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 12-Jul-2021 20:42:11 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/2_msa/P0DJD1_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/3_mltree/P0DJD1 --seed 2 --threads 6 --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 (6 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/2_msa/P0DJD1_trimmed_msa.fasta
[00:00:00] Loaded alignment with 986 taxa and 287 sites

WARNING: Sequences tr_Q5ZJ38_Q5ZJ38_CHICK_9031 and tr_A0A226N8Z5_A0A226N8Z5_CALSU_9009 are exactly identical!
WARNING: Sequences tr_Q5ZJ38_Q5ZJ38_CHICK_9031 and tr_A0A226PYA8_A0A226PYA8_COLVI_9014 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2I3SUC0_A0A2I3SUC0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A1D5RHC9_A0A1D5RHC9_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2I3M5Z7_A0A2I3M5Z7_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K5M2D6_A0A2K5M2D6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K6BKU9_A0A2K6BKU9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K5ZMS6_A0A2K5ZMS6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2R9CFI6_A0A2R9CFI6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A0E1RVV2_A0A0E1RVV2_COCIM_246410 and tr_A0A0J7BF99_A0A0J7BF99_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B6Q9R4_B6Q9R4_TALMQ_441960 and tr_A0A093XM08_A0A093XM08_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_B2WJ58_B2WJ58_PYRTR_426418 and tr_A0A2W1D5I8_A0A2W1D5I8_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_G3R6A2_G3R6A2_GORGO_9595 and tr_A0A2K6HGX5_A0A2K6HGX5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3R6A2_G3R6A2_GORGO_9595 and tr_A0A2I2UZY4_A0A2I2UZY4_FELCA_9685 are exactly identical!
WARNING: Sequences tr_G3R6A2_G3R6A2_GORGO_9595 and tr_A0A2R9A2X4_A0A2R9A2X4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2J8RBQ5_A0A2J8RBQ5_PONAB_9601 and sp_P43487_RANG_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2J8RBQ5_A0A2J8RBQ5_PONAB_9601 and tr_A0A0D9RHX8_A0A0D9RHX8_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_U9W553_U9W553_NEUCR_367110 and tr_G4UP01_G4UP01_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_A0A179UWG1_A0A179UWG1_BLAGS_559298 and tr_C5GLI9_C5GLI9_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A0D2Y5H4_A0A0D2Y5H4_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_S0EIG4_S0EIG4_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_N4UH46_N4UH46_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_X0D6D7_X0D6D7_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A365NHL3_A0A365NHL3_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_E9ER24_E9ER24_METRA_655844 and tr_A0A0B4HQA4_A0A0B4HQA4_METMF_1276143 are exactly identical!
WARNING: Sequences tr_E9ER24_E9ER24_METRA_655844 and tr_A0A0D9PGX9_A0A0D9PGX9_METAN_1291518 are exactly identical!
WARNING: Sequences tr_J5JQ07_J5JQ07_BEAB2_655819 and tr_A0A0A2VVF9_A0A0A2VVF9_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_J5JQ07_J5JQ07_BEAB2_655819 and tr_A0A2N6NCC0_A0A2N6NCC0_BEABA_176275 are exactly identical!
