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 02-Jul-2021 03:10:34 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/2_msa/P10600_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/3_mltree/P10600 --seed 2 --threads 4 --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 (4 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/2_msa/P10600_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 181 sites

WARNING: Sequences tr_B4Q848_B4Q848_DROSI_7240 and sp_P07713_DECA_DROME_7227 are exactly identical!
WARNING: Sequences tr_A0A1D5PGR5_A0A1D5PGR5_CHICK_9031 and tr_G1MSV0_G1MSV0_MELGA_9103 are exactly identical!
WARNING: Sequences tr_A0A1D5PGR5_A0A1D5PGR5_CHICK_9031 and tr_A0A226MG45_A0A226MG45_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A1D5PGR5_A0A1D5PGR5_CHICK_9031 and tr_A0A226NR11_A0A226NR11_COLVI_9014 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_H0YX95_H0YX95_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A0Q3TKX3_A0A0Q3TKX3_AMAAE_12930 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A091EHU9_A0A091EHU9_CORBR_85066 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A091JRM2_A0A091JRM2_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A093PLS2_A0A093PLS2_9PASS_328815 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A087QXC5_A0A087QXC5_APTFO_9233 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A093H6T4_A0A093H6T4_STRCA_441894 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A091W2S1_A0A091W2S1_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A091GHM8_A0A091GHM8_9AVES_55661 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A099ZYS0_A0A099ZYS0_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A2I0M544_A0A2I0M544_COLLI_8932 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A093GA25_A0A093GA25_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_F1NNP2_F1NNP2_CHICK_9031 and tr_A0A091I6I9_A0A091I6I9_CALAN_9244 are exactly identical!
WARNING: Sequences sp_P17125_TGFB3_MOUSE_10090 and tr_G3HFS5_G3HFS5_CRIGR_10029 are exactly identical!
WARNING: Sequences sp_P17125_TGFB3_MOUSE_10090 and tr_F7IQT4_F7IQT4_CALJA_9483 are exactly identical!
WARNING: Sequences sp_P17125_TGFB3_MOUSE_10090 and tr_A0A1U7R218_A0A1U7R218_MESAU_10036 are exactly identical!
WARNING: Sequences sp_P27090_TGFB2_MOUSE_10090 and tr_G3GRE7_G3GRE7_CRIGR_10029 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_G3RHL0_G3RHL0_GORGO_9595 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A2J8VJ76_A0A2J8VJ76_PONAB_9601 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_B7NZI8_B7NZI8_RABIT_9986 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_H2QK94_H2QK94_PANTR_9598 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_M0RAY4_M0RAY4_RAT_10116 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_H0XQJ3_H0XQJ3_OTOGA_30611 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_F7CYF2_F7CYF2_CALJA_9483 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_G7PGI7_G7PGI7_MACFA_9541 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_B0CM78_B0CM78_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A0D9RDH1_A0A0D9RDH1_CHLSB_60711 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A1U7RD52_A0A1U7RD52_MESAU_10036 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A2K5NAV9_A0A2K5NAV9_CERAT_9531 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A2K6BCE3_A0A2K6BCE3_MACNE_9545 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A2K5Z7Q6_A0A2K5Z7Q6_MANLE_9568 are exactly identical!
WARNING: Sequences sp_P43027_GDF5_MOUSE_10090 and tr_A0A2R8ZH71_A0A2R8ZH71_PANPA_9597 are exactly identical!
WARNING: Sequences sp_Q04999_INHBB_MOUSE_10090 and sp_P17491_INHBB_RAT_10116 are exactly identical!
WARNING: Sequences tr_M3XYQ7_M3XYQ7_MUSPF_9669 and sp_Q38L25_TGFB2_MUSPF_9669 are exactly identical!
WARNING: Sequences tr_M3XYQ7_M3XYQ7_MUSPF_9669 and tr_H2N3P5_H2N3P5_PONAB_9601 are exactly identical!
