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 04-Jul-2021 16:32:10 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/2_msa/Q6ZS81_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81 --seed 2 --threads 7 --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 (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/2_msa/Q6ZS81_trimmed_msa.fasta
[00:00:00] Loaded alignment with 977 taxa and 545 sites

WARNING: Sequences tr_M3XV53_M3XV53_MUSPF_9669 and tr_A0A2Y9KZ75_A0A2Y9KZ75_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YG96_M3YG96_MUSPF_9669 and tr_D2GX72_D2GX72_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3YG96_M3YG96_MUSPF_9669 and tr_M3VZG1_M3VZG1_FELCA_9685 are exactly identical!
WARNING: Sequences tr_M3YG96_M3YG96_MUSPF_9669 and tr_A0A2Y9KMF9_A0A2Y9KMF9_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YG96_M3YG96_MUSPF_9669 and tr_A0A384C9Q3_A0A384C9Q3_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G1RDI2_G1RDI2_NOMLE_61853 and tr_H2PDT6_H2PDT6_PONAB_9601 are exactly identical!
WARNING: Sequences tr_J3K8N3_J3K8N3_COCIM_246410 and tr_A0A0J6YAJ7_A0A0J6YAJ7_COCIT_404692 are exactly identical!
WARNING: Sequences tr_D8SFW0_D8SFW0_SELML_88036 and tr_D8TCV2_D8TCV2_SELML_88036 are exactly identical!
WARNING: Sequences tr_Q7SHY2_Q7SHY2_NEUCR_367110 and tr_G4U7U3_G4U7U3_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_F6XA80_F6XA80_CANLF_9615 and tr_G1L8X0_G1L8X0_AILME_9646 are exactly identical!
WARNING: Sequences tr_A0A2I3SYM6_A0A2I3SYM6_PANTR_9598 and tr_A0A2R9A0K2_A0A2R9A0K2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2QPU0_H2QPU0_PANTR_9598 and sp_Q8IZQ1_WDFY3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2QPU0_H2QPU0_PANTR_9598 and tr_A0A2R9CBV9_A0A2R9CBV9_PANPA_9597 are exactly identical!
WARNING: Sequences tr_W5NZW5_W5NZW5_SHEEP_9940 and tr_E1BPS3_E1BPS3_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_J4UN41_J4UN41_BEAB2_655819 and tr_A0A0A2VMY6_A0A0A2VMY6_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_G9NNR1_G9NNR1_HYPAI_452589 and tr_A0A2P4ZJA9_A0A2P4ZJA9_9HYPO_398673 are exactly identical!
WARNING: Sequences tr_Q2U427_Q2U427_ASPOR_510516 and tr_A0A1S9DHC9_A0A1S9DHC9_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A2QMZ5_A2QMZ5_ASPNC_425011 and tr_A0A319ASU2_A0A319ASU2_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_A0A1D5QGT9_A0A1D5QGT9_MACMU_9544 and tr_G7P517_G7P517_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5QGT9_A0A1D5QGT9_MACMU_9544 and tr_A0A096MWM6_A0A096MWM6_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QGT9_A0A1D5QGT9_MACMU_9544 and tr_A0A2K5L9D9_A0A2K5L9D9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5QGT9_A0A1D5QGT9_MACMU_9544 and tr_A0A2K6CVR0_A0A2K6CVR0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7ETS3_F7ETS3_MACMU_9544 and tr_G7NXI8_G7NXI8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7ETS3_F7ETS3_MACMU_9544 and tr_A0A096MPT8_A0A096MPT8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G7XH04_G7XH04_ASPKW_1033177 and tr_A0A146F1D6_A0A146F1D6_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_I1PFD6_I1PFD6_ORYGL_4538 and tr_A0A0E0P160_A0A0E0P160_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_I1PFD6_I1PFD6_ORYGL_4538 and tr_A0A0D3FNY2_A0A0D3FNY2_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_I1PFD6_I1PFD6_ORYGL_4538 and tr_A0A0D9ZD04_A0A0D9ZD04_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_G2YQS7_G2YQS7_BOTF4_999810 and tr_M7URG2_M7URG2_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_A0A0D2XBL4_A0A0D2XBL4_FUSO4_426428 and tr_N4TKE6_N4TKE6_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_A0A0D2XBL4_A0A0D2XBL4_FUSO4_426428 and tr_X0BSZ4_X0BSZ4_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_A0A0D2XBL4_A0A0D2XBL4_FUSO4_426428 and tr_A0A2H3SQV3_A0A2H3SQV3_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_G7PEU3_G7PEU3_MACFA_9541 and tr_A0A2K6AMA8_A0A2K6AMA8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F1MLZ4_F1MLZ4_BOVIN_9913 and sp_Q9TTK4_LYST_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_U3JS34_U3JS34_FICAL_59894 and tr_A0A091FUH1_A0A091FUH1_CORBR_85066 are exactly identical!
WARNING: Sequences tr_S0DP11_S0DP11_GIBF5_1279085 and tr_A0A365MVG9_A0A365MVG9_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_W2PU23_W2PU23_PHYPN_761204 and tr_W2KNC0_W2KNC0_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_W2QSZ7_W2QSZ7_PHYPN_761204 and tr_A0A0W8BVE8_A0A0W8BVE8_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_W2QSZ7_W2QSZ7_PHYPN_761204 and tr_W2JZK2_W2JZK2_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A015LMU6_A0A015LMU6_9GLOM_1432141 and tr_A0A2H5RZT9_A0A2H5RZT9_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A067FZI5_A0A067FZI5_CITSI_2711 and tr_V4VVC3_V4VVC3_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_A0A067FZI5_A0A067FZI5_CITSI_2711 and tr_A0A2H5PTP1_A0A2H5PTP1_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A094EUM2_A0A094EUM2_9PEZI_1420912 and tr_A0A1B8G6Y2_A0A1B8G6Y2_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0F8VV81_A0A0F8VV81_9EURO_308745 and tr_A0A2T5M9X1_A0A2T5M9X1_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A091J7P0_A0A091J7P0_EGRGA_188379 and tr_A0A091UPV5_A0A091UPV5_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A091J7P0_A0A091J7P0_EGRGA_188379 and tr_A0A087R3Z2_A0A087R3Z2_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091J7P0_A0A091J7P0_EGRGA_188379 and tr_A0A0A0AXP7_A0A0A0AXP7_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A0L9TX07_A0A0L9TX07_PHAAN_3914 and tr_A0A1S3V4K2_A0A1S3V4K2_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A091VSX4_A0A091VSX4_NIPNI_128390 and tr_A0A1V4JKJ5_A0A1V4JKJ5_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A0V1CDN0_A0A0V1CDN0_TRIBR_45882 and tr_A0A0V0TC87_A0A0V0TC87_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V1CG95_A0A0V1CG95_TRIBR_45882 and tr_A0A0V0WCE8_A0A0V0WCE8_9BILA_92179 are exactly identical!
WARNING: Sequences tr_A0A0V1CG95_A0A0V1CG95_TRIBR_45882 and tr_A0A0V0VEV7_A0A0V0VEV7_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CG95_A0A0V1CG95_TRIBR_45882 and tr_A0A0V1KYD0_A0A0V1KYD0_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1CG95_A0A0V1CG95_TRIBR_45882 and tr_A0A0V1NVE9_A0A0V1NVE9_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CG95_A0A0V1CG95_TRIBR_45882 and tr_A0A0V0UDH9_A0A0V0UDH9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A100IE27_A0A100IE27_ASPNG_5061 and tr_A0A1L9MXZ7_A0A1L9MXZ7_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A0A1S4C7J3_A0A1S4C7J3_TOBAC_4097 and tr_A0A1U7X3K5_A0A1U7X3K5_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A2G2ZXU7_A0A2G2ZXU7_CAPAN_4072 and tr_A0A2G3CTM5_A0A2G3CTM5_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2N5SR31_A0A2N5SR31_9BASI_200324 and tr_A0A2N5VKA8_A0A2N5VKA8_9BASI_200324 are exactly identical!
WARNING: Sequences tr_A0A2U4AMN7_A0A2U4AMN7_TURTR_9739 and tr_A0A2Y9M8G0_A0A2Y9M8G0_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4AMN7_A0A2U4AMN7_TURTR_9739 and tr_A0A384AXN8_A0A384AXN8_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 61

