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 02-Jul-2021 20:21:30 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/2_msa/A6NK58_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58 --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: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/2_msa/A6NK58_trimmed_msa.fasta
[00:00:00] Loaded alignment with 953 taxa and 197 sites

WARNING: Sequences tr_B2WA79_B2WA79_PYRTR_426418 and tr_A0A2W1DVQ3_A0A2W1DVQ3_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_D8R3Q9_D8R3Q9_SELML_88036 and tr_D8SIE8_D8SIE8_SELML_88036 are exactly identical!
WARNING: Sequences tr_D8RQN2_D8RQN2_SELML_88036 and tr_D8S059_D8S059_SELML_88036 are exactly identical!
WARNING: Sequences tr_C0NEI6_C0NEI6_AJECG_447093 and tr_C6HNF4_C6HNF4_AJECH_544712 are exactly identical!
WARNING: Sequences tr_C0NEI6_C0NEI6_AJECG_447093 and tr_F0UFH2_F0UFH2_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_B8P9A6_B8P9A6_POSPM_561896 and tr_A0A1X6NH12_A0A1X6NH12_9APHY_670580 are exactly identical!
WARNING: Sequences tr_B8NUN2_B8NUN2_ASPFN_332952 and tr_A0A1S9DHV5_A0A1S9DHV5_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_B8NUN2_B8NUN2_ASPFN_332952 and tr_A0A2G7GAL4_A0A2G7GAL4_9EURO_656916 are exactly identical!
WARNING: Sequences tr_H2Q4E2_H2Q4E2_PANTR_9598 and tr_A0A2R9B4N5_A0A2R9B4N5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9FKB3_F9FKB3_FUSOF_660025 and tr_N4TRT4_N4TRT4_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9FKB3_F9FKB3_FUSOF_660025 and tr_X0DY65_X0DY65_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FKB3_F9FKB3_FUSOF_660025 and tr_A0A2H3TD90_A0A2H3TD90_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_E9D4X0_E9D4X0_COCPS_443226 and tr_A0A0J7ASU2_A0A0J7ASU2_COCIT_404692 are exactly identical!
WARNING: Sequences tr_E9EJ98_E9EJ98_METRA_655844 and tr_A0A0D9P990_A0A0D9P990_METAN_1291518 are exactly identical!
WARNING: Sequences tr_A0A158NXY6_A0A158NXY6_ATTCE_12957 and tr_A0A151I3F1_A0A151I3F1_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A0E0GLP8_A0A0E0GLP8_ORYNI_4536 and tr_I1PAT9_I1PAT9_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0GLP8_A0A0E0GLP8_ORYNI_4536 and tr_A0A0E0NUC1_A0A0E0NUC1_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0GLP8_A0A0E0GLP8_ORYNI_4536 and tr_A0A0D9Z6J4_A0A0D9Z6J4_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0JBY3_A0A0E0JBY3_ORYNI_4536 and tr_A0A0E0RJI9_A0A0E0RJI9_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0JBY3_A0A0E0JBY3_ORYNI_4536 and tr_A0A0D3HWD5_A0A0D3HWD5_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0JBY3_A0A0E0JBY3_ORYNI_4536 and tr_A0A0E0BUT1_A0A0E0BUT1_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0JBY3_A0A0E0JBY3_ORYNI_4536 and tr_Q2QMP8_Q2QMP8_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A2QXN8_A2QXN8_ASPNC_425011 and tr_A0A319AP10_A0A319AP10_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_F6XJJ8_F6XJJ8_MACMU_9544 and tr_A0A2K6BGG6_A0A2K6BGG6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7XFR8_G7XFR8_ASPKW_1033177 and tr_A0A146FR79_A0A146FR79_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G2YYS5_G2YYS5_BOTF4_999810 and tr_M7URM8_M7URM8_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_F2SHC1_F2SHC1_TRIRC_559305 and tr_A0A178F011_A0A178F011_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_M7ZEJ7_M7ZEJ7_TRIUA_4572 and tr_A0A3B6KAP1_A0A3B6KAP1_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_M7ZIZ0_M7ZIZ0_TRIUA_4572 and tr_A0A3B6HRM6_A0A3B6HRM6_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_U5GYZ9_U5GYZ9_USTV1_683840 and tr_A0A2X0MBJ9_A0A2X0MBJ9_9BASI_796604 are exactly identical!
WARNING: Sequences tr_V2XIS8_V2XIS8_MONRO_1381753 and tr_A0A0W0G488_A0A0W0G488_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A044UC74_A0A044UC74_ONCVO_6282 and tr_A0A182DXK4_A0A182DXK4_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A067GXQ0_A0A067GXQ0_CITSI_2711 and tr_V4T4R2_V4T4R2_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_V4U009_V4U009_9ROSI_85681 and tr_A0A2H5PC49_A0A2H5PC49_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A0F8U9S5_A0A0F8U9S5_9EURO_308745 and tr_A0A2T5M029_A0A2T5M029_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0L1IY54_A0A0L1IY54_ASPNO_1509407 and tr_A0A1F8A541_A0A1F8A541_9EURO_109264 are exactly identical!
WARNING: Sequences tr_A0A091IMD2_A0A091IMD2_EGRGA_188379 and tr_A0A091URG6_A0A091URG6_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A1S3Y597_A0A1S3Y597_TOBAC_4097 and tr_A0A1U7X1S9_A0A1U7X1S9_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3ZST1_A0A1S3ZST1_TOBAC_4097 and tr_A0A1U7VMG9_A0A1U7VMG9_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3UY81_A0A1S3UY81_VIGRR_3916 and tr_A0A3Q0FGE6_A0A3Q0FGE6_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A2H3E0E6_A0A2H3E0E6_ARMGA_47427 and tr_A0A2H3C232_A0A2H3C232_9AGAR_1076256 are exactly identical!
WARNING: Sequences tr_A0A2H3E0E6_A0A2H3E0E6_ARMGA_47427 and tr_A0A284RAP5_A0A284RAP5_9AGAR_47428 are exactly identical!
WARNING: Sequences tr_A0A2D0SSE5_A0A2D0SSE5_ICTPU_7998 and tr_E3TGJ5_E3TGJ5_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2G2ZRY5_A0A2G2ZRY5_CAPAN_4072 and tr_A0A2G3CQ43_A0A2G3CQ43_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2G3AER8_A0A2G3AER8_CAPAN_4072 and tr_A0A2G3DBX5_A0A2G3DBX5_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2S7QA66_A0A2S7QA66_9HELO_2070414 and tr_A0A2S7QS57_A0A2S7QS57_9HELO_2070412 are exactly identical!
WARNING: Duplicate sequences found: 46

