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 02-Jul-2021 09:43:25 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/2_msa/A6NKG5_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/3_mltree/A6NKG5 --seed 2 --threads 3 --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 (3 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/2_msa/A6NKG5_trimmed_msa.fasta
[00:00:00] Loaded alignment with 579 taxa and 141 sites

WARNING: Sequences tr_A0A3B3H425_A0A3B3H425_ORYLA_8090 and tr_A0A3B3H4U4_A0A3B3H4U4_ORYLA_8090 are exactly identical!
WARNING: Sequences tr_A0A3B3H425_A0A3B3H425_ORYLA_8090 and tr_A0A3B3HLT1_A0A3B3HLT1_ORYLA_8090 are exactly identical!
WARNING: Sequences tr_A0A3B3HIX0_A0A3B3HIX0_ORYLA_8090 and tr_A0A3B3I4A8_A0A3B3I4A8_ORYLA_8090 are exactly identical!
WARNING: Sequences tr_A0A2I2Y282_A0A2I2Y282_GORGO_9595 and sp_Q86TG7_PEG10_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I2YDP7_A0A2I2YDP7_GORGO_9595 and tr_A0A2J8IVX1_A0A2J8IVX1_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I2YDP7_A0A2I2YDP7_GORGO_9595 and tr_G7Q306_G7Q306_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A2I2YDP7_A0A2I2YDP7_GORGO_9595 and tr_A0A0D9SAJ8_A0A0D9SAJ8_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I2YDP7_A0A2I2YDP7_GORGO_9595 and tr_A0A2K6CWY7_A0A2K6CWY7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I2YDP7_A0A2I2YDP7_GORGO_9595 and tr_A0A2K5XSD6_A0A2K5XSD6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G1KXV3_G1KXV3_ANOCA_28377 and tr_R4GDC8_R4GDC8_ANOCA_28377 are exactly identical!
WARNING: Sequences tr_A0A2I3SJ63_A0A2I3SJ63_PANTR_9598 and sp_A6NKG5_RTL1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_F6U9Z5_F6U9Z5_HORSE_9796 and tr_A0A287BK84_A0A287BK84_PIG_9823 are exactly identical!
WARNING: Sequences tr_W5Q8D2_W5Q8D2_SHEEP_9940 and tr_G3N0I0_G3N0I0_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_F7G2J3_F7G2J3_MACMU_9544 and tr_G7PBM9_G7PBM9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7G2J3_F7G2J3_MACMU_9544 and tr_A0A2K6B3S7_A0A2K6B3S7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A337SLN3_A0A337SLN3_FELCA_9685 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A2U3UYD2_A0A2U3UYD2_ODORO_9708 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A2U3XHC6_A0A2U3XHC6_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A2Y9JMB8_A0A2Y9JMB8_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A2Y9D5Q2_A0A2Y9D5Q2_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_G1MLV9_G1MLV9_AILME_9646 and tr_A0A384BGN7_A0A384BGN7_BALAS_310752 are exactly identical!
WARNING: Sequences tr_G7P1C6_G7P1C6_MACFA_9541 and tr_A0A0D9SCP1_A0A0D9SCP1_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A3B1JS24_A0A3B1JS24_ASTMX_7994 and tr_A0A3B1KLB4_A0A3B1KLB4_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_A0A015KJ65_A0A015KJ65_9GLOM_1432141 and tr_A0A2H5SE37_A0A2H5SE37_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A0D9SDZ3_A0A0D9SDZ3_CHLSB_60711 and tr_A0A2K5L044_A0A2K5L044_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A0D9SDZ3_A0A0D9SDZ3_CHLSB_60711 and tr_A0A2K5XQT2_A0A2K5XQT2_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A0V1C798_A0A0V1C798_TRIBR_45882 and tr_A0A0V1CD24_A0A0V1CD24_TRIBR_45882 are exactly identical!
WARNING: Sequences tr_A0A151QNZ7_A0A151QNZ7_CAJCA_3821 and tr_A0A151RN18_A0A151RN18_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_A0A151QQ89_A0A151QQ89_CAJCA_3821 and tr_A0A151REI5_A0A151REI5_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_A0A151QUR9_A0A151QUR9_CAJCA_3821 and tr_A0A151UE54_A0A151UE54_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_A0A151RDY9_A0A151RDY9_CAJCA_3821 and tr_A0A151SWK0_A0A151SWK0_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_A0A151SMW3_A0A151SMW3_CAJCA_3821 and tr_A0A151SN24_A0A151SN24_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_A0A1M2VLY3_A0A1M2VLY3_TRAPU_154538 and tr_A0A1M2VNL0_A0A1M2VNL0_TRAPU_154538 are exactly identical!
WARNING: Sequences tr_A0A2G8JCX9_A0A2G8JCX9_STIJA_307972 and tr_A0A2G8K6V2_A0A2G8K6V2_STIJA_307972 are exactly identical!
WARNING: Sequences tr_A0A2G8JR07_A0A2G8JR07_STIJA_307972 and tr_A0A2G8LBK5_A0A2G8LBK5_STIJA_307972 are exactly identical!
WARNING: Sequences tr_A0A250WX44_A0A250WX44_9CHLO_1157962 and tr_A0A250XDG6_A0A250XDG6_9CHLO_1157962 are exactly identical!
WARNING: Duplicate sequences found: 36

