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 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 01-Jul-2021 14:12:25 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/2_msa/Q8IZF7_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7 --seed 2 --threads 3 --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 (3 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/2_msa/Q8IZF7_trimmed_msa.fasta
[00:00:00] Loaded alignment with 434 taxa and 158 sites

WARNING: Sequences tr_M3YLW6_M3YLW6_MUSPF_9669 and tr_F1PUX7_F1PUX7_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3YLW6_M3YLW6_MUSPF_9669 and tr_A0A2U3X856_A0A2U3X856_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3YLW6_M3YLW6_MUSPF_9669 and tr_A0A384C6N1_A0A384C6N1_URSMA_29073 are exactly identical!
WARNING: Sequences tr_A0A2I3G5C3_A0A2I3G5C3_NOMLE_61853 and tr_H2PJ99_H2PJ99_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_G3QYW9_G3QYW9_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_H2PJ94_H2PJ94_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A2I3SJB2_A0A2I3SJB2_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and sp_Q8IZF2_AGRF5_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A2I3NHV8_A0A2I3NHV8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A0D9RJK3_A0A0D9RJK3_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A2K5MKC0_A0A2K5MKC0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A2K5XIE3_A0A2K5XIE3_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G1QWL6_G1QWL6_NOMLE_61853 and tr_A0A2R9B554_A0A2R9B554_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1NYU9_G1NYU9_MYOLU_59463 and tr_G1QA05_G1QA05_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_A0A2I2YZY1_A0A2I2YZY1_GORGO_9595 and tr_H2NJ55_H2NJ55_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3SEQ2_G3SEQ2_GORGO_9595 and tr_A0A2I3TLH8_A0A2I3TLH8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3SEQ2_G3SEQ2_GORGO_9595 and tr_A0A2R8ZWS3_A0A2R8ZWS3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2QT50_H2QT50_PANTR_9598 and tr_A0A2R9CG17_A0A2R9CG17_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A1D5R634_A0A1D5R634_MACMU_9544 and tr_G7P4S6_G7P4S6_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5R634_A0A1D5R634_MACMU_9544 and tr_A0A2I3LXI5_A0A2I3LXI5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5R634_A0A1D5R634_MACMU_9544 and tr_A0A0D9RJL6_A0A0D9RJL6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1D5R634_A0A1D5R634_MACMU_9544 and tr_A0A2K6BDM9_A0A2K6BDM9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5RE47_A0A1D5RE47_MACMU_9544 and tr_A0A2K5L5H2_A0A2K5L5H2_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5RE47_A0A1D5RE47_MACMU_9544 and tr_A0A2K5ZJ70_A0A2K5ZJ70_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F6TIA3_F6TIA3_MACMU_9544 and tr_G7P4S5_G7P4S5_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6TIA3_F6TIA3_MACMU_9544 and tr_A0A2K6E9L2_A0A2K6E9L2_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7DYB7_F7DYB7_MACMU_9544 and tr_A0A2K6DNP1_A0A2K6DNP1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6UZV4_F6UZV4_XENTR_8364 and tr_K9J828_K9J828_XENTR_8364 are exactly identical!
WARNING: Sequences tr_G1L3V6_G1L3V6_AILME_9646 and tr_A0A384C712_A0A384C712_URSMA_29073 are exactly identical!
WARNING: Sequences tr_B3RLP0_B3RLP0_TRIAD_10228 and tr_A0A369S527_A0A369S527_9METZ_287889 are exactly identical!
WARNING: Sequences tr_A0A096NIY0_A0A096NIY0_PAPAN_9555 and tr_A0A2K5KKJ8_A0A2K5KKJ8_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096NIY0_A0A096NIY0_PAPAN_9555 and tr_A0A2K6AER0_A0A2K6AER0_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A2I3LW54_A0A2I3LW54_PAPAN_9555 and tr_A0A0D9S5K5_A0A0D9S5K5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I3LW54_A0A2I3LW54_PAPAN_9555 and tr_A0A2K5L215_A0A2K5L215_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A093I3I9_A0A093I3I9_STRCA_441894 and tr_A0A0A0AAU5_A0A0A0AAU5_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091GS12_A0A091GS12_9AVES_55661 and tr_A0A091IKE2_A0A091IKE2_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A2I0MU76_A0A2I0MU76_COLLI_8932 and tr_A0A1V4JN85_A0A1V4JN85_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A226MCF7_A0A226MCF7_CALSU_9009 and tr_A0A226MCG4_A0A226MCG4_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A226MCF7_A0A226MCF7_CALSU_9009 and tr_A0A226MCW6_A0A226MCW6_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A226MCF7_A0A226MCF7_CALSU_9009 and tr_A0A226MEK8_A0A226MEK8_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A226MCF7_A0A226MCF7_CALSU_9009 and tr_A0A226PV67_A0A226PV67_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2D0SQF4_A0A2D0SQF4_ICTPU_7998 and tr_A0A2D0SQF8_A0A2D0SQF8_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 42

