RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab.
Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth.
Latest version: https://github.com/amkozlov/raxml-ng
Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml

System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 07-Jul-2021 19:32:00 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/2_msa/Q96IJ6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6 --seed 2 --threads 7 --tree rand{20} pars{20}

Analysis options:
  run mode: ML tree search
  start tree(s): random (20)
  random seed: 2
  tip-inner: OFF
  pattern compression: ON
  per-rate scalers: OFF
  site repeats: ON
  fast spr radius: AUTO
  spr subtree cutoff: 1.000000
  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
  SIMD kernels: AVX2
  parallelization: coarse-grained (auto), PTHREADS (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/2_msa/Q96IJ6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 474 sites

WARNING: Sequences tr_M3YYY5_M3YYY5_MUSPF_9669 and tr_A0A2Y9IZD1_A0A2Y9IZD1_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_Q8SXU3_Q8SXU3_DROME_7227 and tr_B4HS67_B4HS67_DROSE_7238 are exactly identical!
WARNING: Sequences tr_G3I624_G3I624_CRIGR_10029 and tr_A0A1U8C0C8_A0A1U8C0C8_MESAU_10036 are exactly identical!
WARNING: Sequences tr_G3QJT2_G3QJT2_GORGO_9595 and tr_A0A2I3RCI1_A0A2I3RCI1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QJT2_G3QJT2_GORGO_9595 and sp_Q96IJ6_GMPPA_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QJT2_G3QJT2_GORGO_9595 and tr_A0A2R8ZVG0_A0A2R8ZVG0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_Q28WK1_Q28WK1_DROPS_46245 and tr_B4H719_B4H719_DROPE_7234 are exactly identical!
WARNING: Sequences tr_A0A179ULU7_A0A179ULU7_BLAGS_559298 and tr_C5GTM3_C5GTM3_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_F9FAD7_F9FAD7_FUSOF_660025 and tr_A0A0D2XR18_A0A0D2XR18_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9FAD7_F9FAD7_FUSOF_660025 and tr_X0CIL9_X0CIL9_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FAD7_F9FAD7_FUSOF_660025 and tr_A0A2H3TTM5_A0A2H3TTM5_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9FAD7_F9FAD7_FUSOF_660025 and tr_A0A365N7Q3_A0A365N7Q3_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_E9CWQ1_E9CWQ1_COCPS_443226 and tr_A0A0J6XYB5_A0A0J6XYB5_COCIT_404692 are exactly identical!
WARNING: Sequences tr_C6HD05_C6HD05_AJECH_544712 and tr_F0UTS7_F0UTS7_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_A0A0E0GKF3_A0A0E0GKF3_ORYNI_4536 and tr_I1P9V5_I1P9V5_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0GKF3_A0A0E0GKF3_ORYNI_4536 and tr_A0A0E0CYJ7_A0A0E0CYJ7_9ORYZ_40149 are exactly identical!
WARNING: Sequences tr_A0A0E0GKF3_A0A0E0GKF3_ORYNI_4536 and tr_A0A0D3FGP8_A0A0D3FGP8_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0GKF3_A0A0E0GKF3_ORYNI_4536 and tr_A0A0D9Z566_A0A0D9Z566_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0I8U6_A0A0E0I8U6_ORYNI_4536 and tr_A2YSQ4_A2YSQ4_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0I8U6_A0A0E0I8U6_ORYNI_4536 and tr_I1QGR4_I1QGR4_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0I8U6_A0A0E0I8U6_ORYNI_4536 and sp_Q6Z9A3_GMPP3_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A2QVR6_A2QVR6_ASPNC_425011 and tr_G3YCB7_G3YCB7_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QVR6_A2QVR6_ASPNC_425011 and tr_A0A100IJZ5_A0A100IJZ5_ASPNG_5061 are exactly identical!
WARNING: Sequences tr_A2QVR6_A2QVR6_ASPNC_425011 and tr_A0A1L9N064_A0A1L9N064_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A2QVR6_A2QVR6_ASPNC_425011 and tr_A0A317UR43_A0A317UR43_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_A0A1D5QED6_A0A1D5QED6_MACMU_9544 and tr_G7PK50_G7PK50_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5QED6_A0A1D5QED6_MACMU_9544 and tr_A0A2K6EE36_A0A2K6EE36_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QED6_A0A1D5QED6_MACMU_9544 and sp_B0CM52_GMPPA_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5QED6_A0A1D5QED6_MACMU_9544 and tr_A0A2K5ZNZ6_A0A2K5ZNZ6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G7XAR3_G7XAR3_ASPKW_1033177 and tr_A0A146F888_A0A146F888_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_F4P2M7_F4P2M7_BATDJ_684364 and tr_A0A177WME7_A0A177WME7_BATDE_403673 are exactly identical!
WARNING: Sequences tr_I1NTB3_I1NTB3_ORYGL_4538 and tr_A0A0D3EW78_A0A0D3EW78_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_I1P8R4_I1P8R4_ORYGL_4538 and tr_Q10Q61_Q10Q61_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A0A0E0NSZ9_A0A0E0NSZ9_ORYRU_4529 and sp_Q84JH5_GMPP1_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F9XA81_F9XA81_ZYMTI_336722 and tr_A0A0F4GDW8_A0A0F4GDW8_9PEZI_1047168 are exactly identical!
WARNING: Sequences tr_G2XTQ4_G2XTQ4_BOTF4_999810 and tr_M7UKM9_M7UKM9_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_F2SDM8_F2SDM8_TRIRC_559305 and tr_D4B0F9_D4B0F9_ARTBC_663331 are exactly identical!
WARNING: Sequences tr_W7M4J7_W7M4J7_GIBM7_334819 and tr_A0A2K0W0Q1_A0A2K0W0Q1_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_L0P8N0_L0P8N0_PNEJ8_1209962 and tr_A0A0W4ZTX9_A0A0W4ZTX9_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_M4C7H1_M4C7H1_BRARP_51351 and tr_A0A078F2P1_A0A078F2P1_BRANA_3708 are exactly identical!
WARNING: Sequences tr_M4C7H1_M4C7H1_BRARP_51351 and tr_A0A078JBH7_A0A078JBH7_BRANA_3708 are exactly identical!
WARNING: Sequences tr_M4CVC4_M4CVC4_BRARP_51351 and tr_A0A0D3AQK4_A0A0D3AQK4_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_U3JNW3_U3JNW3_FICAL_59894 and tr_A0A218VB15_A0A218VB15_9PASE_299123 are exactly identical!
WARNING: Sequences tr_W2RCR3_W2RCR3_PHYPN_761204 and tr_A0A0W8BXE3_A0A0W8BXE3_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_A0A010RIN5_A0A010RIN5_9PEZI_1445577 and tr_A0A135UT02_A0A135UT02_9PEZI_1209931 are exactly identical!
WARNING: Sequences tr_A0A010RIN5_A0A010RIN5_9PEZI_1445577 and tr_A0A1G4B7Y7_A0A1G4B7Y7_9PEZI_1209926 are exactly identical!
WARNING: Sequences tr_A0A015L7V4_A0A015L7V4_9GLOM_1432141 and tr_U9TU66_U9TU66_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A059J4U5_A0A059J4U5_9EURO_1215338 and tr_A0A178EVE5_A0A178EVE5_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_A0A084QG66_A0A084QG66_STAC4_1283841 and tr_A0A084RDM9_A0A084RDM9_STACH_1283842 are exactly identical!
WARNING: Sequences tr_V4TST1_V4TST1_9ROSI_85681 and tr_A0A2H5NGA8_A0A2H5NGA8_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A0F0ID19_A0A0F0ID19_ASPPU_1403190 and tr_A0A2G7G9I0_A0A2G7G9I0_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A0A0F8UYH8_A0A0F8UYH8_9EURO_308745 and tr_A0A2T5M757_A0A2T5M757_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0L9UVW1_A0A0L9UVW1_PHAAN_3914 and tr_A0A1S3UGC1_A0A1S3UGC1_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A0G4PA89_A0A0G4PA89_PENCA_1429867 and tr_A0A1V6R3N5_A0A1V6R3N5_9EURO_60172 are exactly identical!
WARNING: Sequences tr_W6Y7F5_W6Y7F5_COCCA_930089 and tr_W6ZE46_W6ZE46_COCMI_930090 are exactly identical!
WARNING: Sequences tr_A0A0V0RXC9_A0A0V0RXC9_9BILA_6336 and tr_A0A0V0XBK6_A0A0V0XBK6_9BILA_92179 are exactly identical!
WARNING: Sequences tr_A0A0V0RXC9_A0A0V0RXC9_9BILA_6336 and tr_A0A0V0VWT8_A0A0V0VWT8_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V0RXC9_A0A0V0RXC9_9BILA_6336 and tr_A0A0V1PHC5_A0A0V1PHC5_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V0RXC9_A0A0V0RXC9_9BILA_6336 and tr_A0A0V0U584_A0A0V0U584_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V1MLX4_A0A0V1MLX4_9BILA_268474 and tr_A0A0V1HUZ6_A0A0V1HUZ6_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A117NNK8_A0A117NNK8_9EURO_48697 and tr_A0A1V6N5Y9_A0A1V6N5Y9_9EURO_60169 are exactly identical!
WARNING: Sequences tr_A0A1S3XNP2_A0A1S3XNP2_TOBAC_4097 and tr_A0A1U7WW11_A0A1U7WW11_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S4BAT4_A0A1S4BAT4_TOBAC_4097 and tr_A0A1U7Y9G8_A0A1U7Y9G8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A2G2ZY63_A0A2G2ZY63_CAPAN_4072 and tr_A0A2G3CT16_A0A2G3CT16_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2K5P318_A0A2K5P318_CERAT_9531 and tr_A0A2K6AP96_A0A2K6AP96_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2U1PR08_A0A2U1PR08_ARTAN_35608 and tr_A0A2U1PVR5_A0A2U1PVR5_ARTAN_35608 are exactly identical!
WARNING: Sequences tr_A0A319CRJ1_A0A319CRJ1_9EURO_1448315 and tr_A0A2V5IAT2_A0A2V5IAT2_9EURO_1450541 are exactly identical!
WARNING: Sequences tr_A0A319CRJ1_A0A319CRJ1_9EURO_1448315 and tr_A0A2V5GT05_A0A2V5GT05_9EURO_1450538 are exactly identical!
WARNING: Duplicate sequences found: 68

