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 11-Jul-2021 18:28:37 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/2_msa/P30153_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/3_mltree/P30153 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/2_msa/P30153_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 567 sites

WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_M3Z137_M3Z137_MUSPF_9669 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_F1PX75_F1PX75_CANLF_9615 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_F7A0N8_F7A0N8_HORSE_9796 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_Q5XI34_Q5XI34_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_G5B3C5_G5B3C5_HETGA_10181 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and sp_P54612_2AAA_PIG_9823 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_G1LUS6_G1LUS6_AILME_9646 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A2I2V4A6_A0A2I2V4A6_FELCA_9685 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A091DZJ3_A0A091DZJ3_FUKDA_885580 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A1U7TCT8_A0A1U7TCT8_TARSY_1868482 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A1U7R3I2_A0A1U7R3I2_MESAU_10036 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A2Y9DWC4_A0A2Y9DWC4_TRIMA_127582 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A2Y9LE43_A0A2Y9LE43_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A2Y9P9C0_A0A2Y9P9C0_DELLE_9749 are exactly identical!
WARNING: Sequences sp_Q76MZ3_2AAA_MOUSE_10090 and tr_A0A2Y9EQM8_A0A2Y9EQM8_PHYCD_9755 are exactly identical!
WARNING: Sequences sp_P36179_2AAA_DROME_7227 and tr_B4HYJ6_B4HYJ6_DROSE_7238 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A2I3T2U1_A0A2I3T2U1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and sp_P30153_2AAA_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_F6RRV0_F6RRV0_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_F7H4Q7_F7H4Q7_CALJA_9483 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A0A0MWP4_A0A0A0MWP4_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A0D9S5A4_A0A0D9S5A4_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A2K5N9Q3_A0A2K5N9Q3_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A2K6CBT5_A0A2K6CBT5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A2K5Y6H5_A0A2K5Y6H5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G3QUV4_G3QUV4_GORGO_9595 and tr_A0A2R8ZN14_A0A2R8ZN14_PANPA_9597 are exactly identical!
WARNING: Sequences tr_C0NUD2_C0NUD2_AJECG_447093 and tr_C6H1T0_C6H1T0_AJECH_544712 are exactly identical!
WARNING: Sequences tr_C0NUD2_C0NUD2_AJECG_447093 and tr_F0U991_F0U991_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_B5DHZ5_B5DHZ5_DROPS_46245 and tr_B4G837_B4G837_DROPE_7234 are exactly identical!
WARNING: Sequences tr_B8NRV1_B8NRV1_ASPFN_332952 and tr_Q2UUB7_Q2UUB7_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_A0A179UL23_A0A179UL23_BLAGS_559298 and tr_A0A179TWQ3_A0A179TWQ3_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_H2Q4R4_H2Q4R4_PANTR_9598 and tr_A0A2R8ZQT0_A0A2R8ZQT0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_J5JHG1_J5JHG1_BEAB2_655819 and tr_A0A0A2VUX0_A0A0A2VUX0_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_J5JHG1_J5JHG1_BEAB2_655819 and tr_A0A166YIN4_A0A166YIN4_9HYPO_1081107 are exactly identical!
WARNING: Sequences tr_M3ZNT8_M3ZNT8_XIPMA_8083 and tr_A0A087XH90_A0A087XH90_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A087ZQA3_A0A087ZQA3_APIME_7460 and tr_A0A2A3EG59_A0A2A3EG59_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158NXP8_A0A158NXP8_ATTCE_12957 and tr_A0A151WPX9_A0A151WPX9_9HYME_64791 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_B8BD97_B8BD97_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_I1QMA6_I1QMA6_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_A0A0E0QNI4_A0A0E0QNI4_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_A0A0D3H444_A0A0D3H444_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_A0A0E0B034_A0A0E0B034_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0IGS1_A0A0E0IGS1_ORYNI_4536 and tr_Q6K4K9_Q6K4K9_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A2RAI7_A2RAI7_ASPNC_425011 and tr_G3YDW8_G3YDW8_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2RAI7_A2RAI7_ASPNC_425011 and tr_A0A319AL25_A0A319AL25_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_A0A1D5R393_A0A1D5R393_MACMU_9544 and tr_A0A2K5L863_A0A2K5L863_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5R393_A0A1D5R393_MACMU_9544 and tr_A0A2K6CMV5_A0A2K6CMV5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7X8Z2_G7X8Z2_ASPKW_1033177 and tr_A0A100INM2_A0A100INM2_ASPNG_5061 are exactly identical!
WARNING: Sequences tr_G7X8Z2_G7X8Z2_ASPKW_1033177 and tr_A0A146F564_A0A146F564_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G7X8Z2_G7X8Z2_ASPKW_1033177 and tr_A0A1L9NLW2_A0A1L9NLW2_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_F9X8V9_F9X8V9_ZYMTI_336722 and tr_A0A1X7RQU3_A0A1X7RQU3_ZYMTR_1276538 are exactly identical!
WARNING: Sequences tr_G2YGM2_G2YGM2_BOTF4_999810 and tr_M7UE12_M7UE12_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_A0A287A5F7_A0A287A5F7_PIG_9823 and sp_P54613_2AAB_PIG_9823 are exactly identical!
WARNING: Sequences tr_E3QC96_E3QC96_COLGM_645133 and tr_A0A066XE60_A0A066XE60_COLSU_1173701 are exactly identical!
WARNING: Sequences tr_B3RW79_B3RW79_TRIAD_10228 and tr_A0A369RSE2_A0A369RSE2_9METZ_287889 are exactly identical!
WARNING: Sequences tr_F2PKK1_F2PKK1_TRIEC_559882 and tr_A0A059J413_A0A059J413_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L0PB97_L0PB97_PNEJ8_1209962 and tr_A0A0W4ZWJ8_A0A0W4ZWJ8_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_N4UD39_N4UD39_FUSC1_1229664 and tr_X0CU79_X0CU79_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_N4UD39_N4UD39_FUSC1_1229664 and tr_A0A2H3TIC3_A0A2H3TIC3_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_N4UD39_N4UD39_FUSC1_1229664 and tr_A0A2H3GSY6_A0A2H3GSY6_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_M2TV90_M2TV90_COCH5_701091 and tr_W6Y781_W6Y781_COCCA_930089 are exactly identical!
WARNING: Sequences tr_M2TV90_M2TV90_COCH5_701091 and tr_W6ZH86_W6ZH86_COCMI_930090 are exactly identical!
WARNING: Sequences tr_U5HAJ7_U5HAJ7_USTV1_683840 and tr_A0A2X0M2T0_A0A2X0M2T0_9BASI_796604 are exactly identical!
WARNING: Sequences tr_V2X7W6_V2X7W6_MONRO_1381753 and tr_A0A0W0G3L0_A0A0W0G3L0_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_W2PCN8_W2PCN8_PHYPN_761204 and tr_W2N537_W2N537_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A017S0A3_A0A017S0A3_9EURO_1388766 and tr_A0A1L9V469_A0A1L9V469_ASPGL_1160497 are exactly identical!
WARNING: Sequences tr_A0A010QFI9_A0A010QFI9_9PEZI_1445577 and tr_A0A1G4BMV5_A0A1G4BMV5_9PEZI_1209926 are exactly identical!
WARNING: Sequences tr_A0A015LC66_A0A015LC66_9GLOM_1432141 and tr_A0A2I1E300_A0A2I1E300_9GLOM_588596 are exactly identical!
WARNING: Sequences tr_A0A015LC66_A0A015LC66_9GLOM_1432141 and tr_U9SMC4_U9SMC4_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A094GE41_A0A094GE41_9PEZI_1420912 and tr_A0A2P2SVV5_A0A2P2SVV5_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0A0KT59_A0A0A0KT59_CUCSA_3659 and tr_A0A1S3BG18_A0A1S3BG18_CUCME_3656 are exactly identical!
WARNING: Sequences tr_A0A0D2SAK6_A0A0D2SAK6_GOSRA_29730 and tr_A0A1U8KSZ7_A0A1U8KSZ7_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0F0I3S5_A0A0F0I3S5_ASPPU_1403190 and tr_A0A1S9D572_A0A1S9D572_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A0F0I3S5_A0A0F0I3S5_ASPPU_1403190 and tr_A0A2G7EKM7_A0A2G7EKM7_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A0A0F8VSM6_A0A0F8VSM6_9EURO_308745 and tr_A0A2T5LW51_A0A2T5LW51_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0N1J309_A0A0N1J309_FUSLA_179993 and tr_I1RN65_I1RN65_GIBZE_229533 are exactly identical!
WARNING: Sequences tr_A0A0N1J309_A0A0N1J309_FUSLA_179993 and tr_A0A1B8AKJ5_A0A1B8AKJ5_FUSPO_36050 are exactly identical!
WARNING: Sequences tr_A0A0N1J309_A0A0N1J309_FUSLA_179993 and tr_A0A2T4GMT8_A0A2T4GMT8_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_A0A0N1J309_A0A0N1J309_FUSLA_179993 and tr_A0A2L2TCM0_A0A2L2TCM0_9HYPO_56646 are exactly identical!
WARNING: Sequences tr_A0A0A1NQE7_A0A0A1NQE7_9FUNG_58291 and tr_A0A367K928_A0A367K928_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A0G4NVB4_A0A0G4NVB4_PENCA_1429867 and tr_A0A101MLT4_A0A101MLT4_9EURO_48697 are exactly identical!
WARNING: Sequences tr_A0A0G4NVB4_A0A0G4NVB4_PENCA_1429867 and tr_A0A1V6P2G4_A0A1V6P2G4_9EURO_60169 are exactly identical!
WARNING: Sequences tr_A0A0V1CRK9_A0A0V1CRK9_TRIBR_45882 and tr_A0A0V1NWL4_A0A0V1NWL4_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CRK9_A0A0V1CRK9_TRIBR_45882 and tr_A0A0V0U1I2_A0A0V0U1I2_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0P1BLJ1_A0A0P1BLJ1_9BASI_401625 and tr_A0A316W5D0_A0A316W5D0_9BASI_1522189 are exactly identical!
WARNING: Sequences tr_A0A194VIW2_A0A194VIW2_9PEZI_105487 and tr_A0A194VB68_A0A194VB68_9PEZI_694573 are exactly identical!
WARNING: Sequences tr_A0A1S3XPE4_A0A1S3XPE4_TOBAC_4097 and tr_A0A1J6I5E2_A0A1J6I5E2_NICAT_49451 are exactly identical!
WARNING: Sequences tr_A0A1S3XPE4_A0A1S3XPE4_TOBAC_4097 and tr_A0A1U7VVT0_A0A1U7VVT0_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3ZJ45_A0A1S3ZJ45_TOBAC_4097 and tr_A0A1U7WH78_A0A1U7WH78_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1B8C350_A0A1B8C350_9PEZI_1622147 and tr_A0A1B8F2Z2_A0A1B8F2Z2_9PEZI_1622149 are exactly identical!
WARNING: Sequences tr_A0A1B7NDM5_A0A1B7NDM5_9HOMO_1314800 and tr_A0A1J8QAM2_A0A1J8QAM2_9HOMO_180088 are exactly identical!
WARNING: Sequences tr_A0A1V8SEJ7_A0A1V8SEJ7_9PEZI_1507870 and tr_A0A1V8SW23_A0A1V8SW23_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A1U8FHX3_A0A1U8FHX3_CAPAN_4072 and tr_A0A2G3C9B0_A0A2G3C9B0_CAPCH_80379 are exactly identical!
WARNING: Duplicate sequences found: 93

