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 30-Jun-2021 18:09:10 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/2_msa/Q9UNM6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/3_mltree/Q9UNM6 --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/Q9UNM6/2_msa/Q9UNM6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 961 taxa and 385 sites

WARNING: Sequences tr_B4R239_B4R239_DROSI_7240 and tr_B4HFX7_B4HFX7_DROSE_7238 are exactly identical!
WARNING: Sequences tr_A0A0E1RYW9_A0A0E1RYW9_COCIM_246410 and tr_A0A0J7AWG8_A0A0J7AWG8_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B6QDM2_B6QDM2_TALMQ_441960 and tr_A0A093VJ63_A0A093VJ63_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_B2VXP4_B2VXP4_PYRTR_426418 and tr_A0A2W1EEV4_A0A2W1EEV4_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_A0A2I2Y547_A0A2I2Y547_GORGO_9595 and tr_A0A2I3S463_A0A2I3S463_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I2Y547_A0A2I2Y547_GORGO_9595 and tr_A0A2R9CJB1_A0A2R9CJB1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_C0NH80_C0NH80_AJECG_447093 and tr_C6H6P8_C6H6P8_AJECH_544712 are exactly identical!
WARNING: Sequences tr_C0NH80_C0NH80_AJECG_447093 and tr_F0U7W7_F0U7W7_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_C0NH80_C0NH80_AJECG_447093 and tr_A6R6I9_A6R6I9_AJECN_339724 are exactly identical!
WARNING: Sequences tr_B8N227_B8N227_ASPFN_332952 and tr_Q2ULI5_Q2ULI5_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8N227_B8N227_ASPFN_332952 and tr_A0A1S9DN56_A0A1S9DN56_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A179U798_A0A179U798_BLAGS_559298 and tr_C5GVH0_C5GVH0_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_J5J413_J5J413_BEAB2_655819 and tr_A0A0A2VNE1_A0A0A2VNE1_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_A0A158NNB4_A0A158NNB4_ATTCE_12957 and tr_A0A195AUZ7_A0A195AUZ7_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A0E0GIZ5_A0A0E0GIZ5_ORYNI_4536 and tr_I1P8W1_I1P8W1_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0GIZ5_A0A0E0GIZ5_ORYNI_4536 and tr_A0A0D9Z3X7_A0A0D9Z3X7_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A1DP01_A1DP01_NEOFI_331117 and tr_A0A229Z1N8_A0A229Z1N8_9EURO_1245748 are exactly identical!
WARNING: Sequences tr_A2QSH2_A2QSH2_ASPNC_425011 and tr_G3YFU5_G3YFU5_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_G7XLZ1_G7XLZ1_ASPKW_1033177 and tr_A0A146FAV2_A0A146FAV2_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G7XLZ1_G7XLZ1_ASPKW_1033177 and tr_A0A317UTF3_A0A317UTF3_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_A2WQL6_A2WQL6_ORYSI_39946 and tr_A0A0E0MX50_A0A0E0MX50_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A2WQL6_A2WQL6_ORYSI_39946 and tr_Q94E72_Q94E72_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0NRJ8_A0A0E0NRJ8_ORYRU_4529 and tr_Q10Q05_Q10Q05_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F9XMV5_F9XMV5_ZYMTI_336722 and tr_A0A1X7S647_A0A1X7S647_ZYMTR_1276538 are exactly identical!