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.raxml.reduced.phy

Alignment comprises 1 partitions and 474 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 474 / 474
Gaps: 14.66 %
Invariant sites: 1.05 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.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 / 68 / 5440
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -653705.461260] Initial branch length optimization
[00:00:02 -541488.803148] Model parameter optimization (eps = 10.000000)
[00:00:24 -539168.641584] AUTODETECT spr round 1 (radius: 5)
[00:01:51 -352319.990533] AUTODETECT spr round 2 (radius: 10)
[00:03:33 -254735.636306] AUTODETECT spr round 3 (radius: 15)
[00:05:13 -209983.512109] AUTODETECT spr round 4 (radius: 20)
[00:07:10 -178671.235890] AUTODETECT spr round 5 (radius: 25)
[00:09:12 -170624.603048] SPR radius for FAST iterations: 25 (autodetect)
[00:09:12 -170624.603048] Model parameter optimization (eps = 3.000000)
[00:09:24 -170582.412559] FAST spr round 1 (radius: 25)
[00:11:07 -143041.368443] FAST spr round 2 (radius: 25)
[00:12:27 -142045.668430] FAST spr round 3 (radius: 25)
[00:13:42 -141961.087787] FAST spr round 4 (radius: 25)
[00:14:53 -141958.775123] FAST spr round 5 (radius: 25)
[00:16:00 -141958.768270] Model parameter optimization (eps = 1.000000)
[00:16:11 -141948.077572] SLOW spr round 1 (radius: 5)
[00:17:45 -141923.841480] SLOW spr round 2 (radius: 5)
[00:19:17 -141910.487222] SLOW spr round 3 (radius: 5)
[00:20:44 -141908.855645] SLOW spr round 4 (radius: 5)
[00:22:13 -141906.333729] SLOW spr round 5 (radius: 5)
[00:23:39 -141906.333655] SLOW spr round 6 (radius: 10)
[00:25:08 -141903.781042] SLOW spr round 7 (radius: 5)
[00:26:55 -141903.365520] SLOW spr round 8 (radius: 5)
[00:28:31 -141903.365518] SLOW spr round 9 (radius: 10)
[00:30:02 -141903.365518] SLOW spr round 10 (radius: 15)
[00:32:21 -141903.365518] SLOW spr round 11 (radius: 20)
[00:35:26 -141903.365518] SLOW spr round 12 (radius: 25)
[00:39:28 -141903.365518] Model parameter optimization (eps = 0.100000)

