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 15:33:30 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/2_msa/Q6DKI2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/3_mltree/Q6DKI2 --seed 2 --threads 6 --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 (6 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/2_msa/Q6DKI2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 287 sites

WARNING: Sequences sp_Q5ZHQ2_LEGL_CHICK_9031 and tr_A0A1V4IFR2_A0A1V4IFR2_PATFA_372326 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_G3QU51_G3QU51_GORGO_9595 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and sp_Q5R5K6_LEGL_PONAB_9601 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_G1T6F6_G1T6F6_RABIT_9986 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_K6ZZC6_K6ZZC6_PANTR_9598 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_B4F7A3_B4F7A3_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_I3N9X9_I3N9X9_ICTTR_43179 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_H0WXA6_H0WXA6_OTOGA_30611 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and sp_Q3ZCW2_LEGL_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_F6QMT0_F6QMT0_MACMU_9544 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_I3L8J2_I3L8J2_PIG_9823 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_E1BKC9_E1BKC9_BOVIN_9913 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A337SCV3_A0A337SCV3_FELCA_9685 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A096P062_A0A096P062_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A0D9RQE5_A0A0D9RQE5_CHLSB_60711 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A1U7SX44_A0A1U7SX44_TARSY_1868482 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A3Q0CSF6_A0A3Q0CSF6_MESAU_10036 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2K5LE49_A0A2K5LE49_CERAT_9531 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2K6BH04_A0A2K6BH04_MACNE_9545 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2U4BZ54_A0A2U4BZ54_TURTR_9739 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2U3VQR1_A0A2U3VQR1_ODORO_9708 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2Y9JI75_A0A2Y9JI75_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2Y9Q1G6_A0A2Y9Q1G6_DELLE_9749 are exactly identical!
WARNING: Sequences sp_Q8VED9_LEGL_MOUSE_10090 and tr_A0A2Y9TJU4_A0A2Y9TJU4_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_A0A2I3GX28_A0A2I3GX28_NOMLE_61853 and tr_G7PMB6_G7PMB6_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A2I2YZ45_A0A2I2YZ45_GORGO_9595 and tr_A0A2R9C383_A0A2R9C383_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3R180_G3R180_GORGO_9595 and sp_P47929_LEG7_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2NLB0_H2NLB0_PONAB_9601 and sp_P17931_LEG3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1NB72_G1NB72_MELGA_9103 and tr_A0A226PVB8_A0A226PVB8_COLVI_9014 are exactly identical!
WARNING: Sequences tr_E5Q8W7_E5Q8W7_CANLF_9615 and tr_F1PPC2_F1PPC2_CANLF_9615 are exactly identical!
WARNING: Sequences tr_F6PME1_F6PME1_CANLF_9615 and sp_P38486_LEG3_CANLF_9615 are exactly identical!
WARNING: Sequences tr_C4XV99_C4XV99_PANTR_9598 and tr_A0A2R9BDH0_A0A2R9BDH0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2Q8C5_H2Q8C5_PANTR_9598 and tr_A0A2R9AZ94_A0A2R9AZ94_PANPA_9597 are exactly identical!
WARNING: Sequences tr_K1Q7A6_K1Q7A6_CRAGI_29159 and tr_K1R419_K1R419_CRAGI_29159 are exactly identical!
WARNING: Sequences tr_A0A0H5S1P8_A0A0H5S1P8_BRUMA_6279 and tr_A0A0N4SWT8_A0A0N4SWT8_BRUPA_6280 are exactly identical!
WARNING: Sequences tr_A0A0H5S1P8_A0A0H5S1P8_BRUMA_6279 and tr_A0A0R3QLT7_A0A0R3QLT7_9BILA_42155 are exactly identical!
WARNING: Sequences tr_A0A0K0JMF7_A0A0K0JMF7_BRUMA_6279 and tr_A0A0N4T3Q4_A0A0N4T3Q4_BRUPA_6280 are exactly identical!
