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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM

RAxML-NG was called at 07-Jul-2021 16:27:43 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/2_msa/E7ERA6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6 --seed 2 --threads 2 --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 (2 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/2_msa/E7ERA6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 824 taxa and 107 sites

WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A026WT67_A0A026WT67_OOCBI_2015173 are exactly identical!
WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A151XG02_A0A151XG02_9HYME_64791 are exactly identical!
WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A151IT52_A0A151IT52_9HYME_471704 are exactly identical!
WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A195BX43_A0A195BX43_9HYME_520822 are exactly identical!
WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A195F165_A0A195F165_9HYME_34720 are exactly identical!
WARNING: Sequences tr_E2ACM2_E2ACM2_CAMFO_104421 and tr_A0A151IHA4_A0A151IHA4_9HYME_456900 are exactly identical!
WARNING: Sequences tr_M3Z7S5_M3Z7S5_MUSPF_9669 and tr_G1L750_G1L750_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2J8RMH3_A0A2J8RMH3_PONAB_9601 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_H0WT44_H0WT44_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A286XSP0_A0A286XSP0_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_H9ES46_H9ES46_MACMU_9544 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_G5BFY7_G5BFY7_HETGA_10181 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_U3CXT3_U3CXT3_CALJA_9483 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A287AA96_A0A287AA96_PIG_9823 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_L5KAB7_L5KAB7_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A096NCG5_A0A096NCG5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A091CUT8_A0A091CUT8_FUKDA_885580 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A0D9SE88_A0A0D9SE88_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2K5KSQ5_A0A2K5KSQ5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2K6AWH6_A0A2K6AWH6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2K5XW21_A0A2K5XW21_MANLE_9568 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2U3V521_A0A2U3V521_TURTR_9739 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2Y9JAH6_A0A2Y9JAH6_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2Y9NVV0_A0A2Y9NVV0_DELLE_9749 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A2Y9EJM0_A0A2Y9EJM0_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_M3Z8P8_M3Z8P8_MUSPF_9669 and tr_A0A384A5Z8_A0A384A5Z8_BALAS_310752 are exactly identical!
WARNING: Sequences tr_G1QTP4_G1QTP4_NOMLE_61853 and tr_A0A2R8M518_A0A2R8M518_CALJA_9483 are exactly identical!
WARNING: Sequences tr_A0A2I2ZIQ9_A0A2I2ZIQ9_GORGO_9595 and sp_Q9NXI6_RN186_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QYX0_G3QYX0_GORGO_9595 and tr_A0A2J8VNT3_A0A2J8VNT3_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3QYX0_G3QYX0_GORGO_9595 and tr_K7BC55_K7BC55_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QYX0_G3QYX0_GORGO_9595 and sp_Q8TEC5_SH3R2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QYX0_G3QYX0_GORGO_9595 and tr_A0A2R9CMR3_A0A2R9CMR3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3RSI1_G3RSI1_GORGO_9595 and tr_K7CFL6_K7CFL6_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3RSI1_G3RSI1_GORGO_9595 and sp_Q9H0X6_RN208_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3RSI1_G3RSI1_GORGO_9595 and tr_A0A2R8Z760_A0A2R8Z760_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_K7EUI7_K7EUI7_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_K7BY84_K7BY84_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and sp_P36406_TRI23_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_F6WJZ1_F6WJZ1_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_G7P7M3_G7P7M3_MACFA_9541 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_A0A0D9RTT3_A0A0D9RTT3_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_A0A2K5M550_A0A2K5M550_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_A0A2K6D2J5_A0A2K6D2J5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_A0A2K6A039_A0A2K6A039_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G3S4J2_G3S4J2_GORGO_9595 and tr_A0A2R8ZUA0_A0A2R8ZUA0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2P0G8_H2P0G8_PONAB_9601 and tr_A0A2I3MJF0_A0A2I3MJF0_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_H2P0G8_H2P0G8_PONAB_9601 and tr_A0A0D9SCY8_A0A0D9SCY8_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_H2PY74_H2PY74_PANTR_9598 and tr_A0A2R8ZBM4_A0A2R8ZBM4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2RGU7_H2RGU7_PANTR_9598 and tr_A0A2R8ZG14_A0A2R8ZG14_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A087ZQ86_A0A087ZQ86_APIME_7460 and tr_A0A0L7R4B5_A0A0L7R4B5_9HYME_597456 are exactly identical!
WARNING: Sequences tr_A0A087ZQ86_A0A087ZQ86_APIME_7460 and tr_A0A2A3EIX6_A0A2A3EIX6_APICC_94128 are exactly identical!