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.reduced.phy

Alignment comprises 1 partitions and 158 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 158 / 158
Gaps: 1.95 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.rba

Parallelization scheme autoconfig: 3 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 434 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 158 / 12640
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -116796.576291] Initial branch length optimization
[00:00:01 -94421.801968] Model parameter optimization (eps = 10.000000)
[00:00:20 -94135.609045] AUTODETECT spr round 1 (radius: 5)
[00:00:53 -63767.671057] AUTODETECT spr round 2 (radius: 10)
[00:01:29 -51419.999979] AUTODETECT spr round 3 (radius: 15)
[00:02:15 -43712.396099] AUTODETECT spr round 4 (radius: 20)
[00:03:12 -40735.713675] AUTODETECT spr round 5 (radius: 25)
[00:04:03 -40702.791657] SPR radius for FAST iterations: 25 (autodetect)
[00:04:03 -40702.791657] Model parameter optimization (eps = 3.000000)
[00:04:16 -40630.497570] FAST spr round 1 (radius: 25)
[00:04:56 -34305.746679] FAST spr round 2 (radius: 25)
[00:05:26 -33953.718532] FAST spr round 3 (radius: 25)
[00:05:52 -33940.605902] FAST spr round 4 (radius: 25)
[00:06:15 -33938.674348] FAST spr round 5 (radius: 25)
[00:06:37 -33938.674105] Model parameter optimization (eps = 1.000000)
[00:06:42 -33936.402657] SLOW spr round 1 (radius: 5)
[00:07:20 -33923.708138] SLOW spr round 2 (radius: 5)
[00:07:56 -33922.700124] SLOW spr round 3 (radius: 5)
[00:08:31 -33922.700102] SLOW spr round 4 (radius: 10)
[00:09:06 -33920.742070] SLOW spr round 5 (radius: 5)
[00:09:55 -33920.742027] SLOW spr round 6 (radius: 10)
[00:10:34 -33920.742027] SLOW spr round 7 (radius: 15)
[00:11:30 -33920.742027] SLOW spr round 8 (radius: 20)
[00:12:59 -33920.742027] SLOW spr round 9 (radius: 25)
[00:14:38 -33920.742027] Model parameter optimization (eps = 0.100000)

[00:14:41] [worker #0] ML tree search #1, logLikelihood: -33920.656177

[00:14:41 -117439.269274] Initial branch length optimization
[00:14:43 -94680.460669] Model parameter optimization (eps = 10.000000)
[00:14:57 -94469.734548] AUTODETECT spr round 1 (radius: 5)
[00:15:29 -63469.043531] AUTODETECT spr round 2 (radius: 10)
[00:15:44] [worker #2] ML tree search #3, logLikelihood: -33909.469863
[00:16:07 -49016.345554] AUTODETECT spr round 3 (radius: 15)
[00:16:13] [worker #1] ML tree search #2, logLikelihood: -33912.337703
[00:16:54 -41462.521659] AUTODETECT spr round 4 (radius: 20)
[00:17:51 -38446.060814] AUTODETECT spr round 5 (radius: 25)
[00:18:46 -38248.965843] SPR radius for FAST iterations: 25 (autodetect)
[00:18:46 -38248.965843] Model parameter optimization (eps = 3.000000)
[00:18:59 -38210.765724] FAST spr round 1 (radius: 25)
[00:19:33 -34093.486334] FAST spr round 2 (radius: 25)
[00:20:00 -33962.873584] FAST spr round 3 (radius: 25)
[00:20:26 -33939.442679] FAST spr round 4 (radius: 25)
[00:20:49 -33937.272366] FAST spr round 5 (radius: 25)
[00:21:11 -33937.272356] Model parameter optimization (eps = 1.000000)
[00:21:20 -33929.294146] SLOW spr round 1 (radius: 5)
[00:21:59 -33913.071879] SLOW spr round 2 (radius: 5)
[00:22:35 -33912.871846] SLOW spr round 3 (radius: 5)
[00:23:10 -33912.871680] SLOW spr round 4 (radius: 10)
[00:23:45 -33909.502575] SLOW spr round 5 (radius: 5)
[00:24:36 -33909.113963] SLOW spr round 6 (radius: 5)
[00:25:17 -33909.113960] SLOW spr round 7 (radius: 10)
[00:25:53 -33909.113959] SLOW spr round 8 (radius: 15)
[00:26:52 -33909.113959] SLOW spr round 9 (radius: 20)
[00:28:18 -33909.113959] SLOW spr round 10 (radius: 25)
[00:29:59 -33909.113959] Model parameter optimization (eps = 0.100000)

