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 05-Jul-2021 16:53:21 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/2_msa/Q9UBX1_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1 --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: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/2_msa/Q9UBX1_trimmed_msa.fasta
[00:00:00] Loaded alignment with 999 taxa and 254 sites

WARNING: Sequences tr_Q4QI61_Q4QI61_LEIMA_5664 and tr_Q4QI64_Q4QI64_LEIMA_5664 are exactly identical!
WARNING: Sequences tr_Q4QI61_Q4QI61_LEIMA_5664 and tr_Q4QI66_Q4QI66_LEIMA_5664 are exactly identical!
WARNING: Sequences tr_D8QNL4_D8QNL4_SELML_88036 and tr_D8RDU0_D8RDU0_SELML_88036 are exactly identical!
WARNING: Sequences tr_B5DY59_B5DY59_DROPS_46245 and tr_B4GFE8_B4GFE8_DROPE_7234 are exactly identical!
WARNING: Sequences tr_H2Q446_H2Q446_PANTR_9598 and tr_A0A2R9APX3_A0A2R9APX3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2Q471_H2Q471_PANTR_9598 and tr_A0A2R9CEK5_A0A2R9CEK5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A158NI41_A0A158NI41_ATTCE_12957 and tr_A0A195B6V1_A0A195B6V1_9HYME_520822 are exactly identical!
WARNING: Sequences tr_I3JTA8_I3JTA8_ORENI_8128 and tr_I3K9F7_I3K9F7_ORENI_8128 are exactly identical!
WARNING: Sequences tr_A0A0E0G6F9_A0A0E0G6F9_ORYNI_4536 and tr_B8B8R8_B8B8R8_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0G6F9_A0A0E0G6F9_ORYNI_4536 and tr_I1P0B5_I1P0B5_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0G6F9_A0A0E0G6F9_ORYNI_4536 and tr_A0A0E0NEQ5_A0A0E0NEQ5_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0G6F9_A0A0E0G6F9_ORYNI_4536 and tr_A0A0D3F521_A0A0D3F521_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0G6F9_A0A0E0G6F9_ORYNI_4536 and tr_Q6K7A3_Q6K7A3_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0GZ11_A0A0E0GZ11_ORYNI_4536 and tr_A0A0E0P775_A0A0E0P775_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0GZ11_A0A0E0GZ11_ORYNI_4536 and tr_A0A0D9ZIV2_A0A0D9ZIV2_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_F7F868_F7F868_MACMU_9544 and tr_G7PPG8_G7PPG8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_B8BCF6_B8BCF6_ORYSI_39946 and tr_I1QPB6_I1QPB6_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_B8BCF6_B8BCF6_ORYSI_39946 and sp_P25778_ORYC_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0Q863_A0A0E0Q863_ORYRU_4529 and tr_Q8GVR2_Q8GVR2_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_G0NNE2_G0NNE2_CAEBE_135651 and tr_G0NNG1_G0NNG1_CAEBE_135651 are exactly identical!
WARNING: Sequences tr_Q585E2_Q585E2_TRYB2_185431 and tr_Q585E3_Q585E3_TRYB2_185431 are exactly identical!
WARNING: Sequences tr_Q585E2_Q585E2_TRYB2_185431 and tr_Q585E8_Q585E8_TRYB2_185431 are exactly identical!
WARNING: Sequences tr_Q585E2_Q585E2_TRYB2_185431 and tr_Q585F0_Q585F0_TRYB2_185431 are exactly identical!
WARNING: Sequences tr_B3SAF9_B3SAF9_TRIAD_10228 and tr_A0A369S970_A0A369S970_9METZ_287889 are exactly identical!
WARNING: Sequences tr_G7PP88_G7PP88_MACFA_9541 and tr_A0A2K6C5E8_A0A2K6C5E8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M4E0X1_M4E0X1_BRARP_51351 and tr_A0A078IA24_A0A078IA24_BRANA_3708 are exactly identical!
WARNING: Sequences tr_M4E8E0_M4E8E0_BRARP_51351 and tr_A0A078J304_A0A078J304_BRANA_3708 are exactly identical!
WARNING: Sequences tr_M4EXK8_M4EXK8_BRARP_51351 and tr_A0A078H3Z1_A0A078H3Z1_BRANA_3708 are exactly identical!