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/A6NK58/3_mltree/A6NK58.raxml.reduced.phy

Alignment comprises 1 partitions and 197 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 197 / 197
Gaps: 7.66 %
Invariant sites: 0.51 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.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 953 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 197 / 15760
[00:00:00] Data distribution: max. searches per worker: 5

Starting ML tree search with 20 distinct starting trees

[00:00:00 -341979.089636] Initial branch length optimization
[00:00:04 -295391.795261] Model parameter optimization (eps = 10.000000)
[00:00:44 -293911.284214] AUTODETECT spr round 1 (radius: 5)
[00:03:41 -218822.474751] AUTODETECT spr round 2 (radius: 10)
[00:07:08 -163855.977986] AUTODETECT spr round 3 (radius: 15)
[00:11:05 -138380.788594] AUTODETECT spr round 4 (radius: 20)
[00:15:02 -131269.771631] AUTODETECT spr round 5 (radius: 25)
[00:20:09 -130479.726301] SPR radius for FAST iterations: 25 (autodetect)
[00:20:09 -130479.726301] Model parameter optimization (eps = 3.000000)
[00:20:45 -130246.569042] FAST spr round 1 (radius: 25)
[00:24:46 -118913.550515] FAST spr round 2 (radius: 25)
[00:27:47 -118376.125452] FAST spr round 3 (radius: 25)
[00:30:20 -118337.805561] FAST spr round 4 (radius: 25)
[00:32:36 -118321.576397] FAST spr round 5 (radius: 25)
[00:34:46 -118319.634839] FAST spr round 6 (radius: 25)
[00:36:50 -118319.634526] Model parameter optimization (eps = 1.000000)
[00:37:06 -118315.497657] SLOW spr round 1 (radius: 5)
[00:40:16 -118274.284144] SLOW spr round 2 (radius: 5)
[00:43:23 -118262.642249] SLOW spr round 3 (radius: 5)
[00:46:14 -118259.182267] SLOW spr round 4 (radius: 5)
[00:49:03 -118259.182117] SLOW spr round 5 (radius: 10)
[00:51:56 -118252.873342] SLOW spr round 6 (radius: 5)
[00:55:28 -118252.313030] SLOW spr round 7 (radius: 5)
[00:58:35 -118252.312998] SLOW spr round 8 (radius: 10)
[01:01:31 -118252.208665] SLOW spr round 9 (radius: 5)
[01:05:01 -118252.208343] SLOW spr round 10 (radius: 10)
[01:08:09 -118252.208326] SLOW spr round 11 (radius: 15)
[01:12:30 -118252.208325] SLOW spr round 12 (radius: 20)
[01:18:59 -118252.208325] SLOW spr round 13 (radius: 25)
[01:25:05] [worker #1] ML tree search #2, logLikelihood: -118254.773931
[01:26:31] [worker #2] ML tree search #3, logLikelihood: -118253.211989
[01:27:02 -118252.208325] Model parameter optimization (eps = 0.100000)