[00:30:05] [worker #0] ML tree search #4, logLikelihood: -33908.758743

[00:30:05 -117091.285163] Initial branch length optimization
[00:30:07 -94410.400815] Model parameter optimization (eps = 10.000000)
[00:30:26 -94128.219109] AUTODETECT spr round 1 (radius: 5)
[00:30:58 -64539.712540] AUTODETECT spr round 2 (radius: 10)
[00:31:25] [worker #1] ML tree search #5, logLikelihood: -33922.309433
[00:31:33 -50331.949985] AUTODETECT spr round 3 (radius: 15)
[00:32:05] [worker #2] ML tree search #6, logLikelihood: -33904.175059
[00:32:15 -46499.911085] AUTODETECT spr round 4 (radius: 20)
[00:33:10 -41535.928072] AUTODETECT spr round 5 (radius: 25)
[00:34:03 -41315.568963] SPR radius for FAST iterations: 25 (autodetect)
[00:34:03 -41315.568963] Model parameter optimization (eps = 3.000000)
[00:34:19 -41239.081510] FAST spr round 1 (radius: 25)
[00:34:59 -35002.675948] FAST spr round 2 (radius: 25)
[00:35:32 -33959.118015] FAST spr round 3 (radius: 25)
[00:36:01 -33940.677246] FAST spr round 4 (radius: 25)
[00:36:24 -33937.440376] FAST spr round 5 (radius: 25)
[00:36:46 -33937.440193] Model parameter optimization (eps = 1.000000)
[00:36:54 -33933.067403] SLOW spr round 1 (radius: 5)
[00:37:33 -33915.066037] SLOW spr round 2 (radius: 5)
[00:38:10 -33907.838608] SLOW spr round 3 (radius: 5)
[00:38:44 -33907.838439] SLOW spr round 4 (radius: 10)
[00:39:18 -33907.310628] SLOW spr round 5 (radius: 5)
[00:40:08 -33906.377503] SLOW spr round 6 (radius: 5)
[00:40:49 -33906.377498] SLOW spr round 7 (radius: 10)
[00:41:24 -33906.377498] SLOW spr round 8 (radius: 15)
[00:42:21 -33906.377498] SLOW spr round 9 (radius: 20)
[00:43:40 -33906.377498] SLOW spr round 10 (radius: 25)
[00:45:22 -33906.377498] Model parameter optimization (eps = 0.100000)