WARNING: Sequences tr_A0A0K0JMF7_A0A0K0JMF7_BRUMA_6279 and tr_A0A0R3R1H3_A0A0R3R1H3_9BILA_42155 are exactly identical!
WARNING: Sequences tr_C4XVA1_C4XVA1_MACMU_9544 and tr_A0A2K6BAZ1_A0A2K6BAZ1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6UL45_F6UL45_MACMU_9544 and tr_A0A096NCJ2_A0A096NCJ2_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F6UL45_F6UL45_MACMU_9544 and tr_A0A2K6CFD2_A0A2K6CFD2_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6UL45_F6UL45_MACMU_9544 and tr_A0A2K6A2D5_A0A2K6A2D5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7ETJ8_F7ETJ8_MACMU_9544 and tr_G7PAB8_G7PAB8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7ETJ8_F7ETJ8_MACMU_9544 and tr_A0A096NV76_A0A096NV76_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7ETJ8_F7ETJ8_MACMU_9544 and tr_A0A2K5P4B2_A0A2K5P4B2_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7ETJ8_F7ETJ8_MACMU_9544 and tr_A0A2K6E6I3_A0A2K6E6I3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7ETJ8_F7ETJ8_MACMU_9544 and tr_A0A2K5ZVR2_A0A2K5ZVR2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H0YVP5_H0YVP5_TAEGU_59729 and tr_A0A218UUX8_A0A218UUX8_9PASE_299123 are exactly identical!
WARNING: Sequences tr_R0LPK7_R0LPK7_ANAPL_8839 and tr_A0A091JAT7_A0A091JAT7_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_R0LPK7_R0LPK7_ANAPL_8839 and tr_A0A091WG36_A0A091WG36_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_R0LPK7_R0LPK7_ANAPL_8839 and tr_A0A099ZZI2_A0A099ZZI2_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A044STF4_A0A044STF4_ONCVO_6282 and tr_A0A182EGW9_A0A182EGW9_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A044VHG4_A0A044VHG4_ONCVO_6282 and tr_A0A182E8W5_A0A182E8W5_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A087Y059_A0A087Y059_POEFO_48698 and tr_A0A087YK95_A0A087YK95_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A2I3N1H2_A0A2I3N1H2_PAPAN_9555 and tr_A0A2K5NQM6_A0A2K5NQM6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3N1H2_A0A2I3N1H2_PAPAN_9555 and tr_A0A2K6AKW6_A0A2K6AKW6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A093Q9H1_A0A093Q9H1_9PASS_328815 and tr_A0A091VNQ8_A0A091VNQ8_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A093Q9H1_A0A093Q9H1_9PASS_328815 and tr_A0A091HM46_A0A091HM46_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A0V1CSI6_A0A0V1CSI6_TRIBR_45882 and tr_A0A0V1P130_A0A0V1P130_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CYX4_A0A0V1CYX4_TRIBR_45882 and tr_A0A0V0UNR2_A0A0V0UNR2_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1DCZ7_A0A0V1DCZ7_TRIBR_45882 and tr_A0A0V1PKC6_A0A0V1PKC6_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V0WBB8_A0A0V0WBB8_9BILA_92179 and tr_A0A0V0ULR3_A0A0V0ULR3_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V0WBB8_A0A0V0WBB8_9BILA_92179 and tr_A0A0V1KQ89_A0A0V1KQ89_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V0WBB8_A0A0V0WBB8_9BILA_92179 and tr_A0A0V0ZW81_A0A0V0ZW81_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V0WBB8_A0A0V0WBB8_9BILA_92179 and tr_A0A0V0T9Z1_A0A0V0T9Z1_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0WYB2_A0A0V0WYB2_9BILA_92179 and tr_A0A0V1NGY2_A0A0V1NGY2_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V0WYB2_A0A0V0WYB2_9BILA_92179 and tr_A0A0V0TDB2_A0A0V0TDB2_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0XGD9_A0A0V0XGD9_TRIPS_6337 and tr_A0A0V1M481_A0A0V1M481_9BILA_268474 are exactly identical!
WARNING: Sequences tr_A0A2R2MTP6_A0A2R2MTP6_LINUN_7574 and tr_A0A2R2MU08_A0A2R2MU08_LINUN_7574 are exactly identical!
WARNING: Sequences tr_A0A226N5M7_A0A226N5M7_CALSU_9009 and tr_A0A226PRY5_A0A226PRY5_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A226NJF5_A0A226NJF5_CALSU_9009 and tr_A0A226PTD9_A0A226PTD9_COLVI_9014 are exactly identical!
WARNING: Duplicate sequences found: 71