WARNING: Sequences sp_O14715_RGPD8_HUMAN_9606 and sp_Q99666_RGPD5_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_P0DJD0_RGPD1_HUMAN_9606 and sp_P0DJD1_RGPD2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_Q2U689_Q2U689_ASPOR_510516 and tr_A0A1S9D8K8_A0A1S9D8K8_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A2RA71_A2RA71_ASPNC_425011 and tr_G3YDM7_G3YDM7_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_F6UF21_F6UF21_MACMU_9544 and tr_G7PMX0_G7PMX0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7HI99_F7HI99_MACMU_9544 and tr_A0A096NUB9_A0A096NUB9_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7HI99_F7HI99_MACMU_9544 and tr_A0A0D9RWS6_A0A0D9RWS6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7HI99_F7HI99_MACMU_9544 and tr_A0A2K6E1L3_A0A2K6E1L3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7HI99_F7HI99_MACMU_9544 and tr_A0A2K5ZFU9_A0A2K5ZFU9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G7X9P7_G7X9P7_ASPKW_1033177 and tr_A0A146F6N6_A0A146F6N6_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_F4P0Q8_F4P0Q8_BATDJ_684364 and tr_A0A177WD68_A0A177WD68_BATDE_403673 are exactly identical!
WARNING: Sequences tr_G2XNM3_G2XNM3_BOTF4_999810 and tr_M7TPS9_M7TPS9_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_F2PUN2_F2PUN2_TRIEC_559882 and tr_A0A059IZ14_A0A059IZ14_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L0PE37_L0PE37_PNEJ8_1209962 and tr_A0A0W4ZW58_A0A0W4ZW58_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_L2FVY3_L2FVY3_COLFN_1213859 and tr_T0L5C0_T0L5C0_COLGC_1237896 are exactly identical!
WARNING: Sequences tr_U5H9P1_U5H9P1_USTV1_683840 and tr_A0A2X0LRN9_A0A2X0LRN9_9BASI_796604 are exactly identical!
WARNING: Sequences tr_V2XXC0_V2XXC0_MONRO_1381753 and tr_A0A0W0F8R5_A0A0W0F8R5_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A015IGS6_A0A015IGS6_9GLOM_1432141 and tr_A0A2H5RM43_A0A2H5RM43_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A096NCD4_A0A096NCD4_PAPAN_9555 and tr_A0A2K5LL98_A0A2K5LL98_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A094HA21_A0A094HA21_9PEZI_1420912 and tr_A0A1B8GWB9_A0A1B8GWB9_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A091VQF2_A0A091VQF2_NIPNI_128390 and tr_A0A087QSM3_A0A087QSM3_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091VQI4_A0A091VQI4_NIPNI_128390 and tr_A0A091FTV3_A0A091FTV3_9AVES_55661 are exactly identical!
WARNING: Sequences tr_A0A091VQI4_A0A091VQI4_NIPNI_128390 and tr_A0A093G3D5_A0A093G3D5_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A091VQI4_A0A091VQI4_NIPNI_128390 and tr_A0A091I611_A0A091I611_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A0V0VRB3_A0A0V0VRB3_9BILA_181606 and tr_A0A0V0TGR9_A0A0V0TGR9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A124BYP4_A0A124BYP4_ASPNG_5061 and tr_A0A1L9NLP6_A0A1L9NLP6_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A0A1S4BYR1_A0A1S4BYR1_TOBAC_4097 and tr_A0A1U7XSD8_A0A1U7XSD8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3NYT1_A0A1S3NYT1_SALSA_8030 and tr_A0A1S3NYW4_A0A1S3NYW4_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1S3NYY3_A0A1S3NYY3_SALSA_8030 and tr_A0A1S3NZ19_A0A1S3NZ19_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A2H3F7X4_A0A2H3F7X4_9HELO_946125 and tr_A0A218ZHJ1_A0A218ZHJ1_9HELO_503106 are exactly identical!
WARNING: Sequences tr_A0A2S7NU48_A0A2S7NU48_9HELO_2070414 and tr_A0A2S7QU84_A0A2S7QU84_9HELO_2070412 are exactly identical!
WARNING: Sequences tr_A0A2U4B194_A0A2U4B194_TURTR_9739 and tr_A0A2Y9QBP6_A0A2Y9QBP6_DELLE_9749 are exactly identical!
WARNING: Duplicate sequences found: 60