WARNING: Sequences tr_A0A3B6KMG6_A0A3B6KMG6_WHEAT_4565 and tr_A0A3B6LR53_A0A3B6LR53_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A3B6KMG6_A0A3B6KMG6_WHEAT_4565 and tr_A0A3B6MVU2_A0A3B6MVU2_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A067EXC0_A0A067EXC0_CITSI_2711 and tr_A0A2H5PRG0_A0A2H5PRG0_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A067H1G3_A0A067H1G3_CITSI_2711 and tr_V4T9Z8_V4T9Z8_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_A0A067H1G3_A0A067H1G3_CITSI_2711 and tr_A0A2H5NS94_A0A2H5NS94_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A078F9G1_A0A078F9G1_BRANA_3708 and tr_A0A0D3DED1_A0A0D3DED1_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A078J904_A0A078J904_BRANA_3708 and tr_A0A0D3DK37_A0A0D3DK37_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A0D9R7K9_A0A0D9R7K9_CHLSB_60711 and tr_A0A2K5XAA3_A0A2K5XAA3_MANLE_9568 are exactly identical!
WARNING: Sequences tr_V4TJ18_V4TJ18_9ROSI_85681 and tr_A0A2H5PQB3_A0A2H5PQB3_CITUN_55188 are exactly identical!
WARNING: Sequences tr_V4UIQ7_V4UIQ7_9ROSI_85681 and tr_A0A2H5PD32_A0A2H5PD32_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A0D2S7K0_A0A0D2S7K0_GOSRA_29730 and tr_A0A1U8KS24_A0A1U8KS24_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0D2STT4_A0A0D2STT4_GOSRA_29730 and tr_A0A1U8J0Q3_A0A1U8J0Q3_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V0WXS9_A0A0V0WXS9_9BILA_92179 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V0VPV4_A0A0V0VPV4_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V1LGV1_A0A0V1LGV1_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V0ZXR6_A0A0V0ZXR6_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V1PBN7_A0A0V1PBN7_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1DBD3_A0A0V1DBD3_TRIBR_45882 and tr_A0A0V0TYQ2_A0A0V0TYQ2_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A1S3X211_A0A1S3X211_TOBAC_4097 and tr_A0A1U7WC58_A0A1U7WC58_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3XZX2_A0A1S3XZX2_TOBAC_4097 and tr_A0A1U7XS02_A0A1U7XS02_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3YER8_A0A1S3YER8_TOBAC_4097 and tr_A0A1U7Y8Z8_A0A1U7Y8Z8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3YIC8_A0A1S3YIC8_TOBAC_4097 and tr_A0A1U7WE69_A0A1U7WE69_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4AAE2_A0A1S4AAE2_TOBAC_4097 and tr_A0A1U7XHQ6_A0A1U7XHQ6_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4AAW5_A0A1S4AAW5_TOBAC_4097 and tr_A0A1U7W549_A0A1U7W549_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4B1Z6_A0A1S4B1Z6_TOBAC_4097 and tr_A0A1U7W4Z0_A0A1U7W4Z0_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4B4I1_A0A1S4B4I1_TOBAC_4097 and tr_A0A1U7VXY9_A0A1U7VXY9_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4C9J7_A0A1S4C9J7_TOBAC_4097 and tr_A0A1U7VY41_A0A1U7VY41_NICSY_4096 are exactly identical!
WARNING: Sequences tr_Q9LRI2_Q9LRI2_TOBAC_4097 and tr_A0A1U7W460_A0A1U7W460_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3RPX8_A0A1S3RPX8_SALSA_8030 and tr_B5X305_B5X305_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1U8JN11_A0A1U8JN11_GOSHI_3635 and tr_A0A1U8M898_A0A1U8M898_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A2I4BDQ2_A0A2I4BDQ2_9TELE_52670 and tr_A0A2I4CG81_A0A2I4CG81_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A1U8GAX8_A0A1U8GAX8_CAPAN_4072 and tr_B1Q474_B1Q474_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2I4HDQ5_A0A2I4HDQ5_JUGRE_51240 and tr_A0A2I4HRZ1_A0A2I4HRZ1_JUGRE_51240 are exactly identical!
WARNING: Sequences tr_A0A2I4HDQ5_A0A2I4HDQ5_JUGRE_51240 and tr_A0A2I4HU35_A0A2I4HU35_JUGRE_51240 are exactly identical!
WARNING: Sequences tr_A0A2P5DVU5_A0A2P5DVU5_TREOI_63057 and tr_A0A2P5E5L4_A0A2P5E5L4_PARAD_3476 are exactly identical!
WARNING: Duplicate sequences found: 63