WARNING: Sequences tr_M3XYQ7_M3XYQ7_MUSPF_9669 and sp_P61812_TGFB2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3XYQ7_M3XYQ7_MUSPF_9669 and tr_G3SQA9_G3SQA9_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_M3XYQ7_M3XYQ7_MUSPF_9669 and tr_A0A0D9RT60_A0A0D9RT60_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_G1S3M8_G1S3M8_NOMLE_61853 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_G3QGK3_G3QGK3_GORGO_9595 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_H2NLV1_H2NLV1_PONAB_9601 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_F1PR85_F1PR85_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_H2Q8N5_H2Q8N5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_F7DR45_F7DR45_HORSE_9796 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_I3ND79_I3ND79_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and sp_P10600_TGFB3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_F7HDK4_F7HDK4_MACMU_9544 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_G1MJ58_G1MJ58_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_G7PB17_G7PB17_MACFA_9541 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_M3WKA2_M3WKA2_FELCA_9685 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A0D9RHV6_A0A0D9RHV6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2K5L5N4_A0A2K5L5N4_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2K6DZX6_A0A2K6DZX6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2K5ZVE5_A0A2K5ZVE5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2R9AJT4_A0A2R9AJT4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2U3VVK9_A0A2U3VVK9_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2U3YW06_A0A2U3YW06_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A2Y9JN47_A0A2Y9JN47_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YCD0_M3YCD0_MUSPF_9669 and tr_A0A384CS48_A0A384CS48_URSMA_29073 are exactly identical!
WARNING: Sequences tr_M3Z1S8_M3Z1S8_MUSPF_9669 and tr_A0A2Y9LAY3_A0A2Y9LAY3_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_G1P2I8_G1P2I8_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_E2R0W8_E2R0W8_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_G3TIY5_G3TIY5_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_F1MT44_F1MT44_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_A0A2I2URW3_A0A2I2URW3_FELCA_9685 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_A0A2U3VEP0_A0A2U3VEP0_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_A0A2U3YTC5_A0A2U3YTC5_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_A0A2Y9D9H1_A0A2Y9D9H1_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_M3Z276_M3Z276_MUSPF_9669 and tr_A0A384B137_A0A384B137_BALAS_310752 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_G3RVU6_G3RVU6_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_K7A0F7_K7A0F7_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and sp_Q6KF10_GDF6_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A287BJW9_A0A287BJW9_PIG_9823 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A096MW46_A0A096MW46_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A1U7T2V8_A0A1U7T2V8_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A2K5P0L5_A0A2K5P0L5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A2U3WXQ2_A0A2U3WXQ2_ODORO_9708 are exactly identical!
WARNING: Sequences tr_G1QTN7_G1QTN7_NOMLE_61853 and tr_A0A2Y9JAW0_A0A2Y9JAW0_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_G3SE85_G3SE85_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_H2QGE0_H2QGE0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and sp_P01137_TGFB1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_F7HCV5_F7HCV5_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_A0A0A0MUY3_A0A0A0MUY3_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_A0A0D9S0Y0_A0A0D9S0Y0_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1RTT5_G1RTT5_NOMLE_61853 and tr_A0A2K5L8Q9_A0A2K5L8Q9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_G1NSR1_G1NSR1_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_G3QPK5_G3QPK5_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_G1SNK8_G1SNK8_RABIT_9986 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_F1PKH2_F1PKH2_CANLF_9615 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_H2Q153_H2Q153_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_F6WJJ3_F6WJJ3_HORSE_9796 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_I3LY90_I3LY90_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_F6ZJX4_F6ZJX4_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_G5ATT1_G5ATT1_HETGA_10181 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_F7GC85_F7GC85_CALJA_9483 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A286ZV08_A0A286ZV08_PIG_9823 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_D2HL87_D2HL87_AILME_9646 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_G7NTZ0_G7NTZ0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2I2UJQ9_A0A2I2UJQ9_FELCA_9685 