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/P0DJD1/3_mltree/P0DJD1.raxml.reduced.phy

Alignment comprises 1 partitions and 287 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 287 / 287
Gaps: 26.05 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/3_mltree/P0DJD1.raxml.rba

Parallelization scheme autoconfig: 6 worker(s) x 1 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 986 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 287 / 22960
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -366707.299366] Initial branch length optimization
[00:00:08 -311786.677931] Model parameter optimization (eps = 10.000000)
[00:03:01 -310323.053680] AUTODETECT spr round 1 (radius: 5)
[00:06:43 -220761.095298] AUTODETECT spr round 2 (radius: 10)
[00:10:44 -161107.976642] AUTODETECT spr round 3 (radius: 15)
[00:15:13 -137049.076462] AUTODETECT spr round 4 (radius: 20)
[00:19:57 -128283.327728] AUTODETECT spr round 5 (radius: 25)
[00:25:30 -124904.705040] SPR radius for FAST iterations: 25 (autodetect)
[00:25:30 -124904.705040] Model parameter optimization (eps = 3.000000)
[00:26:22 -124866.781673] FAST spr round 1 (radius: 25)
[00:31:42 -110944.108970] FAST spr round 2 (radius: 25)
[00:35:29 -109843.399875] FAST spr round 3 (radius: 25)
[00:38:45 -109430.719128] FAST spr round 4 (radius: 25)
[00:41:42 -109396.272360] FAST spr round 5 (radius: 25)
[00:44:14 -109396.272251] Model parameter optimization (eps = 1.000000)
[00:44:38 -109389.928308] SLOW spr round 1 (radius: 5)
[00:48:19 -109369.303684] SLOW spr round 2 (radius: 5)
[00:51:42 -109369.277034] SLOW spr round 3 (radius: 10)
[00:55:02 -109367.528202] SLOW spr round 4 (radius: 5)
[00:59:15 -109367.408314] SLOW spr round 5 (radius: 5)
[01:02:57 -109367.406099] SLOW spr round 6 (radius: 10)
[01:06:24 -109367.405850] SLOW spr round 7 (radius: 15)
[01:11:42 -109367.404702] SLOW spr round 8 (radius: 20)
[01:18:52 -109367.404616] SLOW spr round 9 (radius: 25)
[01:27:52 -109366.039873] SLOW spr round 10 (radius: 5)
[01:32:22 -109366.037189] SLOW spr round 11 (radius: 10)
[01:36:29 -109366.036754] SLOW spr round 12 (radius: 15)
[01:36:46] [worker #1] ML tree search #2, logLikelihood: -109371.678023
[01:41:29 -109366.036643] SLOW spr round 13 (radius: 20)
[01:48:51 -109366.036580] SLOW spr round 14 (radius: 25)
[01:49:15] [worker #5] ML tree search #6, logLikelihood: -109313.505146
[01:56:58] [worker #2] ML tree search #3, logLikelihood: -109561.217071
[01:57:46 -109366.036526] Model parameter optimization (eps = 0.100000)

[01:57:53] [worker #0] ML tree search #1, logLikelihood: -109365.992088

[01:57:53 -367905.298454] Initial branch length optimization
[01:58:01 -313964.667344] Model parameter optimization (eps = 10.000000)
[02:00:37 -312581.010767] AUTODETECT spr round 1 (radius: 5)
[02:04:21 -214024.311447] AUTODETECT spr round 2 (radius: 10)
[02:08:20 -157284.861385] AUTODETECT spr round 3 (radius: 15)
[02:09:08] [worker #4] ML tree search #5, logLikelihood: -109313.095445
[02:09:26] [worker #3] ML tree search #4, logLikelihood: -109353.907610
[02:12:46 -133097.663492] AUTODETECT spr round 4 (radius: 20)
[02:18:24 -127990.979816] AUTODETECT spr round 5 (radius: 25)
[02:24:14 -124235.211241] SPR radius for FAST iterations: 25 (autodetect)
[02:24:14 -124235.211241] Model parameter optimization (eps = 3.000000)
[02:24:44 -124190.453926] FAST spr round 1 (radius: 25)
[02:30:07 -110741.131363] FAST spr round 2 (radius: 25)
[02:33:56 -109676.427990] FAST spr round 3 (radius: 25)
[02:36:57 -109398.907755] FAST spr round 4 (radius: 25)
[02:39:45 -109373.104821] FAST spr round 5 (radius: 25)
[02:42:16 -109372.356267] FAST spr round 6 (radius: 25)
[02:44:42 -109372.355950] Model parameter optimization (eps = 1.000000)
[02:45:03 -109369.814659] SLOW spr round 1 (radius: 5)
[02:48:29 -109337.204257] SLOW spr round 2 (radius: 5)
[02:51:52 -109332.167301] SLOW spr round 3 (radius: 5)
[02:55:08 -109331.912040] SLOW spr round 4 (radius: 5)
[02:58:23 -109330.779472] SLOW spr round 5 (radius: 5)
[03:01:35 -109330.779285] SLOW spr round 6 (radius: 10)
[03:04:53 -109328.847891] SLOW spr round 7 (radius: 5)
[03:09:03 -109328.847720] SLOW spr round 8 (radius: 10)
[03:12:45 -109328.847664] SLOW spr round 9 (radius: 15)
[03:18:15 -109328.737255] SLOW spr round 10 (radius: 5)
[03:22:37 -109328.737153] SLOW spr round 11 (radius: 10)
[03:26:34 -109328.737099] SLOW spr round 12 (radius: 15)
[03:31:58 -109328.737047] SLOW spr round 13 (radius: 20)
[03:41:04 -109328.736996] SLOW spr round 14 (radius: 25)
[03:51:23] [worker #5] ML tree search #12, logLikelihood: -109428.727043
[03:52:12 -109328.736947] Model parameter optimization (eps = 0.100000)