WARNING: Sequences tr_F2SFB1_F2SFB1_TRIRC_559305 and tr_A0A178ES97_A0A178ES97_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_A0A0D2XIF7_A0A0D2XIF7_FUSO4_426428 and tr_N4U0Y9_N4U0Y9_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_A0A0D2XIF7_A0A0D2XIF7_FUSO4_426428 and tr_X0CTP8_X0CTP8_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_A0A0D2XIF7_A0A0D2XIF7_FUSO4_426428 and tr_A0A2H3TAQ2_A0A2H3TAQ2_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_A0A0D2XIF7_A0A0D2XIF7_FUSO4_426428 and tr_A0A2H3HG74_A0A2H3HG74_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_G7PNM7_G7PNM7_MACFA_9541 and tr_A0A2I3M2E4_A0A2I3M2E4_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F2PYY3_F2PYY3_TRIEC_559882 and tr_A0A059J259_A0A059J259_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_U3KAD7_U3KAD7_FICAL_59894 and tr_A0A218UV24_A0A218UV24_9PASE_299123 are exactly identical!
WARNING: Sequences tr_M2UV93_M2UV93_COCH5_701091 and tr_W6YCC8_W6YCC8_COCCA_930089 are exactly identical!
WARNING: Sequences tr_V2XCP8_V2XCP8_MONRO_1381753 and tr_A0A0W0FTR2_A0A0W0FTR2_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_W2PPP5_W2PPP5_PHYPN_761204 and tr_A0A0W8CU67_A0A0W8CU67_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_W2PPP5_W2PPP5_PHYPN_761204 and tr_W2I4X3_W2I4X3_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A015IXN8_A0A015IXN8_9GLOM_1432141 and tr_U9T4S8_U9T4S8_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A044R7I3_A0A044R7I3_ONCVO_6282 and tr_A0A182ECC0_A0A182ECC0_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A078JNF1_A0A078JNF1_BRANA_3708 and tr_A0A0D3D9B1_A0A0D3D9B1_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A078JSV8_A0A078JSV8_BRANA_3708 and tr_A0A0D3BKF0_A0A0D3BKF0_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_V4SYK6_V4SYK6_9ROSI_85681 and tr_A0A2H5Q8K4_A0A2H5Q8K4_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A0F0ICA3_A0A0F0ICA3_ASPPU_1403190 and tr_A0A2G7G423_A0A2G7G423_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A0A0F9XPV6_A0A0F9XPV6_TRIHA_5544 and tr_A0A2T3ZX18_A0A2T3ZX18_TRIHA_983964 are exactly identical!
WARNING: Sequences tr_A0A0F8VAI4_A0A0F8VAI4_9EURO_308745 and tr_A0A2T5LPC7_A0A2T5LPC7_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0L9URZ5_A0A0L9URZ5_PHAAN_3914 and tr_A0A1S3VS24_A0A1S3VS24_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A0V1CYE0_A0A0V1CYE0_TRIBR_45882 and tr_A0A0V0V629_A0A0V0V629_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CYE0_A0A0V1CYE0_TRIBR_45882 and tr_A0A0V1NJN1_A0A0V1NJN1_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CYE0_A0A0V1CYE0_TRIBR_45882 and tr_A0A0V0TQB7_A0A0V0TQB7_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0WW74_A0A0V0WW74_9BILA_92179 and tr_A0A0V1L441_A0A0V1L441_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1N6U8_A0A0V1N6U8_9BILA_268474 and tr_A0A0V1I6S3_A0A0V1I6S3_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A1S4CVG1_A0A1S4CVG1_TOBAC_4097 and tr_A0A1U7V9F6_A0A1U7V9F6_NICSY_4096 are exactly identical!
WARNING: Duplicate sequences found: 51