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A096MY44_A0A096MY44_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A1S3F352_A0A1S3F352_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2K5LH84_A0A2K5LH84_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2K6DYS8_A0A2K6DYS8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2R9AD99_A0A2R9AD99_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2U3V1G6_A0A2U3V1G6_TURTR_9739 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2U3X153_A0A2U3X153_ODORO_9708 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2U3Y3M9_A0A2U3Y3M9_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2Y9DJX5_A0A2Y9DJX5_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2Y9K4C7_A0A2Y9K4C7_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2Y9NLP6_A0A2Y9NLP6_DELLE_9749 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A2Y9FNU6_A0A2Y9FNU6_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A384BMU5_A0A384BMU5_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G1RVC4_G1RVC4_NOMLE_61853 and tr_A0A383ZFF2_A0A383ZFF2_BALAS_310752 are exactly identical!
WARNING: Sequences tr_G1Q1D7_G1Q1D7_MYOLU_59463 and tr_G1LQ24_G1LQ24_AILME_9646 are exactly identical!
WARNING: Sequences tr_G1Q1D7_G1Q1D7_MYOLU_59463 and tr_L5K221_L5K221_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_G1Q1D7_G1Q1D7_MYOLU_59463 and tr_A0A337RU16_A0A337RU16_FELCA_9685 are exactly identical!
WARNING: Sequences tr_G3RH13_G3RH13_GORGO_9595 and tr_A0A2I3TNV9_A0A2I3TNV9_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3RH13_G3RH13_GORGO_9595 and sp_P09529_INHBB_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3S8C9_G3S8C9_GORGO_9595 and tr_H2Q6B1_H2Q6B1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_H2NHT2_H2NHT2_PONAB_9601 and sp_P58166_INHBE_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2NHT2_H2NHT2_PONAB_9601 and tr_G7PIV1_G7PIV1_MACFA_9541 are exactly identical!
WARNING: Sequences tr_H2NHT2_H2NHT2_PONAB_9601 and tr_A0A0D9QXY5_A0A0D9QXY5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_H2NHT2_H2NHT2_PONAB_9601 and tr_A0A2K6DEE4_A0A2K6DEE4_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H2NHT2_H2NHT2_PONAB_9601 and tr_A0A2R9CQH3_A0A2R9CQH3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1MX92_G1MX92_MELGA_9103 and tr_U3I1H8_U3I1H8_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_H0ZPS5_H0ZPS5_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_A0A091FR72_A0A091FR72_CORBR_85066 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_A0A091JRP6_A0A091JRP6_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_A0A091VZC3_A0A091VZC3_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_A0A0A0AK99_A0A0A0AK99_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_G1NJH0_G1NJH0_MELGA_9103 and tr_A0A091IBJ2_A0A091IBJ2_CALAN_9244 are exactly identical!
WARNING: Sequences sp_P91699_DECA_DROPS_46245 and tr_B4GSL3_B4GSL3_DROPE_7234 are exactly identical!
WARNING: Sequences tr_F1PI70_F1PI70_CANLF_9615 and sp_P54831_TGFB1_CANLF_9615 are exactly identical!
WARNING: Sequences tr_F6WIE9_F6WIE9_MONDO_13616 and tr_G3X2G9_G3X2G9_SARHA_9305 are exactly identical!
WARNING: Sequences tr_F7BKJ7_F7BKJ7_HORSE_9796 and tr_A0A2Y9INW9_A0A2Y9INW9_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_P50414_TGFB1_SHEEP_9940 and sp_P18341_TGFB1_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_W5NVG0_W5NVG0_SHEEP_9940 and tr_A6QP91_A6QP91_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_W5PPP2_W5PPP2_SHEEP_9940 and sp_P21214_TGFB2_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A287D8G8_A0A287D8G8_ICTTR_43179 and tr_A0A286XBD0_A0A286XBD0_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_A0A287D8G8_A0A287D8G8_ICTTR_43179 and tr_A0A1D5QJR9_A0A1D5QJR9_MACMU_9544 are exactly identical!
WARNING: Sequences tr_I3N6B0_I3N6B0_ICTTR_43179 and tr_A0A1S3FHQ1_A0A1S3FHQ1_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_A0A286XP35_A0A286XP35_CAVPO_10141 and tr_A0A091CWY5_A0A091CWY5_FUKDA_885580 are exactly identical!