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/Q6DKI2/3_mltree/Q6DKI2.raxml.reduced.phy

Alignment comprises 1 partitions and 287 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 287 / 287
Gaps: 31.98 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/3_mltree/Q6DKI2.raxml.rba

Parallelization scheme autoconfig: 6 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 / 287 / 22960
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -418781.087191] Initial branch length optimization
[00:00:07 -360550.610899] Model parameter optimization (eps = 10.000000)
[00:01:08 -359463.994115] AUTODETECT spr round 1 (radius: 5)
[00:04:52 -260940.583657] AUTODETECT spr round 2 (radius: 10)
[00:08:42 -197310.573004] AUTODETECT spr round 3 (radius: 15)
[00:12:46 -163035.754777] AUTODETECT spr round 4 (radius: 20)
[00:17:57 -151536.627408] AUTODETECT spr round 5 (radius: 25)
[00:24:36 -148844.174944] SPR radius for FAST iterations: 25 (autodetect)
[00:24:36 -148844.174944] Model parameter optimization (eps = 3.000000)
[00:25:02 -148799.721759] FAST spr round 1 (radius: 25)
[00:29:47 -131543.194215] FAST spr round 2 (radius: 25)
[00:33:36 -130624.494366] FAST spr round 3 (radius: 25)
[00:36:26 -130566.223629] FAST spr round 4 (radius: 25)
[00:38:48 -130565.547764] FAST spr round 5 (radius: 25)
[00:41:03 -130565.547239] Model parameter optimization (eps = 1.000000)
[00:41:20 -130560.750032] SLOW spr round 1 (radius: 5)
[00:44:32 -130516.872603] SLOW spr round 2 (radius: 5)
[00:47:54 -130499.701784] SLOW spr round 3 (radius: 5)
[00:51:06 -130496.531691] SLOW spr round 4 (radius: 5)
[00:54:22 -130496.531577] SLOW spr round 5 (radius: 10)
[00:57:42 -130493.785375] SLOW spr round 6 (radius: 5)
[01:02:06 -130491.159196] SLOW spr round 7 (radius: 5)
[01:05:56 -130491.158167] SLOW spr round 8 (radius: 10)
[01:09:20 -130491.158019] SLOW spr round 9 (radius: 15)
[01:15:22 -130491.157951] SLOW spr round 10 (radius: 20)
[01:25:42 -130491.157890] SLOW spr round 11 (radius: 25)
[01:34:54] [worker #1] ML tree search #2, logLikelihood: -130502.887149
[01:40:10 -130491.157828] Model parameter optimization (eps = 0.100000)