[01:27:09] [worker #0] ML tree search #1, logLikelihood: -118252.168726

[01:27:09 -342519.582928] Initial branch length optimization
[01:27:14 -295023.790994] Model parameter optimization (eps = 10.000000)
[01:27:59 -293752.427348] AUTODETECT spr round 1 (radius: 5)
[01:30:52 -218763.022601] AUTODETECT spr round 2 (radius: 10)
[01:34:18 -159195.956748] AUTODETECT spr round 3 (radius: 15)
[01:37:51 -142170.947113] AUTODETECT spr round 4 (radius: 20)
[01:41:44 -134138.508825] AUTODETECT spr round 5 (radius: 25)
[01:46:27 -133163.222823] SPR radius for FAST iterations: 25 (autodetect)
[01:46:27 -133163.222823] Model parameter optimization (eps = 3.000000)
[01:46:58 -132969.605266] FAST spr round 1 (radius: 25)
[01:51:05 -119018.182076] FAST spr round 2 (radius: 25)
[01:54:09 -118410.597225] FAST spr round 3 (radius: 25)
[01:56:43 -118335.395988] FAST spr round 4 (radius: 25)
[01:59:01 -118326.818404] FAST spr round 5 (radius: 25)
[02:00:44] [worker #3] ML tree search #4, logLikelihood: -118252.308803
[02:01:08 -118326.759565] Model parameter optimization (eps = 1.000000)
[02:01:21 -118326.180480] SLOW spr round 1 (radius: 5)
[02:04:36 -118279.771064] SLOW spr round 2 (radius: 5)
[02:07:42 -118274.069663] SLOW spr round 3 (radius: 5)
[02:10:33 -118272.956254] SLOW spr round 4 (radius: 5)
[02:13:19 -118272.956251] SLOW spr round 5 (radius: 10)
[02:16:16 -118263.292352] SLOW spr round 6 (radius: 5)
[02:19:54 -118258.228365] SLOW spr round 7 (radius: 5)
[02:23:03 -118258.227047] SLOW spr round 8 (radius: 10)
[02:26:04 -118257.927407] SLOW spr round 9 (radius: 5)
[02:29:35 -118257.927262] SLOW spr round 10 (radius: 10)
[02:32:49 -118257.927254] SLOW spr round 11 (radius: 15)
[02:37:14 -118257.927254] SLOW spr round 12 (radius: 20)
[02:44:32 -118257.927254] SLOW spr round 13 (radius: 25)
[02:49:17] [worker #2] ML tree search #7, logLikelihood: -118270.611447
[02:54:21 -118257.927254] Model parameter optimization (eps = 0.100000)