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/Q6ZS81/3_mltree/Q6ZS81.raxml.reduced.phy

Alignment comprises 1 partitions and 545 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 545 / 545
Gaps: 3.65 %
Invariant sites: 0.73 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 7 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 977 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 78 / 6240
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -847066.261788] Initial branch length optimization
[00:00:04 -723166.554612] Model parameter optimization (eps = 10.000000)
[00:00:27 -721071.367917] AUTODETECT spr round 1 (radius: 5)
[00:02:03 -455560.122475] AUTODETECT spr round 2 (radius: 10)
[00:03:55 -320642.302539] AUTODETECT spr round 3 (radius: 15)
[00:05:47 -245027.200231] AUTODETECT spr round 4 (radius: 20)
[00:07:43 -224449.611320] AUTODETECT spr round 5 (radius: 25)
[00:09:50 -222073.342150] SPR radius for FAST iterations: 25 (autodetect)
[00:09:50 -222073.342150] Model parameter optimization (eps = 3.000000)
[00:10:07 -221997.745590] FAST spr round 1 (radius: 25)
[00:11:54 -197405.787935] FAST spr round 2 (radius: 25)
[00:13:28 -196069.141429] FAST spr round 3 (radius: 25)
[00:14:53 -195961.865840] FAST spr round 4 (radius: 25)
[00:16:10 -195951.667363] FAST spr round 5 (radius: 25)
[00:17:24 -195951.666462] Model parameter optimization (eps = 1.000000)
[00:17:34 -195939.702644] SLOW spr round 1 (radius: 5)
[00:19:09 -195915.761827] SLOW spr round 2 (radius: 5)
[00:20:42 -195913.095185] SLOW spr round 3 (radius: 5)
[00:22:13 -195913.093356] SLOW spr round 4 (radius: 10)
[00:23:47 -195912.033517] SLOW spr round 5 (radius: 5)
[00:25:41 -195912.033467] SLOW spr round 6 (radius: 10)
[00:27:23 -195912.033437] SLOW spr round 7 (radius: 15)
[00:29:41 -195911.745621] SLOW spr round 8 (radius: 5)
[00:31:39 -195911.742353] SLOW spr round 9 (radius: 10)
[00:33:26 -195911.741222] SLOW spr round 10 (radius: 15)
[00:35:44 -195911.740877] SLOW spr round 11 (radius: 20)
[00:39:15 -195911.740681] SLOW spr round 12 (radius: 25)
[00:43:34 -195911.740607] Model parameter optimization (eps = 0.100000)

[00:43:38] ML tree search #1, logLikelihood: -195911.709543

[00:43:38 -841099.055968] Initial branch length optimization
[00:43:41 -715389.156250] Model parameter optimization (eps = 10.000000)
[00:44:10 -713404.816956] AUTODETECT spr round 1 (radius: 5)
[00:45:46 -474300.681703] AUTODETECT spr round 2 (radius: 10)
[00:47:38 -342784.510582] AUTODETECT spr round 3 (radius: 15)
[00:49:32 -270106.915582] AUTODETECT spr round 4 (radius: 20)
[00:51:45 -245775.079661] AUTODETECT spr round 5 (radius: 25)
[00:54:08 -238335.477022] SPR radius for FAST iterations: 25 (autodetect)
[00:54:08 -238335.477022] Model parameter optimization (eps = 3.000000)
[00:54:28 -238263.504339] FAST spr round 1 (radius: 25)
[00:56:24 -197497.390577] FAST spr round 2 (radius: 25)
[00:57:55 -196062.697353] FAST spr round 3 (radius: 25)
[00:59:21 -195986.757724] FAST spr round 4 (radius: 25)
[01:00:38 -195976.375290] FAST spr round 5 (radius: 25)
[01:01:53 -195976.373973] Model parameter optimization (eps = 1.000000)
[01:02:06 -195957.824787] SLOW spr round 1 (radius: 5)
[01:03:40 -195914.645551] SLOW spr round 2 (radius: 5)
[01:05:16 -195907.885909] SLOW spr round 3 (radius: 5)
[01:06:47 -195907.058399] SLOW spr round 4 (radius: 5)
[01:08:17 -195907.058122] SLOW spr round 5 (radius: 10)
[01:09:52 -195907.057968] SLOW spr round 6 (radius: 15)
[01:12:16 -195906.847704] SLOW spr round 7 (radius: 5)
[01:14:15 -195906.843592] SLOW spr round 8 (radius: 10)
[01:16:01 -195906.842221] SLOW spr round 9 (radius: 15)
[01:18:19 -195906.841714] SLOW spr round 10 (radius: 20)
[01:21:44 -195906.841514] SLOW spr round 11 (radius: 25)
[01:25:58 -195906.841425] Model parameter optimization (eps = 0.100000)