WARNING: Sequences tr_H9J7G2_H9J7G2_BOMMO_7091 and tr_A0A212EU18_A0A212EU18_DANPL_278856 are exactly identical!
WARNING: Sequences tr_A0A158P485_A0A158P485_ATTCE_12957 and tr_A0A151IWU0_A0A151IWU0_9HYME_471704 are exactly identical!
WARNING: Sequences tr_A0A158P485_A0A158P485_ATTCE_12957 and tr_A0A195B4M7_A0A195B4M7_9HYME_520822 are exactly identical!
WARNING: Sequences sp_Q96D59_RN183_HUMAN_9606 and tr_U3BA02_U3BA02_CALJA_9483 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_B8AXZ7_B8AXZ7_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_I1PVB3_I1PVB3_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_A0A0E0C415_A0A0E0C415_9ORYZ_40149 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_A0A0E0PM20_A0A0E0PM20_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_A0A0D3G790_A0A0D3G790_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_A0A0D9ZYR2_A0A0D9ZYR2_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0HDX9_A0A0E0HDX9_ORYNI_4536 and tr_A0A0E0L242_A0A0E0L242_ORYPU_4537 are exactly identical!
WARNING: Sequences tr_F6TT22_F6TT22_MACMU_9544 and tr_G7PRM6_G7PRM6_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6TT22_F6TT22_MACMU_9544 and tr_A0A0D9S9J2_A0A0D9S9J2_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7GZK9_F7GZK9_MACMU_9544 and tr_G7P8K4_G7P8K4_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7GZK9_F7GZK9_MACMU_9544 and tr_A0A096MKV8_A0A096MKV8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7GZK9_F7GZK9_MACMU_9544 and tr_A0A0D9RIP4_A0A0D9RIP4_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7GZK9_F7GZK9_MACMU_9544 and tr_A0A2K5LQ18_A0A2K5LQ18_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7GZK9_F7GZK9_MACMU_9544 and tr_A0A2K5ZTQ9_A0A2K5ZTQ9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G3PT30_G3PT30_GASAC_69293 and tr_A0A2I4CHE1_A0A2I4CHE1_9TELE_52670 are exactly identical!
WARNING: Sequences tr_D2H2J1_D2H2J1_AILME_9646 and tr_A0A384DHE5_A0A384DHE5_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G7NUT3_G7NUT3_MACFA_9541 and tr_A0A2K6ANH2_A0A2K6ANH2_MACNE_9545 are exactly identical!
WARNING: Sequences sp_E1BD59_TRI56_BOVIN_9913 and tr_G5E5F1_G5E5F1_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_U3K579_U3K579_FICAL_59894 and tr_A0A218V8X8_A0A218V8X8_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A3B1J215_A0A3B1J215_ASTMX_7994 and tr_A0A2U9CEX8_A0A2U9CEX8_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_A0A0D2VUF3_A0A0D2VUF3_GOSRA_29730 and tr_A0A1U8IID1_A0A1U8IID1_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0D2VUF3_A0A0D2VUF3_GOSRA_29730 and tr_A0A1U8LHQ0_A0A1U8LHQ0_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A151MEX2_A0A151MEX2_ALLMI_8496 and tr_A0A1U7S1E3_A0A1U7S1E3_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A151MNV0_A0A151MNV0_ALLMI_8496 and tr_A0A1U7S0W5_A0A1U7S0W5_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A151N425_A0A151N425_ALLMI_8496 and tr_A0A3Q0G2Q6_A0A3Q0G2Q6_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A091KFX4_A0A091KFX4_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A093SFX1_A0A093SFX1_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A091UUL7_A0A091UUL7_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A087QP33_A0A087QP33_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A091WSX1_A0A091WSX1_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A0A0AGS4_A0A0A0AGS4_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A093GGN1_A0A093GGN1_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A091EWV7_A0A091EWV7_CORBR_85066 and tr_A0A091IHX9_A0A091IHX9_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A091JPL1_A0A091JPL1_EGRGA_188379 and tr_A0A099Z963_A0A099Z963_TINGU_94827 are exactly identical!
WARNING: Sequences tr_A0A194QSE3_A0A194QSE3_PAPMA_76193 and tr_A0A194PN49_A0A194PN49_PAPXU_66420 are exactly identical!
WARNING: Sequences tr_A0A091UV26_A0A091UV26_NIPNI_128390 and tr_A0A087QSB5_A0A087QSB5_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091UV26_A0A091UV26_NIPNI_128390 and tr_A0A093HJA5_A0A093HJA5_STRCA_441894 are exactly identical!
WARNING: Sequences tr_A0A1S4BA72_A0A1S4BA72_TOBAC_4097 and tr_A0A1J6HSR7_A0A1J6HSR7_NICAT_49451 are exactly identical!
WARNING: Sequences tr_A0A1S4BA72_A0A1S4BA72_TOBAC_4097 and tr_A0A1U7WVB3_A0A1U7WVB3_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3KUM6_A0A1S3KUM6_SALSA_8030 and tr_A0A060XTI9_A0A060XTI9_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3LSU4_A0A1S3LSU4_SALSA_8030 and tr_A0A060XAH6_A0A060XAH6_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A2I4CWW3_A0A2I4CWW3_9TELE_52670 and tr_A0A2I4CXH7_A0A2I4CXH7_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A226N177_A0A226N177_CALSU_9009 and tr_A0A226PFK8_A0A226PFK8_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2G2YYH7_A0A2G2YYH7_CAPAN_4072 and tr_A0A2G3BTK9_A0A2G3BTK9_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2U3VPQ9_A0A2U3VPQ9_ODORO_9708 and tr_A0A2Y9JEP4_A0A2Y9JEP4_ENHLU_391180 are exactly identical!
WARNING: Duplicate sequences found: 100

