426418 and tr_A0A2W1EZP1_A0A2W1EZP1_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_Q7SF04_Q7SF04_NEUCR_367110 and tr_G4U9H2_G4U9H2_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_Q292H1_Q292H1_DROPS_46245 and tr_B4GDJ5_B4GDJ5_DROPE_7234 are exactly identical!
WARNING: Sequences tr_B8N672_B8N672_ASPFN_332952 and tr_Q2UCY8_Q2UCY8_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8N672_B8N672_ASPFN_332952 and tr_A0A1S9DPY5_A0A1S9DPY5_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A179UJ73_A0A179UJ73_BLAGS_559298 and tr_C5GC81_C5GC81_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_F9FXF2_F9FXF2_FUSOF_660025 and tr_N4TH27_N4TH27_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9FXF2_F9FXF2_FUSOF_660025 and tr_X0DXM2_X0DXM2_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FXF2_F9FXF2_FUSOF_660025 and tr_A0A2H3TGE0_A0A2H3TGE0_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_J5JMX8_J5JMX8_BEAB2_655819 and tr_A0A0A2VNB4_A0A0A2VNB4_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_A0A0E0IRV0_A0A0E0IRV0_ORYNI_4536 and tr_A0A0E0QYR4_A0A0E0QYR4_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A2QPX3_A2QPX3_ASPNC_425011 and tr_G3YFE9_G3YFE9_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QPX3_A2QPX3_ASPNC_425011 and tr_A0A319AA56_A0A319AA56_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_F6WGN2_F6WGN2_MACMU_9544 and tr_G7PIV3_G7PIV3_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6WGN2_F6WGN2_MACMU_9544 and tr_A0A096MU73_A0A096MU73_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F6WGN2_F6WGN2_MACMU_9544 and tr_A0A2K5N2A6_A0A2K5N2A6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7XKR8_G7XKR8_ASPKW_1033177 and tr_A0A146FW81_A0A146FW81_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_B8B332_B8B332_ORYSI_39946 and tr_A0A0E0PYF7_A0A0E0PYF7_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_B8BGP6_B8BGP6_ORYSI_39946 and tr_Q338J4_Q338J4_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_I1Q2K8_I1Q2K8_ORYGL_4538 and tr_A0A0D3GH78_A0A0D3GH78_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_I1Q2K8_I1Q2K8_ORYGL_4538 and tr_A0A0E0AA82_A0A0E0AA82_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_I1Q2K8_I1Q2K8_ORYGL_4538 and tr_A0A0E0LC20_A0A0E0LC20_ORYPU_4537 are exactly identical!
WARNING: Sequences tr_F9XPI3_F9XPI3_ZYMTI_336722 and tr_A0A0F4GQV6_A0A0F4GQV6_9PEZI_1047168 are exactly identical!
WARNING: Sequences tr_G2YDG4_G2YDG4_BOTF4_999810 and tr_M7U4Q2_M7U4Q2_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_E3M7Y2_E3M7Y2_CAERE_31234 and tr_E3NLF4_E3NLF4_CAERE_31234 are exactly identical!
WARNING: Sequences tr_C9SDL5_C9SDL5_VERA1_526221 and tr_A0A0G4MRA5_A0A0G4MRA5_9PEZI_100787 are exactly identical!
WARNING: Sequences tr_F2SP39_F2SP39_TRIRC_559305 and tr_A0A178F4D9_A0A178F4D9_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_A0A0D2XGY9_A0A0D2XGY9_FUSO4_426428 and tr_S0E5K0_S0E5K0_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_A0A0D2XGY9_A0A0D2XGY9_FUSO4_426428 and tr_A0A2K0WEW3_A0A2K0WEW3_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_A0A015JDI6_A0A015JDI6_9GLOM_1432141 and tr_U9STY3_U9STY3_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A0D3HDD4_A0A0D3HDD4_9ORYZ_65489 and tr_A0A0E0BA62_A0A0E0BA62_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A067DE21_A0A067DE21_CITSI_2711 and tr_V4U4S9_V4U4S9_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_A0A067DE21_A0A067DE21_CITSI_2711 and tr_A0A2H5P2C6_A0A2H5P2C6_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A067DE21_A0A067DE21_CITSI_2711 and tr_A0A2H5P2D4_A0A2H5P2D4_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A0V1CPE4_A0A0V1CPE4_TRIBR_45882 and tr_A0A0V1NI71_A0A0V1NI71_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A101MK78_A0A101MK78_9EURO_48697 and tr_A0A1V6NFD4_A0A1V6NFD4_9EURO_60169 are exactly identical!
WARNING: Sequences tr_A0A117DZN4_A0A117DZN4_ASPNG_5061 and tr_A0A1L9NMW2_A0A1L9NMW2_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A0A1S4AQC1_A0A1S4AQC1_TOBAC_4097 and tr_A0A1U7WZ83_A0A1U7WZ83_NICSY_4096 are exactly identical!
WARNING: Duplicate sequences found: 39

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.reduced.phy

Alignment comprises 1 partitions and 540 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 540 / 540
Gaps: 2.45 %
Invariant sites: 0.56 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 7 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 78 / 6240
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -725252.574031] Initial branch length optimization
[00:00:05 -638732.858839] Model parameter optimization (eps = 10.000000)
[00:14:39 -638092.082647] AUTODETECT spr round 1 (radius: 5)
[01:28:11 -456641.580761] AUTODETECT spr round 2 (radius: 10)
[01:56:29 -319459.610069] AUTODETECT spr round 3 (radius: 15)
[01:58:37 -275994.532411] AUTODETECT spr round 4 (radius: 20)
[02:01:32 -257736.707693] AUTODETECT spr round 5 (radius: 25)
[02:04:27 -254770.070482] SPR radius for FAST iterations: 25 (autodetect)
[02:04:27 -254770.070482] Model parameter optimization (eps = 3.000000)
[02:04:46 -254484.967900] FAST spr round 1 (radius: 25)
[02:07:08 -227026.523794] FAST spr round 2 (radius: 25)
[02:08:59 -225205.693668] FAST spr round 3 (radius: 25)
[02:10:43 -225088.597230] FAST spr round 4 (radius: 25)
[02:12:17 -225075.148278] FAST spr round 5 (radius: 25)
[02:13:44 -225075.148180] Model parameter optimization (eps = 1.000000)
[02:13:51 -225074.238666] SLOW spr round 1 (radius: 5)
[02:15:57 -225034.521614] SLOW spr round 2 (radius: 5)
[02:17:57 -225025.949539] SLOW spr round 3 (radius: 5)
[02:19:53 -225024.297740] SLOW spr round 4 (radius: 5)
[02:21:45 -225024.297713] SLOW spr round 5 (radius: 10)
[02:23:42 -225018.750632] SLOW spr round 6 (radius: 5)
[02:26:07 -225011.808067] SLOW spr round 7 (radius: 5)
[02:28:14 -225011.807960] SLOW spr round 8 (radius: 10)
[02:30:15 -225010.775097] SLOW spr round 9 (radius: 5)
[02:32:45 -225001.450328] SLOW spr round 10 (radius: 5)
[02:34:54 -225001.448619] SLOW spr round 11 (radius: 10)
[02:36:56 -225001.430189] SLOW spr round 12 (radius: 15)
[02:39:57 -225001.429933] SLOW spr round 13 (radius: 20)
[02:44:04 -225001.429924] SLOW spr round 14 (radius: 25)
[02:49:33 -225001.429924] Model parameter optimization (eps = 0.100000)