[00:39:36] ML tree search #1, logLikelihood: -141903.246324

[00:39:36 -660167.445178] Initial branch length optimization
[00:39:38 -545572.406228] Model parameter optimization (eps = 10.000000)
[00:40:01 -543210.170454] AUTODETECT spr round 1 (radius: 5)
[00:41:33 -349678.500073] AUTODETECT spr round 2 (radius: 10)
[00:43:12 -256200.127504] AUTODETECT spr round 3 (radius: 15)
[00:44:57 -208116.696210] AUTODETECT spr round 4 (radius: 20)
[00:46:53 -179490.751133] AUTODETECT spr round 5 (radius: 25)
[00:49:00 -169467.673637] SPR radius for FAST iterations: 25 (autodetect)
[00:49:00 -169467.673637] Model parameter optimization (eps = 3.000000)
[00:49:04 -169466.356396] FAST spr round 1 (radius: 25)
[00:50:52 -143358.574304] FAST spr round 2 (radius: 25)
[00:52:23 -142131.002030] FAST spr round 3 (radius: 25)
[00:53:47 -142051.053047] FAST spr round 4 (radius: 25)
[00:55:02 -142027.812807] FAST spr round 5 (radius: 25)
[00:56:14 -142018.464173] FAST spr round 6 (radius: 25)
[00:57:25 -142018.464157] Model parameter optimization (eps = 1.000000)
[00:57:28 -142018.126872] SLOW spr round 1 (radius: 5)
[00:59:04 -141987.258152] SLOW spr round 2 (radius: 5)
[01:00:38 -141982.855328] SLOW spr round 3 (radius: 5)
[01:02:09 -141979.606617] SLOW spr round 4 (radius: 5)
[01:03:38 -141979.606614] SLOW spr round 5 (radius: 10)
[01:05:09 -141978.512828] SLOW spr round 6 (radius: 5)
[01:06:59 -141978.512823] SLOW spr round 7 (radius: 10)
[01:08:38 -141978.512823] SLOW spr round 8 (radius: 15)
[01:10:55 -141978.512823] SLOW spr round 9 (radius: 20)
[01:14:15 -141978.512823] SLOW spr round 10 (radius: 25)
[01:18:13 -141978.512823] Model parameter optimization (eps = 0.100000)

[01:18:29] ML tree search #2, logLikelihood: -141917.036483

[01:18:29 -651645.321744] Initial branch length optimization
[01:18:31 -542618.294579] Model parameter optimization (eps = 10.000000)
[01:18:54 -540379.777636] AUTODETECT spr round 1 (radius: 5)
[01:20:24 -348695.039573] AUTODETECT spr round 2 (radius: 10)
[01:22:06 -248323.542989] AUTODETECT spr round 3 (radius: 15)
[01:23:47 -194037.302220] AUTODETECT spr round 4 (radius: 20)
[01:25:46 -171392.557095] AUTODETECT spr round 5 (radius: 25)
[01:27:55 -166405.362129] SPR radius for FAST iterations: 25 (autodetect)
[01:27:55 -166405.362129] Model parameter optimization (eps = 3.000000)
[01:28:08 -166328.620221] FAST spr round 1 (radius: 25)
[01:29:51 -142818.670652] FAST spr round 2 (radius: 25)
[01:31:16 -142111.264316] FAST spr round 3 (radius: 25)
[01:32:37 -141984.875034] FAST spr round 4 (radius: 25)
[01:33:49 -141955.654687] FAST spr round 5 (radius: 25)
[01:34:57 -141951.140360] FAST spr round 6 (radius: 25)
[01:36:05 -141950.822138] FAST spr round 7 (radius: 25)
[01:37:12 -141950.271497] FAST spr round 8 (radius: 25)
[01:38:18 -141950.271493] Model parameter optimization (eps = 1.000000)
[01:38:28 -141945.339229] SLOW spr round 1 (radius: 5)
[01:39:58 -141902.242975] SLOW spr round 2 (radius: 5)
[01:41:26 -141899.103625] SLOW spr round 3 (radius: 5)
[01:42:50 -141899.103365] SLOW spr round 4 (radius: 10)
[01:44:15 -141899.103358] SLOW spr round 5 (radius: 15)
[01:46:37 -141899.103357] SLOW spr round 6 (radius: 20)
[01:49:37 -141899.103355] SLOW spr round 7 (radius: 25)
[01:53:32 -141899.103353] Model parameter optimization (eps = 0.100000)

[01:53:40] ML tree search #3, logLikelihood: -141898.937078

[01:53:40 -654968.622999] Initial branch length optimization
[01:53:43 -544304.437366] Model parameter optimization (eps = 10.000000)
[01:54:08 -542160.646891] AUTODETECT spr round 1 (radius: 5)
[01:55:37 -346349.425110] AUTODETECT spr round 2 (radius: 10)
[01:57:27 -248583.405931] AUTODETECT spr round 3 (radius: 15)
[02:00:19 -205227.853336] AUTODETECT spr round 4 (radius: 20)
[02:03:29 -180779.349535] AUTODETECT spr round 5 (radius: 25)
[02:07:28 -171805.219637] SPR radius for FAST iterations: 25 (autodetect)
[02:07:28 -171805.219637] Model parameter optimization (eps = 3.000000)
[02:07:50 -171706.906695] FAST spr round 1 (radius: 25)
[02:10:48 -143122.120581] FAST spr round 2 (radius: 25)
[02:13:11 -142040.081444] FAST spr round 3 (radius: 25)
[02:15:19 -141990.608764] FAST spr round 4 (radius: 25)
[02:17:12 -141975.901030] FAST spr round 5 (radius: 25)
[02:19:00 -141973.025311] FAST spr round 6 (radius: 25)
[02:20:46 -141973.025306] Model parameter optimization (eps = 1.000000)
[02:21:07 -141946.731552] SLOW spr round 1 (radius: 5)
[02:23:36 -141901.678209] SLOW spr round 2 (radius: 5)
[02:26:01 -141891.799943] SLOW spr round 3 (radius: 5)
[02:28:16 -141891.799926] SLOW spr round 4 (radius: 10)
[02:30:34 -141887.813917] SLOW spr round 5 (radius: 5)
[02:33:24 -141880.583953] SLOW spr round 6 (radius: 5)
[02:35:56 -141880.583923] SLOW spr round 7 (radius: 10)
[02:38:21 -141880.513475] SLOW spr round 8 (radius: 15)
[02:42:04 -141880.513474] SLOW spr round 9 (radius: 20)
[02:47:13 -141880.513474] SLOW spr round 10 (radius: 25)
[02:53:41 -141880.513474] Model parameter optimization (eps = 0.100000)

[02:53:53] ML tree search #4, logLikelihood: -141880.256262

[02:53:53 -654113.350076] Initial branch length optimization
[02:53:56 -542368.653827] Model parameter optimization (eps = 10.000000)
[02:54:25 -540057.328687] AUTODETECT spr round 1 (radius: 5)
[02:56:53 -351898.811496] AUTODETECT spr round 2 (radius: 10)
[02:59:28 -256680.955732] AUTODETECT spr round 3 (radius: 15)
[03:02:16 -195338.479831] AUTODETECT spr round 4 (radius: 20)
[03:05:22 -174174.794033] AUTODETECT spr round 5 (radius: 25)
[03:08:54 -166825.250132] SPR radius for FAST iterations: 25 (autodetect)
[03:08:54 -166825.250132] Model parameter optimization (eps = 3.000000)
[03:09:14 -166758.292069] FAST spr round 1 (radius: 25)
[03:12:05 -143057.911761] FAST spr round 2 (radius: 25)
[03:14:20 -142018.783268] FAST spr round 3 (radius: 25)
[03:16:26 -141944.503845] FAST spr round 4 (radius: 25)
[03:18:20 -141943.523812] FAST spr round 5 (radius: 25)
[03:20:07 -141942.663915] FAST spr round 6 (radius: 25)
[03:21:54 -141942.663875] Model parameter optimization (eps = 1.000000)
[03:22:10 -141935.333840] SLOW spr round 1 (radius: 5)
[03:24:37 -141906.106462] SLOW spr round 2 (radius: 5)
[03:27:02 -141897.746065] SLOW spr round 3 (radius: 5)
[03:29:22 -141896.338373] SLOW spr round 4 (radius: 5)
[03:31:41 -141896.338246] SLOW spr round 5 (radius: 10)
[03:34:03 -141896.283161] SLOW spr round 6 (radius: 15)
[03:38:02 -141896.283159] SLOW spr round 7 (radius: 20)
[03:43:11 -141896.283159] SLOW spr round 8 (radius: 25)
[03:49:47 -141896.283159] Model parameter optimization (eps = 0.100000)