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/P30153/3_mltree/P30153.raxml.reduced.phy

Alignment comprises 1 partitions and 567 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 567 / 567
Gaps: 0.93 %
Invariant sites: 0.88 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/3_mltree/P30153.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 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 81 / 6480
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -706456.196532] Initial branch length optimization
[00:00:04 -594761.565816] Model parameter optimization (eps = 10.000000)
[00:00:33 -593983.179874] AUTODETECT spr round 1 (radius: 5)
[00:02:25 -382786.984833] AUTODETECT spr round 2 (radius: 10)
[00:04:24 -292270.317754] AUTODETECT spr round 3 (radius: 15)
[00:06:32 -243959.093568] AUTODETECT spr round 4 (radius: 20)
[00:08:51 -213097.574292] AUTODETECT spr round 5 (radius: 25)
[00:11:20 -201383.016584] SPR radius for FAST iterations: 25 (autodetect)
[00:11:20 -201383.016584] Model parameter optimization (eps = 3.000000)
[00:11:43 -200914.416871] FAST spr round 1 (radius: 25)
[00:13:52 -167711.879742] FAST spr round 2 (radius: 25)
[00:15:37 -166363.356995] FAST spr round 3 (radius: 25)
[00:17:11 -166303.485570] FAST spr round 4 (radius: 25)
[00:18:39 -166296.731556] FAST spr round 5 (radius: 25)
[00:20:03 -166291.027662] FAST spr round 6 (radius: 25)
[00:21:27 -166287.168887] FAST spr round 7 (radius: 25)
[00:22:49 -166284.211097] FAST spr round 8 (radius: 25)
[00:24:11 -166284.211068] Model parameter optimization (eps = 1.000000)
[00:24:24 -166279.844968] SLOW spr round 1 (radius: 5)
[00:26:09 -166248.904138] SLOW spr round 2 (radius: 5)
[00:27:53 -166242.097877] SLOW spr round 3 (radius: 5)
[00:29:37 -166242.097825] SLOW spr round 4 (radius: 10)
[00:31:19 -166242.097808] SLOW spr round 5 (radius: 15)
[00:34:02 -166242.097808] SLOW spr round 6 (radius: 20)
[00:37:21 -166242.097806] SLOW spr round 7 (radius: 25)
[00:41:07 -166242.097806] Model parameter optimization (eps = 0.100000)