[02:49:45] ML tree search #1, logLikelihood: -225001.020965

[02:49:45 -727579.410815] Initial branch length optimization
[02:49:48 -639819.121608] Model parameter optimization (eps = 10.000000)
[02:50:23 -639188.999614] AUTODETECT spr round 1 (radius: 5)
[02:52:15 -454907.305461] AUTODETECT spr round 2 (radius: 10)
[02:54:22 -312078.950950] AUTODETECT spr round 3 (radius: 15)
[02:56:31 -263949.500113] AUTODETECT spr round 4 (radius: 20)
[02:59:15 -252997.055451] AUTODETECT spr round 5 (radius: 25)
[03:02:22 -252632.070873] SPR radius for FAST iterations: 25 (autodetect)
[03:02:22 -252632.070873] Model parameter optimization (eps = 3.000000)
[03:02:40 -252437.998535] FAST spr round 1 (radius: 25)
[03:05:06 -226087.193372] FAST spr round 2 (radius: 25)
[03:07:01 -225182.016355] FAST spr round 3 (radius: 25)
[03:08:49 -225078.756544] FAST spr round 4 (radius: 25)
[03:10:23 -225078.232486] FAST spr round 5 (radius: 25)
[03:11:54 -225077.713521] FAST spr round 6 (radius: 25)
[03:13:25 -225077.713521] Model parameter optimization (eps = 1.000000)
[03:13:38 -225071.617110] SLOW spr round 1 (radius: 5)
[03:15:51 -225021.404473] SLOW spr round 2 (radius: 5)
[03:17:54 -225013.944932] SLOW spr round 3 (radius: 5)
[03:19:53 -225012.163890] SLOW spr round 4 (radius: 5)
[03:21:49 -225012.163886] SLOW spr round 5 (radius: 10)
[03:23:50 -225012.163886] SLOW spr round 6 (radius: 15)
[03:26:59 -225012.163886] SLOW spr round 7 (radius: 20)
[03:31:12 -225012.163886] SLOW spr round 8 (radius: 25)
[03:36:45 -225012.163886] Model parameter optimization (eps = 0.100000)

[03:36:51] ML tree search #2, logLikelihood: -225012.084396

[03:36:51 -723223.165930] Initial branch length optimization
[03:36:54 -636534.285108] Model parameter optimization (eps = 10.000000)
[03:37:22 -635936.518521] AUTODETECT spr round 1 (radius: 5)
[03:39:14 -452663.769140] AUTODETECT spr round 2 (radius: 10)
[03:41:20 -312711.034945] AUTODETECT spr round 3 (radius: 15)
[03:43:31 -265097.832914] AUTODETECT spr round 4 (radius: 20)
[03:46:07 -257547.279936] AUTODETECT spr round 5 (radius: 25)
[03:48:59 -255616.341922] SPR radius for FAST iterations: 25 (autodetect)
[03:48:59 -255616.341922] Model parameter optimization (eps = 3.000000)
[03:49:17 -255403.981536] FAST spr round 1 (radius: 25)
[03:51:39 -226468.736556] FAST spr round 2 (radius: 25)
[03:53:34 -225184.613543] FAST spr round 3 (radius: 25)
[03:55:18 -225104.498209] FAST spr round 4 (radius: 25)
[03:56:51 -225086.823985] FAST spr round 5 (radius: 25)
[03:58:19 -225086.823787] Model parameter optimization (eps = 1.000000)
[03:58:31 -225085.195108] SLOW spr round 1 (radius: 5)
[04:00:40 -225012.875443] SLOW spr round 2 (radius: 5)
[04:02:39 -225005.800770] SLOW spr round 3 (radius: 5)
[04:04:34 -225005.800683] SLOW spr round 4 (radius: 10)
[04:06:33 -225004.875214] SLOW spr round 5 (radius: 5)
[04:09:04 -224994.484482] SLOW spr round 6 (radius: 5)
[04:11:16 -224993.873863] SLOW spr round 7 (radius: 5)
[04:13:20 -224993.504150] SLOW spr round 8 (radius: 5)
[04:15:19 -224993.504070] SLOW spr round 9 (radius: 10)
[04:17:21 -224993.504069] SLOW spr round 10 (radius: 15)
[04:20:30 -224993.504069] SLOW spr round 11 (radius: 20)
[04:29:13 -224993.504069] SLOW spr round 12 (radius: 25)
[04:49:33 -224993.504069] Model parameter optimization (eps = 0.100000)

[04:49:46] ML tree search #3, logLikelihood: -224993.468395

[04:49:46 -722372.689371] Initial branch length optimization
[04:49:55 -636531.600759] Model parameter optimization (eps = 10.000000)
[04:50:35 -635870.875575] AUTODETECT spr round 1 (radius: 5)
[04:54:06 -452908.606705] AUTODETECT spr round 2 (radius: 10)
[04:56:36 -309638.205817] AUTODETECT spr round 3 (radius: 15)
[05:09:26 -267516.100681] AUTODETECT spr round 4 (radius: 20)
[05:12:30 -255273.000267] AUTODETECT spr round 5 (radius: 25)
[05:15:35 -254089.552907] SPR radius for FAST iterations: 25 (autodetect)
[05:15:35 -254089.552907] Model parameter optimization (eps = 3.000000)
[05:15:53 -253845.570821] FAST spr round 1 (radius: 25)
[05:18:16 -225949.994596] FAST spr round 2 (radius: 25)
[05:20:11 -225149.504582] FAST spr round 3 (radius: 25)
[05:21:55 -225059.372644] FAST spr round 4 (radius: 25)
[05:23:28 -225052.766419] FAST spr round 5 (radius: 25)
[05:24:59 -225050.205110] FAST spr round 6 (radius: 25)
[05:26:26 -225050.205041] Model parameter optimization (eps = 1.000000)
[05:26:38 -225048.847587] SLOW spr round 1 (radius: 5)
[05:28:46 -225019.784918] SLOW spr round 2 (radius: 5)
[05:30:46 -225019.779566] SLOW spr round 3 (radius: 10)
[05:32:45 -225019.779560] SLOW spr round 4 (radius: 15)
[05:35:53 -225019.779559] SLOW spr round 5 (radius: 20)
[05:40:16 -225019.779559] SLOW spr round 6 (radius: 25)
[05:46:00 -225019.779559] Model parameter optimization (eps = 0.100000)