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/Q9UNM6/3_mltree/Q9UNM6.raxml.reduced.phy

Alignment comprises 1 partitions and 385 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 385 / 385
Gaps: 5.17 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/3_mltree/Q9UNM6.raxml.rba

Parallelization scheme autoconfig: 3 worker(s) x 2 thread(s)

Parallel reduction/worker buffer size: 1 KB  / 0 KB

[00:00:00] Generating 20 random starting tree(s) with 961 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 193 / 15440
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -637003.789215] Initial branch length optimization
[00:00:04 -531228.652609] Model parameter optimization (eps = 10.000000)
[00:00:58 -529231.057153] AUTODETECT spr round 1 (radius: 5)
[00:03:46 -373936.819957] AUTODETECT spr round 2 (radius: 10)
[00:06:50 -282930.644858] AUTODETECT spr round 3 (radius: 15)
[00:10:14 -221103.913281] AUTODETECT spr round 4 (radius: 20)
[00:13:41 -204556.341096] AUTODETECT spr round 5 (radius: 25)
[00:17:45 -201260.582673] SPR radius for FAST iterations: 25 (autodetect)
[00:17:45 -201260.582673] Model parameter optimization (eps = 3.000000)
[00:18:11 -201114.670579] FAST spr round 1 (radius: 25)
[00:21:28 -173904.220185] FAST spr round 2 (radius: 25)
[00:24:01 -172752.787551] FAST spr round 3 (radius: 25)
[00:26:10 -172637.117532] FAST spr round 4 (radius: 25)
[00:28:03 -172617.237096] FAST spr round 5 (radius: 25)
[00:29:50 -172617.236840] Model parameter optimization (eps = 1.000000)
[00:30:05 -172616.205581] SLOW spr round 1 (radius: 5)
[00:32:41 -172574.590110] SLOW spr round 2 (radius: 5)
[00:35:13 -172567.765510] SLOW spr round 3 (radius: 5)
[00:37:39 -172561.531563] SLOW spr round 4 (radius: 5)
[00:40:02 -172560.477632] SLOW spr round 5 (radius: 5)
[00:42:22 -172560.477539] SLOW spr round 6 (radius: 10)
[00:44:49 -172559.894395] SLOW spr round 7 (radius: 5)
[00:47:51 -172558.296023] SLOW spr round 8 (radius: 5)
[00:50:31 -172555.822789] SLOW spr round 9 (radius: 5)
[00:52:59 -172555.820263] SLOW spr round 10 (radius: 10)
[00:55:26 -172555.819251] SLOW spr round 11 (radius: 15)
[00:59:37 -172555.818865] SLOW spr round 12 (radius: 20)
[01:05:02 -172555.818718] SLOW spr round 13 (radius: 25)
[01:05:20] [worker #2] ML tree search #3, logLikelihood: -172548.821590
[01:11:25 -172555.818662] Model parameter optimization (eps = 0.100000)

[01:11:42] [worker #0] ML tree search #1, logLikelihood: -172552.938043

[01:11:42 -635514.337056] Initial branch length optimization
[01:11:47 -531000.083402] Model parameter optimization (eps = 10.000000)
[01:12:29 -528999.891901] AUTODETECT spr round 1 (radius: 5)
[01:15:02 -376422.325182] AUTODETECT spr round 2 (radius: 10)
[01:17:50 -273474.461332] AUTODETECT spr round 3 (radius: 15)
[01:20:42 -222877.983969] AUTODETECT spr round 4 (radius: 20)
[01:23:56 -204705.639540] AUTODETECT spr round 5 (radius: 25)
[01:27:47 -198171.755257] SPR radius for FAST iterations: 25 (autodetect)
[01:27:47 -198171.755257] Model parameter optimization (eps = 3.000000)
[01:28:14 -198069.758104] FAST spr round 1 (radius: 25)
[01:31:11 -173279.467127] FAST spr round 2 (radius: 25)
[01:33:27 -172635.230390] FAST spr round 3 (radius: 25)
[01:35:22 -172602.028676] FAST spr round 4 (radius: 25)
[01:36:05] [worker #1] ML tree search #2, logLikelihood: -172544.512603
[01:37:05 -172601.066619] FAST spr round 5 (radius: 25)
[01:38:44 -172601.066431] Model parameter optimization (eps = 1.000000)
[01:38:55 -172599.735697] SLOW spr round 1 (radius: 5)
[01:41:21 -172544.533332] SLOW spr round 2 (radius: 5)
[01:43:40 -172539.956209] SLOW spr round 3 (radius: 5)
[01:45:54 -172539.956027] SLOW spr round 4 (radius: 10)
[01:48:08 -172539.956024] SLOW spr round 5 (radius: 15)
[01:52:07 -172539.956023] SLOW spr round 6 (radius: 20)
[01:57:13 -172539.956022] SLOW spr round 7 (radius: 25)
[02:03:51 -172539.956022] Model parameter optimization (eps = 0.100000)