WARNING: Sequences tr_A0A1D5QY16_A0A1D5QY16_MACMU_9544 and tr_A0A2I3MBY9_A0A2I3MBY9_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QY16_A0A1D5QY16_MACMU_9544 and tr_A0A0D9RVS0_A0A0D9RVS0_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1D5QY16_A0A1D5QY16_MACMU_9544 and tr_A0A2K5KP24_A0A2K5KP24_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5QY16_A0A1D5QY16_MACMU_9544 and tr_A0A2K6BKV8_A0A2K6BKV8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7H9S4_F7H9S4_MACMU_9544 and tr_A0A2K5KXW8_A0A2K5KXW8_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7H9S4_F7H9S4_MACMU_9544 and tr_A0A2K6E1J8_A0A2K6E1J8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7H9S4_F7H9S4_MACMU_9544 and tr_A0A2K5YGU5_A0A2K5YGU5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_K7GIR5_K7GIR5_PELSI_13735 and tr_A0A218VDS9_A0A218VDS9_9PASE_299123 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A0Q3X7Q4_A0A0Q3X7Q4_AMAAE_12930 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A091FL18_A0A091FL18_CORBR_85066 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A091IVU3_A0A091IVU3_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A093PCY8_A0A093PCY8_9PASS_328815 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A091WZ69_A0A091WZ69_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A087RB84_A0A087RB84_APTFO_9233 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A091GDR2_A0A091GDR2_9AVES_55661 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A0A0B0R9_A0A0A0B0R9_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_R7VUS6_R7VUS6_COLLI_8932 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A091IE24_A0A091IE24_CALAN_9244 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A1V4KDX9_A0A1V4KDX9_PATFA_372326 are exactly identical!
WARNING: Sequences tr_H0YZG5_H0YZG5_TAEGU_59729 and tr_A0A218UB34_A0A218UB34_9PASE_299123 are exactly identical!
WARNING: Sequences tr_H1A0M7_H1A0M7_TAEGU_59729 and tr_A0A091F3S7_A0A091F3S7_CORBR_85066 are exactly identical!
WARNING: Sequences tr_G0MY06_G0MY06_CAEBE_135651 and tr_G0PL14_G0PL14_CAEBE_135651 are exactly identical!
WARNING: Sequences tr_F7FSA8_F7FSA8_CALJA_9483 and tr_A0A096NKT8_A0A096NKT8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7FSA8_F7FSA8_CALJA_9483 and tr_A0A0D9R4Z2_A0A0D9R4Z2_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7FSA8_F7FSA8_CALJA_9483 and tr_A0A1S3F8B5_A0A1S3F8B5_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_F7FSA8_F7FSA8_CALJA_9483 and tr_A0A2K5N9E7_A0A2K5N9E7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7FSA8_F7FSA8_CALJA_9483 and tr_A0A2K6CHI7_A0A2K6CHI7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A287BPF5_A0A287BPF5_PIG_9823 and sp_P04088_INHBB_PIG_9823 are exactly identical!
WARNING: Sequences tr_K7GSJ9_K7GSJ9_PIG_9823 and sp_P15203_TGFB3_PIG_9823 are exactly identical!
WARNING: Sequences tr_F1MVS8_F1MVS8_BOVIN_9913 and sp_P42917_INHBB_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3XE00_M3XE00_FELCA_9685 and tr_A0A2Y9KJX6_A0A2Y9KJX6_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_U3KCJ3_U3KCJ3_FICAL_59894 and tr_A0A218UB14_A0A218UB14_9PASE_299123 are exactly identical!
WARNING: Sequences tr_U3KFI4_U3KFI4_FICAL_59894 and tr_A0A218VC03_A0A218VC03_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A096NQJ9_A0A096NQJ9_PAPAN_9555 and tr_A0A2K6CRN9_A0A2K6CRN9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3N1J9_A0A2I3N1J9_PAPAN_9555 and tr_A0A2K5MBL7_A0A2K5MBL7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3N1J9_A0A2I3N1J9_PAPAN_9555 and tr_A0A2K6ALE6_A0A2K6ALE6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A151P3E4_A0A151P3E4_ALLMI_8496 and tr_A0A1U7REV2_A0A1U7REV2_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A0N1IPS4_A0A0N1IPS4_PAPMA_76193 and tr_A0A194QPY5_A0A194QPY5_PAPXU_66420 are exactly identical!
WARNING: Sequences tr_A0A0N1PI39_A0A0N1PI39_PAPMA_76193 and tr_A0A0N1INF5_A0A0N1INF5_PAPXU_66420 are exactly identical!
WARNING: Sequences tr_A0A1S3PZ45_A0A1S3PZ45_SALSA_8030 and tr_A0A060WDS4_A0A060WDS4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3R5Z6_A0A1S3R5Z6_SALSA_8030 and tr_A0A060VUR7_A0A060VUR7_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3RI34_A0A1S3RI34_SALSA_8030 and tr_C0HB75_C0HB75_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1S3RTW4_A0A1S3RTW4_SALSA_8030 and tr_A0A060WDP4_A0A060WDP4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3SPV0_A0A1S3SPV0_SALSA_8030 and tr_A0A060WLM8_A0A060WLM8_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A226NHF3_A0A226NHF3_CALSU_9009 and tr_A0A226NZ02_A0A226NZ02_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2Y9NS56_A0A2Y9NS56_DELLE_9749 and tr_A0A384AB25_A0A384AB25_BALAS_310752 are exactly identical!
WARNING: Sequences tr_A0A2Y9ELC4_A0A2Y9ELC4_PHYCD_9755 and tr_A0A383ZX75_A0A383ZX75_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 193