[05:46:05] ML tree search #4, logLikelihood: -225019.698672

[05:46:05 -725269.161637] Initial branch length optimization
[05:46:09 -638930.995539] Model parameter optimization (eps = 10.000000)
[05:46:37 -638321.060322] AUTODETECT spr round 1 (radius: 5)
[05:48:31 -445954.322771] AUTODETECT spr round 2 (radius: 10)
[05:50:34 -329517.461254] AUTODETECT spr round 3 (radius: 15)
[05:52:44 -271297.292388] AUTODETECT spr round 4 (radius: 20)
[05:55:38 -260348.995936] AUTODETECT spr round 5 (radius: 25)
[05:58:51 -259198.865984] SPR radius for FAST iterations: 25 (autodetect)
[05:58:51 -259198.865984] Model parameter optimization (eps = 3.000000)
[05:59:08 -258966.350035] FAST spr round 1 (radius: 25)
[06:01:36 -226742.233696] FAST spr round 2 (radius: 25)
[06:03:34 -225256.136937] FAST spr round 3 (radius: 25)
[06:05:26 -225069.552241] FAST spr round 4 (radius: 25)
[06:07:01 -225065.730440] FAST spr round 5 (radius: 25)
[06:08:31 -225065.730428] Model parameter optimization (eps = 1.000000)
[06:08:43 -225063.823940] SLOW spr round 1 (radius: 5)
[06:10:54 -225018.284434] SLOW spr round 2 (radius: 5)
[06:12:56 -225015.045764] SLOW spr round 3 (radius: 5)
[06:14:52 -225014.440026] SLOW spr round 4 (radius: 5)
[06:16:47 -225012.975920] SLOW spr round 5 (radius: 5)
[06:18:39 -225012.975918] SLOW spr round 6 (radius: 10)
[06:20:36 -224999.444197] SLOW spr round 7 (radius: 5)
[06:23:01 -224996.192670] SLOW spr round 8 (radius: 5)
[06:25:51 -224996.192568] SLOW spr round 9 (radius: 10)
[06:27:53 -224996.192567] SLOW spr round 10 (radius: 15)
[06:31:49 -224996.192567] SLOW spr round 11 (radius: 20)
[06:35:51 -224996.192567] SLOW spr round 12 (radius: 25)
[06:41:06 -224996.192567] Model parameter optimization (eps = 0.100000)

[06:41:11] ML tree search #5, logLikelihood: -224996.172214

[06:41:11 -719380.713134] Initial branch length optimization
[06:41:14 -636251.312185] Model parameter optimization (eps = 10.000000)
[06:41:40 -635634.859999] AUTODETECT spr round 1 (radius: 5)
[06:43:29 -445373.186842] AUTODETECT spr round 2 (radius: 10)
[06:45:27 -326828.130969] AUTODETECT spr round 3 (radius: 15)
[06:47:36 -270118.878188] AUTODETECT spr round 4 (radius: 20)
[06:50:10 -255602.306105] AUTODETECT spr round 5 (radius: 25)
[06:52:58 -254678.504061] SPR radius for FAST iterations: 25 (autodetect)
[06:52:58 -254678.504061] Model parameter optimization (eps = 3.000000)
[06:53:15 -254451.803118] FAST spr round 1 (radius: 25)
[06:55:34 -226270.874137] FAST spr round 2 (radius: 25)
[06:57:23 -225224.683473] FAST spr round 3 (radius: 25)
[06:59:02 -225130.939458] FAST spr round 4 (radius: 25)
[07:00:33 -225109.812335] FAST spr round 5 (radius: 25)
[07:02:01 -225108.185098] FAST spr round 6 (radius: 25)
[07:03:28 -225105.215440] FAST spr round 7 (radius: 25)
[07:04:53 -225105.215431] Model parameter optimization (eps = 1.000000)
[07:05:08 -225097.154198] SLOW spr round 1 (radius: 5)
[07:07:13 -225052.333191] SLOW spr round 2 (radius: 5)
[07:09:10 -225049.430244] SLOW spr round 3 (radius: 5)
[07:11:03 -225049.430130] SLOW spr round 4 (radius: 10)
[07:12:59 -225049.430129] SLOW spr round 5 (radius: 15)
[07:16:01 -225049.430129] SLOW spr round 6 (radius: 20)
[07:21:07 -225049.430129] SLOW spr round 7 (radius: 25)
[07:28:53 -225049.430129] Model parameter optimization (eps = 0.100000)

[07:29:02] ML tree search #6, logLikelihood: -225049.111103

[07:29:03 -723896.083285] Initial branch length optimization
[07:29:06 -637096.982016] Model parameter optimization (eps = 10.000000)
[07:29:30 -636479.498421] AUTODETECT spr round 1 (radius: 5)
[07:31:51 -448938.906374] AUTODETECT spr round 2 (radius: 10)
[07:35:26 -322741.085414] AUTODETECT spr round 3 (radius: 15)
[07:37:41 -264784.859397] AUTODETECT spr round 4 (radius: 20)
[07:41:51 -255210.369260] AUTODETECT spr round 5 (radius: 25)
[07:45:12 -254796.682647] SPR radius for FAST iterations: 25 (autodetect)
[07:45:12 -254796.682647] Model parameter optimization (eps = 3.000000)
[07:45:31 -254606.984358] FAST spr round 1 (radius: 25)
[07:48:51 -226865.771156] FAST spr round 2 (radius: 25)
[07:50:41 -225150.702821] FAST spr round 3 (radius: 25)
[07:52:20 -225096.468848] FAST spr round 4 (radius: 25)
[07:53:52 -225081.775124] FAST spr round 5 (radius: 25)
[07:55:20 -225076.760699] FAST spr round 6 (radius: 25)
[07:56:46 -225076.760698] Model parameter optimization (eps = 1.000000)
[07:57:00 -225071.585060] SLOW spr round 1 (radius: 5)
[07:59:04 -225019.850394] SLOW spr round 2 (radius: 5)
[08:01:03 -225013.829330] SLOW spr round 3 (radius: 5)
[08:02:59 -225011.907905] SLOW spr round 4 (radius: 5)
[08:04:51 -225011.907739] SLOW spr round 5 (radius: 10)
[08:06:47 -225008.890482] SLOW spr round 6 (radius: 5)
[08:09:08 -225008.890427] SLOW spr round 7 (radius: 10)
[08:11:15 -225008.890427] SLOW spr round 8 (radius: 15)
[08:14:03 -225008.890427] SLOW spr round 9 (radius: 20)
[08:18:06 -225008.890427] SLOW spr round 10 (radius: 25)
[08:23:20 -225008.890427] Model parameter optimization (eps = 0.100000)