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.reduced.phy

Alignment comprises 1 partitions and 107 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 107 / 107
Gaps: 19.82 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.rba

Parallelization scheme autoconfig: 2 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 824 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 107 / 8560
[00:00:00] Data distribution: max. searches per worker: 10

Starting ML tree search with 20 distinct starting trees

[00:00:00 -159471.976969] Initial branch length optimization
[00:00:02 -134811.118499] Model parameter optimization (eps = 10.000000)
[00:00:34 -134628.269955] AUTODETECT spr round 1 (radius: 5)
[00:02:03 -105061.569150] AUTODETECT spr round 2 (radius: 10)
[00:03:44 -81123.912127] AUTODETECT spr round 3 (radius: 15)
[00:05:42 -71673.711887] AUTODETECT spr round 4 (radius: 20)
[00:08:10 -64365.760846] AUTODETECT spr round 5 (radius: 25)
[00:11:22 -62163.900457] SPR radius for FAST iterations: 25 (autodetect)
[00:11:22 -62163.900457] Model parameter optimization (eps = 3.000000)
[00:11:38 -62157.020650] FAST spr round 1 (radius: 25)
[00:14:03 -56000.599218] FAST spr round 2 (radius: 25)
[00:15:52 -55594.882175] FAST spr round 3 (radius: 25)
[00:17:21 -55539.458769] FAST spr round 4 (radius: 25)
[00:18:41 -55522.242617] FAST spr round 5 (radius: 25)
[00:19:58 -55514.000969] FAST spr round 6 (radius: 25)
[00:21:10 -55503.630159] FAST spr round 7 (radius: 25)
[00:22:19 -55503.617285] Model parameter optimization (eps = 1.000000)
[00:22:30 -55497.823854] SLOW spr round 1 (radius: 5)
[00:24:01 -55486.536011] SLOW spr round 2 (radius: 5)
[00:25:31 -55485.604249] SLOW spr round 3 (radius: 5)
[00:26:56 -55485.603812] SLOW spr round 4 (radius: 10)
[00:28:27 -55484.177006] SLOW spr round 5 (radius: 5)
[00:30:13 -55481.019932] SLOW spr round 6 (radius: 5)
[00:31:48 -55481.019537] SLOW spr round 7 (radius: 10)
[00:33:24 -55481.019445] SLOW spr round 8 (radius: 15)
[00:36:45 -55478.599227] SLOW spr round 9 (radius: 5)
[00:38:32 -55478.401415] SLOW spr round 10 (radius: 5)
[00:40:07 -55478.401180] SLOW spr round 11 (radius: 10)
[00:41:46 -55478.401024] SLOW spr round 12 (radius: 15)
[00:44:59 -55478.400896] SLOW spr round 13 (radius: 20)
[00:49:36 -55477.701918] SLOW spr round 14 (radius: 5)
[00:51:28 -55476.573120] SLOW spr round 15 (radius: 5)
[00:53:05 -55476.570634] SLOW spr round 16 (radius: 10)
[00:54:45 -55476.569594] SLOW spr round 17 (radius: 15)
[00:57:55 -55475.854429] SLOW spr round 18 (radius: 5)
[00:59:41 -55475.853795] SLOW spr round 19 (radius: 10)
[01:01:33 -55475.853616] SLOW spr round 20 (radius: 15)
[01:04:35 -55475.853512] SLOW spr round 21 (radius: 20)
[01:09:12 -55475.853421] SLOW spr round 22 (radius: 25)
[01:14:21 -55475.853333] Model parameter optimization (eps = 0.100000)

[01:14:28] [worker #0] ML tree search #1, logLikelihood: -55475.579044

[01:14:28 -160297.703161] Initial branch length optimization
[01:14:30 -135374.763575] Model parameter optimization (eps = 10.000000)
[01:14:57 -135139.754196] AUTODETECT spr round 1 (radius: 5)
[01:16:26 -103379.844350] AUTODETECT spr round 2 (radius: 10)
[01:18:09 -79753.526150] AUTODETECT spr round 3 (radius: 15)
[01:20:03 -66996.508584] AUTODETECT spr round 4 (radius: 20)
[01:22:31 -62050.518628] AUTODETECT spr round 5 (radius: 25)
[01:25:22 -61412.098018] SPR radius for FAST iterations: 25 (autodetect)
[01:25:22 -61412.098018] Model parameter optimization (eps = 3.000000)
[01:25:38 -61385.550221] FAST spr round 1 (radius: 25)
[01:28:09 -55792.294626] FAST spr round 2 (radius: 25)
[01:29:55 -55541.115259] FAST spr round 3 (radius: 25)
[01:31:24 -55494.032015] FAST spr round 4 (radius: 25)
[01:32:40 -55491.716452] FAST spr round 5 (radius: 25)
[01:33:52 -55491.596546] FAST spr round 6 (radius: 25)
[01:35:01 -55491.595636] Model parameter optimization (eps = 1.000000)
[01:35:13 -55489.589973] SLOW spr round 1 (radius: 5)
[01:36:44 -55479.924063] SLOW spr round 2 (radius: 5)
[01:38:13 -55479.874503] SLOW spr round 3 (radius: 10)
[01:39:43 -55479.874484] SLOW spr round 4 (radius: 15)
[01:43:08 -55478.364732] SLOW spr round 5 (radius: 5)
[01:44:55 -55477.879952] SLOW spr round 6 (radius: 5)
[01:46:30 -55477.879585] SLOW spr round 7 (radius: 10)
[01:48:06 -55477.879574] SLOW spr round 8 (radius: 15)
[01:49:14] [worker #1] ML tree search #2, logLikelihood: -55494.078737
[01:51:17 -55477.879573] SLOW spr round 9 (radius: 20)
[01:55:53 -55477.280051] SLOW spr round 10 (radius: 5)
[01:57:42 -55477.165117] SLOW spr round 11 (radius: 5)
[01:59:20 -55476.864565] SLOW spr round 12 (radius: 5)
[02:00:52 -55476.863085] SLOW spr round 13 (radius: 10)
[02:02:26 -55476.862456] SLOW spr round 14 (radius: 15)
[02:05:44 -55476.862203] SLOW spr round 15 (radius: 20)
[02:10:18 -55476.862102] SLOW spr round 16 (radius: 25)
[02:15:35 -55476.862063] Model parameter optimization (eps = 0.100000)

