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 17-Jun-2021 23:49:19 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/2_msa/Q13751_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/3_mltree/Q13751 --seed 2 --threads 5 --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 (5 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/2_msa/Q13751_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 300 sites

WARNING: Sequences tr_B4Q5U0_B4Q5U0_DROSI_7240 and sp_P11046_LAMB1_DROME_7227 are exactly identical!
WARNING: Sequences tr_B4Q5U0_B4Q5U0_DROSI_7240 and tr_B4HYA9_B4HYA9_DROSE_7238 are exactly identical!
WARNING: Sequences tr_G1S8P7_G1S8P7_NOMLE_61853 and tr_A0A2I3M8F1_A0A2I3M8F1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1S8P7_G1S8P7_NOMLE_61853 and tr_A0A0D9RJJ4_A0A0D9RJJ4_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1S8P7_G1S8P7_NOMLE_61853 and tr_A0A2K6DXW8_A0A2K6DXW8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1S8P7_G1S8P7_NOMLE_61853 and tr_A0A2R9AWQ5_A0A2R9AWQ5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3HG25_G3HG25_CRIGR_10029 and tr_A0A1U7QD11_A0A1U7QD11_MESAU_10036 are exactly identical!
WARNING: Sequences tr_G3QZL1_G3QZL1_GORGO_9595 and sp_O15230_LAMA5_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QZL1_G3QZL1_GORGO_9595 and tr_A0A2R9AKK2_A0A2R9AKK2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3S795_G3S795_GORGO_9595 and sp_P11047_LAMC1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3RXG5_A0A2I3RXG5_PANTR_9598 and sp_P07942_LAMB1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3RXG5_A0A2I3RXG5_PANTR_9598 and tr_A0A2R9A2B3_A0A2R9A2B3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3TJK6_A0A2I3TJK6_PANTR_9598 and tr_A0A2R9B1X0_A0A2R9B1X0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2J8QVK7_A0A2J8QVK7_PANTR_9598 and tr_A0A2R9A5F9_A0A2R9A5F9_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2RCS4_H2RCS4_PANTR_9598 and tr_A0A2R9ADZ3_A0A2R9ADZ3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_W5PBD8_W5PBD8_SHEEP_9940 and tr_F1MNT4_F1MNT4_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A088A9Y9_A0A088A9Y9_APIME_7460 and tr_A0A2A3ET32_A0A2A3ET32_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158NT06_A0A158NT06_ATTCE_12957 and tr_A0A195FDY4_A0A195FDY4_9HYME_34720 are exactly identical!
WARNING: Sequences tr_A0A0K0JLX7_A0A0K0JLX7_BRUMA_6279 and tr_A0A0N4T2D0_A0A0N4T2D0_BRUPA_6280 are exactly identical!
WARNING: Sequences tr_A0A1D5Q585_A0A1D5Q585_MACMU_9544 and tr_G7P2G3_G7P2G3_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5Q585_A0A1D5Q585_MACMU_9544 and tr_A0A2K6AFE3_A0A2K6AFE3_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A1D5QHV8_A0A1D5QHV8_MACMU_9544 and tr_G7NUP0_G7NUP0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5QHV8_A0A1D5QHV8_MACMU_9544 and tr_A0A2K6ANE1_A0A2K6ANE1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7A403_F7A403_MACMU_9544 and tr_G7PJ32_G7PJ32_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7A403_F7A403_MACMU_9544 and tr_A0A096MYW4_A0A096MYW4_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7A403_F7A403_MACMU_9544 and tr_A0A2K5KKZ0_A0A2K5KKZ0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7A403_F7A403_MACMU_9544 and tr_A0A2K6A6W8_A0A2K6A6W8_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7FRC4_F7FRC4_MACMU_9544 and tr_A0A2I3M9I8_A0A2I3M9I8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7FRC4_F7FRC4_MACMU_9544 and tr_A0A0D9RSS7_A0A0D9RSS7_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7FRC4_F7FRC4_MACMU_9544 and tr_A0A2K5LE02_A0A2K5LE02_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7GZQ3_F7GZQ3_MACMU_9544 and