[03:52:23] [worker #0] ML tree search #7, logLikelihood: -109328.725326

[03:52:23 -364901.028926] Initial branch length optimization
[03:52:32 -311747.398479] Model parameter optimization (eps = 10.000000)
[03:55:10 -310325.486003] AUTODETECT spr round 1 (radius: 5)
[03:58:54 -217155.760047] AUTODETECT spr round 2 (radius: 10)
[04:02:56 -165536.819316] AUTODETECT spr round 3 (radius: 15)
[04:07:21 -141211.602431] AUTODETECT spr round 4 (radius: 20)
[04:08:24] [worker #1] ML tree search #8, logLikelihood: -109394.301521
[04:12:37 -129400.946038] AUTODETECT spr round 5 (radius: 25)
[04:16:42] [worker #2] ML tree search #9, logLikelihood: -109327.018539
[04:19:00 -125084.922293] SPR radius for FAST iterations: 25 (autodetect)
[04:19:00 -125084.922293] Model parameter optimization (eps = 3.000000)
[04:19:30 -125055.836273] FAST spr round 1 (radius: 25)
[04:25:04 -110148.237050] FAST spr round 2 (radius: 25)
[04:29:01 -109666.904211] FAST spr round 3 (radius: 25)
[04:32:16 -109607.410139] FAST spr round 4 (radius: 25)
[04:35:03 -109573.683696] FAST spr round 5 (radius: 25)
[04:37:35 -109573.683223] Model parameter optimization (eps = 1.000000)
[04:37:58 -109571.267285] SLOW spr round 1 (radius: 5)
[04:41:30 -109538.291192] SLOW spr round 2 (radius: 5)
[04:45:01 -109531.043007] SLOW spr round 3 (radius: 5)
[04:45:54] [worker #3] ML tree search #10, logLikelihood: -109366.315193
[04:48:20 -109531.033068] SLOW spr round 4 (radius: 10)
[04:51:42 -109529.252858] SLOW spr round 5 (radius: 5)
[04:55:56 -109529.047682] SLOW spr round 6 (radius: 5)
[04:59:39 -109529.047452] SLOW spr round 7 (radius: 10)
[05:03:07 -109529.047302] SLOW spr round 8 (radius: 15)
[05:08:41 -109529.047176] SLOW spr round 9 (radius: 20)
[05:16:58 -109529.047063] SLOW spr round 10 (radius: 25)
[05:18:22] [worker #4] ML tree search #11, logLikelihood: -109321.589159
[05:27:21 -109528.970967] Model parameter optimization (eps = 0.100000)