[00:41:11] ML tree search #1, logLikelihood: -166242.094777

[00:41:11 -697198.405447] Initial branch length optimization
[00:41:13 -582269.000339] Model parameter optimization (eps = 10.000000)
[00:41:39 -581495.973285] AUTODETECT spr round 1 (radius: 5)
[00:43:32 -383351.885775] AUTODETECT spr round 2 (radius: 10)
[00:45:31 -297729.042496] AUTODETECT spr round 3 (radius: 15)
[00:47:37 -249691.949705] AUTODETECT spr round 4 (radius: 20)
[00:49:50 -204844.795189] AUTODETECT spr round 5 (radius: 25)
[00:52:17 -196746.404495] SPR radius for FAST iterations: 25 (autodetect)
[00:52:17 -196746.404495] Model parameter optimization (eps = 3.000000)
[00:52:42 -196322.517528] FAST spr round 1 (radius: 25)
[00:54:51 -168114.094385] FAST spr round 2 (radius: 25)
[00:56:38 -166438.703449] FAST spr round 3 (radius: 25)
[00:58:16 -166276.081524] FAST spr round 4 (radius: 25)
[00:59:43 -166270.486966] FAST spr round 5 (radius: 25)
[01:01:06 -166270.486954] Model parameter optimization (eps = 1.000000)
[01:01:16 -166264.481274] SLOW spr round 1 (radius: 5)
[01:03:07 -166230.101948] SLOW spr round 2 (radius: 5)
[01:04:52 -166229.424271] SLOW spr round 3 (radius: 5)
[01:06:33 -166229.424241] SLOW spr round 4 (radius: 10)
[01:08:17 -166228.874357] SLOW spr round 5 (radius: 5)
[01:10:20 -166228.083329] SLOW spr round 6 (radius: 5)
[01:12:11 -166228.083319] SLOW spr round 7 (radius: 10)
[01:13:59 -166228.083319] SLOW spr round 8 (radius: 15)
[01:16:40 -166228.083319] SLOW spr round 9 (radius: 20)
[01:20:09 -166228.083319] SLOW spr round 10 (radius: 25)
[01:24:11 -166228.083319] Model parameter optimization (eps = 0.100000)

[01:24:25] ML tree search #2, logLikelihood: -166227.969891

[01:24:25 -713241.980165] Initial branch length optimization
[01:24:29 -597459.293625] Model parameter optimization (eps = 10.000000)
[01:24:58 -596694.197955] AUTODETECT spr round 1 (radius: 5)
[01:26:54 -375757.803704] AUTODETECT spr round 2 (radius: 10)
[01:28:54 -281785.912260] AUTODETECT spr round 3 (radius: 15)
[01:30:58 -224179.764587] AUTODETECT spr round 4 (radius: 20)
[01:33:09 -198166.057115] AUTODETECT spr round 5 (radius: 25)
[01:35:28 -194034.839096] SPR radius for FAST iterations: 25 (autodetect)
[01:35:28 -194034.839096] Model parameter optimization (eps = 3.000000)
[01:35:45 -193613.961091] FAST spr round 1 (radius: 25)
[01:37:55 -167184.949065] FAST spr round 2 (radius: 25)
[01:39:40 -166341.671146] FAST spr round 3 (radius: 25)
[01:41:14 -166277.402173] FAST spr round 4 (radius: 25)
[01:42:42 -166272.884488] FAST spr round 5 (radius: 25)
[01:44:04 -166272.884342] Model parameter optimization (eps = 1.000000)
[01:44:17 -166267.800204] SLOW spr round 1 (radius: 5)
[01:46:03 -166224.621349] SLOW spr round 2 (radius: 5)
[01:47:45 -166221.445417] SLOW spr round 3 (radius: 5)
[01:49:25 -166221.445394] SLOW spr round 4 (radius: 10)
[01:51:09 -166220.953041] SLOW spr round 5 (radius: 5)
[01:53:14 -166219.949525] SLOW spr round 6 (radius: 5)
[01:55:04 -166219.949115] SLOW spr round 7 (radius: 10)
[01:56:51 -166219.949101] SLOW spr round 8 (radius: 15)
[01:59:29 -166219.949101] SLOW spr round 9 (radius: 20)
[02:02:55 -166219.949101] SLOW spr round 10 (radius: 25)
[02:06:51 -166219.949101] Model parameter optimization (eps = 0.100000)

[02:06:56] ML tree search #3, logLikelihood: -166219.932834

[02:06:56 -701243.580043] Initial branch length optimization
[02:07:00 -586653.597671] Model parameter optimization (eps = 10.000000)
[02:07:36 -585880.841607] AUTODETECT spr round 1 (radius: 5)
[02:09:31 -371671.157431] AUTODETECT spr round 2 (radius: 10)
[02:11:44 -276012.947591] AUTODETECT spr round 3 (radius: 15)
[02:13:52 -219440.624127] AUTODETECT spr round 4 (radius: 20)
[02:16:20 -202783.196700] AUTODETECT spr round 5 (radius: 25)
[02:19:01 -199168.287161] SPR radius for FAST iterations: 25 (autodetect)
[02:19:01 -199168.287161] Model parameter optimization (eps = 3.000000)
[02:19:23 -198769.881614] FAST spr round 1 (radius: 25)
[02:21:39 -167824.020155] FAST spr round 2 (radius: 25)
[02:23:27 -166356.170050] FAST spr round 3 (radius: 25)
[02:25:06 -166277.617205] FAST spr round 4 (radius: 25)
[02:26:36 -166274.489541] FAST spr round 5 (radius: 25)
[02:28:04 -166274.489373] Model parameter optimization (eps = 1.000000)
[02:28:16 -166269.700171] SLOW spr round 1 (radius: 5)
[02:30:08 -166229.776268] SLOW spr round 2 (radius: 5)
[02:31:55 -166225.406315] SLOW spr round 3 (radius: 5)
[02:33:39 -166225.406128] SLOW spr round 4 (radius: 10)
[02:35:27 -166225.406127] SLOW spr round 5 (radius: 15)
[02:38:14 -166225.406127] SLOW spr round 6 (radius: 20)
[02:41:40 -166225.406127] SLOW spr round 7 (radius: 25)
[02:45:36 -166225.406127] Model parameter optimization (eps = 0.100000)