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/P10600/3_mltree/P10600.raxml.reduced.phy

Alignment comprises 1 partitions and 181 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 181 / 181
Gaps: 7.13 %
Invariant sites: 0.55 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/3_mltree/P10600.raxml.rba

Parallelization scheme autoconfig: 4 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 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 181 / 14480
[00:00:00] Data distribution: max. searches per worker: 5

Starting ML tree search with 20 distinct starting trees

[00:00:00 -332882.075626] Initial branch length optimization
[00:00:05 -274725.302956] Model parameter optimization (eps = 10.000000)
[00:00:55 -274443.511186] AUTODETECT spr round 1 (radius: 5)
[00:03:57 -171947.813349] AUTODETECT spr round 2 (radius: 10)
[00:07:08 -120861.097564] AUTODETECT spr round 3 (radius: 15)
[00:10:26 -97166.946449] AUTODETECT spr round 4 (radius: 20)
[00:14:26 -83881.346929] AUTODETECT spr round 5 (radius: 25)
[00:19:03 -81317.355798] SPR radius for FAST iterations: 25 (autodetect)
[00:19:03 -81317.355798] Model parameter optimization (eps = 3.000000)
[00:19:38 -81163.553163] FAST spr round 1 (radius: 25)
[00:22:45 -66625.436798] FAST spr round 2 (radius: 25)
[00:25:14 -62156.225121] FAST spr round 3 (radius: 25)
[00:27:33 -60883.291593] FAST spr round 4 (radius: 25)
[00:29:43 -60783.777233] FAST spr round 5 (radius: 25)
[00:31:47 -60778.587787] FAST spr round 6 (radius: 25)
[00:33:46 -60778.587539] Model parameter optimization (eps = 1.000000)
[00:34:07 -60762.890283] SLOW spr round 1 (radius: 5)
[00:36:36 -60751.962225] SLOW spr round 2 (radius: 5)
[00:39:05 -60750.351815] SLOW spr round 3 (radius: 5)
[00:41:28 -60750.351481] SLOW spr round 4 (radius: 10)
[00:44:00 -60749.692631] SLOW spr round 5 (radius: 5)
[00:46:56 -60749.692606] SLOW spr round 6 (radius: 10)
[00:49:39 -60749.692597] SLOW spr round 7 (radius: 15)
[00:53:09 -60749.417819] SLOW spr round 8 (radius: 5)
[00:56:18 -60749.417812] SLOW spr round 9 (radius: 10)
[00:59:09 -60749.417804] SLOW spr round 10 (radius: 15)
[01:02:39 -60749.417798] SLOW spr round 11 (radius: 20)
[01:08:16 -60748.378287] SLOW spr round 12 (radius: 5)
[01:11:27 -60748.378267] SLOW spr round 13 (radius: 10)
[01:14:22 -60748.378261] SLOW spr round 14 (radius: 15)
[01:14:59] [worker #1] ML tree search #2, logLikelihood: -60757.275968
[01:17:56 -60738.583230] SLOW spr round 15 (radius: 5)
[01:21:04 -60738.583002] SLOW spr round 16 (radius: 10)
[01:23:55 -60738.582997] SLOW spr round 17 (radius: 15)
[01:27:25 -60738.582993] SLOW spr round 18 (radius: 20)
[01:33:01 -60738.582988] SLOW spr round 19 (radius: 25)
[01:33:05] [worker #3] ML tree search #4, logLikelihood: -60754.485106
[01:40:35 -60738.582984] Model parameter optimization (eps = 0.100000)