[01:26:05] ML tree search #2, logLikelihood: -195906.565214

[01:26:05 -843743.460078] Initial branch length optimization
[01:26:08 -714969.025365] Model parameter optimization (eps = 10.000000)
[01:26:30 -713056.427326] AUTODETECT spr round 1 (radius: 5)
[01:28:08 -476226.764048] AUTODETECT spr round 2 (radius: 10)
[01:29:58 -341594.124856] AUTODETECT spr round 3 (radius: 15)
[01:31:48 -281533.362834] AUTODETECT spr round 4 (radius: 20)
[01:33:47 -240059.395584] AUTODETECT spr round 5 (radius: 25)
[01:36:10 -236511.794286] SPR radius for FAST iterations: 25 (autodetect)
[01:36:10 -236511.794286] Model parameter optimization (eps = 3.000000)
[01:36:29 -236420.563706] FAST spr round 1 (radius: 25)
[01:38:22 -197549.522950] FAST spr round 2 (radius: 25)
[01:39:54 -196057.217942] FAST spr round 3 (radius: 25)
[01:41:18 -195970.403502] FAST spr round 4 (radius: 25)
[01:42:35 -195963.147575] FAST spr round 5 (radius: 25)
[01:43:49 -195963.147521] Model parameter optimization (eps = 1.000000)
[01:44:00 -195953.491226] SLOW spr round 1 (radius: 5)
[01:45:35 -195915.395118] SLOW spr round 2 (radius: 5)
[01:47:08 -195909.156971] SLOW spr round 3 (radius: 5)
[01:48:39 -195909.154890] SLOW spr round 4 (radius: 10)
[01:50:15 -195908.498724] SLOW spr round 5 (radius: 5)
[01:52:08 -195908.498188] SLOW spr round 6 (radius: 10)
[01:53:51 -195908.497827] SLOW spr round 7 (radius: 15)
[01:56:05 -195908.275256] SLOW spr round 8 (radius: 5)
[01:58:04 -195908.271149] SLOW spr round 9 (radius: 10)
[01:59:51 -195908.269773] SLOW spr round 10 (radius: 15)
[02:02:05 -195908.269245] SLOW spr round 11 (radius: 20)
[02:05:27 -195904.191785] SLOW spr round 12 (radius: 5)
[02:07:28 -195904.191528] SLOW spr round 13 (radius: 10)
[02:09:19 -195904.191426] SLOW spr round 14 (radius: 15)
[02:11:33 -195904.191351] SLOW spr round 15 (radius: 20)
[02:14:54 -195904.191284] SLOW spr round 16 (radius: 25)
[02:19:02 -195904.191219] Model parameter optimization (eps = 0.100000)

[02:19:05] ML tree search #3, logLikelihood: -195904.187032

[02:19:05 -846936.359927] Initial branch length optimization
[02:19:10 -720497.448990] Model parameter optimization (eps = 10.000000)
[02:19:34 -718382.609505] AUTODETECT spr round 1 (radius: 5)
[02:21:13 -470901.131985] AUTODETECT spr round 2 (radius: 10)
[02:23:03 -331499.881506] AUTODETECT spr round 3 (radius: 15)
[02:24:56 -260440.530485] AUTODETECT spr round 4 (radius: 20)
[02:26:58 -234787.937039] AUTODETECT spr round 5 (radius: 25)
[02:29:13 -231125.552625] SPR radius for FAST iterations: 25 (autodetect)
[02:29:13 -231125.552625] Model parameter optimization (eps = 3.000000)
[02:29:29 -231040.820660] FAST spr round 1 (radius: 25)
[02:31:22 -197567.034609] FAST spr round 2 (radius: 25)
[02:32:53 -196055.309679] FAST spr round 3 (radius: 25)
[02:34:17 -195997.655417] FAST spr round 4 (radius: 25)
[02:35:34 -195977.657140] FAST spr round 5 (radius: 25)
[02:36:49 -195971.678545] FAST spr round 6 (radius: 25)
[02:38:02 -195971.677967] Model parameter optimization (eps = 1.000000)
[02:38:13 -195960.450322] SLOW spr round 1 (radius: 5)
[02:39:45 -195914.203822] SLOW spr round 2 (radius: 5)
[02:41:18 -195909.914226] SLOW spr round 3 (radius: 5)
[02:42:49 -195909.469878] SLOW spr round 4 (radius: 5)
[02:44:19 -195909.469716] SLOW spr round 5 (radius: 10)
[02:45:53 -195908.814391] SLOW spr round 6 (radius: 5)
[02:47:46 -195908.814367] SLOW spr round 7 (radius: 10)
[02:49:28 -195908.814356] SLOW spr round 8 (radius: 15)
[02:51:46 -195908.369340] SLOW spr round 9 (radius: 5)
[02:53:45 -195908.365216] SLOW spr round 10 (radius: 10)
[02:55:31 -195908.363859] SLOW spr round 11 (radius: 15)
[02:57:48 -195908.363377] SLOW spr round 12 (radius: 20)
[03:01:13 -195908.363203] SLOW spr round 13 (radius: 25)
[03:05:28 -195908.363140] Model parameter optimization (eps = 0.100000)

[03:05:31] ML tree search #4, logLikelihood: -195908.316967

[03:05:32 -845018.800204] Initial branch length optimization
[03:05:35 -719755.119323] Model parameter optimization (eps = 10.000000)
[03:06:03 -717755.786459] AUTODETECT spr round 1 (radius: 5)
[03:07:41 -473152.922000] AUTODETECT spr round 2 (radius: 10)
[03:09:33 -334337.848018] AUTODETECT spr round 3 (radius: 15)
[03:11:26 -256157.806664] AUTODETECT spr round 4 (radius: 20)
[03:13:44 -232365.791243] AUTODETECT spr round 5 (radius: 25)
[03:16:33 -227555.217062] SPR radius for FAST iterations: 25 (autodetect)
[03:16:33 -227555.217062] Model parameter optimization (eps = 3.000000)
[03:16:56 -227469.926380] FAST spr round 1 (radius: 25)
[03:18:39 -197509.369811] FAST spr round 2 (radius: 25)
[03:20:07 -196027.343126] FAST spr round 3 (radius: 25)
[03:21:29 -195965.580910] FAST spr round 4 (radius: 25)
[03:22:47 -195957.395406] FAST spr round 5 (radius: 25)
[03:24:02 -195957.394406] Model parameter optimization (eps = 1.000000)
[03:24:13 -195952.437442] SLOW spr round 1 (radius: 5)
[03:25:47 -195907.806271] SLOW spr round 2 (radius: 5)
[03:27:21 -195904.365230] SLOW spr round 3 (radius: 5)
[03:28:52 -195903.973068] SLOW spr round 4 (radius: 5)
[03:30:22 -195903.973017] SLOW spr round 5 (radius: 10)
[03:31:57 -195903.972985] SLOW spr round 6 (radius: 15)
[03:34:22 -195903.205525] SLOW spr round 7 (radius: 5)
[03:36:21 -195903.200804] SLOW spr round 8 (radius: 10)
[03:38:07 -195903.200047] SLOW spr round 9 (radius: 15)
[03:40:24 -195903.199885] SLOW spr round 10 (radius: 20)
[03:43:46 -195903.199831] SLOW spr round 11 (radius: 25)
[03:47:52 -195903.199796] Model parameter optimization (eps = 0.100000)