[02:45:45] ML tree search #4, logLikelihood: -166225.232060

[02:45:45 -707761.600175] Initial branch length optimization
[02:45:49 -591395.396055] Model parameter optimization (eps = 10.000000)
[02:46:20 -590651.433484] AUTODETECT spr round 1 (radius: 5)
[02:48:16 -383219.858577] AUTODETECT spr round 2 (radius: 10)
[02:50:20 -286257.990411] AUTODETECT spr round 3 (radius: 15)
[02:52:27 -247836.890169] AUTODETECT spr round 4 (radius: 20)
[02:54:53 -227780.286510] AUTODETECT spr round 5 (radius: 25)
[02:57:44 -207258.917715] SPR radius for FAST iterations: 25 (autodetect)
[02:57:44 -207258.917715] Model parameter optimization (eps = 3.000000)
[02:58:03 -206799.970234] FAST spr round 1 (radius: 25)
[03:00:26 -167413.866960] FAST spr round 2 (radius: 25)
[03:02:13 -166353.353125] FAST spr round 3 (radius: 25)
[03:03:51 -166303.533223] FAST spr round 4 (radius: 25)
[03:05:22 -166291.985950] FAST spr round 5 (radius: 25)
[03:06:49 -166289.728830] FAST spr round 6 (radius: 25)
[03:08:15 -166289.728640] Model parameter optimization (eps = 1.000000)
[03:08:28 -166279.735033] SLOW spr round 1 (radius: 5)
[03:10:17 -166234.942852] SLOW spr round 2 (radius: 5)
[03:12:04 -166226.768014] SLOW spr round 3 (radius: 5)
[03:13:47 -166226.585649] SLOW spr round 4 (radius: 5)
[03:15:30 -166226.585598] SLOW spr round 5 (radius: 10)
[03:17:16 -166226.585592] SLOW spr round 6 (radius: 15)
[03:20:03 -166226.585592] SLOW spr round 7 (radius: 20)
[03:23:27 -166226.585592] SLOW spr round 8 (radius: 25)
[03:27:18 -166226.585592] Model parameter optimization (eps = 0.100000)

[03:27:26] ML tree search #5, logLikelihood: -166226.468298

[03:27:26 -711175.368775] Initial branch length optimization
[03:27:30 -593969.786660] Model parameter optimization (eps = 10.000000)
[03:28:05 -593271.283911] AUTODETECT spr round 1 (radius: 5)
[03:30:00 -376451.617085] AUTODETECT spr round 2 (radius: 10)
[03:32:02 -286840.099639] AUTODETECT spr round 3 (radius: 15)
[03:34:09 -227272.970862] AUTODETECT spr round 4 (radius: 20)
[03:36:27 -202925.359637] AUTODETECT spr round 5 (radius: 25)
[03:39:27 -194973.088866] SPR radius for FAST iterations: 25 (autodetect)
[03:39:27 -194973.088866] Model parameter optimization (eps = 3.000000)
[03:39:44 -194549.794209] FAST spr round 1 (radius: 25)
[03:41:55 -167153.326707] FAST spr round 2 (radius: 25)
[03:43:44 -166367.020974] FAST spr round 3 (radius: 25)
[03:45:25 -166291.760435] FAST spr round 4 (radius: 25)
[03:46:55 -166282.919351] FAST spr round 5 (radius: 25)
[03:48:21 -166282.919226] Model parameter optimization (eps = 1.000000)
[03:48:38 -166269.108760] SLOW spr round 1 (radius: 5)
[03:50:29 -166234.338515] SLOW spr round 2 (radius: 5)
[03:52:17 -166222.322499] SLOW spr round 3 (radius: 5)
[03:54:01 -166222.322465] SLOW spr round 4 (radius: 10)
[03:55:47 -166222.322465] SLOW spr round 5 (radius: 15)
[03:58:32 -166222.322465] SLOW spr round 6 (radius: 20)
[04:01:56 -166222.322465] SLOW spr round 7 (radius: 25)
[04:05:57 -166222.322465] Model parameter optimization (eps = 0.100000)

[04:06:04] ML tree search #6, logLikelihood: -166222.281439

[04:06:04 -709793.174697] Initial branch length optimization
[04:06:08 -594626.518517] Model parameter optimization (eps = 10.000000)
[04:06:40 -593815.871377] AUTODETECT spr round 1 (radius: 5)
[04:08:36 -374142.795168] AUTODETECT spr round 2 (radius: 10)
[04:10:37 -282523.728200] AUTODETECT spr round 3 (radius: 15)
[04:12:43 -252766.554821] AUTODETECT spr round 4 (radius: 20)
[04:15:13 -226186.358098] AUTODETECT spr round 5 (radius: 25)
[04:17:45 -207826.669242] SPR radius for FAST iterations: 25 (autodetect)
[04:17:45 -207826.669242] Model parameter optimization (eps = 3.000000)
[04:17:52 -207821.412440] FAST spr round 1 (radius: 25)
[04:20:13 -168138.424334] FAST spr round 2 (radius: 25)
[04:22:08 -166801.861840] FAST spr round 3 (radius: 25)
[04:23:44 -166680.973915] FAST spr round 4 (radius: 25)
[04:25:16 -166674.436795] FAST spr round 5 (radius: 25)
[04:26:44 -166667.330495] FAST spr round 6 (radius: 25)
[04:28:09 -166663.968982] FAST spr round 7 (radius: 25)
[04:29:35 -166663.968563] Model parameter optimization (eps = 1.000000)
[04:29:52 -166294.569093] SLOW spr round 1 (radius: 5)
[04:31:41 -166229.139948] SLOW spr round 2 (radius: 5)
[04:33:27 -166228.184399] SLOW spr round 3 (radius: 5)
[04:35:16 -166228.171463] SLOW spr round 4 (radius: 10)
[04:37:14 -166228.135082] SLOW spr round 5 (radius: 15)
[04:40:03 -166228.135057] SLOW spr round 6 (radius: 20)
[04:43:29 -166228.135057] SLOW spr round 7 (radius: 25)
[04:47:30 -166228.135057] Model parameter optimization (eps = 0.100000)