[01:40:41] [worker #0] ML tree search #1, logLikelihood: -60738.518328

[01:40:42 -331809.164552] Initial branch length optimization
[01:40:46 -271645.084654] Model parameter optimization (eps = 10.000000)
[01:41:24] [worker #2] ML tree search #3, logLikelihood: -60748.326084
[01:41:29 -271428.883445] AUTODETECT spr round 1 (radius: 5)
[01:44:29 -167557.974834] AUTODETECT spr round 2 (radius: 10)
[01:47:39 -125252.960587] AUTODETECT spr round 3 (radius: 15)
[01:51:04 -95549.859594] AUTODETECT spr round 4 (radius: 20)
[01:54:44 -81042.047235] AUTODETECT spr round 5 (radius: 25)
[01:58:34 -73731.023462] SPR radius for FAST iterations: 25 (autodetect)
[01:58:34 -73731.023462] Model parameter optimization (eps = 3.000000)
[01:59:29 -73603.720512] FAST spr round 1 (radius: 25)
[02:02:48 -61405.126054] FAST spr round 2 (radius: 25)
[02:05:21 -60873.581207] FAST spr round 3 (radius: 25)
[02:07:42 -60791.467259] FAST spr round 4 (radius: 25)
[02:09:51 -60783.606611] FAST spr round 5 (radius: 25)
[02:11:52 -60781.391886] FAST spr round 6 (radius: 25)
[02:13:52 -60781.391806] Model parameter optimization (eps = 1.000000)
[02:14:06 -60778.824407] SLOW spr round 1 (radius: 5)
[02:16:42 -60760.216240] SLOW spr round 2 (radius: 5)
[02:19:05 -60759.599441] SLOW spr round 3 (radius: 5)
[02:21:26 -60759.599349] SLOW spr round 4 (radius: 10)
[02:23:59 -60757.896635] SLOW spr round 5 (radius: 5)
[02:26:54 -60755.122607] SLOW spr round 6 (radius: 5)
[02:29:32 -60755.122534] SLOW spr round 7 (radius: 10)
[02:32:09 -60755.122460] SLOW spr round 8 (radius: 15)
[02:35:52 -60753.254703] SLOW spr round 9 (radius: 5)
[02:39:02 -60753.254554] SLOW spr round 10 (radius: 10)
[02:41:58 -60753.254476] SLOW spr round 11 (radius: 15)
[02:45:36 -60753.254396] SLOW spr round 12 (radius: 20)
[02:51:28] [worker #1] ML tree search #6, logLikelihood: -60774.442006
[02:51:38] [worker #2] ML tree search #7, logLikelihood: -60755.678528
[02:51:41 -60747.692175] SLOW spr round 13 (radius: 5)
[02:54:55 -60747.692049] SLOW spr round 14 (radius: 10)
[02:57:56 -60747.691866] SLOW spr round 15 (radius: 15)
[03:01:34 -60747.691770] SLOW spr round 16 (radius: 20)
[03:07:42 -60747.691672] SLOW spr round 17 (radius: 25)
[03:15:48 -60747.691572] Model parameter optimization (eps = 0.100000)

[03:15:56] [worker #0] ML tree search #5, logLikelihood: -60747.679583

[03:15:56 -326810.868512] Initial branch length optimization
[03:16:02 -268260.117874] Model parameter optimization (eps = 10.000000)
[03:16:40 -268090.415698] AUTODETECT spr round 1 (radius: 5)
[03:19:40 -170273.831047] AUTODETECT spr round 2 (radius: 10)
[03:22:15] [worker #3] ML tree search #8, logLikelihood: -60768.762446
[03:22:49 -121124.779330] AUTODETECT spr round 3 (radius: 15)
[03:26:14 -98112.794566] AUTODETECT spr round 4 (radius: 20)
[03:30:08 -87165.793550] AUTODETECT spr round 5 (radius: 25)
[03:34:09 -80918.027120] SPR radius for FAST iterations: 25 (autodetect)
[03:34:09 -80918.027120] Model parameter optimization (eps = 3.000000)
[03:34:39 -80756.579722] FAST spr round 1 (radius: 25)
[03:37:54 -65894.249836] FAST spr round 2 (radius: 25)
[03:40:36 -61750.845163] FAST spr round 3 (radius: 25)
[03:43:07 -60897.745408] FAST spr round 4 (radius: 25)
[03:45:20 -60874.601831] FAST spr round 5 (radius: 25)
[03:47:21 -60874.600552] Model parameter optimization (eps = 1.000000)
[03:47:43 -60838.523607] SLOW spr round 1 (radius: 5)
[03:50:10 -60804.093048] SLOW spr round 2 (radius: 5)
[03:52:39 -60802.346581] SLOW spr round 3 (radius: 5)
[03:55:06 -60802.346240] SLOW spr round 4 (radius: 10)
[03:57:46 -60800.872704] SLOW spr round 5 (radius: 5)
[04:00:50 -60798.527292] SLOW spr round 6 (radius: 5)
[04:03:33 -60797.839910] SLOW spr round 7 (radius: 5)
[04:06:05 -60797.839770] SLOW spr round 8 (radius: 10)
[04:08:41 -60797.839718] SLOW spr round 9 (radius: 15)
[04:12:30 -60792.893723] SLOW spr round 10 (radius: 5)
[04:15:40 -60792.893651] SLOW spr round 11 (radius: 10)
[04:17:54] [worker #2] ML tree search #11, logLikelihood: -60769.918038
[04:18:38 -60788.937526] SLOW spr round 12 (radius: 5)
[04:21:37 -60783.506672] SLOW spr round 13 (radius: 5)
[04:24:18 -60780.399211] SLOW spr round 14 (radius: 5)
[04:26:49 -60780.399192] SLOW spr round 15 (radius: 10)
[04:28:41] [worker #3] ML tree search #12, logLikelihood: -60752.630440
[04:29:24 -60779.482590] SLOW spr round 16 (radius: 5)
[04:31:35] [worker #1] ML tree search #10, logLikelihood: -60755.281580
[04:32:22 -60779.352180] SLOW spr round 17 (radius: 5)
[04:35:01 -60779.352172] SLOW spr round 18 (radius: 10)
[04:37:39 -60779.352167] SLOW spr round 19 (radius: 15)
[04:41:23 -60779.352163] SLOW spr round 20 (radius: 20)
[04:47:16 -60779.352161] SLOW spr round 21 (radius: 25)
[04:55:20 -60779.352159] Model parameter optimization (eps = 0.100000)