tr_A0A096MUU2_A0A096MUU2_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7GZQ3_F7GZQ3_MACMU_9544 and tr_A0A2K5P838_A0A2K5P838_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7GZQ3_F7GZQ3_MACMU_9544 and tr_A0A2K5ZDG6_A0A2K5ZDG6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V0SE83_A0A0V0SE83_9BILA_6336 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V1CYN1_A0A0V1CYN1_TRIBR_45882 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V0WKP4_A0A0V0WKP4_9BILA_92179 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V0UYQ3_A0A0V0UYQ3_9BILA_181606 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V1LP80_A0A0V1LP80_9BILA_6335 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V0ZPX6_A0A0V0ZPX6_9BILA_990121 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V1PM10_A0A0V1PM10_9BILA_92180 are exactly identical!
WARNING: Sequences tr_E5S139_E5S139_TRISP_6334 and tr_A0A0V0TNM5_A0A0V0TNM5_9BILA_144512 are exactly identical!
WARNING: Sequences tr_G0P2Q3_G0P2Q3_CAEBE_135651 and tr_G0PBS3_G0PBS3_CAEBE_135651 are exactly identical!
WARNING: Sequences tr_G0PCZ7_G0PCZ7_CAEBE_135651 and tr_G0PDC0_G0PDC0_CAEBE_135651 are exactly identical!
WARNING: Sequences tr_E3M5E7_E3M5E7_CAERE_31234 and tr_A0A261BM94_A0A261BM94_9PELO_1503980 are exactly identical!
WARNING: Sequences tr_E3MR61_E3MR61_CAERE_31234 and tr_E3NQJ8_E3NQJ8_CAERE_31234 are exactly identical!
WARNING: Sequences tr_A8WXI2_A8WXI2_CAEBR_6238 and tr_A0A2G5U8C8_A0A2G5U8C8_9PELO_1611254 are exactly identical!
WARNING: Sequences tr_T1KYQ2_T1KYQ2_TETUR_32264 and tr_T1KYQ3_T1KYQ3_TETUR_32264 are exactly identical!
WARNING: Sequences tr_A0A096N141_A0A096N141_PAPAN_9555 and tr_A0A2K5N958_A0A2K5N958_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096N141_A0A096N141_PAPAN_9555 and tr_A0A2K5ZM98_A0A2K5ZM98_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A096NNC4_A0A096NNC4_PAPAN_9555 and tr_A0A2K5KT69_A0A2K5KT69_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096NNC4_A0A096NNC4_PAPAN_9555 and tr_A0A2K6DFD6_A0A2K6DFD6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A096NNC4_A0A096NNC4_PAPAN_9555 and tr_A0A2K5Z9N4_A0A2K5Z9N4_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A0K0F3X2_A0A0K0F3X2_STRVS_75913 and tr_A0A0N5BJ49_A0A0N5BJ49_STREA_174720 are exactly identical!
WARNING: Sequences tr_A0A151NP60_A0A151NP60_ALLMI_8496 and tr_A0A1U7SZ56_A0A1U7SZ56_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A0V0RRN7_A0A0V0RRN7_9BILA_6336 and tr_A0A0V0U9F9_A0A0V0U9F9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V1MAE5_A0A0V1MAE5_9BILA_268474 and tr_A0A0V1HVM4_A0A0V1HVM4_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A0V1MTI9_A0A0V1MTI9_9BILA_268474 and tr_A0A0V1I0D6_A0A0V1I0D6_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A1S3DQ75_A0A1S3DQ75_DIACI_121845 and tr_A0A1S4ECV9_A0A1S4ECV9_DIACI_121845 are exactly identical!
WARNING: Sequences tr_A0A1S3JEB7_A0A1S3JEB7_LINUN_7574 and tr_A0A1S3JFU6_A0A1S3JFU6_LINUN_7574 are exactly identical!
WARNING: Sequences tr_A0A2I4CHI1_A0A2I4CHI1_9TELE_52670 and tr_A0A2I4D1E2_A0A2I4D1E2_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A2D0PHN8_A0A2D0PHN8_ICTPU_7998 and tr_A0A2D0PIZ3_A0A2D0PIZ3_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0PHN8_A0A2D0PHN8_ICTPU_7998 and tr_A0A2D0PJ17_A0A2D0PJ17_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0PHN8_A0A2D0PHN8_ICTPU_7998 and tr_A0A2D0PKH8_A0A2D0PKH8_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0PHN8_A0A2D0PHN8_ICTPU_7998 and tr_A0A2D0PLH4_A0A2D0PLH4_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2K6BIH2_A0A2K6BIH2_MACNE_9545 and tr_A0A2K6AGK0_A0A2K6AGK0_MANLE_9568 are exactly identical!
WARNING: Duplicate sequences found: 65