[00:45:28] [worker #0] ML tree search #7, logLikelihood: -33905.341195

[00:45:28 -116867.451933] Initial branch length optimization
[00:45:29 -94725.655228] Model parameter optimization (eps = 10.000000)
[00:45:47 -94503.821140] AUTODETECT spr round 1 (radius: 5)
[00:46:18 -63864.309906] AUTODETECT spr round 2 (radius: 10)
[00:46:55 -46097.175698] AUTODETECT spr round 3 (radius: 15)
[00:47:29] [worker #1] ML tree search #8, logLikelihood: -33917.071582
[00:47:37 -40678.985629] AUTODETECT spr round 4 (radius: 20)
[00:48:31 -39620.210042] AUTODETECT spr round 5 (radius: 25)
[00:49:29 -38381.426079] SPR radius for FAST iterations: 25 (autodetect)
[00:49:29 -38381.426079] Model parameter optimization (eps = 3.000000)
[00:49:44 -38339.526514] FAST spr round 1 (radius: 25)
[00:50:17 -34057.466629] FAST spr round 2 (radius: 25)
[00:50:44 -33957.747176] FAST spr round 3 (radius: 25)
[00:51:09 -33939.297376] FAST spr round 4 (radius: 25)
[00:51:31 -33939.297262] Model parameter optimization (eps = 1.000000)
[00:51:36] [worker #2] ML tree search #9, logLikelihood: -33933.296488
[00:51:43 -33927.427258] SLOW spr round 1 (radius: 5)
[00:52:23 -33912.707136] SLOW spr round 2 (radius: 5)
[00:53:00 -33910.503270] SLOW spr round 3 (radius: 5)
[00:53:36 -33905.064307] SLOW spr round 4 (radius: 5)
[00:54:10 -33905.064229] SLOW spr round 5 (radius: 10)
[00:54:45 -33904.308859] SLOW spr round 6 (radius: 5)
[00:55:34 -33904.220625] SLOW spr round 7 (radius: 10)
[00:56:13 -33904.220458] SLOW spr round 8 (radius: 15)
[00:57:10 -33904.220457] SLOW spr round 9 (radius: 20)
[00:58:43 -33904.220457] SLOW spr round 10 (radius: 25)
[01:00:27 -33904.220457] Model parameter optimization (eps = 0.100000)

[01:00:30] [worker #0] ML tree search #10, logLikelihood: -33904.159158

[01:00:30 -116749.486499] Initial branch length optimization
[01:00:31 -94394.449596] Model parameter optimization (eps = 10.000000)
[01:00:58 -94214.497705] AUTODETECT spr round 1 (radius: 5)
[01:01:29 -62358.384229] AUTODETECT spr round 2 (radius: 10)
[01:02:06 -45894.085320] AUTODETECT spr round 3 (radius: 15)
[01:02:50 -40016.847924] AUTODETECT spr round 4 (radius: 20)
[01:03:09] [worker #1] ML tree search #11, logLikelihood: -33909.524672
[01:03:41 -39035.227836] AUTODETECT spr round 5 (radius: 25)
[01:04:41 -38939.280058] SPR radius for FAST iterations: 25 (autodetect)
[01:04:41 -38939.280058] Model parameter optimization (eps = 3.000000)
[01:04:54 -38874.761868] FAST spr round 1 (radius: 25)
[01:05:33 -34130.250521] FAST spr round 2 (radius: 25)
[01:06:01 -33960.541282] FAST spr round 3 (radius: 25)
[01:06:27 -33936.980757] FAST spr round 4 (radius: 25)
[01:06:28] [worker #2] ML tree search #12, logLikelihood: -33933.426039
[01:06:48 -33936.979661] Model parameter optimization (eps = 1.000000)
[01:06:53 -33935.208798] SLOW spr round 1 (radius: 5)
[01:07:34 -33925.463596] SLOW spr round 2 (radius: 5)
[01:08:11 -33924.107642] SLOW spr round 3 (radius: 5)
[01:08:45 -33924.107626] SLOW spr round 4 (radius: 10)
[01:09:19 -33924.107626] SLOW spr round 5 (radius: 15)
[01:10:18 -33920.736641] SLOW spr round 6 (radius: 5)
[01:11:10 -33920.736590] SLOW spr round 7 (radius: 10)
[01:11:52 -33920.736590] SLOW spr round 8 (radius: 15)
[01:12:47 -33920.736590] SLOW spr round 9 (radius: 20)
[01:14:19 -33920.736590] SLOW spr round 10 (radius: 25)
[01:16:02 -33920.736590] Model parameter optimization (eps = 0.100000)