[03:47:57] ML tree search #5, logLikelihood: -195903.129318

[03:47:57 -845748.081687] Initial branch length optimization
[03:48:00 -717793.558142] Model parameter optimization (eps = 10.000000)
[03:48:24 -715835.218585] AUTODETECT spr round 1 (radius: 5)
[03:50:02 -478724.826802] AUTODETECT spr round 2 (radius: 10)
[03:51:53 -348695.316932] AUTODETECT spr round 3 (radius: 15)
[03:53:52 -271674.820427] AUTODETECT spr round 4 (radius: 20)
[03:55:53 -237170.975910] AUTODETECT spr round 5 (radius: 25)
[03:58:16 -233782.358931] SPR radius for FAST iterations: 25 (autodetect)
[03:58:16 -233782.358931] Model parameter optimization (eps = 3.000000)
[03:58:31 -233703.249813] FAST spr round 1 (radius: 25)
[04:00:24 -197161.640385] FAST spr round 2 (radius: 25)
[04:01:58 -196036.423412] FAST spr round 3 (radius: 25)
[04:03:23 -195966.383862] FAST spr round 4 (radius: 25)
[04:04:42 -195951.869058] FAST spr round 5 (radius: 25)
[04:05:58 -195951.636756] FAST spr round 6 (radius: 25)
[04:07:13 -195947.466876] FAST spr round 7 (radius: 25)
[04:08:27 -195947.464905] Model parameter optimization (eps = 1.000000)
[04:08:38 -195939.549997] SLOW spr round 1 (radius: 5)
[04:10:11 -195905.295810] SLOW spr round 2 (radius: 5)
[04:11:42 -195905.230760] SLOW spr round 3 (radius: 10)
[04:13:17 -195905.230264] SLOW spr round 4 (radius: 15)
[04:15:43 -195905.230234] SLOW spr round 5 (radius: 20)
[04:19:09 -195904.987769] SLOW spr round 6 (radius: 5)
[04:21:09 -195904.983501] SLOW spr round 7 (radius: 10)
[04:22:57 -195904.982061] SLOW spr round 8 (radius: 15)
[04:25:15 -195904.981527] SLOW spr round 9 (radius: 20)
[04:28:46 -195904.981316] SLOW spr round 10 (radius: 25)
[04:33:02 -195904.981222] Model parameter optimization (eps = 0.100000)

[04:33:06] ML tree search #6, logLikelihood: -195904.965675

[04:33:06 -842490.104331] Initial branch length optimization
[04:33:10 -714905.303752] Model parameter optimization (eps = 10.000000)
[04:33:38 -712949.057448] AUTODETECT spr round 1 (radius: 5)
[04:35:15 -477202.215865] AUTODETECT spr round 2 (radius: 10)
[04:37:08 -345290.676784] AUTODETECT spr round 3 (radius: 15)
[04:38:58 -284096.274115] AUTODETECT spr round 4 (radius: 20)
[04:41:03 -248216.121456] AUTODETECT spr round 5 (radius: 25)
[04:43:55 -241702.916592] SPR radius for FAST iterations: 25 (autodetect)
[04:43:55 -241702.916592] Model parameter optimization (eps = 3.000000)
[04:44:09 -241635.502051] FAST spr round 1 (radius: 25)
[04:46:01 -198491.500251] FAST spr round 2 (radius: 25)
[04:47:32 -196058.848329] FAST spr round 3 (radius: 25)
[04:48:58 -195973.488291] FAST spr round 4 (radius: 25)
[04:50:18 -195962.793892] FAST spr round 5 (radius: 25)
[04:51:31 -195962.793686] Model parameter optimization (eps = 1.000000)
[04:51:42 -195951.267078] SLOW spr round 1 (radius: 5)
[04:53:18 -195915.740571] SLOW spr round 2 (radius: 5)
[04:54:51 -195910.817547] SLOW spr round 3 (radius: 5)
[04:56:22 -195910.816180] SLOW spr round 4 (radius: 10)
[04:57:57 -195909.505306] SLOW spr round 5 (radius: 5)
[04:59:51 -195907.360060] SLOW spr round 6 (radius: 5)
[05:01:32 -195907.359747] SLOW spr round 7 (radius: 10)
[05:03:09 -195906.704448] SLOW spr round 8 (radius: 5)
[05:05:01 -195906.704420] SLOW spr round 9 (radius: 10)
[05:06:43 -195906.704392] SLOW spr round 10 (radius: 15)
[05:09:02 -195906.704365] SLOW spr round 11 (radius: 20)
[05:12:25 -195906.441510] SLOW spr round 12 (radius: 5)
[05:14:25 -195906.437279] SLOW spr round 13 (radius: 10)
[05:16:13 -195906.435873] SLOW spr round 14 (radius: 15)
[05:18:30 -195906.435354] SLOW spr round 15 (radius: 20)
[05:21:55 -195906.435149] SLOW spr round 16 (radius: 25)
[05:26:02 -195906.378515] Model parameter optimization (eps = 0.100000)

[05:26:06] ML tree search #7, logLikelihood: -195906.322197

[05:26:06 -842129.640157] Initial branch length optimization
[05:26:09 -715857.692668] Model parameter optimization (eps = 10.000000)
[05:26:34 -713951.192235] AUTODETECT spr round 1 (radius: 5)
[05:28:13 -475223.756130] AUTODETECT spr round 2 (radius: 10)
[05:30:04 -334824.224401] AUTODETECT spr round 3 (radius: 15)
[05:32:00 -238758.117405] AUTODETECT spr round 4 (radius: 20)
[05:34:05 -226226.984963] AUTODETECT spr round 5 (radius: 25)
[05:36:34 -225296.961414] SPR radius for FAST iterations: 25 (autodetect)
[05:36:34 -225296.961414] Model parameter optimization (eps = 3.000000)
[05:36:47 -225208.038566] FAST spr round 1 (radius: 25)
[05:38:36 -197287.250626] FAST spr round 2 (radius: 25)
[05:40:05 -196034.673247] FAST spr round 3 (radius: 25)
[05:41:28 -195963.493921] FAST spr round 4 (radius: 25)
[05:42:45 -195956.384544] FAST spr round 5 (radius: 25)
[05:43:59 -195956.384247] Model parameter optimization (eps = 1.000000)
[05:44:10 -195954.375387] SLOW spr round 1 (radius: 5)
[05:45:44 -195915.373380] SLOW spr round 2 (radius: 5)
[05:47:15 -195906.223237] SLOW spr round 3 (radius: 5)
[05:48:45 -195906.066511] SLOW spr round 4 (radius: 5)
[05:50:14 -195906.066435] SLOW spr round 5 (radius: 10)
[05:51:47 -195905.411122] SLOW spr round 6 (radius: 5)
[05:53:38 -195905.411086] SLOW spr round 7 (radius: 10)
[05:55:19 -195905.411053] SLOW spr round 8 (radius: 15)
[05:57:36 -195905.411021] SLOW spr round 9 (radius: 20)
[06:00:58 -195905.094156] SLOW spr round 10 (radius: 5)
[06:02:56 -195905.069802] SLOW spr round 11 (radius: 10)
[06:04:42 -195905.068398] SLOW spr round 12 (radius: 15)
[06:06:58 -195905.067879] SLOW spr round 13 (radius: 20)
[06:10:21 -195905.067673] SLOW spr round 14 (radius: 25)
[06:14:26 -195905.067578] Model parameter optimization (eps = 0.100000)