[02:15:40] [worker #0] ML tree search #3, logLikelihood: -55476.781174

[02:15:40 -159177.875183] Initial branch length optimization
[02:15:43 -133915.601077] Model parameter optimization (eps = 10.000000)
[02:16:05 -133836.298897] AUTODETECT spr round 1 (radius: 5)
[02:17:36 -106024.097045] AUTODETECT spr round 2 (radius: 10)
[02:19:30 -80935.512740] AUTODETECT spr round 3 (radius: 15)
[02:21:30 -68715.040478] AUTODETECT spr round 4 (radius: 20)
[02:23:44 -64088.709816] AUTODETECT spr round 5 (radius: 25)
[02:26:45 -63051.252263] SPR radius for FAST iterations: 25 (autodetect)
[02:26:45 -63051.252263] Model parameter optimization (eps = 3.000000)
[02:27:05 -63040.896034] FAST spr round 1 (radius: 25)
[02:29:57 -56313.196686] FAST spr round 2 (radius: 25)
[02:31:57 -55628.233494] FAST spr round 3 (radius: 25)
[02:33:32 -55515.733170] FAST spr round 4 (radius: 25)
[02:34:58 -55508.080874] FAST spr round 5 (radius: 25)
[02:36:12 -55507.074374] FAST spr round 6 (radius: 25)
[02:37:23 -55507.069587] Model parameter optimization (eps = 1.000000)
[02:37:36 -55505.618392] SLOW spr round 1 (radius: 5)
[02:39:11 -55486.391498] SLOW spr round 2 (radius: 5)
[02:40:43 -55485.176488] SLOW spr round 3 (radius: 5)
[02:42:10 -55485.158399] SLOW spr round 4 (radius: 10)
[02:43:42 -55481.957323] SLOW spr round 5 (radius: 5)
[02:45:29 -55479.777644] SLOW spr round 6 (radius: 5)
[02:47:04 -55479.774284] SLOW spr round 7 (radius: 10)
[02:48:40 -55479.773192] SLOW spr round 8 (radius: 15)
[02:51:59 -55477.359427] SLOW spr round 9 (radius: 5)
[02:53:48 -55474.447662] SLOW spr round 10 (radius: 5)
[02:55:26 -55474.373759] SLOW spr round 11 (radius: 10)
[02:57:04 -55474.373296] SLOW spr round 12 (radius: 15)
[03:00:22 -55474.373238] SLOW spr round 13 (radius: 20)
[03:05:09 -55473.444390] SLOW spr round 14 (radius: 5)
[03:06:57 -55473.443844] SLOW spr round 15 (radius: 10)
[03:08:54 -55473.443815] SLOW spr round 16 (radius: 15)
[03:11:58 -55473.443812] SLOW spr round 17 (radius: 20)
[03:12:19] [worker #1] ML tree search #4, logLikelihood: -55477.257731
[03:16:48 -55473.443811] SLOW spr round 18 (radius: 25)
[03:22:11 -55473.443811] Model parameter optimization (eps = 0.100000)

[03:22:15] [worker #0] ML tree search #5, logLikelihood: -55473.432683

[03:22:15 -159950.750241] Initial branch length optimization
[03:22:18 -135166.327384] Model parameter optimization (eps = 10.000000)
[03:22:43 -135014.505241] AUTODETECT spr round 1 (radius: 5)
[03:24:12 -105293.286222] AUTODETECT spr round 2 (radius: 10)
[03:25:57 -80407.913429] AUTODETECT spr round 3 (radius: 15)
[03:28:02 -66608.083748] AUTODETECT spr round 4 (radius: 20)
[03:30:35 -62497.855566] AUTODETECT spr round 5 (radius: 25)
[03:33:30 -61448.987774] SPR radius for FAST iterations: 25 (autodetect)
[03:33:30 -61448.987774] Model parameter optimization (eps = 3.000000)
[03:33:46 -61431.654874] FAST spr round 1 (radius: 25)
[03:36:13 -55867.841745] FAST spr round 2 (radius: 25)
[03:38:06 -55594.619271] FAST spr round 3 (radius: 25)
[03:39:41 -55543.868178] FAST spr round 4 (radius: 25)
[03:41:06 -55531.817464] FAST spr round 5 (radius: 25)
[03:42:26 -55521.557646] FAST spr round 6 (radius: 25)
[03:43:40 -55520.528458] FAST spr round 7 (radius: 25)
[03:44:50 -55520.525923] Model parameter optimization (eps = 1.000000)
[03:45:01 -55517.219672] SLOW spr round 1 (radius: 5)
[03:46:33 -55504.916353] SLOW spr round 2 (radius: 5)
[03:48:04 -55497.488273] SLOW spr round 3 (radius: 5)
[03:49:32 -55497.487349] SLOW spr round 4 (radius: 10)
[03:51:03 -55493.919898] SLOW spr round 5 (radius: 5)
[03:52:49 -55493.786391] SLOW spr round 6 (radius: 5)
[03:54:24 -55493.785156] SLOW spr round 7 (radius: 10)
[03:56:00 -55493.785014] SLOW spr round 8 (radius: 15)
[03:59:07 -55492.783616] SLOW spr round 9 (radius: 5)
[04:00:57 -55492.052529] SLOW spr round 10 (radius: 5)
[04:02:34 -55491.921172] SLOW spr round 11 (radius: 5)
[04:04:05 -55491.921105] SLOW spr round 12 (radius: 10)
[04:05:37 -55491.921102] SLOW spr round 13 (radius: 15)
[04:06:40] [worker #1] ML tree search #6, logLikelihood: -55471.912344
[04:08:49 -55491.757847] SLOW spr round 14 (radius: 5)
[04:10:38 -55487.005353] SLOW spr round 15 (radius: 5)
[04:12:17 -55486.638061] SLOW spr round 16 (radius: 5)
[04:13:48 -55485.680016] SLOW spr round 17 (radius: 5)
[04:15:16 -55485.679688] SLOW spr round 18 (radius: 10)
[04:16:47 -55485.679684] SLOW spr round 19 (radius: 15)
[04:19:59 -55485.378198] SLOW spr round 20 (radius: 5)
[04:21:46 -55485.375821] SLOW spr round 21 (radius: 10)
[04:23:35 -55485.375417] SLOW spr round 22 (radius: 15)
[04:26:32 -55485.375351] SLOW spr round 23 (radius: 20)
[04:30:57 -55485.151506] SLOW spr round 24 (radius: 5)
[04:32:46 -55485.145237] SLOW spr round 25 (radius: 10)
[04:34:39 -55484.754376] SLOW spr round 26 (radius: 5)
[04:36:20 -55484.754282] SLOW spr round 27 (radius: 10)
[04:38:02 -55484.754271] SLOW spr round 28 (radius: 15)
[04:41:02 -55484.754268] SLOW spr round 29 (radius: 20)
[04:45:26 -55484.754267] SLOW spr round 30 (radius: 25)
[04:50:27 -55484.754267] Model parameter optimization (eps = 0.100000)