[04:47:40] ML tree search #7, logLikelihood: -166227.782932

[04:47:40 -702208.184601] Initial branch length optimization
[04:47:45 -588041.108035] Model parameter optimization (eps = 10.000000)
[04:48:16 -587302.234120] AUTODETECT spr round 1 (radius: 5)
[04:50:11 -382480.107404] AUTODETECT spr round 2 (radius: 10)
[04:52:17 -281307.406299] AUTODETECT spr round 3 (radius: 15)
[04:54:28 -227048.760723] AUTODETECT spr round 4 (radius: 20)
[04:56:55 -211322.634998] AUTODETECT spr round 5 (radius: 25)
[04:59:32 -197867.921655] SPR radius for FAST iterations: 25 (autodetect)
[04:59:32 -197867.921655] Model parameter optimization (eps = 3.000000)
[04:59:52 -197396.492168] FAST spr round 1 (radius: 25)
[05:02:06 -168361.825589] FAST spr round 2 (radius: 25)
[05:03:52 -166438.535722] FAST spr round 3 (radius: 25)
[05:05:28 -166292.901479] FAST spr round 4 (radius: 25)
[05:06:56 -166283.578774] FAST spr round 5 (radius: 25)
[05:08:25 -166280.433797] FAST spr round 6 (radius: 25)
[05:09:49 -166280.433688] Model parameter optimization (eps = 1.000000)
[05:09:57 -166279.879290] SLOW spr round 1 (radius: 5)
[05:11:45 -166232.489341] SLOW spr round 2 (radius: 5)
[05:13:32 -166226.734161] SLOW spr round 3 (radius: 5)
[05:15:16 -166226.007058] SLOW spr round 4 (radius: 5)
[05:16:59 -166226.007042] SLOW spr round 5 (radius: 10)
[05:18:46 -166226.007042] SLOW spr round 6 (radius: 15)
[05:21:28 -166226.007042] SLOW spr round 7 (radius: 20)
[05:24:58 -166226.007042] SLOW spr round 8 (radius: 25)
[05:29:08 -166226.007042] Model parameter optimization (eps = 0.100000)

[05:29:17] ML tree search #8, logLikelihood: -166225.661376

[05:29:17 -707673.072386] Initial branch length optimization
[05:29:20 -591434.099502] Model parameter optimization (eps = 10.000000)
[05:29:46 -590683.880655] AUTODETECT spr round 1 (radius: 5)
[05:31:40 -379135.910443] AUTODETECT spr round 2 (radius: 10)
[05:33:49 -292532.625928] AUTODETECT spr round 3 (radius: 15)
[05:35:56 -248343.166493] AUTODETECT spr round 4 (radius: 20)
[05:38:21 -217396.085811] AUTODETECT spr round 5 (radius: 25)
[05:41:07 -205912.152107] SPR radius for FAST iterations: 25 (autodetect)
[05:41:07 -205912.152107] Model parameter optimization (eps = 3.000000)
[05:41:28 -205536.109490] FAST spr round 1 (radius: 25)
[05:43:48 -167695.858133] FAST spr round 2 (radius: 25)
[05:45:40 -166331.948326] FAST spr round 3 (radius: 25)
[05:47:21 -166274.049833] FAST spr round 4 (radius: 25)
[05:48:53 -166266.686404] FAST spr round 5 (radius: 25)
[05:50:19 -166266.686266] Model parameter optimization (eps = 1.000000)
[05:50:34 -166255.162743] SLOW spr round 1 (radius: 5)
[05:52:30 -166225.617035] SLOW spr round 2 (radius: 5)
[05:54:19 -166213.408564] SLOW spr round 3 (radius: 5)
[05:56:03 -166213.267933] SLOW spr round 4 (radius: 5)
[05:57:47 -166213.267747] SLOW spr round 5 (radius: 10)
[05:59:33 -166213.267746] SLOW spr round 6 (radius: 15)
[06:02:19 -166213.267746] SLOW spr round 7 (radius: 20)
[06:05:47 -166213.267746] SLOW spr round 8 (radius: 25)
[06:09:52 -166213.267746] Model parameter optimization (eps = 0.100000)

[06:10:02] ML tree search #9, logLikelihood: -166213.054849

[06:10:02 -710295.640967] Initial branch length optimization
[06:10:06 -595069.378266] Model parameter optimization (eps = 10.000000)
[06:10:37 -594295.094439] AUTODETECT spr round 1 (radius: 5)
[06:12:30 -383814.042396] AUTODETECT spr round 2 (radius: 10)
[06:14:33 -295226.120840] AUTODETECT spr round 3 (radius: 15)
[06:16:38 -240033.838572] AUTODETECT spr round 4 (radius: 20)
[06:19:05 -207811.744521] AUTODETECT spr round 5 (radius: 25)
[06:21:36 -199288.585511] SPR radius for FAST iterations: 25 (autodetect)
[06:21:36 -199288.585511] Model parameter optimization (eps = 3.000000)
[06:21:55 -198808.761462] FAST spr round 1 (radius: 25)
[06:24:04 -167592.914428] FAST spr round 2 (radius: 25)
[06:25:51 -166343.949361] FAST spr round 3 (radius: 25)
[06:27:25 -166306.563495] FAST spr round 4 (radius: 25)
[06:28:54 -166297.491804] FAST spr round 5 (radius: 25)
[06:30:21 -166291.365939] FAST spr round 6 (radius: 25)
[06:31:48 -166287.686159] FAST spr round 7 (radius: 25)
[06:33:13 -166287.686038] Model parameter optimization (eps = 1.000000)
[06:33:26 -166282.564896] SLOW spr round 1 (radius: 5)
[06:35:12 -166238.181841] SLOW spr round 2 (radius: 5)
[06:36:57 -166237.192356] SLOW spr round 3 (radius: 5)
[06:38:40 -166237.192321] SLOW spr round 4 (radius: 10)
[06:40:27 -166237.192315] SLOW spr round 5 (radius: 15)
[06:43:10 -166237.192315] SLOW spr round 6 (radius: 20)
[06:46:33 -166237.192315] SLOW spr round 7 (radius: 25)
[06:50:30 -166237.192315] Model parameter optimization (eps = 0.100000)

[06:50:35] ML tree search #10, logLikelihood: -166237.130391

[06:50:35 -703523.154664] Initial branch length optimization
[06:50:38 -591581.733412] Model parameter optimization (eps = 10.000000)
[06:51:08 -590819.724063] AUTODETECT spr round 1 (radius: 5)
[06:53:04 -382172.591670] AUTODETECT spr round 2 (radius: 10)
[06:55:09 -295279.337130] AUTODETECT spr round 3 (radius: 15)
[06:57:16 -237010.085145] AUTODETECT spr round 4 (radius: 20)
[06:59:41 -211843.668990] AUTODETECT spr round 5 (radius: 25)
[07:02:20 -205035.736596] SPR radius for FAST iterations: 25 (autodetect)
[07:02:20 -205035.736596] Model parameter optimization (eps = 3.000000)
[07:02:38 -204557.269931] FAST spr round 1 (radius: 25)
[07:04:55 -168292.326975] FAST spr round 2 (radius: 25)
[07:06:45 -166366.244241] FAST spr round 3 (radius: 25)
[07:08:25 -166284.356016] FAST spr round 4 (radius: 25)
[07:09:56 -166281.689682] FAST spr round 5 (radius: 25)
[07:11:24 -166281.311017] FAST spr round 6 (radius: 25)
[07:12:50 -166281.310604] Model parameter optimization (eps = 1.000000)
[07:13:03 -166270.323076] SLOW spr round 1 (radius: 5)
[07:14:52 -166231.477163] SLOW spr round 2 (radius: 5)
[07:16:37 -166230.733199] SLOW spr round 3 (radius: 5)
[07:18:21 -166230.733175] SLOW spr round 4 (radius: 10)
[07:20:08 -166228.572195] SLOW spr round 5 (radius: 5)
[07:22:15 -166226.654090] SLOW spr round 6 (radius: 5)
[07:24:10 -166226.654089] SLOW spr round 7 (radius: 10)
[07:26:00 -166226.654089] SLOW spr round 8 (radius: 15)
[07:28:43 -166226.654089] SLOW spr round 9 (radius: 20)
[07:32:16 -166226.654089] SLOW spr round 10 (radius: 25)
[07:36:11 -166226.654089] Model parameter optimization (eps = 0.100000)