[01:40:25] [worker #0] ML tree search #1, logLikelihood: -130490.996392

[01:40:25 -419018.937798] Initial branch length optimization
[01:40:32 -359466.181885] Model parameter optimization (eps = 10.000000)
[01:41:49 -358350.324131] AUTODETECT spr round 1 (radius: 5)
[01:45:41 -262604.173083] AUTODETECT spr round 2 (radius: 10)
[01:49:27 -194751.833106] AUTODETECT spr round 3 (radius: 15)
[01:53:45 -167992.000446] AUTODETECT spr round 4 (radius: 20)
[01:57:10] [worker #5] ML tree search #6, logLikelihood: -130411.783623
[01:59:18 -153005.594315] AUTODETECT spr round 5 (radius: 25)
[02:07:21 -149956.805779] SPR radius for FAST iterations: 25 (autodetect)
[02:07:21 -149956.805779] Model parameter optimization (eps = 3.000000)
[02:08:01 -149803.818409] FAST spr round 1 (radius: 25)
[02:08:34] [worker #3] ML tree search #4, logLikelihood: -130442.012910
[02:11:49] [worker #4] ML tree search #5, logLikelihood: -130453.918177
[02:12:51 -131285.924328] FAST spr round 2 (radius: 25)
[02:14:42] [worker #2] ML tree search #3, logLikelihood: -130497.335480
[02:16:15 -130584.309451] FAST spr round 3 (radius: 25)
[02:19:10 -130480.156995] FAST spr round 4 (radius: 25)
[02:21:51 -130470.834074] FAST spr round 5 (radius: 25)
[02:24:19 -130467.896074] FAST spr round 6 (radius: 25)
[02:26:36 -130467.896020] Model parameter optimization (eps = 1.000000)
[02:27:06 -130465.372692] SLOW spr round 1 (radius: 5)
[02:30:26 -130441.363168] SLOW spr round 2 (radius: 5)
[02:33:36 -130440.478476] SLOW spr round 3 (radius: 5)
[02:36:46 -130440.478216] SLOW spr round 4 (radius: 10)
[02:39:54 -130440.478116] SLOW spr round 5 (radius: 15)
[02:45:52 -130438.645255] SLOW spr round 6 (radius: 5)
[02:50:13 -130438.643684] SLOW spr round 7 (radius: 10)
[02:54:25 -130438.643485] SLOW spr round 8 (radius: 15)
[03:00:40 -130438.643407] SLOW spr round 9 (radius: 20)
[03:05:53] [worker #1] ML tree search #8, logLikelihood: -130424.407298
[03:10:51 -130437.402777] SLOW spr round 10 (radius: 5)
[03:14:57 -130436.530588] SLOW spr round 11 (radius: 5)
[03:18:24 -130436.530251] SLOW spr round 12 (radius: 10)
[03:21:47 -130436.530181] SLOW spr round 13 (radius: 15)
[03:27:43 -130436.530113] SLOW spr round 14 (radius: 20)
[03:35:12] [worker #5] ML tree search #12, logLikelihood: -130491.453208
[03:37:15 -130436.530043] SLOW spr round 15 (radius: 25)
[03:47:47] [worker #3] ML tree search #10, logLikelihood: -130499.351532
[03:50:23 -130436.529973] Model parameter optimization (eps = 0.100000)

[03:50:30] [worker #0] ML tree search #7, logLikelihood: -130436.474747

[03:50:30 -417404.263398] Initial branch length optimization
[03:50:38 -359637.791177] Model parameter optimization (eps = 10.000000)
[03:51:33 -358470.270422] AUTODETECT spr round 1 (radius: 5)
[03:52:28] [worker #2] ML tree search #9, logLikelihood: -130444.093973
[03:55:31 -267018.880835] AUTODETECT spr round 2 (radius: 10)
[03:59:54 -192928.085779] AUTODETECT spr round 3 (radius: 15)
[04:04:24 -166903.074505] AUTODETECT spr round 4 (radius: 20)
[04:05:05] [worker #4] ML tree search #11, logLikelihood: -130435.476654
[04:09:39 -158381.160314] AUTODETECT spr round 5 (radius: 25)
[04:16:36 -152756.774366] SPR radius for FAST iterations: 25 (autodetect)
[04:16:36 -152756.774366] Model parameter optimization (eps = 3.000000)
[04:17:15 -152566.176187] FAST spr round 1 (radius: 25)
[04:22:10 -131540.970409] FAST spr round 2 (radius: 25)
[04:25:41 -130610.484842] FAST spr round 3 (radius: 25)
[04:28:35 -130508.036234] FAST spr round 4 (radius: 25)
[04:31:23 -130491.577888] FAST spr round 5 (radius: 25)
[04:33:42 -130487.794835] FAST spr round 6 (radius: 25)
[04:35:58 -130487.279698] FAST spr round 7 (radius: 25)
[04:38:15 -130487.279647] Model parameter optimization (eps = 1.000000)
[04:38:34 -130484.846349] SLOW spr round 1 (radius: 5)
[04:41:51 -130454.875083] SLOW spr round 2 (radius: 5)
[04:44:55 -130449.658813] SLOW spr round 3 (radius: 5)
[04:47:52 -130449.658157] SLOW spr round 4 (radius: 10)
[04:51:00 -130449.432268] SLOW spr round 5 (radius: 5)
[04:52:57] [worker #1] ML tree search #14, logLikelihood: -130430.810243
[04:55:04 -130449.432257] SLOW spr round 6 (radius: 10)
[04:59:05 -130446.538978] SLOW spr round 7 (radius: 5)
[05:03:15 -130445.758606] SLOW spr round 8 (radius: 5)
[05:06:51 -130445.758598] SLOW spr round 9 (radius: 10)
[05:10:28 -130445.758590] SLOW spr round 10 (radius: 15)
[05:16:46 -130444.891433] SLOW spr round 11 (radius: 5)
[05:21:02 -130444.891277] SLOW spr round 12 (radius: 10)
[05:24:59 -130444.891073] SLOW spr round 13 (radius: 15)
[05:26:42] [worker #5] ML tree search #18, logLikelihood: -130484.441778
[05:31:06 -130444.890992] SLOW spr round 14 (radius: 20)
[05:34:57] [worker #2] ML tree search #15, logLikelihood: -130482.899233
[05:41:33 -130444.890915] SLOW spr round 15 (radius: 25)
[05:43:39] [worker #3] ML tree search #16, logLikelihood: -130449.163111
[05:47:06] [worker #4] ML tree search #17, logLikelihood: -130432.623351
[05:54:33 -130444.890844] Model parameter optimization (eps = 0.100000)