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/Q13751/3_mltree/Q13751.raxml.reduced.phy

Alignment comprises 1 partitions and 300 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 300 / 300
Gaps: 2.07 %
Invariant sites: 1.33 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/3_mltree/Q13751.raxml.rba

Parallelization scheme autoconfig: 5 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 / 300 / 24000
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -511449.867433] Initial branch length optimization
[00:00:08 -430942.683766] Model parameter optimization (eps = 10.000000)
[00:01:17 -430730.872439] AUTODETECT spr round 1 (radius: 5)
[00:05:34 -281433.067265] AUTODETECT spr round 2 (radius: 10)
[00:10:38 -193277.051486] AUTODETECT spr round 3 (radius: 15)
[00:15:39 -160927.098496] AUTODETECT spr round 4 (radius: 20)
[00:21:25 -135856.973933] AUTODETECT spr round 5 (radius: 25)
[00:28:12 -132446.436407] SPR radius for FAST iterations: 25 (autodetect)
[00:28:12 -132446.436407] Model parameter optimization (eps = 3.000000)
[00:28:46 -132339.108300] FAST spr round 1 (radius: 25)
[00:33:01 -113383.047097] FAST spr round 2 (radius: 25)
[00:36:16 -112097.419950] FAST spr round 3 (radius: 25)
[00:39:03 -112040.136543] FAST spr round 4 (radius: 25)
[00:41:43 -112030.040756] FAST spr round 5 (radius: 25)
[00:44:16 -112024.094072] FAST spr round 6 (radius: 25)
[00:46:40 -112024.093692] Model parameter optimization (eps = 1.000000)
[00:46:49 -112023.208533] SLOW spr round 1 (radius: 5)
[00:50:22 -111964.021570] SLOW spr round 2 (radius: 5)
[00:53:55 -111955.307012] SLOW spr round 3 (radius: 5)
[00:57:12 -111955.306558] SLOW spr round 4 (radius: 10)
[01:00:23 -111951.444145] SLOW spr round 5 (radius: 5)
[01:04:38 -111951.442850] SLOW spr round 6 (radius: 10)
[01:08:17 -111946.324186] SLOW spr round 7 (radius: 5)
[01:12:22 -111946.151466] SLOW spr round 8 (radius: 5)
[01:15:59 -111946.148294] SLOW spr round 9 (radius: 10)
[01:19:15 -111946.146220] SLOW spr round 10 (radius: 15)
[01:24:16 -111946.144861] SLOW spr round 11 (radius: 20)
[01:31:51 -111946.143971] SLOW spr round 12 (radius: 25)
[01:42:30 -111946.143389] Model parameter optimization (eps = 0.100000)