[08:23:31] ML tree search #7, logLikelihood: -225008.765684

[08:23:31 -726582.959477] Initial branch length optimization
[08:23:35 -639641.825365] Model parameter optimization (eps = 10.000000)
[08:24:04 -639037.910798] AUTODETECT spr round 1 (radius: 5)
[08:25:58 -444215.800614] AUTODETECT spr round 2 (radius: 10)
[08:28:02 -326653.658888] AUTODETECT spr round 3 (radius: 15)
[08:30:12 -276847.197931] AUTODETECT spr round 4 (radius: 20)
[08:32:51 -261131.620468] AUTODETECT spr round 5 (radius: 25)
[08:35:53 -256444.663621] SPR radius for FAST iterations: 25 (autodetect)
[08:35:53 -256444.663621] Model parameter optimization (eps = 3.000000)
[08:36:08 -256265.267208] FAST spr round 1 (radius: 25)
[08:38:32 -226571.802310] FAST spr round 2 (radius: 25)
[08:40:29 -225225.548860] FAST spr round 3 (radius: 25)
[08:42:15 -225158.828067] FAST spr round 4 (radius: 25)
[08:43:50 -225133.313747] FAST spr round 5 (radius: 25)
[08:45:17 -225133.313660] Model parameter optimization (eps = 1.000000)
[08:45:32 -225121.627233] SLOW spr round 1 (radius: 5)
[08:47:40 -225040.293113] SLOW spr round 2 (radius: 5)
[08:49:42 -225017.713598] SLOW spr round 3 (radius: 5)
[08:51:41 -225003.865545] SLOW spr round 4 (radius: 5)
[08:53:33 -225002.945472] SLOW spr round 5 (radius: 5)
[08:55:26 -225002.945443] SLOW spr round 6 (radius: 10)
[08:57:21 -225002.025291] SLOW spr round 7 (radius: 5)
[08:59:44 -225001.803768] SLOW spr round 8 (radius: 5)
[09:01:49 -225001.803757] SLOW spr round 9 (radius: 10)
[09:03:48 -225001.224089] SLOW spr round 10 (radius: 5)
[09:06:11 -224984.138458] SLOW spr round 11 (radius: 5)
[09:08:16 -224983.757690] SLOW spr round 12 (radius: 5)
[09:10:12 -224983.757686] SLOW spr round 13 (radius: 10)
[09:12:08 -224983.757686] SLOW spr round 14 (radius: 15)
[09:15:02 -224983.757686] SLOW spr round 15 (radius: 20)
[09:19:00 -224983.757686] SLOW spr round 16 (radius: 25)
[09:24:38 -224983.757686] Model parameter optimization (eps = 0.100000)

[09:24:47] ML tree search #8, logLikelihood: -224983.497559

[09:24:48 -725551.986729] Initial branch length optimization
[09:25:02 -638999.389097] Model parameter optimization (eps = 10.000000)
[09:25:28 -638383.282044] AUTODETECT spr round 1 (radius: 5)
[09:27:18 -441677.863145] AUTODETECT spr round 2 (radius: 10)
[09:30:39 -310464.309203] AUTODETECT spr round 3 (radius: 15)
[09:33:27 -269080.482899] AUTODETECT spr round 4 (radius: 20)
[09:37:48 -264281.698839] AUTODETECT spr round 5 (radius: 25)
[09:41:11 -257773.518612] SPR radius for FAST iterations: 25 (autodetect)
[09:41:11 -257773.518612] Model parameter optimization (eps = 3.000000)
[09:41:25 -257551.338408] FAST spr round 1 (radius: 25)
[09:45:49 -226406.771465] FAST spr round 2 (radius: 25)
[09:47:45 -225216.938385] FAST spr round 3 (radius: 25)
[09:51:23 -225093.354715] FAST spr round 4 (radius: 25)
[09:52:54 -225087.491008] FAST spr round 5 (radius: 25)
[09:55:20 -225084.759271] FAST spr round 6 (radius: 25)
[09:57:32 -225084.759055] Model parameter optimization (eps = 1.000000)
[09:57:48 -225077.210948] SLOW spr round 1 (radius: 5)
[09:59:53 -225011.480993] SLOW spr round 2 (radius: 5)
[10:01:54 -225005.085186] SLOW spr round 3 (radius: 5)
[10:03:58 -225002.840872] SLOW spr round 4 (radius: 5)
[10:07:27 -225002.840734] SLOW spr round 5 (radius: 10)
[10:09:22 -225001.295482] SLOW spr round 6 (radius: 5)
[10:15:20 -225001.295125] SLOW spr round 7 (radius: 10)
[10:19:33 -225001.295115] SLOW spr round 8 (radius: 15)
[10:22:32 -225001.295114] SLOW spr round 9 (radius: 20)
[13:54:00 -225001.295114] SLOW spr round 10 (radius: 25)
[22:51:52 -225001.295114] Model parameter optimization (eps = 0.100000)