[03:50:01] ML tree search #5, logLikelihood: -141895.147644

[03:50:01 -654124.207187] Initial branch length optimization
[03:50:05 -542213.049048] Model parameter optimization (eps = 10.000000)
[03:50:44 -539896.289710] AUTODETECT spr round 1 (radius: 5)
[03:53:15 -351800.213827] AUTODETECT spr round 2 (radius: 10)
[03:55:56 -256379.876256] AUTODETECT spr round 3 (radius: 15)
[03:58:45 -207890.557610] AUTODETECT spr round 4 (radius: 20)
[04:02:13 -178665.011823] AUTODETECT spr round 5 (radius: 25)
[04:05:56 -172788.689790] SPR radius for FAST iterations: 25 (autodetect)
[04:05:56 -172788.689790] Model parameter optimization (eps = 3.000000)
[04:06:20 -172702.082970] FAST spr round 1 (radius: 25)
[04:09:08 -142898.525669] FAST spr round 2 (radius: 25)
[04:11:21 -141992.548264] FAST spr round 3 (radius: 25)
[04:13:26 -141961.311496] FAST spr round 4 (radius: 25)
[04:15:23 -141943.203932] FAST spr round 5 (radius: 25)
[04:17:15 -141943.203806] Model parameter optimization (eps = 1.000000)
[04:17:31 -141936.936859] SLOW spr round 1 (radius: 5)
[04:20:03 -141915.047284] SLOW spr round 2 (radius: 5)
[04:22:30 -141909.148990] SLOW spr round 3 (radius: 5)
[04:24:49 -141909.148874] SLOW spr round 4 (radius: 10)
[04:27:12 -141907.926804] SLOW spr round 5 (radius: 5)
[04:30:08 -141904.936229] SLOW spr round 6 (radius: 5)
[04:32:43 -141904.936229] SLOW spr round 7 (radius: 10)
[04:35:10 -141904.699685] SLOW spr round 8 (radius: 5)
[04:38:03 -141904.699679] SLOW spr round 9 (radius: 10)
[04:40:41 -141904.699679] SLOW spr round 10 (radius: 15)
[04:44:23 -141904.699679] SLOW spr round 11 (radius: 20)
[04:50:02 -141904.699679] SLOW spr round 12 (radius: 25)
[04:57:09 -141904.699679] Model parameter optimization (eps = 0.100000)

[04:57:21] ML tree search #6, logLikelihood: -141904.407186

[04:57:21 -654698.092918] Initial branch length optimization
[04:57:25 -541737.428571] Model parameter optimization (eps = 10.000000)
[04:58:15 -539413.377943] AUTODETECT spr round 1 (radius: 5)
[05:00:44 -353154.774405] AUTODETECT spr round 2 (radius: 10)
[05:03:24 -253145.634096] AUTODETECT spr round 3 (radius: 15)
[05:06:18 -204581.765576] AUTODETECT spr round 4 (radius: 20)
[05:09:27 -184469.765239] AUTODETECT spr round 5 (radius: 25)
[05:13:07 -172754.747966] SPR radius for FAST iterations: 25 (autodetect)
[05:13:07 -172754.747966] Model parameter optimization (eps = 3.000000)
[05:13:33 -172678.136108] FAST spr round 1 (radius: 25)
[05:16:26 -143314.187603] FAST spr round 2 (radius: 25)
[05:18:44 -142099.645279] FAST spr round 3 (radius: 25)
[05:20:52 -141987.352330] FAST spr round 4 (radius: 25)
[05:22:53 -141962.585591] FAST spr round 5 (radius: 25)
[05:24:45 -141961.202121] FAST spr round 6 (radius: 25)
[05:26:34 -141961.202103] Model parameter optimization (eps = 1.000000)
[05:26:52 -141957.457461] SLOW spr round 1 (radius: 5)
[05:29:21 -141894.230356] SLOW spr round 2 (radius: 5)
[05:31:49 -141887.730563] SLOW spr round 3 (radius: 5)
[05:34:08 -141887.730052] SLOW spr round 4 (radius: 10)
[05:36:30 -141887.730049] SLOW spr round 5 (radius: 15)
[05:40:22 -141887.730049] SLOW spr round 6 (radius: 20)
[05:45:16 -141887.730049] SLOW spr round 7 (radius: 25)
[05:51:12 -141887.730049] Model parameter optimization (eps = 0.100000)

[05:51:20] ML tree search #7, logLikelihood: -141887.565800

[05:51:20 -656347.027322] Initial branch length optimization
[05:51:23 -544794.878385] Model parameter optimization (eps = 10.000000)
[05:51:54 -542453.998179] AUTODETECT spr round 1 (radius: 5)
[05:54:23 -348959.720917] AUTODETECT spr round 2 (radius: 10)
[05:57:01 -250313.768409] AUTODETECT spr round 3 (radius: 15)
[05:59:52 -194758.088403] AUTODETECT spr round 4 (radius: 20)
[06:03:07 -174185.857700] AUTODETECT spr round 5 (radius: 25)
[06:06:48 -172372.263539] SPR radius for FAST iterations: 25 (autodetect)
[06:06:48 -172372.263539] Model parameter optimization (eps = 3.000000)
[06:07:08 -172337.918936] FAST spr round 1 (radius: 25)
[06:10:08 -143126.044363] FAST spr round 2 (radius: 25)
[06:12:32 -141988.414567] FAST spr round 3 (radius: 25)
[06:14:38 -141945.139801] FAST spr round 4 (radius: 25)
[06:16:34 -141941.110925] FAST spr round 5 (radius: 25)
[06:18:25 -141939.499040] FAST spr round 6 (radius: 25)
[06:20:16 -141939.498773] Model parameter optimization (eps = 1.000000)
[06:20:33 -141925.973191] SLOW spr round 1 (radius: 5)
[06:23:11 -141892.995768] SLOW spr round 2 (radius: 5)
[06:25:33 -141892.465507] SLOW spr round 3 (radius: 5)
[06:27:53 -141892.465470] SLOW spr round 4 (radius: 10)
[06:30:15 -141889.947570] SLOW spr round 5 (radius: 5)
[06:33:09 -141889.554416] SLOW spr round 6 (radius: 5)
[06:35:44 -141889.554411] SLOW spr round 7 (radius: 10)
[06:38:10 -141889.554411] SLOW spr round 8 (radius: 15)
[06:42:01 -141889.554411] SLOW spr round 9 (radius: 20)
[06:47:43 -141889.554411] SLOW spr round 10 (radius: 25)
[06:54:33 -141889.554411] Model parameter optimization (eps = 0.100000)