[01:42:48] [worker #0] ML tree search #1, logLikelihood: -111945.775987

[01:42:48 -515492.658113] Initial branch length optimization
[01:42:58 -435494.490100] Model parameter optimization (eps = 10.000000)
[01:44:11 -435290.030996] AUTODETECT spr round 1 (radius: 5)
[01:44:27] [worker #2] ML tree search #3, logLikelihood: -112008.216243
[01:47:06] [worker #1] ML tree search #2, logLikelihood: -111975.024994
[01:48:27 -271942.880810] AUTODETECT spr round 2 (radius: 10)
[01:52:52] [worker #3] ML tree search #4, logLikelihood: -111951.446833
[01:53:08 -192277.851361] AUTODETECT spr round 3 (radius: 15)
[01:55:58] [worker #4] ML tree search #5, logLikelihood: -111948.462642
[01:58:20 -156733.391100] AUTODETECT spr round 4 (radius: 20)
[02:03:56 -133836.966462] AUTODETECT spr round 5 (radius: 25)
[02:10:50 -129823.553158] SPR radius for FAST iterations: 25 (autodetect)
[02:10:50 -129823.553158] Model parameter optimization (eps = 3.000000)
[02:11:24 -129704.348725] FAST spr round 1 (radius: 25)
[02:15:43 -112920.432835] FAST spr round 2 (radius: 25)
[02:18:53 -112083.393646] FAST spr round 3 (radius: 25)
[02:21:42 -112034.886912] FAST spr round 4 (radius: 25)
[02:24:18 -112025.793086] FAST spr round 5 (radius: 25)
[02:26:46 -112021.613010] FAST spr round 6 (radius: 25)
[02:29:11 -112021.612636] Model parameter optimization (eps = 1.000000)
[02:29:27 -112020.151346] SLOW spr round 1 (radius: 5)
[02:32:59 -111984.779637] SLOW spr round 2 (radius: 5)
[02:36:28 -111969.379752] SLOW spr round 3 (radius: 5)
[02:39:53 -111964.335544] SLOW spr round 4 (radius: 5)
[02:43:09 -111964.334966] SLOW spr round 5 (radius: 10)
[02:46:20 -111961.955857] SLOW spr round 6 (radius: 5)
[02:50:36 -111961.944426] SLOW spr round 7 (radius: 10)
[02:54:15 -111956.685895] SLOW spr round 8 (radius: 5)
[02:58:22 -111956.653230] SLOW spr round 9 (radius: 10)
[03:01:52 -111956.650685] SLOW spr round 10 (radius: 15)
[03:06:39 -111956.649019] SLOW spr round 11 (radius: 20)
[03:14:25 -111956.647928] SLOW spr round 12 (radius: 25)
[03:21:44] [worker #1] ML tree search #7, logLikelihood: -111930.240017
[03:25:04 -111956.647215] Model parameter optimization (eps = 0.100000)

[03:25:17] [worker #0] ML tree search #6, logLikelihood: -111956.296905

[03:25:17 -513938.854393] Initial branch length optimization
[03:25:28 -433846.848857] Model parameter optimization (eps = 10.000000)
[03:26:09] [worker #4] ML tree search #10, logLikelihood: -111953.064984
[03:26:25 -433630.022133] AUTODETECT spr round 1 (radius: 5)
[03:30:41 -278503.934961] AUTODETECT spr round 2 (radius: 10)
[03:35:22 -196849.434715] AUTODETECT spr round 3 (radius: 15)
[03:39:38] [worker #2] ML tree search #8, logLikelihood: -111943.459031
[03:40:14] [worker #3] ML tree search #9, logLikelihood: -111954.785187
[03:40:48 -150263.578236] AUTODETECT spr round 4 (radius: 20)
[03:47:05 -133216.025079] AUTODETECT spr round 5 (radius: 25)
[03:54:28 -130752.050494] SPR radius for FAST iterations: 25 (autodetect)
[03:54:28 -130752.050494] Model parameter optimization (eps = 3.000000)
[03:54:58 -130599.910702] FAST spr round 1 (radius: 25)
[03:59:12 -112927.665310] FAST spr round 2 (radius: 25)
[04:02:26 -112069.385811] FAST spr round 3 (radius: 25)
[04:05:17 -112011.606910] FAST spr round 4 (radius: 25)
[04:07:50 -112009.927800] FAST spr round 5 (radius: 25)
[04:10:14 -112009.927250] Model parameter optimization (eps = 1.000000)
[04:10:29 -112008.364770] SLOW spr round 1 (radius: 5)
[04:14:03 -111966.538777] SLOW spr round 2 (radius: 5)
[04:17:28 -111961.552038] SLOW spr round 3 (radius: 5)
[04:20:51 -111959.887345] SLOW spr round 4 (radius: 5)
[04:24:04 -111959.886912] SLOW spr round 5 (radius: 10)
[04:27:18 -111956.812712] SLOW spr round 6 (radius: 5)
[04:31:34 -111953.481244] SLOW spr round 7 (radius: 5)
[04:35:17 -111951.732555] SLOW spr round 8 (radius: 5)
[04:38:45 -111948.939271] SLOW spr round 9 (radius: 5)
[04:42:02 -111948.938879] SLOW spr round 10 (radius: 10)
[04:45:16 -111948.938502] SLOW spr round 11 (radius: 15)
[04:50:41 -111948.938123] SLOW spr round 12 (radius: 20)
[04:51:34] [worker #1] ML tree search #12, logLikelihood: -111947.612093
[04:58:40 -111948.937741] SLOW spr round 13 (radius: 25)
[05:09:20 -111948.937357] Model parameter optimization (eps = 0.100000)