[05:54:39] [worker #0] ML tree search #13, logLikelihood: -130444.814739

[05:54:39 -417927.118684] Initial branch length optimization
[05:54:46 -359276.552608] Model parameter optimization (eps = 10.000000)
[05:55:35 -358188.196551] AUTODETECT spr round 1 (radius: 5)
[05:59:01 -261174.770334] AUTODETECT spr round 2 (radius: 10)
[06:02:58 -191272.892631] AUTODETECT spr round 3 (radius: 15)
[06:07:30 -161335.944059] AUTODETECT spr round 4 (radius: 20)
[06:13:18 -149483.427396] AUTODETECT spr round 5 (radius: 25)
[06:19:59 -148784.777717] SPR radius for FAST iterations: 25 (autodetect)
[06:19:59 -148784.777717] Model parameter optimization (eps = 3.000000)
[06:20:35 -148609.306422] FAST spr round 1 (radius: 25)
[06:25:28 -131504.956895] FAST spr round 2 (radius: 25)
[06:28:59 -130578.740459] FAST spr round 3 (radius: 25)
[06:31:47 -130489.747480] FAST spr round 4 (radius: 25)
[06:34:29 -130477.835835] FAST spr round 5 (radius: 25)
[06:36:49 -130476.364047] FAST spr round 6 (radius: 25)
[06:39:09 -130474.753811] FAST spr round 7 (radius: 25)
[06:41:28 -130472.123134] FAST spr round 8 (radius: 25)
[06:43:35 -130472.122781] Model parameter optimization (eps = 1.000000)
[06:43:57 -130470.436995] SLOW spr round 1 (radius: 5)
[06:47:04 -130444.302521] SLOW spr round 2 (radius: 5)
[06:50:19 -130438.849625] SLOW spr round 3 (radius: 5)
[06:53:23 -130437.025155] SLOW spr round 4 (radius: 5)
[06:56:36 -130434.020830] SLOW spr round 5 (radius: 5)
[06:59:47 -130433.418383] SLOW spr round 6 (radius: 5)
[07:03:01 -130433.418360] SLOW spr round 7 (radius: 10)
[07:06:28 -130433.197326] SLOW spr round 8 (radius: 5)
[07:06:51] [worker #1] ML tree search #20, logLikelihood: -130435.067341
[07:10:43 -130433.197313] SLOW spr round 9 (radius: 10)
[07:14:35 -130433.197299] SLOW spr round 10 (radius: 15)
[07:20:48 -130433.197285] SLOW spr round 11 (radius: 20)
[07:31:20 -130433.197271] SLOW spr round 12 (radius: 25)
[07:45:16 -130433.197258] Model parameter optimization (eps = 0.100000)

[07:45:25] [worker #0] ML tree search #19, logLikelihood: -130433.129485


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.105416,0.818179) (0.190074,0.533583) (0.432839,0.895260) (0.271671,1.563757) 
   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: -130411.783623

AIC score: 264833.567246 / AICc score: 8308893.567246 / BIC score: 272170.829089
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=287).
         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/Q6DKI2/3_mltree/Q6DKI2.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/3_mltree/Q6DKI2.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/3_mltree/Q6DKI2.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6DKI2/3_mltree/Q6DKI2.raxml.log

Analysis started: 01-Jul-2021 15:33:30 / finished: 01-Jul-2021 23:18:56

Elapsed time: 27925.254 seconds

Consumed energy: 2062.257 Wh (= 10 km in an electric car, or 52 km with an e-scooter!)