[06:14:32] ML tree search #8, logLikelihood: -195904.994965

[06:14:32 -851465.535913] Initial branch length optimization
[06:14:35 -725479.845429] Model parameter optimization (eps = 10.000000)
[06:14:58 -723347.634062] AUTODETECT spr round 1 (radius: 5)
[06:16:34 -465049.805042] AUTODETECT spr round 2 (radius: 10)
[06:18:24 -319778.867785] AUTODETECT spr round 3 (radius: 15)
[06:20:13 -259247.869120] AUTODETECT spr round 4 (radius: 20)
[06:22:12 -231953.902089] AUTODETECT spr round 5 (radius: 25)
[06:24:27 -228263.852671] SPR radius for FAST iterations: 25 (autodetect)
[06:24:27 -228263.852671] Model parameter optimization (eps = 3.000000)
[06:24:40 -228176.948332] FAST spr round 1 (radius: 25)
[06:26:24 -197698.877850] FAST spr round 2 (radius: 25)
[06:27:52 -196130.342220] FAST spr round 3 (radius: 25)
[06:29:13 -196001.773867] FAST spr round 4 (radius: 25)
[06:30:30 -195982.265912] FAST spr round 5 (radius: 25)
[06:31:43 -195982.265887] Model parameter optimization (eps = 1.000000)
[06:31:53 -195967.855189] SLOW spr round 1 (radius: 5)
[06:33:29 -195908.262128] SLOW spr round 2 (radius: 5)
[06:34:59 -195900.595564] SLOW spr round 3 (radius: 5)
[06:36:28 -195899.740336] SLOW spr round 4 (radius: 5)
[06:37:56 -195899.740293] SLOW spr round 5 (radius: 10)
[06:39:28 -195899.084998] SLOW spr round 6 (radius: 5)
[06:41:19 -195899.084969] SLOW spr round 7 (radius: 10)
[06:42:59 -195899.084940] SLOW spr round 8 (radius: 15)
[06:45:15 -195898.863224] SLOW spr round 9 (radius: 5)
[06:47:11 -195898.858873] SLOW spr round 10 (radius: 10)
[06:48:50 -195898.857416] SLOW spr round 11 (radius: 15)
[06:50:55 -195898.856874] SLOW spr round 12 (radius: 20)
[06:54:08 -195898.856659] SLOW spr round 13 (radius: 25)
[06:58:03 -195898.856563] Model parameter optimization (eps = 0.100000)

[06:58:07] ML tree search #9, logLikelihood: -195898.814347

[06:58:07 -848227.478556] Initial branch length optimization
[06:58:11 -724920.254980] Model parameter optimization (eps = 10.000000)
[06:58:34 -722938.734537] AUTODETECT spr round 1 (radius: 5)
[07:00:02 -476331.754150] AUTODETECT spr round 2 (radius: 10)
[07:01:43 -344905.779951] AUTODETECT spr round 3 (radius: 15)
[07:03:25 -280072.978690] AUTODETECT spr round 4 (radius: 20)
[07:05:20 -235307.393578] AUTODETECT spr round 5 (radius: 25)
[07:07:19 -230250.054776] SPR radius for FAST iterations: 25 (autodetect)
[07:07:19 -230250.054776] Model parameter optimization (eps = 3.000000)
[07:07:33 -230182.502272] FAST spr round 1 (radius: 25)
[07:09:12 -197073.529965] FAST spr round 2 (radius: 25)
[07:10:35 -196035.531308] FAST spr round 3 (radius: 25)
[07:11:50 -195967.770800] FAST spr round 4 (radius: 25)
[07:13:00 -195954.025088] FAST spr round 5 (radius: 25)
[07:14:06 -195954.004606] Model parameter optimization (eps = 1.000000)
[07:14:16 -195943.462483] SLOW spr round 1 (radius: 5)
[07:15:41 -195911.779516] SLOW spr round 2 (radius: 5)
[07:17:03 -195910.843784] SLOW spr round 3 (radius: 5)
[07:18:23 -195910.843265] SLOW spr round 4 (radius: 10)
[07:19:49 -195910.843023] SLOW spr round 5 (radius: 15)
[07:21:59 -195910.399344] SLOW spr round 6 (radius: 5)
[07:23:46 -195910.394920] SLOW spr round 7 (radius: 10)
[07:25:20 -195910.393377] SLOW spr round 8 (radius: 15)
[07:27:23 -195910.392764] SLOW spr round 9 (radius: 20)
[07:30:31 -195910.392486] SLOW spr round 10 (radius: 25)
[07:34:25 -195910.392328] Model parameter optimization (eps = 0.100000)

[07:34:29] ML tree search #10, logLikelihood: -195910.345226

[07:34:29 -845265.283508] Initial branch length optimization
[07:34:32 -719388.222065] Model parameter optimization (eps = 10.000000)
[07:34:53 -717298.043894] AUTODETECT spr round 1 (radius: 5)
[07:36:21 -471569.998727] AUTODETECT spr round 2 (radius: 10)
[07:38:02 -325631.060028] AUTODETECT spr round 3 (radius: 15)
[07:39:44 -253761.400855] AUTODETECT spr round 4 (radius: 20)
[07:41:33 -242781.549208] AUTODETECT spr round 5 (radius: 25)
[07:43:50 -239926.348563] SPR radius for FAST iterations: 25 (autodetect)
[07:43:50 -239926.348563] Model parameter optimization (eps = 3.000000)
[07:44:07 -239812.488931] FAST spr round 1 (radius: 25)
[07:45:44 -200909.991738] FAST spr round 2 (radius: 25)
[07:47:02 -196300.257442] FAST spr round 3 (radius: 25)
[07:48:16 -195981.735203] FAST spr round 4 (radius: 25)
[07:49:25 -195967.287271] FAST spr round 5 (radius: 25)
[07:50:31 -195967.286558] Model parameter optimization (eps = 1.000000)
[07:50:41 -195951.220692] SLOW spr round 1 (radius: 5)
[07:52:05 -195916.177509] SLOW spr round 2 (radius: 5)
[07:53:26 -195914.296967] SLOW spr round 3 (radius: 5)
[07:54:45 -195914.296313] SLOW spr round 4 (radius: 10)
[07:56:09 -195913.261151] SLOW spr round 5 (radius: 5)
[07:57:51 -195913.261073] SLOW spr round 6 (radius: 10)
[07:59:29 -195912.605715] SLOW spr round 7 (radius: 5)
[08:01:16 -195912.605644] SLOW spr round 8 (radius: 10)
[08:02:54 -195912.605575] SLOW spr round 9 (radius: 15)
[08:05:08 -195912.605506] SLOW spr round 10 (radius: 20)
[08:08:27 -195912.350783] SLOW spr round 11 (radius: 5)
[08:10:16 -195912.346386] SLOW spr round 12 (radius: 10)
[08:11:54 -195912.344800] SLOW spr round 13 (radius: 15)
[08:13:57 -195912.344164] SLOW spr round 14 (radius: 20)
[08:17:01 -195912.343883] SLOW spr round 15 (radius: 25)
[08:20:46 -195912.343735] Model parameter optimization (eps = 0.100000)