[04:55:31] [worker #0] ML tree search #9, logLikelihood: -60779.115402

[04:55:31 -334605.936659] Initial branch length optimization
[04:55:39 -276170.257270] Model parameter optimization (eps = 10.000000)
[04:56:20 -275821.604572] AUTODETECT spr round 1 (radius: 5)
[04:59:23 -168931.009340] AUTODETECT spr round 2 (radius: 10)
[05:02:29 -117411.201808] AUTODETECT spr round 3 (radius: 15)
[05:05:56 -95187.348715] AUTODETECT spr round 4 (radius: 20)
[05:10:11 -79870.653509] AUTODETECT spr round 5 (radius: 25)
[05:15:28 -72424.535265] SPR radius for FAST iterations: 25 (autodetect)
[05:15:28 -72424.535265] Model parameter optimization (eps = 3.000000)
[05:16:06 -72256.135758] FAST spr round 1 (radius: 25)
[05:19:14 -61410.129307] FAST spr round 2 (radius: 25)
[05:21:41 -60878.847802] FAST spr round 3 (radius: 25)
[05:23:57 -60817.016299] FAST spr round 4 (radius: 25)
[05:26:03 -60802.503384] FAST spr round 5 (radius: 25)
[05:28:01 -60799.668351] FAST spr round 6 (radius: 25)
[05:29:57 -60799.315910] FAST spr round 7 (radius: 25)
[05:31:52 -60799.315266] Model parameter optimization (eps = 1.000000)
[05:32:10 -60776.037354] SLOW spr round 1 (radius: 5)
[05:34:36 -60751.212580] SLOW spr round 2 (radius: 5)
[05:37:04 -60748.058048] SLOW spr round 3 (radius: 5)
[05:39:31 -60747.140122] SLOW spr round 4 (radius: 5)
[05:41:57 -60747.139847] SLOW spr round 5 (radius: 10)
[05:44:35 -60744.684288] SLOW spr round 6 (radius: 5)
[05:47:33 -60744.684113] SLOW spr round 7 (radius: 10)
[05:50:21 -60744.684023] SLOW spr round 8 (radius: 15)
[05:51:19] [worker #3] ML tree search #16, logLikelihood: -60748.127366
[05:53:59 -60743.455237] SLOW spr round 9 (radius: 5)
[05:57:08 -60743.455129] SLOW spr round 10 (radius: 10)
[05:59:32] [worker #2] ML tree search #15, logLikelihood: -60748.844274
[06:00:05 -60743.455098] SLOW spr round 11 (radius: 15)
[06:03:42 -60743.455067] SLOW spr round 12 (radius: 20)
[06:06:20] [worker #1] ML tree search #14, logLikelihood: -60750.135091
[06:09:32 -60743.180248] SLOW spr round 13 (radius: 5)
[06:12:45 -60743.180215] SLOW spr round 14 (radius: 10)
[06:15:45 -60743.180182] SLOW spr round 15 (radius: 15)
[06:19:21 -60743.180151] SLOW spr round 16 (radius: 20)
[06:25:10 -60743.180120] SLOW spr round 17 (radius: 25)
[06:32:54 -60743.180088] Model parameter optimization (eps = 0.100000)