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/Q9UBX1/3_mltree/Q9UBX1.raxml.reduced.phy

Alignment comprises 1 partitions and 254 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 254 / 254
Gaps: 0.99 %
Invariant sites: 1.18 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1.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 999 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 254 / 20320
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -418748.638733] Initial branch length optimization
[00:00:06 -357590.965232] Model parameter optimization (eps = 10.000000)
[00:01:14 -357497.493163] AUTODETECT spr round 1 (radius: 5)
[00:05:12 -259701.523226] AUTODETECT spr round 2 (radius: 10)
[00:09:40 -206603.461996] AUTODETECT spr round 3 (radius: 15)
[00:14:41 -176162.492769] AUTODETECT spr round 4 (radius: 20)
[00:21:15 -150048.486509] AUTODETECT spr round 5 (radius: 25)
[00:28:29 -145046.813660] SPR radius for FAST iterations: 25 (autodetect)
[00:28:29 -145046.813660] Model parameter optimization (eps = 3.000000)
[00:28:58 -144934.892424] FAST spr round 1 (radius: 25)
[00:34:18 -120071.552831] FAST spr round 2 (radius: 25)
[00:37:54 -119015.349913] FAST spr round 3 (radius: 25)
[00:40:56 -118930.574015] FAST spr round 4 (radius: 25)
[00:43:38 -118921.979359] FAST spr round 5 (radius: 25)
[00:46:15 -118892.636983] FAST spr round 6 (radius: 25)
[00:48:43 -118889.072948] FAST spr round 7 (radius: 25)
[00:51:09 -118889.072822] Model parameter optimization (eps = 1.000000)
[00:51:26 -118884.973247] SLOW spr round 1 (radius: 5)
[00:55:18 -118834.835146] SLOW spr round 2 (radius: 5)
[00:58:58 -118831.632141] SLOW spr round 3 (radius: 5)
[01:02:27 -118831.631799] SLOW spr round 4 (radius: 10)
[01:06:02 -118828.190823] SLOW spr round 5 (radius: 5)
[01:10:40 -118822.427743] SLOW spr round 6 (radius: 5)
[01:14:36 -118822.427428] SLOW spr round 7 (radius: 10)
[01:18:19 -118822.427290] SLOW spr round 8 (radius: 15)
[01:24:03] [worker #3] ML tree search #4, logLikelihood: -118853.136579
[01:24:19 -118822.427157] SLOW spr round 9 (radius: 20)
[01:32:37 -118822.427023] SLOW spr round 10 (radius: 25)
[01:43:06 -118822.426889] Model parameter optimization (eps = 0.100000)