[08:20:49] ML tree search #11, logLikelihood: -195912.323588

[08:20:49 -849293.868256] Initial branch length optimization
[08:20:52 -724136.454013] Model parameter optimization (eps = 10.000000)
[08:21:11 -722095.293354] AUTODETECT spr round 1 (radius: 5)
[08:22:38 -467632.039852] AUTODETECT spr round 2 (radius: 10)
[08:24:19 -329158.624415] AUTODETECT spr round 3 (radius: 15)
[08:26:00 -267674.382040] AUTODETECT spr round 4 (radius: 20)
[08:28:01 -233453.625647] AUTODETECT spr round 5 (radius: 25)
[08:30:17 -229353.879371] SPR radius for FAST iterations: 25 (autodetect)
[08:30:17 -229353.879371] Model parameter optimization (eps = 3.000000)
[08:30:36 -229224.894240] FAST spr round 1 (radius: 25)
[08:32:17 -197528.797175] FAST spr round 2 (radius: 25)
[08:33:40 -196113.538507] FAST spr round 3 (radius: 25)
[08:34:56 -196012.000420] FAST spr round 4 (radius: 25)
[08:36:05 -196003.767602] FAST spr round 5 (radius: 25)
[08:37:11 -196003.765433] Model parameter optimization (eps = 1.000000)
[08:37:22 -195988.860707] SLOW spr round 1 (radius: 5)
[08:38:50 -195928.133673] SLOW spr round 2 (radius: 5)
[08:40:17 -195918.607570] SLOW spr round 3 (radius: 5)
[08:41:40 -195917.661367] SLOW spr round 4 (radius: 5)
[08:43:00 -195917.660749] SLOW spr round 5 (radius: 10)
[08:44:24 -195917.660397] SLOW spr round 6 (radius: 15)
[08:46:32 -195912.839012] SLOW spr round 7 (radius: 5)
[08:48:19 -195912.838982] SLOW spr round 8 (radius: 10)
[08:49:55 -195912.838962] SLOW spr round 9 (radius: 15)
[08:51:58 -195912.838941] SLOW spr round 10 (radius: 20)
[08:54:57 -195912.546550] SLOW spr round 11 (radius: 5)
[08:56:45 -195912.542219] SLOW spr round 12 (radius: 10)
[08:58:23 -195912.540776] SLOW spr round 13 (radius: 15)
[09:00:26 -195912.540259] SLOW spr round 14 (radius: 20)
[09:03:26 -195912.540070] SLOW spr round 15 (radius: 25)
[09:07:10 -195912.540001] Model parameter optimization (eps = 0.100000)

[09:07:15] ML tree search #12, logLikelihood: -195912.281322

[09:07:15 -845153.959741] Initial branch length optimization
[09:07:19 -719717.835829] Model parameter optimization (eps = 10.000000)
[09:07:43 -717585.353768] AUTODETECT spr round 1 (radius: 5)
[09:09:11 -478473.514396] AUTODETECT spr round 2 (radius: 10)
[09:10:53 -337924.388056] AUTODETECT spr round 3 (radius: 15)
[09:12:33 -270185.021079] AUTODETECT spr round 4 (radius: 20)
[09:14:20 -237599.598813] AUTODETECT spr round 5 (radius: 25)
[09:16:18 -231189.968900] SPR radius for FAST iterations: 25 (autodetect)
[09:16:18 -231189.968900] Model parameter optimization (eps = 3.000000)
[09:16:31 -231118.066062] FAST spr round 1 (radius: 25)
[09:18:05 -197489.399642] FAST spr round 2 (radius: 25)
[09:19:23 -196005.161517] FAST spr round 3 (radius: 25)
[09:20:37 -195948.564475] FAST spr round 4 (radius: 25)
[09:21:45 -195948.563176] Model parameter optimization (eps = 1.000000)
[09:21:54 -195935.526418] SLOW spr round 1 (radius: 5)
[09:23:20 -195908.020993] SLOW spr round 2 (radius: 5)
[09:24:45 -195899.661242] SLOW spr round 3 (radius: 5)
[09:26:06 -195899.660808] SLOW spr round 4 (radius: 10)
[09:27:32 -195898.158462] SLOW spr round 5 (radius: 5)
[09:29:16 -195898.157619] SLOW spr round 6 (radius: 10)
[09:30:49 -195897.129258] SLOW spr round 7 (radius: 5)
[09:32:30 -195897.129221] SLOW spr round 8 (radius: 10)
[09:34:01 -195897.129185] SLOW spr round 9 (radius: 15)
[09:36:05 -195896.978121] SLOW spr round 10 (radius: 5)
[09:37:52 -195896.977192] SLOW spr round 11 (radius: 10)
[09:39:29 -195896.977044] SLOW spr round 12 (radius: 15)
[09:41:33 -195896.976987] SLOW spr round 13 (radius: 20)
[09:44:38 -195892.573733] SLOW spr round 14 (radius: 5)
[09:46:26 -195892.573493] SLOW spr round 15 (radius: 10)
[09:48:05 -195892.573455] SLOW spr round 16 (radius: 15)
[09:50:09 -195892.573413] SLOW spr round 17 (radius: 20)
[09:53:16 -195892.573377] SLOW spr round 18 (radius: 25)
[09:57:06 -195892.573342] Model parameter optimization (eps = 0.100000)

[09:57:12] ML tree search #13, logLikelihood: -195892.521666

[09:57:12 -845394.021827] Initial branch length optimization
[09:57:15 -717157.586818] Model parameter optimization (eps = 10.000000)
[09:57:35 -715154.908588] AUTODETECT spr round 1 (radius: 5)
[09:59:04 -480270.505262] AUTODETECT spr round 2 (radius: 10)
[10:00:44 -322901.714517] AUTODETECT spr round 3 (radius: 15)
[10:02:20 -260714.692287] AUTODETECT spr round 4 (radius: 20)
[10:04:08 -240280.255500] AUTODETECT spr round 5 (radius: 25)
[10:06:06 -231667.488942] SPR radius for FAST iterations: 25 (autodetect)
[10:06:06 -231667.488942] Model parameter optimization (eps = 3.000000)
[10:06:19 -231579.830852] FAST spr round 1 (radius: 25)
[10:08:00 -197470.249836] FAST spr round 2 (radius: 25)
[10:09:25 -196056.483825] FAST spr round 3 (radius: 25)
[10:10:40 -195987.559455] FAST spr round 4 (radius: 25)
[10:11:49 -195979.470151] FAST spr round 5 (radius: 25)
[10:12:56 -195979.468916] Model parameter optimization (eps = 1.000000)
[10:13:06 -195970.084430] SLOW spr round 1 (radius: 5)
[10:14:29 -195923.708224] SLOW spr round 2 (radius: 5)
[10:15:52 -195907.738120] SLOW spr round 3 (radius: 5)
[10:17:15 -195906.355722] SLOW spr round 4 (radius: 5)
[10:18:36 -195906.354104] SLOW spr round 5 (radius: 10)
[10:20:01 -195906.353650] SLOW spr round 6 (radius: 15)
[10:22:13 -195901.456222] SLOW spr round 7 (radius: 5)
[10:23:59 -195901.456103] SLOW spr round 8 (radius: 10)
[10:25:34 -195901.456014] SLOW spr round 9 (radius: 15)
[10:27:37 -195901.455928] SLOW spr round 10 (radius: 20)
[10:30:46 -195901.455853] SLOW spr round 11 (radius: 25)
[10:34:40 -195901.455780] Model parameter optimization (eps = 0.100000)