[07:36:15] ML tree search #11, logLikelihood: -166226.629301

[07:36:16 -714612.079152] Initial branch length optimization
[07:36:19 -601465.646760] Model parameter optimization (eps = 10.000000)
[07:36:43 -600671.363101] AUTODETECT spr round 1 (radius: 5)
[07:38:37 -384823.973043] AUTODETECT spr round 2 (radius: 10)
[07:40:37 -284152.127570] AUTODETECT spr round 3 (radius: 15)
[07:42:45 -234318.770604] AUTODETECT spr round 4 (radius: 20)
[07:45:22 -196351.943162] AUTODETECT spr round 5 (radius: 25)
[07:47:56 -193783.975566] SPR radius for FAST iterations: 25 (autodetect)
[07:47:56 -193783.975566] Model parameter optimization (eps = 3.000000)
[07:48:13 -193402.704829] FAST spr round 1 (radius: 25)
[07:50:26 -167461.241990] FAST spr round 2 (radius: 25)
[07:52:13 -166392.221895] FAST spr round 3 (radius: 25)
[07:53:49 -166298.708156] FAST spr round 4 (radius: 25)
[07:55:20 -166279.228845] FAST spr round 5 (radius: 25)
[07:56:47 -166279.228809] Model parameter optimization (eps = 1.000000)
[07:57:01 -166268.277545] SLOW spr round 1 (radius: 5)
[07:58:49 -166230.614417] SLOW spr round 2 (radius: 5)
[08:00:37 -166228.740502] SLOW spr round 3 (radius: 5)
[08:02:21 -166228.740489] SLOW spr round 4 (radius: 10)
[08:04:08 -166228.131176] SLOW spr round 5 (radius: 5)
[08:06:15 -166223.838705] SLOW spr round 6 (radius: 5)
[08:08:09 -166223.752451] SLOW spr round 7 (radius: 10)
[08:09:58 -166223.752450] SLOW spr round 8 (radius: 15)
[08:12:36 -166223.752444] SLOW spr round 9 (radius: 20)
[08:15:58 -166223.752444] SLOW spr round 10 (radius: 25)
[08:19:47 -166223.752444] Model parameter optimization (eps = 0.100000)

[08:19:53] ML tree search #12, logLikelihood: -166223.655185

[08:19:53 -707130.171537] Initial branch length optimization
[08:19:57 -592668.326770] Model parameter optimization (eps = 10.000000)
[08:20:26 -591723.127058] AUTODETECT spr round 1 (radius: 5)
[08:22:21 -381160.514393] AUTODETECT spr round 2 (radius: 10)
[08:24:23 -295083.868252] AUTODETECT spr round 3 (radius: 15)
[08:26:26 -245372.211847] AUTODETECT spr round 4 (radius: 20)
[08:28:48 -210925.800630] AUTODETECT spr round 5 (radius: 25)
[08:31:48 -203648.728834] SPR radius for FAST iterations: 25 (autodetect)
[08:31:48 -203648.728834] Model parameter optimization (eps = 3.000000)
[08:32:05 -203183.713079] FAST spr round 1 (radius: 25)
[08:34:17 -168096.441186] FAST spr round 2 (radius: 25)
[08:35:58 -166437.434816] FAST spr round 3 (radius: 25)
[08:37:32 -166299.594557] FAST spr round 4 (radius: 25)
[08:39:00 -166292.587606] FAST spr round 5 (radius: 25)
[08:40:25 -166291.866266] FAST spr round 6 (radius: 25)
[08:41:50 -166291.224122] FAST spr round 7 (radius: 25)
[08:43:13 -166291.224085] Model parameter optimization (eps = 1.000000)
[08:43:26 -166278.338223] SLOW spr round 1 (radius: 5)
[08:45:14 -166239.342893] SLOW spr round 2 (radius: 5)
[08:46:58 -166233.450098] SLOW spr round 3 (radius: 5)
[08:48:39 -166233.450059] SLOW spr round 4 (radius: 10)
[08:50:23 -166233.450059] SLOW spr round 5 (radius: 15)
[08:53:10 -166233.450059] SLOW spr round 6 (radius: 20)
[08:56:35 -166233.450059] SLOW spr round 7 (radius: 25)
[09:00:38 -166233.450059] Model parameter optimization (eps = 0.100000)

[09:00:47] ML tree search #13, logLikelihood: -166233.308995

[09:00:47 -705700.910380] Initial branch length optimization
[09:00:51 -589895.379891] Model parameter optimization (eps = 10.000000)
[09:01:14 -589094.040475] AUTODETECT spr round 1 (radius: 5)
[09:03:07 -378225.462514] AUTODETECT spr round 2 (radius: 10)
[09:05:11 -282779.671548] AUTODETECT spr round 3 (radius: 15)
[09:07:15 -227835.463875] AUTODETECT spr round 4 (radius: 20)
[09:09:30 -201286.529611] AUTODETECT spr round 5 (radius: 25)
[09:12:03 -196437.794241] SPR radius for FAST iterations: 25 (autodetect)
[09:12:03 -196437.794241] Model parameter optimization (eps = 3.000000)
[09:12:22 -195996.768614] FAST spr round 1 (radius: 25)
[09:14:31 -167756.932148] FAST spr round 2 (radius: 25)
[09:16:14 -166352.179380] FAST spr round 3 (radius: 25)
[09:17:46 -166285.406214] FAST spr round 4 (radius: 25)
[09:19:13 -166283.459373] FAST spr round 5 (radius: 25)
[09:20:36 -166279.495404] FAST spr round 6 (radius: 25)
[09:21:59 -166279.494928] Model parameter optimization (eps = 1.000000)
[09:22:12 -166276.306392] SLOW spr round 1 (radius: 5)
[09:23:59 -166234.705379] SLOW spr round 2 (radius: 5)
[09:25:43 -166226.646279] SLOW spr round 3 (radius: 5)
[09:27:25 -166226.093024] SLOW spr round 4 (radius: 5)
[09:29:05 -166226.093023] SLOW spr round 5 (radius: 10)
[09:30:54 -166226.093023] SLOW spr round 6 (radius: 15)
[09:33:44 -166226.093023] SLOW spr round 7 (radius: 20)
[09:37:12 -166226.093023] SLOW spr round 8 (radius: 25)
[09:41:16 -166226.093022] Model parameter optimization (eps = 0.100000)