[06:54:40] ML tree search #8, logLikelihood: -141889.294436

[06:54:40 -656035.672345] Initial branch length optimization
[06:54:43 -543893.931502] Model parameter optimization (eps = 10.000000)
[06:55:05 -541573.593161] AUTODETECT spr round 1 (radius: 5)
[06:56:32 -350739.601459] AUTODETECT spr round 2 (radius: 10)
[06:58:12 -256768.333599] AUTODETECT spr round 3 (radius: 15)
[06:59:57 -212386.142978] AUTODETECT spr round 4 (radius: 20)
[07:01:52 -183026.667746] AUTODETECT spr round 5 (radius: 25)
[07:03:52 -174464.690999] SPR radius for FAST iterations: 25 (autodetect)
[07:03:52 -174464.690999] Model parameter optimization (eps = 3.000000)
[07:04:04 -174456.418124] FAST spr round 1 (radius: 25)
[07:05:48 -143714.438791] FAST spr round 2 (radius: 25)
[07:07:16 -142100.513684] FAST spr round 3 (radius: 25)
[07:08:35 -141995.360246] FAST spr round 4 (radius: 25)
[07:09:50 -141979.377215] FAST spr round 5 (radius: 25)
[07:11:01 -141975.855849] FAST spr round 6 (radius: 25)
[07:12:11 -141974.081166] FAST spr round 7 (radius: 25)
[07:13:19 -141974.081149] Model parameter optimization (eps = 1.000000)
[07:13:32 -141962.247871] SLOW spr round 1 (radius: 5)
[07:15:07 -141940.820833] SLOW spr round 2 (radius: 5)
[07:16:39 -141930.595629] SLOW spr round 3 (radius: 5)
[07:18:07 -141930.595217] SLOW spr round 4 (radius: 10)
[07:19:38 -141919.987843] SLOW spr round 5 (radius: 5)
[07:21:27 -141911.481894] SLOW spr round 6 (radius: 5)
[07:23:04 -141911.481666] SLOW spr round 7 (radius: 10)
[07:24:33 -141911.481665] SLOW spr round 8 (radius: 15)
[07:26:50 -141907.060018] SLOW spr round 9 (radius: 5)
[07:28:41 -141904.996780] SLOW spr round 10 (radius: 5)
[07:30:17 -141904.995205] SLOW spr round 11 (radius: 10)
[07:31:47 -141904.489566] SLOW spr round 12 (radius: 5)
[07:33:34 -141902.924957] SLOW spr round 13 (radius: 5)
[07:35:10 -141902.924830] SLOW spr round 14 (radius: 10)
[07:36:41 -141902.924830] SLOW spr round 15 (radius: 15)
[07:38:59 -141902.924829] SLOW spr round 16 (radius: 20)
[07:42:00 -141902.924829] SLOW spr round 17 (radius: 25)
[07:45:52 -141902.924829] Model parameter optimization (eps = 0.100000)

[07:46:01] ML tree search #9, logLikelihood: -141901.193241

[07:46:01 -658016.773708] Initial branch length optimization
[07:46:04 -547626.044060] Model parameter optimization (eps = 10.000000)
[07:46:30 -545166.919649] AUTODETECT spr round 1 (radius: 5)
[07:48:00 -352438.852296] AUTODETECT spr round 2 (radius: 10)
[07:49:42 -244945.866614] AUTODETECT spr round 3 (radius: 15)
[07:51:23 -202076.234258] AUTODETECT spr round 4 (radius: 20)
[07:53:18 -183516.685133] AUTODETECT spr round 5 (radius: 25)
[07:55:16 -169876.359522] SPR radius for FAST iterations: 25 (autodetect)
[07:55:16 -169876.359522] Model parameter optimization (eps = 3.000000)
[07:55:20 -169875.131883] FAST spr round 1 (radius: 25)
[07:57:04 -143556.531473] FAST spr round 2 (radius: 25)
[07:58:32 -142143.541874] FAST spr round 3 (radius: 25)
[07:59:53 -142003.513125] FAST spr round 4 (radius: 25)
[08:01:10 -141994.893336] FAST spr round 5 (radius: 25)
[08:02:24 -141994.892993] Model parameter optimization (eps = 1.000000)
[08:02:38 -141937.709314] SLOW spr round 1 (radius: 5)
[08:04:16 -141877.574853] SLOW spr round 2 (radius: 5)
[08:05:50 -141871.865157] SLOW spr round 3 (radius: 5)
[08:07:19 -141871.865116] SLOW spr round 4 (radius: 10)
[08:08:52 -141869.285524] SLOW spr round 5 (radius: 5)
[08:10:45 -141868.874753] SLOW spr round 6 (radius: 5)
[08:12:26 -141868.874748] SLOW spr round 7 (radius: 10)
[08:14:01 -141868.874748] SLOW spr round 8 (radius: 15)
[08:16:27 -141868.874748] SLOW spr round 9 (radius: 20)
[08:19:43 -141868.874748] SLOW spr round 10 (radius: 25)
[08:23:46 -141868.874748] Model parameter optimization (eps = 0.100000)

[08:23:59] ML tree search #10, logLikelihood: -141866.886562

[08:23:59 -654886.471239] Initial branch length optimization
[08:24:01 -542488.794850] Model parameter optimization (eps = 10.000000)
[08:24:25 -540225.954267] AUTODETECT spr round 1 (radius: 5)
[08:25:58 -342942.754731] AUTODETECT spr round 2 (radius: 10)
[08:27:37 -251335.473352] AUTODETECT spr round 3 (radius: 15)
[08:29:15 -213731.410109] AUTODETECT spr round 4 (radius: 20)
[08:31:06 -190093.851904] AUTODETECT spr round 5 (radius: 25)
[08:33:03 -174395.491278] SPR radius for FAST iterations: 25 (autodetect)
[08:33:03 -174395.491278] Model parameter optimization (eps = 3.000000)
[08:33:20 -174364.204667] FAST spr round 1 (radius: 25)
[08:35:04 -143207.358191] FAST spr round 2 (radius: 25)
[08:36:30 -141990.060405] FAST spr round 3 (radius: 25)
[08:37:52 -141929.598331] FAST spr round 4 (radius: 25)
[08:39:05 -141925.344080] FAST spr round 5 (radius: 25)
[08:40:16 -141925.184346] FAST spr round 6 (radius: 25)
[08:41:26 -141925.184218] Model parameter optimization (eps = 1.000000)
[08:41:37 -141920.385856] SLOW spr round 1 (radius: 5)
[08:43:13 -141894.043457] SLOW spr round 2 (radius: 5)
[08:44:43 -141892.110418] SLOW spr round 3 (radius: 5)
[08:46:11 -141891.568299] SLOW spr round 4 (radius: 5)
[08:47:37 -141891.568278] SLOW spr round 5 (radius: 10)
[08:49:06 -141889.075380] SLOW spr round 6 (radius: 5)
[08:50:56 -141883.788072] SLOW spr round 7 (radius: 5)
[08:52:33 -141883.788042] SLOW spr round 8 (radius: 10)
[08:54:05 -141883.756650] SLOW spr round 9 (radius: 15)
[08:56:26 -141883.756649] SLOW spr round 10 (radius: 20)
[08:59:38 -141883.756649] SLOW spr round 11 (radius: 25)
[09:03:43 -141883.756649] Model parameter optimization (eps = 0.100000)