[01:43:14] [worker #0] ML tree search #1, logLikelihood: -118822.356127

[01:43:14 -417383.976002] Initial branch length optimization
[01:43:19 -356258.786247] Model parameter optimization (eps = 10.000000)
[01:44:12 -356192.449199] AUTODETECT spr round 1 (radius: 5)
[01:48:12 -257004.751150] AUTODETECT spr round 2 (radius: 10)
[01:52:44 -196308.321859] AUTODETECT spr round 3 (radius: 15)
[01:57:36 -164779.747129] AUTODETECT spr round 4 (radius: 20)
[01:58:51] [worker #1] ML tree search #2, logLikelihood: -118797.237824
[01:59:39] [worker #2] ML tree search #3, logLikelihood: -118816.259028
[02:03:38 -153997.492308] AUTODETECT spr round 5 (radius: 25)
[02:08:53] [worker #4] ML tree search #5, logLikelihood: -118816.860058
[02:13:32 -146678.451249] SPR radius for FAST iterations: 25 (autodetect)
[02:13:32 -146678.451249] Model parameter optimization (eps = 3.000000)
[02:13:40 -146675.466577] FAST spr round 1 (radius: 25)
[02:19:12 -120253.258325] FAST spr round 2 (radius: 25)
[02:22:53 -119105.409304] FAST spr round 3 (radius: 25)
[02:26:09 -119042.802339] FAST spr round 4 (radius: 25)
[02:28:48 -119039.070361] FAST spr round 5 (radius: 25)
[02:31:20 -119039.070222] Model parameter optimization (eps = 1.000000)
[02:31:42 -118914.298714] SLOW spr round 1 (radius: 5)
[02:35:45 -118860.907151] SLOW spr round 2 (radius: 5)
[02:39:33 -118847.784453] SLOW spr round 3 (radius: 5)
[02:43:09 -118842.174155] SLOW spr round 4 (radius: 5)
[02:46:35 -118842.174018] SLOW spr round 5 (radius: 10)
[02:50:11 -118839.725152] SLOW spr round 6 (radius: 5)
[02:54:42 -118833.623078] SLOW spr round 7 (radius: 5)
[02:58:33 -118833.622812] SLOW spr round 8 (radius: 10)
[03:02:12 -118833.271103] SLOW spr round 9 (radius: 5)
[03:06:40 -118828.332778] SLOW spr round 10 (radius: 5)
[03:10:32 -118825.583578] SLOW spr round 11 (radius: 5)
[03:14:05 -118825.583387] SLOW spr round 12 (radius: 10)
[03:17:41 -118825.475123] SLOW spr round 13 (radius: 5)
[03:22:06 -118824.818633] SLOW spr round 14 (radius: 5)
[03:25:55 -118824.818472] SLOW spr round 15 (radius: 10)
[03:29:34 -118824.818356] SLOW spr round 16 (radius: 15)
[03:35:35 -118824.818239] SLOW spr round 17 (radius: 20)
[03:39:52] [worker #3] ML tree search #9, logLikelihood: -118833.506205
[03:43:41 -118824.818121] SLOW spr round 18 (radius: 25)
[03:45:35] [worker #2] ML tree search #8, logLikelihood: -118838.775957
[03:54:15 -118824.818002] Model parameter optimization (eps = 0.100000)

[03:54:27] [worker #0] ML tree search #6, logLikelihood: -118824.640727

[03:54:27 -417835.029225] Initial branch length optimization
[03:54:33 -356249.705510] Model parameter optimization (eps = 10.000000)
[03:55:31 -356206.012833] AUTODETECT spr round 1 (radius: 5)
[03:59:29 -262855.595768] AUTODETECT spr round 2 (radius: 10)
[04:04:02 -203382.494422] AUTODETECT spr round 3 (radius: 15)
[04:08:57] [worker #4] ML tree search #10, logLikelihood: -118818.120931
[04:09:23 -165309.522469] AUTODETECT spr round 4 (radius: 20)
[04:14:52] [worker #1] ML tree search #7, logLikelihood: -118826.608499
[04:15:24 -143504.422250] AUTODETECT spr round 5 (radius: 25)
[04:21:31 -142183.615451] SPR radius for FAST iterations: 25 (autodetect)
[04:21:31 -142183.615451] Model parameter optimization (eps = 3.000000)
[04:22:01 -142066.365782] FAST spr round 1 (radius: 25)
[04:27:04 -120067.531117] FAST spr round 2 (radius: 25)
[04:30:42 -118973.867660] FAST spr round 3 (radius: 25)
[04:33:45 -118905.084669] FAST spr round 4 (radius: 25)
[04:36:31 -118882.407943] FAST spr round 5 (radius: 25)
[04:39:03 -118880.292068] FAST spr round 6 (radius: 25)
[04:41:30 -118880.291912] Model parameter optimization (eps = 1.000000)
[04:41:55 -118871.212749] SLOW spr round 1 (radius: 5)
[04:45:54 -118829.911239] SLOW spr round 2 (radius: 5)
[04:49:38 -118815.731150] SLOW spr round 3 (radius: 5)
[04:53:08 -118814.377971] SLOW spr round 4 (radius: 5)
[04:56:35 -118811.871825] SLOW spr round 5 (radius: 5)
[04:59:59 -118811.871563] SLOW spr round 6 (radius: 10)
[05:03:30 -118808.418699] SLOW spr round 7 (radius: 5)
[05:08:03 -118805.489115] SLOW spr round 8 (radius: 5)
[05:11:54 -118805.487268] SLOW spr round 9 (radius: 10)
[05:15:33 -118805.487222] SLOW spr round 10 (radius: 15)
[05:21:38 -118805.487221] SLOW spr round 11 (radius: 20)
[05:28:51] [worker #3] ML tree search #14, logLikelihood: -118840.059824
[05:30:04 -118805.487221] SLOW spr round 12 (radius: 25)
[05:30:08] [worker #2] ML tree search #13, logLikelihood: -118831.818087
[05:40:58 -118805.487221] Model parameter optimization (eps = 0.100000)