[04:50:35] [worker #0] ML tree search #7, logLikelihood: -55484.554066

[04:50:35 -159001.489085] Initial branch length optimization
[04:50:38 -133884.235938] Model parameter optimization (eps = 10.000000)
[04:51:04 -133694.455857] AUTODETECT spr round 1 (radius: 5)
[04:52:33 -105233.553543] AUTODETECT spr round 2 (radius: 10)
[04:54:18 -80095.460868] AUTODETECT spr round 3 (radius: 15)
[04:56:22 -67488.712692] AUTODETECT spr round 4 (radius: 20)
[04:58:58 -62478.917326] AUTODETECT spr round 5 (radius: 25)
[05:02:01 -60823.460430] SPR radius for FAST iterations: 25 (autodetect)
[05:02:01 -60823.460430] Model parameter optimization (eps = 3.000000)
[05:02:13 -60813.181521] FAST spr round 1 (radius: 25)
[05:04:39 -55935.491796] FAST spr round 2 (radius: 25)
[05:06:26 -55647.487431] FAST spr round 3 (radius: 25)
[05:07:53 -55549.992540] FAST spr round 4 (radius: 25)
[05:09:15 -55530.707493] FAST spr round 5 (radius: 25)
[05:10:30 -55521.842018] FAST spr round 6 (radius: 25)
[05:11:40 -55521.005231] FAST spr round 7 (radius: 25)
[05:12:49 -55521.004681] Model parameter optimization (eps = 1.000000)
[05:13:03 -55514.048623] SLOW spr round 1 (radius: 5)
[05:14:37 -55500.641735] SLOW spr round 2 (radius: 5)
[05:16:08 -55499.638122] SLOW spr round 3 (radius: 5)
[05:17:38 -55499.625920] SLOW spr round 4 (radius: 10)
[05:19:11 -55493.274062] SLOW spr round 5 (radius: 5)
[05:20:59 -55484.738706] SLOW spr round 6 (radius: 5)
[05:21:08] [worker #1] ML tree search #8, logLikelihood: -55485.892289
[05:22:38 -55478.445705] SLOW spr round 7 (radius: 5)
[05:24:13 -55477.501487] SLOW spr round 8 (radius: 5)
[05:25:42 -55477.496378] SLOW spr round 9 (radius: 10)
[05:27:15 -55477.105114] SLOW spr round 10 (radius: 5)
[05:29:00 -55477.104104] SLOW spr round 11 (radius: 10)
[05:30:48 -55477.103960] SLOW spr round 12 (radius: 15)
[05:34:03 -55477.103869] SLOW spr round 13 (radius: 20)
[05:39:14 -55472.711989] SLOW spr round 14 (radius: 5)
[05:41:07 -55472.050758] SLOW spr round 15 (radius: 5)
[05:42:45 -55472.050658] SLOW spr round 16 (radius: 10)
[05:44:25 -55470.664724] SLOW spr round 17 (radius: 5)
[05:46:11 -55463.201623] SLOW spr round 18 (radius: 5)
[05:47:47 -55460.060771] SLOW spr round 19 (radius: 5)
[05:49:20 -55459.418387] SLOW spr round 20 (radius: 5)
[05:50:49 -55459.416080] SLOW spr round 21 (radius: 10)
[05:52:18 -55459.415936] SLOW spr round 22 (radius: 15)
[05:55:53 -55459.415835] SLOW spr round 23 (radius: 20)
[06:00:53 -55459.027669] SLOW spr round 24 (radius: 5)
[06:02:45 -55454.123921] SLOW spr round 25 (radius: 5)
[06:04:25 -55453.828384] SLOW spr round 26 (radius: 5)
[06:05:56 -55453.828095] SLOW spr round 27 (radius: 10)
[06:07:28 -55453.827979] SLOW spr round 28 (radius: 15)
[06:10:59 -55453.827876] SLOW spr round 29 (radius: 20)
[06:15:56 -55453.827777] SLOW spr round 30 (radius: 25)
[06:21:20 -55453.115759] SLOW spr round 31 (radius: 5)
[06:23:14 -55451.072330] SLOW spr round 32 (radius: 5)
[06:24:54 -55451.071275] SLOW spr round 33 (radius: 10)
[06:26:33 -55451.071127] SLOW spr round 34 (radius: 15)
[06:29:56 -55451.071026] SLOW spr round 35 (radius: 20)
[06:35:00 -55451.070928] SLOW spr round 36 (radius: 25)
[06:40:25 -55451.070830] Model parameter optimization (eps = 0.100000)