[02:54:34] [worker #0] ML tree search #5, logLikelihood: -118257.584071

[02:54:34 -340583.369871] Initial branch length optimization
[02:54:39 -293556.855345] Model parameter optimization (eps = 10.000000)
[02:55:23 -292335.496120] AUTODETECT spr round 1 (radius: 5)
[02:58:18] [worker #1] ML tree search #6, logLikelihood: -118248.124912
[02:58:19 -219561.797490] AUTODETECT spr round 2 (radius: 10)
[03:01:44 -166811.133828] AUTODETECT spr round 3 (radius: 15)
[03:05:44 -139786.366339] AUTODETECT spr round 4 (radius: 20)
[03:10:13 -133680.363122] AUTODETECT spr round 5 (radius: 25)
[03:15:25 -133352.605696] SPR radius for FAST iterations: 25 (autodetect)
[03:15:25 -133352.605696] Model parameter optimization (eps = 3.000000)
[03:15:33 -133351.383200] FAST spr round 1 (radius: 25)
[03:19:41 -119316.332325] FAST spr round 2 (radius: 25)
[03:22:46 -118524.748516] FAST spr round 3 (radius: 25)
[03:25:28 -118446.886820] FAST spr round 4 (radius: 25)
[03:25:37] [worker #3] ML tree search #8, logLikelihood: -118250.173862
[03:27:48 -118427.562808] FAST spr round 5 (radius: 25)
[03:29:58 -118423.488834] FAST spr round 6 (radius: 25)
[03:32:10 -118416.464421] FAST spr round 7 (radius: 25)
[03:34:17 -118412.119348] FAST spr round 8 (radius: 25)
[03:36:24 -118412.119167] Model parameter optimization (eps = 1.000000)
[03:36:48 -118303.444358] SLOW spr round 1 (radius: 5)
[03:40:00 -118257.442537] SLOW spr round 2 (radius: 5)
[03:43:04 -118250.670069] SLOW spr round 3 (radius: 5)
[03:46:00 -118241.248761] SLOW spr round 4 (radius: 5)
[03:48:50 -118238.657748] SLOW spr round 5 (radius: 5)
[03:51:39 -118238.657657] SLOW spr round 6 (radius: 10)
[03:54:37 -118233.913969] SLOW spr round 7 (radius: 5)
[03:58:15 -118233.032574] SLOW spr round 8 (radius: 5)
[04:01:24 -118233.032303] SLOW spr round 9 (radius: 10)
[04:04:21 -118231.964803] SLOW spr round 10 (radius: 5)
[04:07:49 -118231.707577] SLOW spr round 11 (radius: 5)
[04:10:55 -118231.707406] SLOW spr round 12 (radius: 10)
[04:13:52 -118231.429110] SLOW spr round 13 (radius: 5)
[04:17:21 -118231.428794] SLOW spr round 14 (radius: 10)
[04:20:32 -118231.428784] SLOW spr round 15 (radius: 15)
[04:24:45 -118231.428783] SLOW spr round 16 (radius: 20)
[04:30:39] [worker #2] ML tree search #11, logLikelihood: -118258.215888
[04:31:04 -118231.428783] SLOW spr round 17 (radius: 25)
[04:39:09] [worker #1] ML tree search #10, logLikelihood: -118276.758000
[04:39:24 -118231.428783] Model parameter optimization (eps = 0.100000)

[04:39:37] [worker #0] ML tree search #9, logLikelihood: -118231.203106

[04:39:37 -341296.261928] Initial branch length optimization
[04:39:42 -294716.086265] Model parameter optimization (eps = 10.000000)
[04:40:33 -293620.803395] AUTODETECT spr round 1 (radius: 5)
[04:43:30 -219504.089387] AUTODETECT spr round 2 (radius: 10)
[04:45:28] [worker #3] ML tree search #12, logLikelihood: -118247.446566
[04:46:51 -167063.527202] AUTODETECT spr round 3 (radius: 15)
[04:50:29 -144144.933504] AUTODETECT spr round 4 (radius: 20)
[04:54:55 -134335.277459] AUTODETECT spr round 5 (radius: 25)
[04:59:29 -132427.776954] SPR radius for FAST iterations: 25 (autodetect)
[04:59:29 -132427.776954] Model parameter optimization (eps = 3.000000)
[05:00:00 -132271.917496] FAST spr round 1 (radius: 25)
[05:03:55 -118967.089333] FAST spr round 2 (radius: 25)
[05:06:53 -118399.605515] FAST spr round 3 (radius: 25)
[05:09:27 -118355.646151] FAST spr round 4 (radius: 25)
[05:11:46 -118335.761799] FAST spr round 5 (radius: 25)
[05:13:55 -118330.611607] FAST spr round 6 (radius: 25)
[05:16:02 -118330.611279] Model parameter optimization (eps = 1.000000)
[05:16:10 -118330.050155] SLOW spr round 1 (radius: 5)
[05:19:24 -118276.673931] SLOW spr round 2 (radius: 5)
[05:22:28 -118268.326682] SLOW spr round 3 (radius: 5)
[05:25:29 -118264.114353] SLOW spr round 4 (radius: 5)
[05:28:18 -118264.112575] SLOW spr round 5 (radius: 10)
[05:31:11 -118261.584072] SLOW spr round 6 (radius: 5)
[05:34:49 -118260.669586] SLOW spr round 7 (radius: 5)
[05:37:59 -118260.328609] SLOW spr round 8 (radius: 5)
[05:40:54 -118260.328586] SLOW spr round 9 (radius: 10)
[05:43:45 -118260.121527] SLOW spr round 10 (radius: 5)
[05:47:18 -118259.391789] SLOW spr round 11 (radius: 5)
[05:50:28 -118258.638761] SLOW spr round 12 (radius: 5)
[05:53:28 -118258.638759] SLOW spr round 13 (radius: 10)
[05:56:28 -118258.638759] SLOW spr round 14 (radius: 15)
[06:01:10 -118258.638759] SLOW spr round 15 (radius: 20)
[06:08:04 -118258.638759] SLOW spr round 16 (radius: 25)
[06:08:23] [worker #2] ML tree search #15, logLikelihood: -118250.205505
[06:12:32] [worker #1] ML tree search #14, logLikelihood: -118257.707687
[06:14:11] [worker #3] ML tree search #16, logLikelihood: -118242.787725
[06:17:34 -118258.638759] Model parameter optimization (eps = 0.100000)