[10:34:48] ML tree search #14, logLikelihood: -195901.019741

[10:34:48 -845375.691765] Initial branch length optimization
[10:34:54 -720979.379147] Model parameter optimization (eps = 10.000000)
[10:35:14 -719059.739719] AUTODETECT spr round 1 (radius: 5)
[10:36:42 -474259.463415] AUTODETECT spr round 2 (radius: 10)
[10:38:22 -340442.583179] AUTODETECT spr round 3 (radius: 15)
[10:40:07 -263715.584861] AUTODETECT spr round 4 (radius: 20)
[10:42:03 -230929.246253] AUTODETECT spr round 5 (radius: 25)
[10:44:03 -229440.038362] SPR radius for FAST iterations: 25 (autodetect)
[10:44:03 -229440.038362] Model parameter optimization (eps = 3.000000)
[10:44:18 -229358.108361] FAST spr round 1 (radius: 25)
[10:45:58 -197797.688305] FAST spr round 2 (radius: 25)
[10:47:21 -196179.344072] FAST spr round 3 (radius: 25)
[10:48:36 -195994.998234] FAST spr round 4 (radius: 25)
[10:49:45 -195984.280712] FAST spr round 5 (radius: 25)
[10:50:52 -195984.280278] Model parameter optimization (eps = 1.000000)
[10:51:02 -195967.481514] SLOW spr round 1 (radius: 5)
[10:52:29 -195922.998495] SLOW spr round 2 (radius: 5)
[10:53:52 -195919.678372] SLOW spr round 3 (radius: 5)
[10:55:12 -195919.676659] SLOW spr round 4 (radius: 10)
[10:56:37 -195919.676059] SLOW spr round 5 (radius: 15)
[10:58:43 -195919.675798] SLOW spr round 6 (radius: 20)
[11:01:35 -195919.393370] SLOW spr round 7 (radius: 5)
[11:03:23 -195919.388756] SLOW spr round 8 (radius: 10)
[11:05:01 -195919.387083] SLOW spr round 9 (radius: 15)
[11:07:00 -195919.386415] SLOW spr round 10 (radius: 20)
[11:09:55 -195919.386123] SLOW spr round 11 (radius: 25)
[11:13:33 -195919.385975] Model parameter optimization (eps = 0.100000)

[11:13:39] ML tree search #15, logLikelihood: -195919.117040

[11:13:39 -848978.959846] Initial branch length optimization
[11:13:44 -722979.282048] Model parameter optimization (eps = 10.000000)
[11:14:03 -721104.856480] AUTODETECT spr round 1 (radius: 5)
[11:15:31 -475382.464261] AUTODETECT spr round 2 (radius: 10)
[11:17:12 -327118.255082] AUTODETECT spr round 3 (radius: 15)
[11:18:54 -262606.385558] AUTODETECT spr round 4 (radius: 20)
[11:20:43 -240773.604035] AUTODETECT spr round 5 (radius: 25)
[11:22:36 -233534.804437] SPR radius for FAST iterations: 25 (autodetect)
[11:22:36 -233534.804437] Model parameter optimization (eps = 3.000000)
[11:22:50 -233418.211077] FAST spr round 1 (radius: 25)
[11:24:32 -197545.013125] FAST spr round 2 (radius: 25)
[11:25:56 -196083.151465] FAST spr round 3 (radius: 25)
[11:27:11 -195977.144465] FAST spr round 4 (radius: 25)
[11:28:20 -195970.035168] FAST spr round 5 (radius: 25)
[11:29:26 -195970.034182] Model parameter optimization (eps = 1.000000)
[11:29:37 -195957.693552] SLOW spr round 1 (radius: 5)
[11:31:04 -195909.104702] SLOW spr round 2 (radius: 5)
[11:32:28 -195900.747352] SLOW spr round 3 (radius: 5)
[11:33:49 -195900.402989] SLOW spr round 4 (radius: 5)
[11:35:09 -195900.402631] SLOW spr round 5 (radius: 10)
[11:36:34 -195900.402385] SLOW spr round 6 (radius: 15)
[11:38:45 -195900.402196] SLOW spr round 7 (radius: 20)
[11:41:53 -195900.148597] SLOW spr round 8 (radius: 5)
[11:43:41 -195900.144325] SLOW spr round 9 (radius: 10)
[11:45:18 -195900.142850] SLOW spr round 10 (radius: 15)
[11:47:22 -195900.142278] SLOW spr round 11 (radius: 20)
[11:50:34 -195900.142031] SLOW spr round 12 (radius: 25)
[11:54:23 -195900.141901] Model parameter optimization (eps = 0.100000)

[11:54:27] ML tree search #16, logLikelihood: -195900.127867

[11:54:27 -844782.196332] Initial branch length optimization
[11:54:30 -717604.091801] Model parameter optimization (eps = 10.000000)
[11:55:04 -715621.168428] AUTODETECT spr round 1 (radius: 5)
[11:56:31 -479404.677465] AUTODETECT spr round 2 (radius: 10)
[11:58:13 -338159.056691] AUTODETECT spr round 3 (radius: 15)
[11:59:55 -253516.418006] AUTODETECT spr round 4 (radius: 20)
[12:01:51 -227758.497164] AUTODETECT spr round 5 (radius: 25)
[12:04:13 -225030.209460] SPR radius for FAST iterations: 25 (autodetect)
[12:04:13 -225030.209460] Model parameter optimization (eps = 3.000000)
[12:04:26 -224929.600337] FAST spr round 1 (radius: 25)
[12:06:06 -197310.605746] FAST spr round 2 (radius: 25)
[12:07:26 -196050.877749] FAST spr round 3 (radius: 25)
[12:08:40 -195975.767420] FAST spr round 4 (radius: 25)
[12:09:49 -195974.950730] FAST spr round 5 (radius: 25)
[12:10:56 -195974.939218] Model parameter optimization (eps = 1.000000)
[12:11:07 -195963.765478] SLOW spr round 1 (radius: 5)
[12:12:34 -195901.747106] SLOW spr round 2 (radius: 5)
[12:13:56 -195896.821931] SLOW spr round 3 (radius: 5)
[12:15:16 -195896.820911] SLOW spr round 4 (radius: 10)
[12:16:39 -195896.511407] SLOW spr round 5 (radius: 5)
[12:18:22 -195896.511196] SLOW spr round 6 (radius: 10)
[12:19:54 -195896.511030] SLOW spr round 7 (radius: 15)
[12:21:57 -195896.048601] SLOW spr round 8 (radius: 5)
[12:23:44 -195896.005671] SLOW spr round 9 (radius: 10)
[12:25:18 -195896.003126] SLOW spr round 10 (radius: 15)
[12:27:21 -195895.831939] SLOW spr round 11 (radius: 5)
[12:29:07 -195895.829152] SLOW spr round 12 (radius: 10)
[12:30:43 -195895.828298] SLOW spr round 13 (radius: 15)
[12:32:45 -195895.827958] SLOW spr round 14 (radius: 20)
[12:35:47 -195895.827794] SLOW spr round 15 (radius: 25)
[12:39:32 -195895.827694] Model parameter optimization (eps = 0.100000)