[06:33:07] [worker #0] ML tree search #13, logLikelihood: -60742.935323

[06:33:07 -327158.674647] Initial branch length optimization
[06:33:11 -269170.172965] Model parameter optimization (eps = 10.000000)
[06:34:07 -268959.107723] AUTODETECT spr round 1 (radius: 5)
[06:37:06 -164281.791760] AUTODETECT spr round 2 (radius: 10)
[06:40:11 -122326.756908] AUTODETECT spr round 3 (radius: 15)
[06:43:30 -102089.342347] AUTODETECT spr round 4 (radius: 20)
[06:47:18 -88430.709973] AUTODETECT spr round 5 (radius: 25)
[06:51:19 -79378.428152] SPR radius for FAST iterations: 25 (autodetect)
[06:51:19 -79378.428152] Model parameter optimization (eps = 3.000000)
[06:52:03 -79234.777980] FAST spr round 1 (radius: 25)
[06:55:25 -64687.649399] FAST spr round 2 (radius: 25)
[06:58:08 -62559.865282] FAST spr round 3 (radius: 25)
[07:00:28 -61793.203430] FAST spr round 4 (radius: 25)
[07:02:38 -61076.079822] FAST spr round 5 (radius: 25)
[07:04:51 -60902.301386] FAST spr round 6 (radius: 25)
[07:06:53 -60840.282738] FAST spr round 7 (radius: 25)
[07:08:50 -60840.281570] Model parameter optimization (eps = 1.000000)
[07:09:11 -60827.087558] SLOW spr round 1 (radius: 5)
[07:11:40 -60816.051097] SLOW spr round 2 (radius: 5)
[07:14:09 -60810.318646] SLOW spr round 3 (radius: 5)
[07:16:36 -60783.424594] SLOW spr round 4 (radius: 5)
[07:19:00 -60779.013311] SLOW spr round 5 (radius: 5)
[07:21:22 -60778.993102] SLOW spr round 6 (radius: 10)
[07:23:56 -60775.195704] SLOW spr round 7 (radius: 5)
[07:25:09] [worker #3] ML tree search #20, logLikelihood: -60771.615002
[07:26:54 -60774.127198] SLOW spr round 8 (radius: 5)
[07:29:33 -60771.520629] SLOW spr round 9 (radius: 5)
[07:32:01 -60771.520550] SLOW spr round 10 (radius: 10)
[07:34:36 -60764.990839] SLOW spr round 11 (radius: 5)
[07:37:31 -60752.017105] SLOW spr round 12 (radius: 5)
[07:40:08 -60751.291553] SLOW spr round 13 (radius: 5)
[07:42:36 -60751.291551] SLOW spr round 14 (radius: 10)
[07:45:09 -60751.291549] SLOW spr round 15 (radius: 15)
[07:48:44 -60751.016731] SLOW spr round 16 (radius: 5)
[07:51:51 -60751.016729] SLOW spr round 17 (radius: 10)
[07:54:46 -60751.016728] SLOW spr round 18 (radius: 15)
[07:58:14 -60751.016726] SLOW spr round 19 (radius: 20)
[08:02:45] [worker #2] ML tree search #19, logLikelihood: -60751.612052
[08:04:14 -60751.016725] SLOW spr round 20 (radius: 25)
[08:07:36] [worker #1] ML tree search #18, logLikelihood: -60747.430778
[08:12:02 -60751.016723] Model parameter optimization (eps = 0.100000)

[08:12:09] [worker #0] ML tree search #17, logLikelihood: -60750.982191


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.168592,0.308001) (0.142750,0.823662) (0.291211,0.569000) (0.397447,1.672666) 
   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: -60738.518328

AIC score: 125487.036656 / AICc score: 8169547.036656 / BIC score: 131900.023204
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=181).
         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/P10600/3_mltree/P10600.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/3_mltree/P10600.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/3_mltree/P10600.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10600/3_mltree/P10600.raxml.log

Analysis started: 02-Jul-2021 03:10:34 / finished: 02-Jul-2021 11:22:43

Elapsed time: 29529.429 seconds