[05:27:53] [worker #0] ML tree search #13, logLikelihood: -109527.612293

[05:27:53 -368005.943579] Initial branch length optimization
[05:28:03 -314082.920936] Model parameter optimization (eps = 10.000000)
[05:30:37 -312686.790556] AUTODETECT spr round 1 (radius: 5)
[05:34:24 -219354.568963] AUTODETECT spr round 2 (radius: 10)
[05:38:22 -164184.469115] AUTODETECT spr round 3 (radius: 15)
[05:42:44 -143441.068988] AUTODETECT spr round 4 (radius: 20)
[05:42:54] [worker #5] ML tree search #18, logLikelihood: -109448.598160
[05:47:44 -128339.413401] AUTODETECT spr round 5 (radius: 25)
[05:52:27] [worker #1] ML tree search #14, logLikelihood: -109390.017039
[05:53:19 -123537.952659] SPR radius for FAST iterations: 25 (autodetect)
[05:53:19 -123537.952659] Model parameter optimization (eps = 3.000000)
[05:53:47 -123507.215847] FAST spr round 1 (radius: 25)
[05:59:08 -110304.597844] FAST spr round 2 (radius: 25)
[06:02:59 -109632.758348] FAST spr round 3 (radius: 25)
[06:06:10 -109561.379774] FAST spr round 4 (radius: 25)
[06:08:57 -109548.066270] FAST spr round 5 (radius: 25)
[06:11:29 -109544.785278] FAST spr round 6 (radius: 25)
[06:13:58 -109540.504225] FAST spr round 7 (radius: 25)
[06:16:22 -109540.094876] FAST spr round 8 (radius: 25)
[06:18:45 -109540.094675] Model parameter optimization (eps = 1.000000)
[06:19:08 -109532.570814] SLOW spr round 1 (radius: 5)
[06:22:29 -109499.992565] SLOW spr round 2 (radius: 5)
[06:25:49 -109488.864643] SLOW spr round 3 (radius: 5)
[06:29:14 -109476.206016] SLOW spr round 4 (radius: 5)
[06:30:47] [worker #2] ML tree search #15, logLikelihood: -109322.374040
[06:32:43 -109463.106945] SLOW spr round 5 (radius: 5)
[06:36:05 -109457.703700] SLOW spr round 6 (radius: 5)
[06:39:19 -109456.399783] SLOW spr round 7 (radius: 5)
[06:42:30 -109456.325460] SLOW spr round 8 (radius: 10)
[06:45:52 -109449.127272] SLOW spr round 9 (radius: 5)
[06:50:06 -109445.729309] SLOW spr round 10 (radius: 5)
[06:53:46 -109445.729210] SLOW spr round 11 (radius: 10)
[06:57:14 -109445.729062] SLOW spr round 12 (radius: 15)
[06:57:37] [worker #4] ML tree search #17, logLikelihood: -109439.337144
[07:03:05 -109445.729052] SLOW spr round 13 (radius: 20)
[07:12:29 -109445.328562] SLOW spr round 14 (radius: 5)
[07:16:56 -109445.328176] SLOW spr round 15 (radius: 10)
[07:21:01 -109445.328131] SLOW spr round 16 (radius: 15)
[07:26:29 -109445.328117] SLOW spr round 17 (radius: 20)
[07:35:24] [worker #1] ML tree search #20, logLikelihood: -109456.173216
[07:36:02 -109445.328108] SLOW spr round 18 (radius: 25)
[07:48:05 -109445.289246] Model parameter optimization (eps = 0.100000)

[07:48:12] [worker #0] ML tree search #19, logLikelihood: -109445.198305

[07:48:29] [worker #3] ML tree search #16, logLikelihood: -109352.402917

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.146262,0.257699) (0.167906,0.401189) (0.208128,0.671313) (0.477704,1.580953) 
   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: -109313.095445

AIC score: 222576.190890 / AICc score: 8027776.190890 / BIC score: 229803.668267
Free parameters (model + branch lengths): 1975

WARNING: Number of free parameters (K=1975) is larger than alignment size (n=287).
         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/P0DJD1/3_mltree/P0DJD1.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/3_mltree/P0DJD1.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/3_mltree/P0DJD1.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD1/3_mltree/P0DJD1.raxml.log

Analysis started: 12-Jul-2021 20:42:11 / finished: 13-Jul-2021 04:30:40

Elapsed time: 28109.259 seconds