[09:03:51] ML tree search #11, logLikelihood: -141883.483055

[09:03:51 -654171.134592] Initial branch length optimization
[09:03:53 -541890.883978] Model parameter optimization (eps = 10.000000)
[09:04:12 -539664.657407] AUTODETECT spr round 1 (radius: 5)
[09:05:44 -351200.123554] AUTODETECT spr round 2 (radius: 10)
[09:07:30 -253501.353288] AUTODETECT spr round 3 (radius: 15)
[09:09:14 -212213.761763] AUTODETECT spr round 4 (radius: 20)
[09:11:12 -198324.212563] AUTODETECT spr round 5 (radius: 25)
[09:13:17 -174524.596030] SPR radius for FAST iterations: 25 (autodetect)
[09:13:17 -174524.596030] Model parameter optimization (eps = 3.000000)
[09:13:30 -174465.022327] FAST spr round 1 (radius: 25)
[09:15:15 -143447.860681] FAST spr round 2 (radius: 25)
[09:16:42 -142071.169224] FAST spr round 3 (radius: 25)
[09:18:03 -141983.234250] FAST spr round 4 (radius: 25)
[09:19:17 -141976.445360] FAST spr round 5 (radius: 25)
[09:20:30 -141972.823386] FAST spr round 6 (radius: 25)
[09:21:43 -141972.823293] Model parameter optimization (eps = 1.000000)
[09:21:55 -141962.130996] SLOW spr round 1 (radius: 5)
[09:23:33 -141909.624877] SLOW spr round 2 (radius: 5)
[09:25:08 -141900.531146] SLOW spr round 3 (radius: 5)
[09:26:40 -141900.530971] SLOW spr round 4 (radius: 10)
[09:28:13 -141897.612163] SLOW spr round 5 (radius: 5)
[09:30:08 -141894.030583] SLOW spr round 6 (radius: 5)
[09:31:49 -141891.482537] SLOW spr round 7 (radius: 5)
[09:33:25 -141890.363617] SLOW spr round 8 (radius: 5)
[09:34:57 -141890.363523] SLOW spr round 9 (radius: 10)
[09:36:30 -141890.363522] SLOW spr round 10 (radius: 15)
[09:39:00 -141890.363522] SLOW spr round 11 (radius: 20)
[09:42:15 -141890.363522] SLOW spr round 12 (radius: 25)
[09:46:13 -141890.363522] Model parameter optimization (eps = 0.100000)

[09:46:22] ML tree search #12, logLikelihood: -141890.123824

[09:46:22 -654559.396903] Initial branch length optimization
[09:46:25 -542310.476905] Model parameter optimization (eps = 10.000000)
[09:46:54 -540104.297509] AUTODETECT spr round 1 (radius: 5)
[09:48:28 -349145.484294] AUTODETECT spr round 2 (radius: 10)
[09:50:14 -266944.280747] AUTODETECT spr round 3 (radius: 15)
[09:52:04 -215430.079797] AUTODETECT spr round 4 (radius: 20)
[09:54:03 -178276.388329] AUTODETECT spr round 5 (radius: 25)
[09:56:19 -173219.553287] SPR radius for FAST iterations: 25 (autodetect)
[09:56:19 -173219.553287] Model parameter optimization (eps = 3.000000)
[09:56:23 -173218.209729] FAST spr round 1 (radius: 25)
[09:58:17 -143437.547056] FAST spr round 2 (radius: 25)
[09:59:49 -142113.352224] FAST spr round 3 (radius: 25)
[10:01:13 -142022.451877] FAST spr round 4 (radius: 25)
[10:02:29 -142022.451358] Model parameter optimization (eps = 1.000000)
[10:02:32 -142022.136957] SLOW spr round 1 (radius: 5)
[10:04:14 -141992.242088] SLOW spr round 2 (radius: 5)
[10:05:52 -141979.810906] SLOW spr round 3 (radius: 5)
[10:07:25 -141979.810773] SLOW spr round 4 (radius: 10)
[10:08:59 -141979.810770] SLOW spr round 5 (radius: 15)
[10:11:31 -141977.512732] SLOW spr round 6 (radius: 5)
[10:13:29 -141973.283566] SLOW spr round 7 (radius: 5)
[10:15:13 -141973.283018] SLOW spr round 8 (radius: 10)
[10:16:50 -141970.666285] SLOW spr round 9 (radius: 5)
[10:18:42 -141970.666265] SLOW spr round 10 (radius: 10)
[10:20:22 -141970.363053] SLOW spr round 11 (radius: 5)
[10:22:15 -141962.719768] SLOW spr round 12 (radius: 5)
[10:23:55 -141962.719650] SLOW spr round 13 (radius: 10)
[10:25:32 -141962.719650] SLOW spr round 14 (radius: 15)
[10:27:59 -141962.719650] SLOW spr round 15 (radius: 20)
[10:31:21 -141962.719650] SLOW spr round 16 (radius: 25)
[10:35:36 -141962.719650] Model parameter optimization (eps = 0.100000)

[10:35:39] ML tree search #13, logLikelihood: -141962.715499

[10:35:39 -660171.873923] Initial branch length optimization
[10:35:41 -548233.720088] Model parameter optimization (eps = 10.000000)
[10:36:03 -545882.681245] AUTODETECT spr round 1 (radius: 5)
[10:37:39 -352283.368948] AUTODETECT spr round 2 (radius: 10)
[10:39:30 -253039.755802] AUTODETECT spr round 3 (radius: 15)
[10:41:11 -204137.142040] AUTODETECT spr round 4 (radius: 20)
[10:43:16 -180772.645707] AUTODETECT spr round 5 (radius: 25)
[10:45:36 -173171.911828] SPR radius for FAST iterations: 25 (autodetect)
[10:45:36 -173171.911828] Model parameter optimization (eps = 3.000000)
[10:45:56 -173098.649054] FAST spr round 1 (radius: 25)
[10:47:44 -143097.589318] FAST spr round 2 (radius: 25)
[10:49:13 -142076.704198] FAST spr round 3 (radius: 25)
[10:50:35 -141973.703426] FAST spr round 4 (radius: 25)
[10:51:50 -141955.377750] FAST spr round 5 (radius: 25)
[10:53:01 -141955.377706] Model parameter optimization (eps = 1.000000)
[10:53:10 -141951.305286] SLOW spr round 1 (radius: 5)
[10:54:47 -141922.421496] SLOW spr round 2 (radius: 5)
[10:56:19 -141921.717370] SLOW spr round 3 (radius: 5)
[10:57:48 -141921.717136] SLOW spr round 4 (radius: 10)
[10:59:19 -141921.716950] SLOW spr round 5 (radius: 15)
[11:01:48 -141921.716769] SLOW spr round 6 (radius: 20)
[11:05:11 -141921.716592] SLOW spr round 7 (radius: 25)
[11:09:43 -141921.716419] Model parameter optimization (eps = 0.100000)