[09:41:25] ML tree search #14, logLikelihood: -166225.901284

[09:41:26 -708977.694464] Initial branch length optimization
[09:41:30 -595472.362589] Model parameter optimization (eps = 10.000000)
[09:41:59 -594510.023560] AUTODETECT spr round 1 (radius: 5)
[09:43:56 -370588.923458] AUTODETECT spr round 2 (radius: 10)
[09:46:07 -275374.888482] AUTODETECT spr round 3 (radius: 15)
[09:48:10 -230252.531385] AUTODETECT spr round 4 (radius: 20)
[09:50:31 -201449.167590] AUTODETECT spr round 5 (radius: 25)
[09:53:09 -198645.148780] SPR radius for FAST iterations: 25 (autodetect)
[09:53:09 -198645.148780] Model parameter optimization (eps = 3.000000)
[09:53:29 -198149.520721] FAST spr round 1 (radius: 25)
[09:55:45 -167660.869869] FAST spr round 2 (radius: 25)
[09:57:31 -166364.056240] FAST spr round 3 (radius: 25)
[09:59:09 -166295.143212] FAST spr round 4 (radius: 25)
[10:00:40 -166291.211938] FAST spr round 5 (radius: 25)
[10:02:08 -166291.211463] Model parameter optimization (eps = 1.000000)
[10:02:21 -166286.993754] SLOW spr round 1 (radius: 5)
[10:04:12 -166242.398167] SLOW spr round 2 (radius: 5)
[10:06:01 -166234.638131] SLOW spr round 3 (radius: 5)
[10:07:45 -166234.638031] SLOW spr round 4 (radius: 10)
[10:09:32 -166234.638026] SLOW spr round 5 (radius: 15)
[10:12:15 -166234.638026] SLOW spr round 6 (radius: 20)
[10:15:43 -166234.638026] SLOW spr round 7 (radius: 25)
[10:19:46 -166234.638026] Model parameter optimization (eps = 0.100000)

[10:19:50] ML tree search #15, logLikelihood: -166234.559288

[10:19:51 -709353.662093] Initial branch length optimization
[10:19:54 -594132.221261] Model parameter optimization (eps = 10.000000)
[10:20:23 -593339.049249] AUTODETECT spr round 1 (radius: 5)
[10:22:18 -377588.064335] AUTODETECT spr round 2 (radius: 10)
[10:24:20 -275031.303308] AUTODETECT spr round 3 (radius: 15)
[10:26:29 -219771.959568] AUTODETECT spr round 4 (radius: 20)
[10:29:05 -196163.595349] AUTODETECT spr round 5 (radius: 25)
[10:32:00 -193267.624547] SPR radius for FAST iterations: 25 (autodetect)
[10:32:00 -193267.624547] Model parameter optimization (eps = 3.000000)
[10:32:18 -192830.224242] FAST spr round 1 (radius: 25)
[10:34:28 -167278.117016] FAST spr round 2 (radius: 25)
[10:36:14 -166346.729842] FAST spr round 3 (radius: 25)
[10:37:50 -166271.882932] FAST spr round 4 (radius: 25)
[10:39:17 -166271.657677] FAST spr round 5 (radius: 25)
[10:40:41 -166271.632834] Model parameter optimization (eps = 1.000000)
[10:40:53 -166254.178469] SLOW spr round 1 (radius: 5)
[10:42:41 -166229.794259] SLOW spr round 2 (radius: 5)
[10:44:26 -166227.308864] SLOW spr round 3 (radius: 5)
[10:46:10 -166226.685007] SLOW spr round 4 (radius: 5)
[10:47:52 -166226.685000] SLOW spr round 5 (radius: 10)
[10:49:38 -166226.684997] SLOW spr round 6 (radius: 15)
[10:52:25 -166226.684997] SLOW spr round 7 (radius: 20)
[10:55:59 -166226.684997] SLOW spr round 8 (radius: 25)
[11:00:02 -166226.684997] Model parameter optimization (eps = 0.100000)

[11:00:07] ML tree search #16, logLikelihood: -166226.652626

[11:00:07 -707575.403171] Initial branch length optimization
[11:00:11 -595166.097444] Model parameter optimization (eps = 10.000000)
[11:00:40 -594330.310946] AUTODETECT spr round 1 (radius: 5)
[11:02:37 -373678.622517] AUTODETECT spr round 2 (radius: 10)
[11:04:43 -278736.167211] AUTODETECT spr round 3 (radius: 15)
[11:06:52 -225647.952434] AUTODETECT spr round 4 (radius: 20)
[11:09:07 -213237.833032] AUTODETECT spr round 5 (radius: 25)
[11:11:43 -205851.773950] SPR radius for FAST iterations: 25 (autodetect)
[11:11:43 -205851.773950] Model parameter optimization (eps = 3.000000)
[11:12:01 -205358.907232] FAST spr round 1 (radius: 25)
[11:14:14 -169398.403509] FAST spr round 2 (radius: 25)
[11:16:06 -166590.934606] FAST spr round 3 (radius: 25)
[11:17:46 -166319.844522] FAST spr round 4 (radius: 25)
[11:19:19 -166284.660578] FAST spr round 5 (radius: 25)
[11:20:47 -166284.660327] Model parameter optimization (eps = 1.000000)
[11:20:59 -166281.199594] SLOW spr round 1 (radius: 5)
[11:22:50 -166242.929495] SLOW spr round 2 (radius: 5)
[11:24:38 -166235.557882] SLOW spr round 3 (radius: 5)
[11:26:23 -166234.448556] SLOW spr round 4 (radius: 5)
[11:28:07 -166234.448444] SLOW spr round 5 (radius: 10)
[11:29:54 -166234.448444] SLOW spr round 6 (radius: 15)
[11:32:41 -166234.448444] SLOW spr round 7 (radius: 20)
[11:36:14 -166234.448444] SLOW spr round 8 (radius: 25)
[11:40:19 -166234.448444] Model parameter optimization (eps = 0.100000)