[22:52:05] ML tree search #9, logLikelihood: -225000.453060

[22:52:05 -726140.824797] Initial branch length optimization
[22:52:08 -641036.281415] Model parameter optimization (eps = 10.000000)
[22:52:33 -640424.012950] AUTODETECT spr round 1 (radius: 5)
[22:54:24 -460008.724116] AUTODETECT spr round 2 (radius: 10)
[22:56:37 -322928.848821] AUTODETECT spr round 3 (radius: 15)
[22:58:52 -264305.334951] AUTODETECT spr round 4 (radius: 20)
[23:01:29 -254296.999598] AUTODETECT spr round 5 (radius: 25)
[23:04:37 -253690.880497] SPR radius for FAST iterations: 25 (autodetect)
[23:04:37 -253690.880497] Model parameter optimization (eps = 3.000000)
[23:04:52 -253486.214573] FAST spr round 1 (radius: 25)
[23:07:13 -226056.229312] FAST spr round 2 (radius: 25)
[23:09:10 -225193.675886] FAST spr round 3 (radius: 25)
[23:10:59 -225084.957571] FAST spr round 4 (radius: 25)
[23:12:35 -225078.255131] FAST spr round 5 (radius: 25)
[23:14:09 -225077.028289] FAST spr round 6 (radius: 25)
[23:15:40 -225077.028263] Model parameter optimization (eps = 1.000000)
[23:15:54 -225073.891600] SLOW spr round 1 (radius: 5)
[23:18:07 -225033.211395] SLOW spr round 2 (radius: 5)
[23:20:15 -225024.112466] SLOW spr round 3 (radius: 5)
[23:22:20 -225021.672191] SLOW spr round 4 (radius: 5)
[23:24:20 -225020.363660] SLOW spr round 5 (radius: 5)
[23:26:20 -225020.363637] SLOW spr round 6 (radius: 10)
[23:28:24 -225018.097727] SLOW spr round 7 (radius: 5)
[23:30:55 -225017.618839] SLOW spr round 8 (radius: 5)
[23:33:09 -225017.618788] SLOW spr round 9 (radius: 10)
[23:35:17 -225017.087887] SLOW spr round 10 (radius: 5)
[23:37:48 -225011.729201] SLOW spr round 11 (radius: 5)
[23:40:03 -225006.874216] SLOW spr round 12 (radius: 5)
[23:42:08 -225006.601939] SLOW spr round 13 (radius: 5)
[23:44:09 -225006.601939] SLOW spr round 14 (radius: 10)
[23:46:13 -225006.307979] SLOW spr round 15 (radius: 5)
[23:48:43 -225003.347215] SLOW spr round 16 (radius: 5)
[23:50:56 -225003.347185] SLOW spr round 17 (radius: 10)
[23:53:03 -225003.347185] SLOW spr round 18 (radius: 15)
[23:56:09 -225003.347185] SLOW spr round 19 (radius: 20)
[24:00:25 -225003.347185] SLOW spr round 20 (radius: 25)
[24:06:00 -225003.347185] Model parameter optimization (eps = 0.100000)

[24:06:13] ML tree search #10, logLikelihood: -225003.102167

[24:06:13 -722261.297082] Initial branch length optimization
[24:06:18 -637514.170915] Model parameter optimization (eps = 10.000000)
[24:06:46 -636856.616051] AUTODETECT spr round 1 (radius: 5)
[24:08:41 -446650.666369] AUTODETECT spr round 2 (radius: 10)
[24:10:43 -324355.339254] AUTODETECT spr round 3 (radius: 15)
[24:12:50 -265677.056263] AUTODETECT spr round 4 (radius: 20)
[24:15:20 -256764.917345] AUTODETECT spr round 5 (radius: 25)
[24:18:19 -255874.598663] SPR radius for FAST iterations: 25 (autodetect)
[24:18:19 -255874.598663] Model parameter optimization (eps = 3.000000)
[24:18:36 -255640.757660] FAST spr round 1 (radius: 25)
[24:20:58 -226334.484444] FAST spr round 2 (radius: 25)
[24:22:56 -225146.677971] FAST spr round 3 (radius: 25)
[24:24:39 -225068.423515] FAST spr round 4 (radius: 25)
[24:26:13 -225065.551459] FAST spr round 5 (radius: 25)
[24:27:43 -225065.551388] Model parameter optimization (eps = 1.000000)
[24:27:56 -225061.981971] SLOW spr round 1 (radius: 5)
[24:30:07 -225005.230238] SLOW spr round 2 (radius: 5)
[24:32:09 -225003.308794] SLOW spr round 3 (radius: 5)
[24:34:06 -225002.911733] SLOW spr round 4 (radius: 5)
[24:36:03 -225002.911681] SLOW spr round 5 (radius: 10)
[24:38:03 -225001.430069] SLOW spr round 6 (radius: 5)
[24:40:29 -225001.429332] SLOW spr round 7 (radius: 10)
[24:42:43 -225001.429331] SLOW spr round 8 (radius: 15)
[24:45:38 -225001.429331] SLOW spr round 9 (radius: 20)
[24:50:00 -225001.429331] SLOW spr round 10 (radius: 25)
[24:55:32 -225001.429331] Model parameter optimization (eps = 0.100000)

[24:55:45] ML tree search #11, logLikelihood: -225000.890905

[24:55:45 -726747.075861] Initial branch length optimization
[24:55:48 -638110.311108] Model parameter optimization (eps = 10.000000)
[24:56:14 -637487.599210] AUTODETECT spr round 1 (radius: 5)
[24:58:06 -455491.177090] AUTODETECT spr round 2 (radius: 10)
[25:00:16 -315709.752934] AUTODETECT spr round 3 (radius: 15)
[25:02:30 -271583.467235] AUTODETECT spr round 4 (radius: 20)
[25:05:24 -257960.285685] AUTODETECT spr round 5 (radius: 25)
[25:08:32 -255773.183149] SPR radius for FAST iterations: 25 (autodetect)
[25:08:32 -255773.183149] Model parameter optimization (eps = 3.000000)
[25:08:53 -255509.263201] FAST spr round 1 (radius: 25)
[25:11:14 -225928.597100] FAST spr round 2 (radius: 25)
[25:13:07 -225156.402962] FAST spr round 3 (radius: 25)
[25:14:48 -225090.172562] FAST spr round 4 (radius: 25)
[25:16:20 -225081.639952] FAST spr round 5 (radius: 25)
[25:17:48 -225080.608456] FAST spr round 6 (radius: 25)
[25:19:15 -225080.608301] Model parameter optimization (eps = 1.000000)
[25:19:25 -225080.117688] SLOW spr round 1 (radius: 5)
[25:21:34 -225020.957175] SLOW spr round 2 (radius: 5)
[25:23:35 -225007.244814] SLOW spr round 3 (radius: 5)
[25:25:32 -225003.428489] SLOW spr round 4 (radius: 5)
[25:27:25 -225003.428475] SLOW spr round 5 (radius: 10)
[25:29:24 -224990.719763] SLOW spr round 6 (radius: 5)
[25:31:49 -224990.328224] SLOW spr round 7 (radius: 5)
[25:33:57 -224989.575114] SLOW spr round 8 (radius: 5)
[25:35:56 -224987.867989] SLOW spr round 9 (radius: 5)
[25:37:51 -224987.867959] SLOW spr round 10 (radius: 10)
[25:39:46 -224987.867959] SLOW spr round 11 (radius: 15)
[25:42:45 -224987.867959] SLOW spr round 12 (radius: 20)
[25:46:44 -224987.867959] SLOW spr round 13 (radius: 25)
[25:51:49 -224987.867959] Model parameter optimization (eps = 0.100000)