[02:03:59] [worker #0] ML tree search #4, logLikelihood: -172539.827400

[02:03:59 -636288.926793] Initial branch length optimization
[02:04:02 -530629.408060] Model parameter optimization (eps = 10.000000)
[02:04:56 -528679.222840] AUTODETECT spr round 1 (radius: 5)
[02:06:52] [worker #2] ML tree search #6, logLikelihood: -172570.316364
[02:07:27 -372327.242639] AUTODETECT spr round 2 (radius: 10)
[02:10:15 -279180.062931] AUTODETECT spr round 3 (radius: 15)
[02:13:12 -242196.345039] AUTODETECT spr round 4 (radius: 20)
[02:16:39 -209115.126253] AUTODETECT spr round 5 (radius: 25)
[02:20:07 -203440.655053] SPR radius for FAST iterations: 25 (autodetect)
[02:20:07 -203440.655053] Model parameter optimization (eps = 3.000000)
[02:20:30 -203307.702828] FAST spr round 1 (radius: 25)
[02:23:32 -173921.656896] FAST spr round 2 (radius: 25)
[02:25:45 -172721.317056] FAST spr round 3 (radius: 25)
[02:27:45 -172630.521011] FAST spr round 4 (radius: 25)
[02:29:31 -172610.356315] FAST spr round 5 (radius: 25)
[02:31:10 -172607.870479] FAST spr round 6 (radius: 25)
[02:32:47 -172607.870095] Model parameter optimization (eps = 1.000000)
[02:32:57 -172603.024251] SLOW spr round 1 (radius: 5)
[02:34:25] [worker #1] ML tree search #5, logLikelihood: -172545.090058
[02:35:17 -172559.274660] SLOW spr round 2 (radius: 5)
[02:37:33 -172557.628415] SLOW spr round 3 (radius: 5)
[02:39:45 -172557.627689] SLOW spr round 4 (radius: 10)
[02:42:01 -172553.397740] SLOW spr round 5 (radius: 5)
[02:44:49 -172547.286940] SLOW spr round 6 (radius: 5)
[02:47:16 -172545.911647] SLOW spr round 7 (radius: 5)
[02:49:32 -172545.911641] SLOW spr round 8 (radius: 10)
[02:51:54 -172545.671161] SLOW spr round 9 (radius: 5)
[02:54:54 -172545.671129] SLOW spr round 10 (radius: 10)
[02:57:40 -172545.671128] SLOW spr round 11 (radius: 15)
[03:01:46 -172545.671128] SLOW spr round 12 (radius: 20)
[03:07:56 -172545.671128] SLOW spr round 13 (radius: 25)
[03:09:57] [worker #2] ML tree search #9, logLikelihood: -172546.982403
[03:15:30 -172545.671128] Model parameter optimization (eps = 0.100000)

[03:15:35] [worker #0] ML tree search #7, logLikelihood: -172545.661032

[03:15:35 -633143.013093] Initial branch length optimization
[03:15:40 -533090.566053] Model parameter optimization (eps = 10.000000)
[03:16:29 -531078.838393] AUTODETECT spr round 1 (radius: 5)
[03:19:15 -368582.226180] AUTODETECT spr round 2 (radius: 10)
[03:22:18 -274757.461602] AUTODETECT spr round 3 (radius: 15)
[03:25:35 -227133.258658] AUTODETECT spr round 4 (radius: 20)
[03:29:21 -208461.081693] AUTODETECT spr round 5 (radius: 25)
[03:33:25 -202871.064509] SPR radius for FAST iterations: 25 (autodetect)
[03:33:25 -202871.064509] Model parameter optimization (eps = 3.000000)
[03:33:50 -202735.501570] FAST spr round 1 (radius: 25)
[03:34:17] [worker #1] ML tree search #8, logLikelihood: -172539.945732
[03:37:23 -174183.330855] FAST spr round 2 (radius: 25)
[03:39:51 -172729.760675] FAST spr round 3 (radius: 25)
[03:42:08 -172614.584680] FAST spr round 4 (radius: 25)
[03:44:04 -172608.199531] FAST spr round 5 (radius: 25)
[03:45:52 -172608.174316] Model parameter optimization (eps = 1.000000)
[03:46:00 -172607.205921] SLOW spr round 1 (radius: 5)
[03:48:35 -172558.637982] SLOW spr round 2 (radius: 5)
[03:51:05 -172555.768754] SLOW spr round 3 (radius: 5)
[03:53:30 -172555.767550] SLOW spr round 4 (radius: 10)
[03:56:00 -172555.601756] SLOW spr round 5 (radius: 5)
[03:59:02 -172555.589667] SLOW spr round 6 (radius: 10)
[04:01:48 -172555.587272] SLOW spr round 7 (radius: 15)
[04:05:55 -172555.586088] SLOW spr round 8 (radius: 20)
[04:11:39] [worker #2] ML tree search #12, logLikelihood: -172539.872042
[04:11:41 -172555.585039] SLOW spr round 9 (radius: 25)
[04:18:35 -172555.583996] Model parameter optimization (eps = 0.100000)