[11:09:54] ML tree search #14, logLikelihood: -141919.899739

[11:09:54 -652621.392014] Initial branch length optimization
[11:09:57 -542872.750614] Model parameter optimization (eps = 10.000000)
[11:10:17 -540644.143187] AUTODETECT spr round 1 (radius: 5)
[11:11:53 -347609.510217] AUTODETECT spr round 2 (radius: 10)
[11:13:37 -249357.135199] AUTODETECT spr round 3 (radius: 15)
[11:15:27 -193550.799932] AUTODETECT spr round 4 (radius: 20)
[11:17:30 -172508.415604] AUTODETECT spr round 5 (radius: 25)
[11:19:47 -171151.319712] SPR radius for FAST iterations: 25 (autodetect)
[11:19:47 -171151.319712] Model parameter optimization (eps = 3.000000)
[11:20:01 -171133.197996] FAST spr round 1 (radius: 25)
[11:21:49 -142796.480197] FAST spr round 2 (radius: 25)
[11:23:19 -142037.010259] FAST spr round 3 (radius: 25)
[11:24:43 -141959.732298] FAST spr round 4 (radius: 25)
[11:26:00 -141950.648189] FAST spr round 5 (radius: 25)
[11:27:12 -141950.648183] Model parameter optimization (eps = 1.000000)
[11:27:23 -141944.583459] SLOW spr round 1 (radius: 5)
[11:29:01 -141904.859180] SLOW spr round 2 (radius: 5)
[11:30:34 -141901.536144] SLOW spr round 3 (radius: 5)
[11:32:03 -141901.313152] SLOW spr round 4 (radius: 5)
[11:33:30 -141901.313130] SLOW spr round 5 (radius: 10)
[11:34:59 -141900.205670] SLOW spr round 6 (radius: 5)
[11:36:50 -141897.470859] SLOW spr round 7 (radius: 5)
[11:38:29 -141896.958752] SLOW spr round 8 (radius: 5)
[11:40:00 -141896.958726] SLOW spr round 9 (radius: 10)
[11:41:30 -141896.958726] SLOW spr round 10 (radius: 15)
[11:43:53 -141896.958726] SLOW spr round 11 (radius: 20)
[11:47:02 -141896.958726] SLOW spr round 12 (radius: 25)
[11:51:00 -141896.958726] Model parameter optimization (eps = 0.100000)

[11:51:10] ML tree search #15, logLikelihood: -141894.937794

[11:51:10 -649704.636225] Initial branch length optimization
[11:51:13 -539719.113290] Model parameter optimization (eps = 10.000000)
[11:51:32 -537465.740010] AUTODETECT spr round 1 (radius: 5)
[11:53:02 -354447.308669] AUTODETECT spr round 2 (radius: 10)
[11:54:46 -247811.707272] AUTODETECT spr round 3 (radius: 15)
[11:56:30 -195134.717818] AUTODETECT spr round 4 (radius: 20)
[11:58:31 -174698.535994] AUTODETECT spr round 5 (radius: 25)
[12:00:39 -168474.761829] SPR radius for FAST iterations: 25 (autodetect)
[12:00:39 -168474.761829] Model parameter optimization (eps = 3.000000)
[12:00:43 -168473.781963] FAST spr round 1 (radius: 25)
[12:02:32 -143056.706997] FAST spr round 2 (radius: 25)
[12:04:01 -142184.821653] FAST spr round 3 (radius: 25)
[12:05:24 -142087.279268] FAST spr round 4 (radius: 25)
[12:06:44 -142040.864555] FAST spr round 5 (radius: 25)
[12:07:55 -142034.294298] FAST spr round 6 (radius: 25)
[12:09:07 -142024.909750] FAST spr round 7 (radius: 25)
[12:10:17 -142024.237342] FAST spr round 8 (radius: 25)
[12:11:27 -142024.237342] Model parameter optimization (eps = 1.000000)
[12:11:44 -141950.244407] SLOW spr round 1 (radius: 5)
[12:13:22 -141923.210849] SLOW spr round 2 (radius: 5)
[12:14:57 -141918.954675] SLOW spr round 3 (radius: 5)
[12:16:26 -141917.723196] SLOW spr round 4 (radius: 5)
[12:17:54 -141917.722771] SLOW spr round 5 (radius: 10)
[12:19:25 -141915.588620] SLOW spr round 6 (radius: 5)
[12:21:14 -141914.773552] SLOW spr round 7 (radius: 5)
[12:22:51 -141914.773522] SLOW spr round 8 (radius: 10)
[12:24:21 -141914.773520] SLOW spr round 9 (radius: 15)
[12:26:40 -141914.773519] SLOW spr round 10 (radius: 20)
[12:29:42 -141914.773519] SLOW spr round 11 (radius: 25)
[12:33:16 -141914.773519] Model parameter optimization (eps = 0.100000)

[12:33:20] ML tree search #16, logLikelihood: -141914.753826

[12:33:20 -653121.894762] Initial branch length optimization
[12:33:23 -541080.617717] Model parameter optimization (eps = 10.000000)
[12:33:44 -538773.760433] AUTODETECT spr round 1 (radius: 5)
[12:35:16 -353750.009551] AUTODETECT spr round 2 (radius: 10)
[12:36:50 -263948.401437] AUTODETECT spr round 3 (radius: 15)
[12:38:29 -223121.897263] AUTODETECT spr round 4 (radius: 20)
[12:40:20 -196144.353105] AUTODETECT spr round 5 (radius: 25)
[12:42:27 -174273.781608] SPR radius for FAST iterations: 25 (autodetect)
[12:42:27 -174273.781608] Model parameter optimization (eps = 3.000000)
[12:42:41 -174254.655838] FAST spr round 1 (radius: 25)
[12:44:20 -143405.855338] FAST spr round 2 (radius: 25)
[12:45:40 -142015.794024] FAST spr round 3 (radius: 25)
[12:46:55 -141978.233404] FAST spr round 4 (radius: 25)
[12:48:03 -141937.012928] FAST spr round 5 (radius: 25)
[12:49:09 -141935.663028] FAST spr round 6 (radius: 25)
[12:50:13 -141935.662710] Model parameter optimization (eps = 1.000000)
[12:50:23 -141923.152656] SLOW spr round 1 (radius: 5)
[12:51:52 -141887.917355] SLOW spr round 2 (radius: 5)
[12:53:16 -141884.065982] SLOW spr round 3 (radius: 5)
[12:54:39 -141884.065843] SLOW spr round 4 (radius: 10)
[12:56:05 -141884.065842] SLOW spr round 5 (radius: 15)
[12:58:25 -141884.065842] SLOW spr round 6 (radius: 20)
[13:01:27 -141884.065842] SLOW spr round 7 (radius: 25)
[13:05:14 -141884.065842] Model parameter optimization (eps = 0.100000)