[06:40:33] [worker #0] ML tree search #9, logLikelihood: -55450.830006

[06:40:33 -159337.131719] Initial branch length optimization
[06:40:36 -134401.580050] Model parameter optimization (eps = 10.000000)
[06:41:04 -134280.173048] AUTODETECT spr round 1 (radius: 5)
[06:42:34 -103191.673651] AUTODETECT spr round 2 (radius: 10)
[06:44:15 -81725.455612] AUTODETECT spr round 3 (radius: 15)
[06:46:15 -69688.332304] AUTODETECT spr round 4 (radius: 20)
[06:48:30 -65549.940592] AUTODETECT spr round 5 (radius: 25)
[06:51:16 -63472.274608] SPR radius for FAST iterations: 25 (autodetect)
[06:51:16 -63472.274608] Model parameter optimization (eps = 3.000000)
[06:51:29 -63460.516942] FAST spr round 1 (radius: 25)
[06:54:20 -56897.349499] FAST spr round 2 (radius: 25)
[06:56:33 -56196.295686] FAST spr round 3 (radius: 25)
[06:58:11 -55642.303958] FAST spr round 4 (radius: 25)
[06:59:35 -55539.409292] FAST spr round 5 (radius: 25)
[07:00:53 -55520.639815] FAST spr round 6 (radius: 25)
[07:02:07 -55513.051365] FAST spr round 7 (radius: 25)
[07:03:18 -55510.776257] FAST spr round 8 (radius: 25)
[07:04:27 -55510.773151] Model parameter optimization (eps = 1.000000)
[07:04:37 -55505.251711] SLOW spr round 1 (radius: 5)
[07:06:09 -55495.776445] SLOW spr round 2 (radius: 5)
[07:07:40 -55491.270841] SLOW spr round 3 (radius: 5)
[07:09:10 -55490.927466] SLOW spr round 4 (radius: 5)
[07:10:40 -55488.312198] SLOW spr round 5 (radius: 5)
[07:12:10 -55486.319284] SLOW spr round 6 (radius: 5)
[07:13:37 -55486.312702] SLOW spr round 7 (radius: 10)
[07:15:10 -55483.861776] SLOW spr round 8 (radius: 5)
[07:16:55 -55481.673120] SLOW spr round 9 (radius: 5)
[07:18:28 -55481.670021] SLOW spr round 10 (radius: 10)
[07:20:04 -55481.669620] SLOW spr round 11 (radius: 15)
[07:23:07 -55480.652849] SLOW spr round 12 (radius: 5)
[07:24:52 -55480.579166] SLOW spr round 13 (radius: 10)
[07:26:41 -55480.574939] SLOW spr round 14 (radius: 15)
[07:29:33 -55479.720644] SLOW spr round 15 (radius: 5)
[07:31:20 -55478.570197] SLOW spr round 16 (radius: 5)
[07:32:56 -55478.568730] SLOW spr round 17 (radius: 10)
[07:34:33 -55478.568399] SLOW spr round 18 (radius: 15)
[07:37:36 -55478.568283] SLOW spr round 19 (radius: 20)
[07:42:01 -55477.625516] SLOW spr round 20 (radius: 5)
[07:43:53 -55476.053139] SLOW spr round 21 (radius: 5)
[07:45:32 -55475.717459] SLOW spr round 22 (radius: 5)
[07:46:19] [worker #1] ML tree search #10, logLikelihood: -55455.990685
[07:47:04 -55475.714971] SLOW spr round 23 (radius: 10)
[07:48:39 -55475.713910] SLOW spr round 24 (radius: 15)
[07:51:47 -55475.713464] SLOW spr round 25 (radius: 20)
[07:56:13 -55473.899981] SLOW spr round 26 (radius: 5)
[07:58:03 -55473.895654] SLOW spr round 27 (radius: 10)
[07:59:58 -55473.895434] SLOW spr round 28 (radius: 15)
[08:02:51 -55473.895410] SLOW spr round 29 (radius: 20)
[08:07:20 -55473.895404] SLOW spr round 30 (radius: 25)
[08:12:19 -55473.895402] Model parameter optimization (eps = 0.100000)

[08:12:25] [worker #0] ML tree search #11, logLikelihood: -55473.808056

[08:12:25 -159290.557806] Initial branch length optimization
[08:12:28 -134478.614884] Model parameter optimization (eps = 10.000000)
[08:12:46 -134396.091189] AUTODETECT spr round 1 (radius: 5)
[08:14:18 -104799.087701] AUTODETECT spr round 2 (radius: 10)
[08:16:09 -83448.116545] AUTODETECT spr round 3 (radius: 15)
[08:18:03 -71693.804588] AUTODETECT spr round 4 (radius: 20)
[08:20:43 -64577.889048] AUTODETECT spr round 5 (radius: 25)
[08:23:38 -61921.593089] SPR radius for FAST iterations: 25 (autodetect)
[08:23:38 -61921.593089] Model parameter optimization (eps = 3.000000)
[08:23:52 -61911.273557] FAST spr round 1 (radius: 25)
[08:26:17 -55897.925239] FAST spr round 2 (radius: 25)
[08:28:11 -55594.962050] FAST spr round 3 (radius: 25)
[08:29:42 -55539.719716] FAST spr round 4 (radius: 25)
[08:31:04 -55524.376100] FAST spr round 5 (radius: 25)
[08:32:20 -55519.184092] FAST spr round 6 (radius: 25)
[08:33:32 -55518.891627] FAST spr round 7 (radius: 25)
[08:34:43 -55516.611650] FAST spr round 8 (radius: 25)
[08:35:53 -55516.609994] Model parameter optimization (eps = 1.000000)
[08:36:07 -55510.914347] SLOW spr round 1 (radius: 5)
[08:37:41 -55501.324979] SLOW spr round 2 (radius: 5)
[08:39:12 -55499.782562] SLOW spr round 3 (radius: 5)
[08:40:29] [worker #1] ML tree search #12, logLikelihood: -55488.535895
[08:40:40 -55499.781672] SLOW spr round 4 (radius: 10)
[08:42:12 -55499.781610] SLOW spr round 5 (radius: 15)
[08:45:10 -55499.781594] SLOW spr round 6 (radius: 20)
[08:49:23 -55497.765803] SLOW spr round 7 (radius: 5)
[08:51:15 -55490.145282] SLOW spr round 8 (radius: 5)
[08:52:56 -55486.883780] SLOW spr round 9 (radius: 5)
[08:54:30 -55485.012888] SLOW spr round 10 (radius: 5)
[08:56:03 -55483.679806] SLOW spr round 11 (radius: 5)
[08:57:33 -55483.678450] SLOW spr round 12 (radius: 10)
[08:59:08 -55477.047163] SLOW spr round 13 (radius: 5)
[09:00:56 -55476.828010] SLOW spr round 14 (radius: 5)
[09:02:31 -55476.827264] SLOW spr round 15 (radius: 10)
[09:04:09 -55476.827224] SLOW spr round 16 (radius: 15)
[09:07:10 -55476.827220] SLOW spr round 17 (radius: 20)
[09:11:35 -55473.766767] SLOW spr round 18 (radius: 5)
[09:13:29 -55472.018594] SLOW spr round 19 (radius: 5)
[09:15:09 -55471.754115] SLOW spr round 20 (radius: 5)
[09:16:42 -55471.751378] SLOW spr round 21 (radius: 10)
[09:18:17 -55471.751086] SLOW spr round 22 (radius: 15)
[09:21:29 -55471.751058] SLOW spr round 23 (radius: 20)
[09:26:15 -55470.311388] SLOW spr round 24 (radius: 5)
[09:28:08 -55466.556578] SLOW spr round 25 (radius: 5)
[09:29:46 -55466.555371] SLOW spr round 26 (radius: 10)
[09:31:28 -55466.555282] SLOW spr round 27 (radius: 15)
[09:31:29] [worker #1] ML tree search #14, logLikelihood: -55456.791765
[09:34:35 -55466.555273] SLOW spr round 28 (radius: 20)
[09:39:28 -55466.555272] SLOW spr round 29 (radius: 25)
[09:44:53 -55466.555272] Model parameter optimization (eps = 0.100000)