[04:18:40] [worker #0] ML tree search #10, logLikelihood: -172555.542070

[04:18:40 -631318.451070] Initial branch length optimization
[04:18:45 -526818.285476] Model parameter optimization (eps = 10.000000)
[04:19:43 -524879.862434] AUTODETECT spr round 1 (radius: 5)
[04:22:17 -374460.802281] AUTODETECT spr round 2 (radius: 10)
[04:25:08 -272149.266061] AUTODETECT spr round 3 (radius: 15)
[04:27:59 -218541.186529] AUTODETECT spr round 4 (radius: 20)
[04:29:27] [worker #1] ML tree search #11, logLikelihood: -172545.957893
[04:31:56 -202873.034220] AUTODETECT spr round 5 (radius: 25)
[04:36:02 -197295.596966] SPR radius for FAST iterations: 25 (autodetect)
[04:36:02 -197295.596966] Model parameter optimization (eps = 3.000000)
[04:36:20 -197170.853112] FAST spr round 1 (radius: 25)
[04:39:26 -174111.821013] FAST spr round 2 (radius: 25)
[04:41:43 -172696.872536] FAST spr round 3 (radius: 25)
[04:43:45 -172637.318364] FAST spr round 4 (radius: 25)
[04:45:29 -172632.402851] FAST spr round 5 (radius: 25)
[04:47:07 -172632.344768] Model parameter optimization (eps = 1.000000)
[04:47:27 -172627.613510] SLOW spr round 1 (radius: 5)
[04:49:49 -172568.380341] SLOW spr round 2 (radius: 5)
[04:52:07 -172568.040282] SLOW spr round 3 (radius: 5)
[04:54:19 -172568.040149] SLOW spr round 4 (radius: 10)
[04:56:37 -172568.040122] SLOW spr round 5 (radius: 15)
[05:00:37 -172568.040113] SLOW spr round 6 (radius: 20)
[05:05:57 -172566.054901] SLOW spr round 7 (radius: 5)
[05:08:54 -172566.045861] SLOW spr round 8 (radius: 10)
[05:09:17] [worker #2] ML tree search #15, logLikelihood: -172557.243318
[05:11:43 -172566.044633] SLOW spr round 9 (radius: 15)
[05:15:22 -172566.044473] SLOW spr round 10 (radius: 20)
[05:20:51 -172565.407279] SLOW spr round 11 (radius: 5)
[05:23:47 -172565.407209] SLOW spr round 12 (radius: 10)
[05:26:35 -172565.407208] SLOW spr round 13 (radius: 15)
[05:30:13 -172565.407208] SLOW spr round 14 (radius: 20)
[05:32:48] [worker #1] ML tree search #14, logLikelihood: -172551.065739
[05:35:39 -172565.407208] SLOW spr round 15 (radius: 25)
[05:42:32 -172565.407208] Model parameter optimization (eps = 0.100000)

[05:42:37] [worker #0] ML tree search #13, logLikelihood: -172565.368238

[05:42:37 -635482.295213] Initial branch length optimization
[05:42:42 -533222.990189] Model parameter optimization (eps = 10.000000)
[05:43:31 -531203.926440] AUTODETECT spr round 1 (radius: 5)
[05:46:01 -368434.023753] AUTODETECT spr round 2 (radius: 10)
[05:48:49 -263570.495897] AUTODETECT spr round 3 (radius: 15)
[05:51:43 -217143.714294] AUTODETECT spr round 4 (radius: 20)
[05:55:06 -204000.023555] AUTODETECT spr round 5 (radius: 25)
[05:58:48 -198806.497246] SPR radius for FAST iterations: 25 (autodetect)
[05:58:48 -198806.497246] Model parameter optimization (eps = 3.000000)
[05:59:06 -198680.063672] FAST spr round 1 (radius: 25)
[06:02:08 -173837.703964] FAST spr round 2 (radius: 25)
[06:04:22 -172751.996613] FAST spr round 3 (radius: 25)
[06:06:19 -172632.301916] FAST spr round 4 (radius: 25)
[06:08:04 -172622.315411] FAST spr round 5 (radius: 25)
[06:09:44 -172619.150604] FAST spr round 6 (radius: 25)
[06:11:21 -172619.150266] Model parameter optimization (eps = 1.000000)
[06:11:34 -172617.281828] SLOW spr round 1 (radius: 5)
[06:13:57 -172560.307882] SLOW spr round 2 (radius: 5)
[06:15:06] [worker #2] ML tree search #18, logLikelihood: -172534.789160
[06:16:12 -172553.159034] SLOW spr round 3 (radius: 5)
[06:18:23 -172553.038974] SLOW spr round 4 (radius: 5)
[06:20:30 -172553.038682] SLOW spr round 5 (radius: 10)
[06:22:41 -172553.038628] SLOW spr round 6 (radius: 15)
[06:26:19 -172553.038611] SLOW spr round 7 (radius: 20)
[06:30:49] [worker #1] ML tree search #17, logLikelihood: -172543.366443
[06:30:59 -172553.038604] SLOW spr round 8 (radius: 25)
[06:37:03 -172553.038602] Model parameter optimization (eps = 0.100000)