[25:51:56] ML tree search #12, logLikelihood: -224987.767374

[25:51:56 -725680.504305] Initial branch length optimization
[25:51:59 -639481.354708] Model parameter optimization (eps = 10.000000)
[25:52:21 -638821.407032] AUTODETECT spr round 1 (radius: 5)
[25:54:11 -453143.080829] AUTODETECT spr round 2 (radius: 10)
[25:56:19 -322475.442416] AUTODETECT spr round 3 (radius: 15)
[25:58:29 -266394.356389] AUTODETECT spr round 4 (radius: 20)
[26:00:57 -256528.862840] AUTODETECT spr round 5 (radius: 25)
[26:03:38 -254466.397172] SPR radius for FAST iterations: 25 (autodetect)
[26:03:38 -254466.397172] Model parameter optimization (eps = 3.000000)
[26:03:54 -254277.491827] FAST spr round 1 (radius: 25)
[26:06:21 -226158.562551] FAST spr round 2 (radius: 25)
[26:08:16 -225192.446293] FAST spr round 3 (radius: 25)
[26:09:58 -225093.013678] FAST spr round 4 (radius: 25)
[26:11:32 -225087.702834] FAST spr round 5 (radius: 25)
[26:13:02 -225087.702750] Model parameter optimization (eps = 1.000000)
[26:13:14 -225086.313180] SLOW spr round 1 (radius: 5)
[26:15:25 -225016.354162] SLOW spr round 2 (radius: 5)
[26:17:28 -225003.870843] SLOW spr round 3 (radius: 5)
[26:19:27 -224998.242033] SLOW spr round 4 (radius: 5)
[26:21:24 -224989.959917] SLOW spr round 5 (radius: 5)
[26:23:20 -224984.454442] SLOW spr round 6 (radius: 5)
[26:25:15 -224984.454289] SLOW spr round 7 (radius: 10)
[26:27:13 -224984.454289] SLOW spr round 8 (radius: 15)
[26:30:21 -224984.454289] SLOW spr round 9 (radius: 20)
[26:34:34 -224984.454289] SLOW spr round 10 (radius: 25)
[26:40:09 -224984.454289] Model parameter optimization (eps = 0.100000)

[26:40:18] ML tree search #13, logLikelihood: -224982.883228

[26:40:18 -726549.485934] Initial branch length optimization
[26:40:21 -639271.229040] Model parameter optimization (eps = 10.000000)
[26:40:47 -638650.286025] AUTODETECT spr round 1 (radius: 5)
[26:42:41 -448701.489133] AUTODETECT spr round 2 (radius: 10)
[26:44:44 -321455.397603] AUTODETECT spr round 3 (radius: 15)
[26:46:52 -277239.999357] AUTODETECT spr round 4 (radius: 20)
[26:49:34 -260040.650500] AUTODETECT spr round 5 (radius: 25)
[26:52:54 -257794.704127] SPR radius for FAST iterations: 25 (autodetect)
[26:52:54 -257794.704127] Model parameter optimization (eps = 3.000000)
[26:53:15 -257570.838532] FAST spr round 1 (radius: 25)
[26:55:38 -226168.538544] FAST spr round 2 (radius: 25)
[26:57:30 -225200.850619] FAST spr round 3 (radius: 25)
[26:59:16 -225088.931047] FAST spr round 4 (radius: 25)
[27:00:52 -225075.164840] FAST spr round 5 (radius: 25)
[27:02:22 -225072.268276] FAST spr round 6 (radius: 25)
[27:03:51 -225072.267805] Model parameter optimization (eps = 1.000000)
[27:04:06 -225069.698839] SLOW spr round 1 (radius: 5)
[27:06:15 -225020.228069] SLOW spr round 2 (radius: 5)
[27:08:20 -225010.644412] SLOW spr round 3 (radius: 5)
[27:10:16 -225009.791905] SLOW spr round 4 (radius: 5)
[27:12:12 -225009.203590] SLOW spr round 5 (radius: 5)
[27:14:07 -225009.203587] SLOW spr round 6 (radius: 10)
[27:16:06 -224996.485269] SLOW spr round 7 (radius: 5)
[27:18:33 -224996.485223] SLOW spr round 8 (radius: 10)
[27:20:44 -224996.485223] SLOW spr round 9 (radius: 15)
[27:23:42 -224996.485223] SLOW spr round 10 (radius: 20)
[27:28:01 -224996.485223] SLOW spr round 11 (radius: 25)
[27:33:35 -224996.485223] Model parameter optimization (eps = 0.100000)

[27:33:40] ML tree search #14, logLikelihood: -224996.432307

[27:33:40 -726638.820309] Initial branch length optimization
[27:33:44 -639676.866753] Model parameter optimization (eps = 10.000000)
[27:34:12 -639048.339179] AUTODETECT spr round 1 (radius: 5)
[27:36:08 -461083.738458] AUTODETECT spr round 2 (radius: 10)
[27:38:26 -338120.595351] AUTODETECT spr round 3 (radius: 15)
[27:40:40 -293842.915782] AUTODETECT spr round 4 (radius: 20)
[27:43:58 -264411.680498] AUTODETECT spr round 5 (radius: 25)
[27:47:10 -260295.875778] SPR radius for FAST iterations: 25 (autodetect)
[27:47:10 -260295.875778] Model parameter optimization (eps = 3.000000)
[27:47:28 -260082.445700] FAST spr round 1 (radius: 25)
[27:49:55 -226217.873399] FAST spr round 2 (radius: 25)
[27:51:49 -225193.026716] FAST spr round 3 (radius: 25)
[27:53:34 -225118.642845] FAST spr round 4 (radius: 25)
[27:55:09 -225109.618931] FAST spr round 5 (radius: 25)
[27:56:37 -225109.618800] Model parameter optimization (eps = 1.000000)
[27:56:50 -225105.550049] SLOW spr round 1 (radius: 5)
[27:58:59 -225031.040792] SLOW spr round 2 (radius: 5)
[28:01:00 -225002.924868] SLOW spr round 3 (radius: 5)
[28:02:57 -224999.957183] SLOW spr round 4 (radius: 5)
[28:04:50 -224999.956903] SLOW spr round 5 (radius: 10)
[28:06:49 -224995.230882] SLOW spr round 6 (radius: 5)
[28:09:11 -224995.230273] SLOW spr round 7 (radius: 10)
[28:11:24 -224993.800951] SLOW spr round 8 (radius: 5)
[28:13:48 -224992.250436] SLOW spr round 9 (radius: 5)
[28:15:56 -224992.053873] SLOW spr round 10 (radius: 5)
[28:17:57 -224992.053872] SLOW spr round 11 (radius: 10)
[28:19:57 -224991.824373] SLOW spr round 12 (radius: 5)
[28:22:22 -224988.044372] SLOW spr round 13 (radius: 5)
[28:24:31 -224988.044340] SLOW spr round 14 (radius: 10)
[28:26:34 -224988.044340] SLOW spr round 15 (radius: 15)
[28:29:30 -224988.044340] SLOW spr round 16 (radius: 20)
[28:33:33 -224988.044340] SLOW spr round 17 (radius: 25)
[28:38:53 -224988.044340] Model parameter optimization (eps = 0.100000)