[09:45:03] [worker #0] ML tree search #13, logLikelihood: -55465.551048

[09:45:04 -159410.187775] Initial branch length optimization
[09:45:07 -134591.804950] Model parameter optimization (eps = 10.000000)
[09:45:32 -134442.794231] AUTODETECT spr round 1 (radius: 5)
[09:47:02 -102982.555312] AUTODETECT spr round 2 (radius: 10)
[09:48:50 -77320.630260] AUTODETECT spr round 3 (radius: 15)
[09:50:44 -66096.525420] AUTODETECT spr round 4 (radius: 20)
[09:52:59 -61731.125652] AUTODETECT spr round 5 (radius: 25)
[09:56:14 -60675.466015] SPR radius for FAST iterations: 25 (autodetect)
[09:56:14 -60675.466015] Model parameter optimization (eps = 3.000000)
[09:56:28 -60670.337117] FAST spr round 1 (radius: 25)
[09:59:01 -55880.870944] FAST spr round 2 (radius: 25)
[10:00:54 -55598.991722] FAST spr round 3 (radius: 25)
[10:02:23 -55558.378448] FAST spr round 4 (radius: 25)
[10:03:44 -55550.046275] FAST spr round 5 (radius: 25)
[10:05:00 -55548.833217] FAST spr round 6 (radius: 25)
[10:06:12 -55547.832601] FAST spr round 7 (radius: 25)
[10:07:22 -55547.830771] Model parameter optimization (eps = 1.000000)
[10:07:30 -55546.216365] SLOW spr round 1 (radius: 5)
[10:09:04 -55532.596488] SLOW spr round 2 (radius: 5)
[10:10:36 -55528.162998] SLOW spr round 3 (radius: 5)
[10:12:07 -55527.396930] SLOW spr round 4 (radius: 5)
[10:13:35 -55527.396376] SLOW spr round 5 (radius: 10)
[10:15:08 -55527.396254] SLOW spr round 6 (radius: 15)
[10:18:25 -55518.324675] SLOW spr round 7 (radius: 5)
[10:20:14 -55517.571319] SLOW spr round 8 (radius: 5)
[10:21:54 -55516.233200] SLOW spr round 9 (radius: 5)
[10:23:27 -55514.303138] SLOW spr round 10 (radius: 5)
[10:24:57 -55514.010050] SLOW spr round 11 (radius: 5)
[10:26:26 -55512.680241] SLOW spr round 12 (radius: 5)
[10:27:54 -55512.680101] SLOW spr round 13 (radius: 10)
[10:29:28 -55508.728812] SLOW spr round 14 (radius: 5)
[10:31:14 -55508.670176] SLOW spr round 15 (radius: 10)
[10:33:01 -55508.669351] SLOW spr round 16 (radius: 15)
[10:35:51 -55507.758833] SLOW spr round 17 (radius: 5)
[10:37:41 -55507.042630] SLOW spr round 18 (radius: 5)
[10:39:21 -55506.139218] SLOW spr round 19 (radius: 5)
[10:40:54 -55506.138693] SLOW spr round 20 (radius: 10)
[10:42:30 -55506.138674] SLOW spr round 21 (radius: 15)
[10:45:33 -55506.138668] SLOW spr round 22 (radius: 20)
[10:49:48 -55502.498944] SLOW spr round 23 (radius: 5)
[10:51:39 -55502.495165] SLOW spr round 24 (radius: 10)
[10:53:37 -55502.494516] SLOW spr round 25 (radius: 15)
[10:56:27 -55502.494238] SLOW spr round 26 (radius: 20)
[11:00:46 -55502.494100] SLOW spr round 27 (radius: 25)
[11:05:40 -55502.494026] Model parameter optimization (eps = 0.100000)