[06:37:16] [worker #0] ML tree search #16, logLikelihood: -172550.091226

[06:37:16 -631657.709445] Initial branch length optimization
[06:37:21 -530789.984681] Model parameter optimization (eps = 10.000000)
[06:38:04 -528722.451114] AUTODETECT spr round 1 (radius: 5)
[06:40:27 -369820.066506] AUTODETECT spr round 2 (radius: 10)
[06:42:58 -287880.668512] AUTODETECT spr round 3 (radius: 15)
[06:45:45 -231296.774125] AUTODETECT spr round 4 (radius: 20)
[06:49:05 -207685.283603] AUTODETECT spr round 5 (radius: 25)
[06:52:18 -203662.972550] SPR radius for FAST iterations: 25 (autodetect)
[06:52:18 -203662.972550] Model parameter optimization (eps = 3.000000)
[06:52:36 -203489.528454] FAST spr round 1 (radius: 25)
[06:55:34 -173772.534218] FAST spr round 2 (radius: 25)
[06:57:41 -172725.322053] FAST spr round 3 (radius: 25)
[06:59:37 -172612.756906] FAST spr round 4 (radius: 25)
[07:01:19 -172591.237499] FAST spr round 5 (radius: 25)
[07:02:53 -172587.823472] FAST spr round 6 (radius: 25)
[07:04:34 -172587.823426] Model parameter optimization (eps = 1.000000)
[07:04:47 -172585.008369] SLOW spr round 1 (radius: 5)
[07:07:25 -172544.691782] SLOW spr round 2 (radius: 5)
[07:09:55 -172540.584433] SLOW spr round 3 (radius: 5)
[07:12:24 -172535.548631] SLOW spr round 4 (radius: 5)
[07:14:46 -172535.548153] SLOW spr round 5 (radius: 10)
[07:17:17 -172535.547714] SLOW spr round 6 (radius: 15)
[07:21:50 -172535.547706] SLOW spr round 7 (radius: 20)
[07:27:41 -172534.933746] SLOW spr round 8 (radius: 5)
[07:30:55 -172534.933673] SLOW spr round 9 (radius: 10)
[07:33:10] [worker #1] ML tree search #20, logLikelihood: -172536.757918
[07:34:03 -172534.933672] SLOW spr round 10 (radius: 15)
[07:38:09 -172534.933672] SLOW spr round 11 (radius: 20)
[07:44:07 -172534.933672] SLOW spr round 12 (radius: 25)
[07:51:46 -172534.933672] Model parameter optimization (eps = 0.100000)

[07:51:52] [worker #0] ML tree search #19, logLikelihood: -172534.882861


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.217283,0.338290) (0.194759,0.363361) (0.302005,0.921547) (0.285953,2.019266) 
   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: -172534.789160

AIC score: 348919.578320 / AICc score: 7764019.578320 / BIC score: 356529.571738
Free parameters (model + branch lengths): 1925

WARNING: Number of free parameters (K=1925) is larger than alignment size (n=385).
         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/Q9UNM6/3_mltree/Q9UNM6.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/3_mltree/Q9UNM6.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/3_mltree/Q9UNM6.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9UNM6/3_mltree/Q9UNM6.raxml.log

Analysis started: 30-Jun-2021 18:09:10 / finished: 01-Jul-2021 02:01:03

Elapsed time: 28312.446 seconds

Consumed energy: 2580.301 Wh (= 13 km in an electric car, or 65 km with an e-scooter!)