[05:09:32] [worker #0] ML tree search #11, logLikelihood: -111948.636318

[05:09:32 -512923.118678] Initial branch length optimization
[05:09:40 -432178.655403] Model parameter optimization (eps = 10.000000)
[05:10:35 -432002.530036] AUTODETECT spr round 1 (radius: 5)
[05:14:58 -276987.660481] AUTODETECT spr round 2 (radius: 10)
[05:19:47 -187270.871987] AUTODETECT spr round 3 (radius: 15)
[05:23:33] [worker #3] ML tree search #14, logLikelihood: -112401.859355
[05:25:11 -148585.777862] AUTODETECT spr round 4 (radius: 20)
[05:26:23] [worker #2] ML tree search #13, logLikelihood: -112015.233090
[05:30:55 -132653.763593] AUTODETECT spr round 5 (radius: 25)
[05:31:06] [worker #4] ML tree search #15, logLikelihood: -111955.435825
[05:37:43 -131027.926709] SPR radius for FAST iterations: 25 (autodetect)
[05:37:43 -131027.926709] Model parameter optimization (eps = 3.000000)
[05:38:13 -130907.484486] FAST spr round 1 (radius: 25)
[05:42:11 -113403.881774] FAST spr round 2 (radius: 25)
[05:45:16 -112188.917384] FAST spr round 3 (radius: 25)
[05:48:04 -112063.209211] FAST spr round 4 (radius: 25)
[05:50:34 -112058.661761] FAST spr round 5 (radius: 25)
[05:52:58 -112058.661269] Model parameter optimization (eps = 1.000000)
[05:53:17 -112055.988411] SLOW spr round 1 (radius: 5)
[05:56:49 -111997.032378] SLOW spr round 2 (radius: 5)
[06:00:15 -111990.029449] SLOW spr round 3 (radius: 5)
[06:03:30 -111989.968913] SLOW spr round 4 (radius: 10)
[06:06:41 -111989.968476] SLOW spr round 5 (radius: 15)
[06:11:59 -111989.968072] SLOW spr round 6 (radius: 20)
[06:15:41] [worker #1] ML tree search #17, logLikelihood: -111957.305124
[06:19:44 -111989.967674] SLOW spr round 7 (radius: 25)
[06:30:27 -111989.967278] Model parameter optimization (eps = 0.100000)

[06:30:44] [worker #0] ML tree search #16, logLikelihood: -111989.393325

[07:04:55] [worker #2] ML tree search #18, logLikelihood: -111959.249251
[07:05:09] [worker #4] ML tree search #20, logLikelihood: -111937.592646
[07:22:46] [worker #3] ML tree search #19, logLikelihood: -111931.535569

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.210490,0.220051) (0.152819,0.462235) (0.355958,0.840198) (0.280733,2.080156) 
   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: -111930.240017

AIC score: 227870.480033 / AICc score: 8271930.480033 / BIC score: 235296.563895
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=300).
         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/Q13751/3_mltree/Q13751.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/3_mltree/Q13751.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/3_mltree/Q13751.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q13751/3_mltree/Q13751.raxml.log

Analysis started: 17-Jun-2021 23:49:19 / finished: 18-Jun-2021 07:12:06

Elapsed time: 26566.993 seconds