[11:05:45] [worker #0] ML tree search #15, logLikelihood: -55502.430937

[11:05:45 -159292.719491] Initial branch length optimization
[11:05:47 -134414.013876] Model parameter optimization (eps = 10.000000)
[11:06:12 -134282.869333] AUTODETECT spr round 1 (radius: 5)
[11:06:16] [worker #1] ML tree search #16, logLikelihood: -55479.464564
[11:07:41 -106344.172330] AUTODETECT spr round 2 (radius: 10)
[11:09:29 -78780.407097] AUTODETECT spr round 3 (radius: 15)
[11:11:29 -66046.936294] AUTODETECT spr round 4 (radius: 20)
[11:14:19 -61096.337467] AUTODETECT spr round 5 (radius: 25)
[11:17:43 -60754.235467] SPR radius for FAST iterations: 25 (autodetect)
[11:17:43 -60754.235467] Model parameter optimization (eps = 3.000000)
[11:17:57 -60744.678969] FAST spr round 1 (radius: 25)
[11:20:35 -55786.993054] FAST spr round 2 (radius: 25)
[11:22:25 -55565.208797] FAST spr round 3 (radius: 25)
[11:23:58 -55502.286089] FAST spr round 4 (radius: 25)
[11:25:19 -55491.306932] FAST spr round 5 (radius: 25)
[11:26:36 -55488.523339] FAST spr round 6 (radius: 25)
[11:27:48 -55488.502651] Model parameter optimization (eps = 1.000000)
[11:28:01 -55478.520086] SLOW spr round 1 (radius: 5)
[11:29:34 -55461.823169] SLOW spr round 2 (radius: 5)
[11:31:05 -55458.796697] SLOW spr round 3 (radius: 5)
[11:32:34 -55458.446542] SLOW spr round 4 (radius: 5)
[11:34:00 -55458.446337] SLOW spr round 5 (radius: 10)
[11:35:31 -55457.484192] SLOW spr round 6 (radius: 5)
[11:37:15 -55457.464169] SLOW spr round 7 (radius: 10)
[11:39:04 -55456.199733] SLOW spr round 8 (radius: 5)
[11:40:44 -55456.199351] SLOW spr round 9 (radius: 10)
[11:42:28 -55456.199246] SLOW spr round 10 (radius: 15)
[11:45:33 -55448.477824] SLOW spr round 11 (radius: 5)
[11:47:23 -55447.216219] SLOW spr round 12 (radius: 5)
[11:49:00 -55447.215247] SLOW spr round 13 (radius: 10)
[11:50:39 -55447.215106] SLOW spr round 14 (radius: 15)
[11:53:40 -55447.215001] SLOW spr round 15 (radius: 20)
[11:57:56 -55446.370277] SLOW spr round 16 (radius: 5)
[11:59:48 -55444.442520] SLOW spr round 17 (radius: 5)
[12:01:27 -55444.392227] SLOW spr round 18 (radius: 10)
[12:03:07 -55443.635880] SLOW spr round 19 (radius: 5)
[12:04:53 -55443.363043] SLOW spr round 20 (radius: 5)
[12:06:27 -55443.362451] SLOW spr round 21 (radius: 10)
[12:08:03 -55443.362342] SLOW spr round 22 (radius: 15)
[12:11:08 -55443.362252] SLOW spr round 23 (radius: 20)
[12:15:23 -55443.362162] SLOW spr round 24 (radius: 25)
[12:20:29 -55442.507893] SLOW spr round 25 (radius: 5)
[12:22:22 -55440.916634] SLOW spr round 26 (radius: 5)
[12:24:02 -55440.685395] SLOW spr round 27 (radius: 5)
[12:25:34 -55440.684335] SLOW spr round 28 (radius: 10)
[12:27:08 -55440.684189] SLOW spr round 29 (radius: 15)
[12:30:14 -55440.684096] SLOW spr round 30 (radius: 20)
[12:34:25 -55440.684006] SLOW spr round 31 (radius: 25)
[12:39:30 -55439.856464] SLOW spr round 32 (radius: 5)
[12:41:21 -55439.855301] SLOW spr round 33 (radius: 10)
[12:43:20 -55439.855145] SLOW spr round 34 (radius: 15)
[12:46:09 -55439.855052] SLOW spr round 35 (radius: 20)
[12:50:23 -55439.854962] SLOW spr round 36 (radius: 25)
[12:51:13] [worker #1] ML tree search #18, logLikelihood: -55474.408589
[12:55:26 -55439.854872] Model parameter optimization (eps = 0.100000)

[12:55:36] [worker #0] ML tree search #17, logLikelihood: -55439.133855

[12:55:36 -159973.577334] Initial branch length optimization
[12:55:39 -135322.229650] Model parameter optimization (eps = 10.000000)
[12:56:03 -135146.064294] AUTODETECT spr round 1 (radius: 5)
[12:57:31 -102801.545220] AUTODETECT spr round 2 (radius: 10)
[12:59:12 -82983.085056] AUTODETECT spr round 3 (radius: 15)
[13:01:07 -73388.242196] AUTODETECT spr round 4 (radius: 20)
[13:03:30 -65159.486068] AUTODETECT spr round 5 (radius: 25)
[13:06:46 -62312.303134] SPR radius for FAST iterations: 25 (autodetect)
[13:06:46 -62312.303134] Model parameter optimization (eps = 3.000000)
[13:07:02 -62262.384949] FAST spr round 1 (radius: 25)
[13:09:41 -55869.732930] FAST spr round 2 (radius: 25)
[13:11:30 -55586.998122] FAST spr round 3 (radius: 25)
[13:12:59 -55567.341776] FAST spr round 4 (radius: 25)
[13:14:16 -55560.771604] FAST spr round 5 (radius: 25)
[13:15:29 -55560.757252] Model parameter optimization (eps = 1.000000)
[13:15:36 -55557.614234] SLOW spr round 1 (radius: 5)
[13:17:10 -55543.960130] SLOW spr round 2 (radius: 5)
[13:18:41 -55538.824982] SLOW spr round 3 (radius: 5)
[13:20:13 -55537.998076] SLOW spr round 4 (radius: 5)
[13:21:41 -55537.995863] SLOW spr round 5 (radius: 10)
[13:23:13 -55537.995468] SLOW spr round 6 (radius: 15)
[13:26:14 -55536.779576] SLOW spr round 7 (radius: 5)
[13:28:01 -55536.778665] SLOW spr round 8 (radius: 10)
[13:29:51 -55536.778499] SLOW spr round 9 (radius: 15)
[13:32:35 -55536.778442] SLOW spr round 10 (radius: 20)
[13:36:31 -55536.615047] SLOW spr round 11 (radius: 5)
[13:38:21 -55536.613282] SLOW spr round 12 (radius: 10)
[13:40:16 -55536.612995] SLOW spr round 13 (radius: 15)
[13:42:58 -55536.612936] SLOW spr round 14 (radius: 20)
[13:46:56 -55536.612915] SLOW spr round 15 (radius: 25)
[13:51:31 -55536.147190] SLOW spr round 16 (radius: 5)
[13:53:26 -55533.280570] SLOW spr round 17 (radius: 5)
[13:55:05 -55533.280467] SLOW spr round 18 (radius: 10)
[13:56:45 -55533.280444] SLOW spr round 19 (radius: 15)
[13:59:37 -55533.280435] SLOW spr round 20 (radius: 20)
[14:03:33 -55533.280429] SLOW spr round 21 (radius: 25)
[14:08:07 -55533.214877] Model parameter optimization (eps = 0.100000)

[14:08:11] [worker #0] ML tree search #19, logLikelihood: -55533.166213

[14:19:05] [worker #1] ML tree search #20, logLikelihood: -55496.497004

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.112639,0.127426) (0.112931,0.332496) (0.316883,0.748954) (0.457547,1.553428) 
   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: -55439.133855

AIC score: 114180.267710 / AICc score: 5569084.267710 / BIC score: 118593.108115
Free parameters (model + branch lengths): 1651

WARNING: Number of free parameters (K=1651) is larger than alignment size (n=107).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/E7ERA6/3_mltree/E7ERA6.raxml.log

Analysis started: 07-Jul-2021 16:27:43 / finished: 08-Jul-2021 06:46:49

Elapsed time: 51545.662 seconds