[12:39:38] ML tree search #17, logLikelihood: -195895.705196

[12:39:38 -846668.169137] Initial branch length optimization
[12:39:41 -715516.743194] Model parameter optimization (eps = 10.000000)
[12:40:06 -713673.345237] AUTODETECT spr round 1 (radius: 5)
[12:41:35 -472554.482748] AUTODETECT spr round 2 (radius: 10)
[12:43:16 -329090.992264] AUTODETECT spr round 3 (radius: 15)
[12:44:56 -273511.962633] AUTODETECT spr round 4 (radius: 20)
[12:46:54 -238331.633956] AUTODETECT spr round 5 (radius: 25)
[12:49:04 -231361.981961] SPR radius for FAST iterations: 25 (autodetect)
[12:49:04 -231361.981961] Model parameter optimization (eps = 3.000000)
[12:49:17 -231264.197182] FAST spr round 1 (radius: 25)
[12:50:55 -197239.101246] FAST spr round 2 (radius: 25)
[12:52:17 -196029.151635] FAST spr round 3 (radius: 25)
[12:53:33 -195992.010416] FAST spr round 4 (radius: 25)
[12:54:42 -195986.173105] FAST spr round 5 (radius: 25)
[12:55:47 -195986.171082] Model parameter optimization (eps = 1.000000)
[12:55:57 -195977.189116] SLOW spr round 1 (radius: 5)
[12:57:25 -195930.033564] SLOW spr round 2 (radius: 5)
[12:58:51 -195921.965568] SLOW spr round 3 (radius: 5)
[13:00:13 -195921.478396] SLOW spr round 4 (radius: 5)
[13:01:35 -195921.478050] SLOW spr round 5 (radius: 10)
[13:03:01 -195921.477906] SLOW spr round 6 (radius: 15)
[13:05:09 -195921.477823] SLOW spr round 7 (radius: 20)
[13:08:12 -195921.477766] SLOW spr round 8 (radius: 25)
[13:12:04 -195921.477723] Model parameter optimization (eps = 0.100000)

[13:12:09] ML tree search #18, logLikelihood: -195921.271574

[13:12:09 -848112.446686] Initial branch length optimization
[13:12:13 -723959.239917] Model parameter optimization (eps = 10.000000)
[13:12:34 -721823.949617] AUTODETECT spr round 1 (radius: 5)
[13:14:03 -471963.271454] AUTODETECT spr round 2 (radius: 10)
[13:15:42 -321276.052638] AUTODETECT spr round 3 (radius: 15)
[13:17:20 -253613.562853] AUTODETECT spr round 4 (radius: 20)
[13:19:08 -233984.367278] AUTODETECT spr round 5 (radius: 25)
[13:21:31 -230824.920361] SPR radius for FAST iterations: 25 (autodetect)
[13:21:31 -230824.920361] Model parameter optimization (eps = 3.000000)
[13:21:47 -230734.075142] FAST spr round 1 (radius: 25)
[13:23:31 -197777.867339] FAST spr round 2 (radius: 25)
[13:24:56 -196036.404112] FAST spr round 3 (radius: 25)
[13:26:12 -195971.914177] FAST spr round 4 (radius: 25)
[13:27:20 -195970.492944] FAST spr round 5 (radius: 25)
[13:28:26 -195970.492598] Model parameter optimization (eps = 1.000000)
[13:28:35 -195964.141240] SLOW spr round 1 (radius: 5)
[13:30:03 -195905.475391] SLOW spr round 2 (radius: 5)
[13:31:26 -195904.731746] SLOW spr round 3 (radius: 5)
[13:32:47 -195904.731665] SLOW spr round 4 (radius: 10)
[13:34:14 -195903.746885] SLOW spr round 5 (radius: 5)
[13:35:56 -195903.746853] SLOW spr round 6 (radius: 10)
[13:37:27 -195903.091534] SLOW spr round 7 (radius: 5)
[13:39:07 -195903.091505] SLOW spr round 8 (radius: 10)
[13:40:38 -195903.091476] SLOW spr round 9 (radius: 15)
[13:42:42 -195903.091448] SLOW spr round 10 (radius: 20)
[13:45:41 -195903.091419] SLOW spr round 11 (radius: 25)
[13:49:22 -195903.091390] Model parameter optimization (eps = 0.100000)

[13:49:27] ML tree search #19, logLikelihood: -195902.965659

[13:49:27 -844654.974360] Initial branch length optimization
[13:49:30 -721613.324904] Model parameter optimization (eps = 10.000000)
[13:49:52 -719530.243553] AUTODETECT spr round 1 (radius: 5)
[13:51:19 -469694.400236] AUTODETECT spr round 2 (radius: 10)
[13:52:58 -324317.972486] AUTODETECT spr round 3 (radius: 15)
[13:54:38 -255734.823291] AUTODETECT spr round 4 (radius: 20)
[13:56:28 -235998.495921] AUTODETECT spr round 5 (radius: 25)
[13:58:34 -228795.439601] SPR radius for FAST iterations: 25 (autodetect)
[13:58:34 -228795.439601] Model parameter optimization (eps = 3.000000)
[13:58:50 -228745.722522] FAST spr round 1 (radius: 25)
[14:00:30 -196979.513830] FAST spr round 2 (radius: 25)
[14:01:50 -196034.168181] FAST spr round 3 (radius: 25)
[14:03:05 -195964.499534] FAST spr round 4 (radius: 25)
[14:04:13 -195962.039632] FAST spr round 5 (radius: 25)
[14:05:19 -195962.039490] Model parameter optimization (eps = 1.000000)
[14:05:30 -195947.980802] SLOW spr round 1 (radius: 5)
[14:06:54 -195904.092567] SLOW spr round 2 (radius: 5)
[14:08:16 -195903.306249] SLOW spr round 3 (radius: 5)
[14:09:36 -195903.303650] SLOW spr round 4 (radius: 10)
[14:11:02 -195903.302688] SLOW spr round 5 (radius: 15)
[14:13:12 -195903.302321] SLOW spr round 6 (radius: 20)
[14:16:11 -195903.302170] SLOW spr round 7 (radius: 25)
[14:19:52 -195903.302097] Model parameter optimization (eps = 0.100000)

[14:19:56] ML tree search #20, logLikelihood: -195903.291621


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.205589,0.351669) (0.334005,0.631927) (0.304965,1.152992) (0.155441,2.348235) 
   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: -195892.521666

AIC score: 395699.043332 / AICc score: 8059311.043332 / BIC score: 404115.681133
Free parameters (model + branch lengths): 1957

WARNING: Number of free parameters (K=1957) is larger than alignment size (n=545).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 109 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6ZS81/3_mltree/Q6ZS81.raxml.log

Analysis started: 04-Jul-2021 16:32:10 / finished: 05-Jul-2021 06:52:06

Elapsed time: 51596.485 seconds

Consumed energy: 4775.074 Wh (= 24 km in an electric car, or 119 km with an e-scooter!)