[28:39:05] ML tree search #15, logLikelihood: -224987.451632

[28:39:05 -727205.204976] Initial branch length optimization
[28:39:08 -639231.623009] Model parameter optimization (eps = 10.000000)
[28:39:35 -638626.670365] AUTODETECT spr round 1 (radius: 5)
[28:41:30 -458275.350236] AUTODETECT spr round 2 (radius: 10)
[28:43:36 -340281.774577] AUTODETECT spr round 3 (radius: 15)
[28:45:45 -283026.651619] AUTODETECT spr round 4 (radius: 20)
[28:48:35 -265358.269109] AUTODETECT spr round 5 (radius: 25)
[28:51:31 -263900.413490] SPR radius for FAST iterations: 25 (autodetect)
[28:51:31 -263900.413490] Model parameter optimization (eps = 3.000000)
[28:51:45 -263664.449878] FAST spr round 1 (radius: 25)
[28:54:04 -226799.750747] FAST spr round 2 (radius: 25)
[28:55:51 -225244.564691] FAST spr round 3 (radius: 25)
[28:57:30 -225089.525409] FAST spr round 4 (radius: 25)
[28:59:01 -225081.110916] FAST spr round 5 (radius: 25)
[29:00:33 -225081.110791] Model parameter optimization (eps = 1.000000)
[29:00:50 -225073.572098] SLOW spr round 1 (radius: 5)
[29:02:58 -225009.168584] SLOW spr round 2 (radius: 5)
[29:05:03 -225000.840662] SLOW spr round 3 (radius: 5)
[29:07:02 -225000.840107] SLOW spr round 4 (radius: 10)
[29:09:03 -224996.169416] SLOW spr round 5 (radius: 5)
[29:11:32 -224994.575315] SLOW spr round 6 (radius: 5)
[29:13:44 -224994.160647] SLOW spr round 7 (radius: 5)
[29:15:47 -224994.160647] SLOW spr round 8 (radius: 10)
[29:17:48 -224993.811556] SLOW spr round 9 (radius: 5)
[29:20:17 -224991.238582] SLOW spr round 10 (radius: 5)
[29:22:29 -224991.237996] SLOW spr round 11 (radius: 10)
[29:24:33 -224991.237794] SLOW spr round 12 (radius: 15)
[29:27:40 -224991.237705] SLOW spr round 13 (radius: 20)
[29:31:49 -224991.237665] SLOW spr round 14 (radius: 25)
[29:37:19 -224991.237647] Model parameter optimization (eps = 0.100000)

[29:37:28] ML tree search #16, logLikelihood: -224990.720060

[29:37:28 -725825.622285] Initial branch length optimization
[29:37:31 -639028.997806] Model parameter optimization (eps = 10.000000)
[29:37:52 -638402.423412] AUTODETECT spr round 1 (radius: 5)
[29:39:43 -456918.055253] AUTODETECT spr round 2 (radius: 10)
[29:41:53 -323157.063775] AUTODETECT spr round 3 (radius: 15)
[29:44:03 -275995.665551] AUTODETECT spr round 4 (radius: 20)
[29:46:57 -258080.534051] AUTODETECT spr round 5 (radius: 25)
[29:50:12 -255880.859604] SPR radius for FAST iterations: 25 (autodetect)
[29:50:12 -255880.859604] Model parameter optimization (eps = 3.000000)
[29:50:27 -255688.654683] FAST spr round 1 (radius: 25)
[29:52:49 -226095.791125] FAST spr round 2 (radius: 25)
[29:54:42 -225147.410179] FAST spr round 3 (radius: 25)
[29:56:25 -225092.497439] FAST spr round 4 (radius: 25)
[29:57:56 -225081.963001] FAST spr round 5 (radius: 25)
[29:59:24 -225081.961612] Model parameter optimization (eps = 1.000000)
[29:59:40 -225071.433255] SLOW spr round 1 (radius: 5)
[30:01:51 -225017.253328] SLOW spr round 2 (radius: 5)
[30:03:49 -225010.893487] SLOW spr round 3 (radius: 5)
[30:05:44 -225010.893477] SLOW spr round 4 (radius: 10)
[30:07:42 -225005.274521] SLOW spr round 5 (radius: 5)
[30:10:06 -225005.274503] SLOW spr round 6 (radius: 10)
[30:12:19 -225005.274503] SLOW spr round 7 (radius: 15)
[30:15:17 -225005.274503] SLOW spr round 8 (radius: 20)
[30:19:39 -225005.274503] SLOW spr round 9 (radius: 25)
[30:25:17 -225005.274503] Model parameter optimization (eps = 0.100000)

[30:25:30] ML tree search #17, logLikelihood: -225004.526433

[30:25:30 -726952.927058] Initial branch length optimization
[30:25:33 -638295.213183] Model parameter optimization (eps = 10.000000)
[30:26:00 -637631.728225] AUTODETECT spr round 1 (radius: 5)
[30:27:55 -461226.109056] AUTODETECT spr round 2 (radius: 10)
[30:30:13 -317441.036207] AUTODETECT spr round 3 (radius: 15)
[30:32:20 -271776.337608] AUTODETECT spr round 4 (radius: 20)
[30:34:48 -256985.545827] AUTODETECT spr round 5 (radius: 25)
[30:37:35 -253146.930550] SPR radius for FAST iterations: 25 (autodetect)
[30:37:35 -253146.930550] Model parameter optimization (eps = 3.000000)
[30:37:51 -252894.363280] FAST spr round 1 (radius: 25)
[30:40:14 -226421.830565] FAST spr round 2 (radius: 25)
[30:42:11 -225193.395708] FAST spr round 3 (radius: 25)
[30:43:55 -225092.116148] FAST spr round 4 (radius: 25)
[30:45:31 -225076.649283] FAST spr round 5 (radius: 25)
[30:46:59 -225075.310075] FAST spr round 6 (radius: 25)
[30:48:26 -225075.310022] Model parameter optimization (eps = 1.000000)
[30:48:39 -225071.589012] SLOW spr round 1 (radius: 5)
[30:50:51 -225025.534725] SLOW spr round 2 (radius: 5)
[30:52:57 -225010.818065] SLOW spr round 3 (radius: 5)
[30:54:57 -225001.202765] SLOW spr round 4 (radius: 5)
[30:56:59 -224998.627086] SLOW spr round 5 (radius: 5)
[30:58:56 -224998.627031] SLOW spr round 6 (radius: 10)
[31:00:58 -224996.390840] SLOW spr round 7 (radius: 5)
[31:03:26 -224996.390811] SLOW spr round 8 (radius: 10)
[31:05:41 -224996.390810] SLOW spr round 9 (radius: 15)
[31:08:43 -224996.390810] SLOW spr round 10 (radius: 20)
[31:13:10 -224996.390810] SLOW spr round 11 (radius: 25)
[31:18:58 -224996.390810] Model parameter optimization (eps = 0.100000)