[13:05:19] ML tree search #17, logLikelihood: -141883.813048

[13:05:19 -656782.267194] Initial branch length optimization
[13:05:22 -542411.916385] Model parameter optimization (eps = 10.000000)
[13:05:41 -540119.794035] AUTODETECT spr round 1 (radius: 5)
[13:07:06 -356265.221852] AUTODETECT spr round 2 (radius: 10)
[13:08:46 -258737.570612] AUTODETECT spr round 3 (radius: 15)
[13:10:29 -211980.290259] AUTODETECT spr round 4 (radius: 20)
[13:12:20 -184959.209165] AUTODETECT spr round 5 (radius: 25)
[13:14:33 -178007.690719] SPR radius for FAST iterations: 25 (autodetect)
[13:14:33 -178007.690719] Model parameter optimization (eps = 3.000000)
[13:14:48 -177948.072094] FAST spr round 1 (radius: 25)
[13:16:34 -143372.049315] FAST spr round 2 (radius: 25)
[13:17:58 -142105.498299] FAST spr round 3 (radius: 25)
[13:19:16 -141992.792843] FAST spr round 4 (radius: 25)
[13:20:28 -141975.353380] FAST spr round 5 (radius: 25)
[13:21:39 -141971.139691] FAST spr round 6 (radius: 25)
[13:22:47 -141971.139687] Model parameter optimization (eps = 1.000000)
[13:22:59 -141961.621520] SLOW spr round 1 (radius: 5)
[13:24:32 -141926.555558] SLOW spr round 2 (radius: 5)
[13:26:01 -141920.900345] SLOW spr round 3 (radius: 5)
[13:27:27 -141920.900341] SLOW spr round 4 (radius: 10)
[13:28:55 -141920.900338] SLOW spr round 5 (radius: 15)
[13:31:23 -141920.900338] SLOW spr round 6 (radius: 20)
[13:34:32 -141920.900338] SLOW spr round 7 (radius: 25)
[13:38:37 -141920.900338] Model parameter optimization (eps = 0.100000)

[13:38:41] ML tree search #18, logLikelihood: -141920.875896

[13:38:41 -653503.593613] Initial branch length optimization
[13:38:44 -543006.074596] Model parameter optimization (eps = 10.000000)
[13:39:05 -540718.232031] AUTODETECT spr round 1 (radius: 5)
[13:40:35 -356459.058720] AUTODETECT spr round 2 (radius: 10)
[13:42:20 -251815.597837] AUTODETECT spr round 3 (radius: 15)
[13:44:05 -206012.585053] AUTODETECT spr round 4 (radius: 20)
[13:46:02 -187522.463954] AUTODETECT spr round 5 (radius: 25)
[13:48:02 -178018.540858] SPR radius for FAST iterations: 25 (autodetect)
[13:48:02 -178018.540858] Model parameter optimization (eps = 3.000000)
[13:48:16 -177882.372748] FAST spr round 1 (radius: 25)
[13:50:05 -143319.237257] FAST spr round 2 (radius: 25)
[13:51:31 -142049.958401] FAST spr round 3 (radius: 25)
[13:52:51 -141979.839330] FAST spr round 4 (radius: 25)
[13:54:02 -141972.951153] FAST spr round 5 (radius: 25)
[13:55:11 -141972.951066] Model parameter optimization (eps = 1.000000)
[13:55:22 -141960.560979] SLOW spr round 1 (radius: 5)
[13:56:53 -141928.721118] SLOW spr round 2 (radius: 5)
[13:58:22 -141924.886546] SLOW spr round 3 (radius: 5)
[13:59:47 -141924.885605] SLOW spr round 4 (radius: 10)
[14:01:13 -141924.885605] SLOW spr round 5 (radius: 15)
[14:03:35 -141924.885605] SLOW spr round 6 (radius: 20)
[14:06:36 -141924.885605] SLOW spr round 7 (radius: 25)
[14:10:11 -141924.885605] Model parameter optimization (eps = 0.100000)

[14:10:17] ML tree search #19, logLikelihood: -141924.738869

[14:10:17 -652455.226033] Initial branch length optimization
[14:10:20 -539156.831807] Model parameter optimization (eps = 10.000000)
[14:10:43 -536881.116221] AUTODETECT spr round 1 (radius: 5)
[14:12:12 -347024.913906] AUTODETECT spr round 2 (radius: 10)
[14:13:55 -263628.369779] AUTODETECT spr round 3 (radius: 15)
[14:15:39 -210376.632695] AUTODETECT spr round 4 (radius: 20)
[14:17:35 -185769.203940] AUTODETECT spr round 5 (radius: 25)
[14:19:38 -173815.361387] SPR radius for FAST iterations: 25 (autodetect)
[14:19:38 -173815.361387] Model parameter optimization (eps = 3.000000)
[14:19:52 -173773.651841] FAST spr round 1 (radius: 25)
[14:21:33 -142979.542869] FAST spr round 2 (radius: 25)
[14:22:57 -142137.117805] FAST spr round 3 (radius: 25)
[14:24:13 -141988.346094] FAST spr round 4 (radius: 25)
[14:25:26 -141950.680502] FAST spr round 5 (radius: 25)
[14:26:36 -141947.678791] FAST spr round 6 (radius: 25)
[14:27:44 -141947.678739] Model parameter optimization (eps = 1.000000)
[14:27:57 -141934.688399] SLOW spr round 1 (radius: 5)
[14:29:30 -141900.202171] SLOW spr round 2 (radius: 5)
[14:30:59 -141896.844926] SLOW spr round 3 (radius: 5)
[14:32:24 -141896.844880] SLOW spr round 4 (radius: 10)
[14:33:51 -141895.508529] SLOW spr round 5 (radius: 5)
[14:35:39 -141892.841375] SLOW spr round 6 (radius: 5)
[14:37:14 -141892.840889] SLOW spr round 7 (radius: 10)
[14:38:43 -141892.840881] SLOW spr round 8 (radius: 15)
[14:40:59 -141892.840881] SLOW spr round 9 (radius: 20)
[14:43:56 -141892.840881] SLOW spr round 10 (radius: 25)
[14:47:23 -141892.840881] Model parameter optimization (eps = 0.100000)

[14:47:31] ML tree search #20, logLikelihood: -141892.190894


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.207365,0.392412) (0.262218,0.414800) (0.298520,0.986299) (0.231897,2.222665) 
   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: -141866.886562

AIC score: 287743.773125 / AICc score: 8331803.773125 / BIC score: 296086.993805
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=474).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q96IJ6/3_mltree/Q96IJ6.raxml.log

Analysis started: 07-Jul-2021 19:32:00 / finished: 08-Jul-2021 10:19:33

Elapsed time: 53252.092 seconds

Consumed energy: 3761.496 Wh (= 19 km in an electric car, or 94 km with an e-scooter!)