[11:40:28] ML tree search #17, logLikelihood: -166234.168312

[11:40:28 -708670.131171] Initial branch length optimization
[11:40:31 -591612.417158] Model parameter optimization (eps = 10.000000)
[11:41:10 -590871.560829] AUTODETECT spr round 1 (radius: 5)
[11:43:05 -379525.906091] AUTODETECT spr round 2 (radius: 10)
[11:45:01 -285885.708638] AUTODETECT spr round 3 (radius: 15)
[11:47:06 -229604.486546] AUTODETECT spr round 4 (radius: 20)
[11:49:26 -213362.289693] AUTODETECT spr round 5 (radius: 25)
[11:52:08 -201659.353367] SPR radius for FAST iterations: 25 (autodetect)
[11:52:08 -201659.353367] Model parameter optimization (eps = 3.000000)
[11:52:26 -201260.168016] FAST spr round 1 (radius: 25)
[11:54:38 -168441.563163] FAST spr round 2 (radius: 25)
[11:56:21 -166429.415253] FAST spr round 3 (radius: 25)
[11:58:00 -166305.606980] FAST spr round 4 (radius: 25)
[11:59:29 -166297.118807] FAST spr round 5 (radius: 25)
[12:00:58 -166297.118290] Model parameter optimization (eps = 1.000000)
[12:01:08 -166292.809686] SLOW spr round 1 (radius: 5)
[12:02:58 -166258.771685] SLOW spr round 2 (radius: 5)
[12:04:47 -166251.837266] SLOW spr round 3 (radius: 5)
[12:06:30 -166251.837259] SLOW spr round 4 (radius: 10)
[12:08:17 -166251.172131] SLOW spr round 5 (radius: 5)
[12:10:24 -166250.569482] SLOW spr round 6 (radius: 5)
[12:12:17 -166250.569452] SLOW spr round 7 (radius: 10)
[12:14:06 -166250.569452] SLOW spr round 8 (radius: 15)
[12:16:47 -166250.569452] SLOW spr round 9 (radius: 20)
[12:20:22 -166250.569452] SLOW spr round 10 (radius: 25)
[12:24:42 -166250.569452] Model parameter optimization (eps = 0.100000)

[12:24:51] ML tree search #18, logLikelihood: -166250.318620

[12:24:51 -708933.694241] Initial branch length optimization
[12:24:55 -597547.985417] Model parameter optimization (eps = 10.000000)
[12:25:36 -596736.811306] AUTODETECT spr round 1 (radius: 5)
[12:27:32 -369073.179282] AUTODETECT spr round 2 (radius: 10)
[12:29:33 -272213.703363] AUTODETECT spr round 3 (radius: 15)
[12:31:42 -213367.252895] AUTODETECT spr round 4 (radius: 20)
[12:34:05 -194331.944908] AUTODETECT spr round 5 (radius: 25)
[12:37:00 -192564.169327] SPR radius for FAST iterations: 25 (autodetect)
[12:37:00 -192564.169327] Model parameter optimization (eps = 3.000000)
[12:37:16 -192132.814132] FAST spr round 1 (radius: 25)
[12:39:30 -166868.929036] FAST spr round 2 (radius: 25)
[12:41:17 -166317.297753] FAST spr round 3 (radius: 25)
[12:42:53 -166270.856790] FAST spr round 4 (radius: 25)
[12:44:22 -166265.300431] FAST spr round 5 (radius: 25)
[12:45:47 -166265.300063] Model parameter optimization (eps = 1.000000)
[12:45:56 -166264.344818] SLOW spr round 1 (radius: 5)
[12:47:45 -166237.930427] SLOW spr round 2 (radius: 5)
[12:49:32 -166224.592816] SLOW spr round 3 (radius: 5)
[12:51:15 -166224.238568] SLOW spr round 4 (radius: 5)
[12:52:57 -166224.238563] SLOW spr round 5 (radius: 10)
[12:54:42 -166224.238558] SLOW spr round 6 (radius: 15)
[12:57:24 -166224.238558] SLOW spr round 7 (radius: 20)
[13:00:49 -166224.238558] SLOW spr round 8 (radius: 25)
[13:04:46 -166224.238558] Model parameter optimization (eps = 0.100000)

[13:04:51] ML tree search #19, logLikelihood: -166224.209870

[13:04:51 -711763.165381] Initial branch length optimization
[13:04:56 -598211.653647] Model parameter optimization (eps = 10.000000)
[13:05:25 -597471.429596] AUTODETECT spr round 1 (radius: 5)
[13:07:21 -378666.903394] AUTODETECT spr round 2 (radius: 10)
[13:09:26 -280787.682465] AUTODETECT spr round 3 (radius: 15)
[13:11:35 -222136.938456] AUTODETECT spr round 4 (radius: 20)
[13:13:53 -198458.147766] AUTODETECT spr round 5 (radius: 25)
[13:16:15 -197135.513536] SPR radius for FAST iterations: 25 (autodetect)
[13:16:15 -197135.513536] Model parameter optimization (eps = 3.000000)
[13:16:21 -197131.493730] FAST spr round 1 (radius: 25)
[13:18:40 -170847.643231] FAST spr round 2 (radius: 25)
[13:20:30 -169563.946810] FAST spr round 3 (radius: 25)
[13:22:15 -167842.880421] FAST spr round 4 (radius: 25)
[13:23:55 -166657.637115] FAST spr round 5 (radius: 25)
[13:25:25 -166622.268131] FAST spr round 6 (radius: 25)
[13:26:51 -166622.268114] Model parameter optimization (eps = 1.000000)
[13:27:09 -166244.099614] SLOW spr round 1 (radius: 5)
[13:28:58 -166217.749564] SLOW spr round 2 (radius: 5)
[13:30:44 -166217.410209] SLOW spr round 3 (radius: 5)
[13:32:29 -166217.409750] SLOW spr round 4 (radius: 10)
[13:34:18 -166215.035337] SLOW spr round 5 (radius: 5)
[13:36:28 -166214.297541] SLOW spr round 6 (radius: 5)
[13:38:23 -166214.297370] SLOW spr round 7 (radius: 10)
[13:40:12 -166214.297367] SLOW spr round 8 (radius: 15)
[13:42:58 -166214.297362] SLOW spr round 9 (radius: 20)
[13:46:28 -166214.297362] SLOW spr round 10 (radius: 25)
[13:50:23 -166214.297362] Model parameter optimization (eps = 0.100000)

[13:50:27] ML tree search #20, logLikelihood: -166214.287195


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.318044,0.406360) (0.278262,0.532345) (0.228858,1.050916) (0.174836,2.757545) 
   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: -166213.054849

AIC score: 336436.109699 / AICc score: 8380496.109699 / BIC score: 345138.530103
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=567).
         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/P30153/3_mltree/P30153.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/3_mltree/P30153.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/3_mltree/P30153.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P30153/3_mltree/P30153.raxml.log

Analysis started: 11-Jul-2021 18:28:37 / finished: 12-Jul-2021 08:19:05

Elapsed time: 49827.803 seconds