[31:19:03] ML tree search #18, logLikelihood: -224996.380068

[31:19:03 -725843.666709] Initial branch length optimization
[31:19:06 -639029.354582] Model parameter optimization (eps = 10.000000)
[31:19:28 -638380.272625] AUTODETECT spr round 1 (radius: 5)
[31:21:23 -453743.963768] AUTODETECT spr round 2 (radius: 10)
[31:23:29 -314085.543250] AUTODETECT spr round 3 (radius: 15)
[31:25:39 -268932.469156] AUTODETECT spr round 4 (radius: 20)
[31:28:28 -258168.620391] AUTODETECT spr round 5 (radius: 25)
[31:31:39 -256778.228037] SPR radius for FAST iterations: 25 (autodetect)
[31:31:39 -256778.228037] Model parameter optimization (eps = 3.000000)
[31:31:44 -256776.252834] FAST spr round 1 (radius: 25)
[31:34:12 -226988.389927] FAST spr round 2 (radius: 25)
[31:36:14 -225458.981239] FAST spr round 3 (radius: 25)
[31:38:02 -225289.139263] FAST spr round 4 (radius: 25)
[31:39:38 -225229.890324] FAST spr round 5 (radius: 25)
[31:41:10 -225227.483780] FAST spr round 6 (radius: 25)
[31:42:40 -225227.483599] Model parameter optimization (eps = 1.000000)
[31:43:02 -225038.772059] SLOW spr round 1 (radius: 5)
[31:45:12 -224993.732736] SLOW spr round 2 (radius: 5)
[31:47:17 -224990.645476] SLOW spr round 3 (radius: 5)
[31:49:18 -224988.984413] SLOW spr round 4 (radius: 5)
[31:51:15 -224988.458083] SLOW spr round 5 (radius: 5)
[31:53:12 -224988.458052] SLOW spr round 6 (radius: 10)
[31:55:12 -224987.809015] SLOW spr round 7 (radius: 5)
[31:57:40 -224985.844304] SLOW spr round 8 (radius: 5)
[31:59:50 -224985.691624] SLOW spr round 9 (radius: 5)
[32:01:53 -224985.691622] SLOW spr round 10 (radius: 10)
[32:03:54 -224985.691622] SLOW spr round 11 (radius: 15)
[32:06:59 -224985.691622] SLOW spr round 12 (radius: 20)
[32:11:09 -224985.691622] SLOW spr round 13 (radius: 25)
[32:16:37 -224985.691622] Model parameter optimization (eps = 0.100000)

[32:16:43] ML tree search #19, logLikelihood: -224985.635943

[32:16:43 -723672.957110] Initial branch length optimization
[32:16:46 -637721.169282] Model parameter optimization (eps = 10.000000)
[32:17:11 -637047.584329] AUTODETECT spr round 1 (radius: 5)
[32:19:05 -455164.509134] AUTODETECT spr round 2 (radius: 10)
[32:21:12 -320492.124713] AUTODETECT spr round 3 (radius: 15)
[32:23:21 -285302.032059] AUTODETECT spr round 4 (radius: 20)
[32:26:44 -259048.909786] AUTODETECT spr round 5 (radius: 25)
[32:30:19 -257390.855569] SPR radius for FAST iterations: 25 (autodetect)
[32:30:19 -257390.855569] Model parameter optimization (eps = 3.000000)
[32:30:38 -257152.053251] FAST spr round 1 (radius: 25)
[32:33:04 -226117.664447] FAST spr round 2 (radius: 25)
[32:35:03 -225130.877847] FAST spr round 3 (radius: 25)
[32:36:52 -225077.226908] FAST spr round 4 (radius: 25)
[32:38:26 -225076.814931] FAST spr round 5 (radius: 25)
[32:39:57 -225076.814916] Model parameter optimization (eps = 1.000000)
[32:40:10 -225070.113577] SLOW spr round 1 (radius: 5)
[32:42:25 -225013.827814] SLOW spr round 2 (radius: 5)
[32:44:28 -225002.642523] SLOW spr round 3 (radius: 5)
[32:46:26 -225001.223989] SLOW spr round 4 (radius: 5)
[32:48:22 -225001.223983] SLOW spr round 5 (radius: 10)
[32:50:22 -224998.900058] SLOW spr round 6 (radius: 5)
[32:52:48 -224998.899313] SLOW spr round 7 (radius: 10)
[32:55:03 -224998.156627] SLOW spr round 8 (radius: 5)
[32:57:26 -224995.417865] SLOW spr round 9 (radius: 5)
[32:59:34 -224995.018600] SLOW spr round 10 (radius: 5)
[33:01:34 -224995.018598] SLOW spr round 11 (radius: 10)
[33:03:35 -224995.018598] SLOW spr round 12 (radius: 15)
[33:06:42 -224995.018598] SLOW spr round 13 (radius: 20)
[33:11:04 -224995.018598] SLOW spr round 14 (radius: 25)
[33:16:45 -224995.018598] Model parameter optimization (eps = 0.100000)

[33:16:53] ML tree search #20, logLikelihood: -224994.567175


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.260558,0.332051) (0.294792,0.529644) (0.242695,1.063107) (0.201955,2.472511) 
   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: -224982.883228

AIC score: 453975.766456 / AICc score: 8498035.766456 / BIC score: 462580.362581
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=540).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/P56192/3_mltree/P56192.raxml.log

Analysis started: 18-Jun-2021 13:51:10 / finished: 19-Jun-2021 23:08:03

Elapsed time: 119813.730 seconds