[01:16:05] [worker #0] ML tree search #13, logLikelihood: -33920.721696

[01:16:05 -116894.299334] Initial branch length optimization
[01:16:07 -94642.873801] Model parameter optimization (eps = 10.000000)
[01:16:22 -94458.466542] AUTODETECT spr round 1 (radius: 5)
[01:16:53 -64019.137656] AUTODETECT spr round 2 (radius: 10)
[01:17:30 -50259.122410] AUTODETECT spr round 3 (radius: 15)
[01:18:11 -43686.754999] AUTODETECT spr round 4 (radius: 20)
[01:19:02 -41988.216211] AUTODETECT spr round 5 (radius: 25)
[01:19:54 -41405.135774] SPR radius for FAST iterations: 25 (autodetect)
[01:19:54 -41405.135774] Model parameter optimization (eps = 3.000000)
[01:20:03 -41377.589885] FAST spr round 1 (radius: 25)
[01:20:07] [worker #2] ML tree search #15, logLikelihood: -33920.910859
[01:20:38 -34279.978341] FAST spr round 2 (radius: 25)
[01:21:07 -33969.571904] FAST spr round 3 (radius: 25)
[01:21:34 -33945.791582] FAST spr round 4 (radius: 25)
[01:21:57 -33944.897448] FAST spr round 5 (radius: 25)
[01:22:20 -33944.897443] Model parameter optimization (eps = 1.000000)
[01:22:35 -33932.039606] SLOW spr round 1 (radius: 5)
[01:23:15 -33912.908773] SLOW spr round 2 (radius: 5)
[01:23:32] [worker #1] ML tree search #14, logLikelihood: -33910.772850
[01:23:52 -33911.508385] SLOW spr round 3 (radius: 5)
[01:24:28 -33911.508352] SLOW spr round 4 (radius: 10)
[01:25:01 -33911.508347] SLOW spr round 5 (radius: 15)
[01:26:02 -33911.508347] SLOW spr round 6 (radius: 20)
[01:27:31 -33911.508347] SLOW spr round 7 (radius: 25)
[01:29:13 -33911.508347] Model parameter optimization (eps = 0.100000)

[01:29:20] [worker #0] ML tree search #16, logLikelihood: -33910.216057

[01:29:20 -116805.625969] Initial branch length optimization
[01:29:21 -94577.960305] Model parameter optimization (eps = 10.000000)
[01:29:40 -94420.349285] AUTODETECT spr round 1 (radius: 5)
[01:30:11 -61494.705459] AUTODETECT spr round 2 (radius: 10)
[01:30:49 -46941.454567] AUTODETECT spr round 3 (radius: 15)
[01:31:34 -41388.179339] AUTODETECT spr round 4 (radius: 20)
[01:32:30 -37805.862573] AUTODETECT spr round 5 (radius: 25)
[01:33:35 -37758.855505] SPR radius for FAST iterations: 25 (autodetect)
[01:33:35 -37758.855505] Model parameter optimization (eps = 3.000000)
[01:33:49 -37728.639436] FAST spr round 1 (radius: 25)
[01:34:22 -34093.004845] FAST spr round 2 (radius: 25)
[01:34:51 -33954.173289] FAST spr round 3 (radius: 25)
[01:35:15 -33950.058997] FAST spr round 4 (radius: 25)
[01:35:37] [worker #2] ML tree search #18, logLikelihood: -33918.892254
[01:35:38 -33947.133834] FAST spr round 5 (radius: 25)
[01:36:00 -33947.092124] Model parameter optimization (eps = 1.000000)
[01:36:12 -33938.053944] SLOW spr round 1 (radius: 5)
[01:36:51 -33919.452459] SLOW spr round 2 (radius: 5)
[01:37:29 -33914.315792] SLOW spr round 3 (radius: 5)
[01:37:35] [worker #1] ML tree search #17, logLikelihood: -33916.591953
[01:38:05 -33910.905397] SLOW spr round 4 (radius: 5)
[01:38:39 -33910.905214] SLOW spr round 5 (radius: 10)
[01:39:13 -33910.905207] SLOW spr round 6 (radius: 15)
[01:40:15 -33910.905206] SLOW spr round 7 (radius: 20)
[01:41:44 -33910.905206] SLOW spr round 8 (radius: 25)
[01:43:32 -33910.905206] Model parameter optimization (eps = 0.100000)

[01:43:37] [worker #0] ML tree search #19, logLikelihood: -33910.436704

[01:51:29] [worker #1] ML tree search #20, logLikelihood: -33906.736305

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.222040,0.471586) (0.317286,1.008924) (0.345676,0.923452) (0.114998,2.225749) 
   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: -33904.159158

AIC score: 69550.318316 / AICc score: 1588574.318316 / BIC score: 72217.838590
Free parameters (model + branch lengths): 871

WARNING: Number of free parameters (K=871) is larger than alignment size (n=158).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 76 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8IZF7/3_mltree/Q8IZF7.raxml.log

Analysis started: 01-Jul-2021 14:12:25 / finished: 01-Jul-2021 16:03:55

Elapsed time: 6689.948 seconds

Consumed energy: 627.871 Wh (= 3 km in an electric car, or 16 km with an e-scooter!)