[05:41:06] [worker #0] ML tree search #11, logLikelihood: -118805.397723

[05:41:06 -420097.217599] Initial branch length optimization
[05:41:11 -358362.917034] Model parameter optimization (eps = 10.000000)
[05:42:01 -358319.778985] AUTODETECT spr round 1 (radius: 5)
[05:43:31] [worker #4] ML tree search #15, logLikelihood: -118815.227508
[05:45:58 -262590.083112] AUTODETECT spr round 2 (radius: 10)
[05:50:37 -195203.975430] AUTODETECT spr round 3 (radius: 15)
[05:55:54 -164964.073231] AUTODETECT spr round 4 (radius: 20)
[06:01:45 -151543.945772] AUTODETECT spr round 5 (radius: 25)
[06:08:46 -145470.942709] SPR radius for FAST iterations: 25 (autodetect)
[06:08:46 -145470.942709] Model parameter optimization (eps = 3.000000)
[06:08:59 -145466.388108] FAST spr round 1 (radius: 25)
[06:11:31] [worker #1] ML tree search #12, logLikelihood: -118801.397296
[06:14:10 -120024.178172] FAST spr round 2 (radius: 25)
[06:17:45 -119085.716808] FAST spr round 3 (radius: 25)
[06:20:51 -119033.852034] FAST spr round 4 (radius: 25)
[06:23:33 -119027.467713] FAST spr round 5 (radius: 25)
[06:26:04 -119027.467054] Model parameter optimization (eps = 1.000000)
[06:26:25 -118900.752357] SLOW spr round 1 (radius: 5)
[06:30:24 -118840.542402] SLOW spr round 2 (radius: 5)
[06:34:06 -118837.129074] SLOW spr round 3 (radius: 5)
[06:37:39 -118837.128758] SLOW spr round 4 (radius: 10)
[06:41:16 -118828.219133] SLOW spr round 5 (radius: 5)
[06:45:38 -118824.749745] SLOW spr round 6 (radius: 5)
[06:49:34 -118821.686133] SLOW spr round 7 (radius: 5)
[06:53:11 -118821.621736] SLOW spr round 8 (radius: 10)
[06:56:47 -118821.621578] SLOW spr round 9 (radius: 15)
[07:02:54 -118821.621575] SLOW spr round 10 (radius: 20)
[07:11:16 -118819.243966] SLOW spr round 11 (radius: 5)
[07:16:06 -118813.316578] SLOW spr round 12 (radius: 5)
[07:18:47] [worker #2] ML tree search #18, logLikelihood: -118824.646435
[07:20:11 -118813.316539] SLOW spr round 13 (radius: 10)
[07:23:56 -118813.316536] SLOW spr round 14 (radius: 15)
[07:26:09] [worker #4] ML tree search #20, logLikelihood: -118806.398229
[07:29:49 -118813.316533] SLOW spr round 15 (radius: 20)
[07:38:19 -118813.316530] SLOW spr round 16 (radius: 25)
[07:48:49 -118813.316528] Model parameter optimization (eps = 0.100000)

[07:49:01] [worker #0] ML tree search #16, logLikelihood: -118812.761597

[07:50:46] [worker #3] ML tree search #19, logLikelihood: -118849.289726
[08:15:50] [worker #1] ML tree search #17, logLikelihood: -118812.228530

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.174027,0.288085) (0.300235,0.388186) (0.278083,0.936283) (0.247654,2.313522) 
   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: -118797.237824

AIC score: 241596.475648 / AICc score: 8253600.475648 / BIC score: 248674.681516
Free parameters (model + branch lengths): 2001

WARNING: Number of free parameters (K=2001) is larger than alignment size (n=254).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UBX1/3_mltree/Q9UBX1.raxml.log

Analysis started: 05-Jul-2021 16:53:21 / finished: 06-Jul-2021 01:09:12

Elapsed time: 29751.170 seconds

Consumed energy: 2855.560 Wh (= 14 km in an electric car, or 71 km with an e-scooter!)