[06:17:45] [worker #0] ML tree search #13, logLikelihood: -118258.314035

[06:17:45 -342953.130465] Initial branch length optimization
[06:17:49 -295394.173016] Model parameter optimization (eps = 10.000000)
[06:18:42 -294007.915370] AUTODETECT spr round 1 (radius: 5)
[06:21:43 -215329.674019] AUTODETECT spr round 2 (radius: 10)
[06:25:00 -167417.150803] AUTODETECT spr round 3 (radius: 15)
[06:28:36 -149957.259640] AUTODETECT spr round 4 (radius: 20)
[06:33:26 -135228.025957] AUTODETECT spr round 5 (radius: 25)
[06:38:19 -133905.091386] SPR radius for FAST iterations: 25 (autodetect)
[06:38:19 -133905.091386] Model parameter optimization (eps = 3.000000)
[06:38:47 -133704.499737] FAST spr round 1 (radius: 25)
[06:42:45 -118994.338326] FAST spr round 2 (radius: 25)
[06:45:46 -118397.676526] FAST spr round 3 (radius: 25)
[06:48:26 -118329.078318] FAST spr round 4 (radius: 25)
[06:50:42 -118315.886718] FAST spr round 5 (radius: 25)
[06:52:52 -118312.339692] FAST spr round 6 (radius: 25)
[06:54:58 -118312.338929] Model parameter optimization (eps = 1.000000)
[06:55:14 -118309.858825] SLOW spr round 1 (radius: 5)
[06:58:29 -118278.224419] SLOW spr round 2 (radius: 5)
[07:01:39 -118261.457735] SLOW spr round 3 (radius: 5)
[07:04:30 -118260.472327] SLOW spr round 4 (radius: 5)
[07:07:19 -118260.472324] SLOW spr round 5 (radius: 10)
[07:10:10 -118260.044185] SLOW spr round 6 (radius: 5)
[07:13:45 -118258.023935] SLOW spr round 7 (radius: 5)
[07:16:53 -118258.023856] SLOW spr round 8 (radius: 10)
[07:19:49 -118258.023853] SLOW spr round 9 (radius: 15)
[07:24:16 -118258.023852] SLOW spr round 10 (radius: 20)
[07:27:11] [worker #1] ML tree search #18, logLikelihood: -118247.835876
[07:30:45 -118258.023852] SLOW spr round 11 (radius: 25)
[07:39:16 -118258.023852] Model parameter optimization (eps = 0.100000)

[07:39:26] [worker #0] ML tree search #17, logLikelihood: -118257.806292

[07:48:26] [worker #3] ML tree search #20, logLikelihood: -118254.442735
[08:14:14] [worker #2] ML tree search #19, logLikelihood: -118261.968067

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.173146,0.317622) (0.259178,0.391108) (0.320584,0.914183) (0.247091,2.228187) 
   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: -118231.203106

AIC score: 240280.406211 / AICc score: 7532660.406211 / BIC score: 246548.042129
Free parameters (model + branch lengths): 1909

WARNING: Number of free parameters (K=1909) is larger than alignment size (n=197).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 64 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NK58/3_mltree/A6NK58.raxml.log

Analysis started: 02-Jul-2021 20:21:30 / finished: 03-Jul-2021 04:35:45

Elapsed time: 29654.456 seconds

Consumed energy: 2644.393 Wh (= 13 km in an electric car, or 66 km with an e-scooter!)