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/A6NKG5/3_mltree/A6NKG5.raxml.reduced.phy

Alignment comprises 1 partitions and 141 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 141 / 141
Gaps: 11.67 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/3_mltree/A6NKG5.raxml.rba

Parallelization scheme autoconfig: 3 worker(s) x 1 thread(s)

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

[00:00:00] Generating 20 random starting tree(s) with 579 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 141 / 11280
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -149675.862110] Initial branch length optimization
[00:00:01 -129198.272722] Model parameter optimization (eps = 10.000000)
[00:00:18 -128919.479470] AUTODETECT spr round 1 (radius: 5)
[00:01:05 -104757.450013] AUTODETECT spr round 2 (radius: 10)
[00:02:01 -79478.138882] AUTODETECT spr round 3 (radius: 15)
[00:03:03 -70453.213874] AUTODETECT spr round 4 (radius: 20)
[00:04:22 -67225.546362] AUTODETECT spr round 5 (radius: 25)
[00:06:05 -65400.786842] SPR radius for FAST iterations: 25 (autodetect)
[00:06:05 -65400.786842] Model parameter optimization (eps = 3.000000)
[00:06:21 -65388.157056] FAST spr round 1 (radius: 25)
[00:07:35 -60751.817997] FAST spr round 2 (radius: 25)
[00:08:34 -60517.671130] FAST spr round 3 (radius: 25)
[00:09:27 -60494.280360] FAST spr round 4 (radius: 25)
[00:10:12 -60492.543220] FAST spr round 5 (radius: 25)
[00:10:56 -60492.542713] Model parameter optimization (eps = 1.000000)
[00:11:04 -60490.314013] SLOW spr round 1 (radius: 5)
[00:12:05 -60474.058604] SLOW spr round 2 (radius: 5)
[00:13:06 -60472.999742] SLOW spr round 3 (radius: 5)
[00:14:05 -60471.590901] SLOW spr round 4 (radius: 5)
[00:15:01 -60471.590811] SLOW spr round 5 (radius: 10)
[00:15:59 -60471.590796] SLOW spr round 6 (radius: 15)
[00:18:04 -60471.590793] SLOW spr round 7 (radius: 20)
[00:21:08 -60471.590792] SLOW spr round 8 (radius: 25)
[00:21:53] [worker #1] ML tree search #2, logLikelihood: -60458.885998
[00:24:25 -60471.590792] Model parameter optimization (eps = 0.100000)

[00:24:28] [worker #0] ML tree search #1, logLikelihood: -60471.583655

[00:24:28 -149474.948757] Initial branch length optimization
[00:24:30 -128778.989329] Model parameter optimization (eps = 10.000000)
[00:24:58 -128446.029950] AUTODETECT spr round 1 (radius: 5)
[00:25:49 -105183.677406] AUTODETECT spr round 2 (radius: 10)
[00:26:53 -78381.252268] AUTODETECT spr round 3 (radius: 15)
[00:28:06 -70587.324039] AUTODETECT spr round 4 (radius: 20)
[00:29:38 -67764.825074] AUTODETECT spr round 5 (radius: 25)
[00:30:21] [worker #2] ML tree search #3, logLikelihood: -60459.376160
[00:31:43 -66965.529686] SPR radius for FAST iterations: 25 (autodetect)
[00:31:43 -66965.529686] Model parameter optimization (eps = 3.000000)
[00:31:56 -66898.696179] FAST spr round 1 (radius: 25)
[00:33:21 -60813.413592] FAST spr round 2 (radius: 25)
[00:34:24 -60542.531447] FAST spr round 3 (radius: 25)
[00:35:19 -60510.550721] FAST spr round 4 (radius: 25)
[00:36:07 -60490.636876] FAST spr round 5 (radius: 25)
[00:36:50 -60489.200357] FAST spr round 6 (radius: 25)
[00:37:32 -60489.200250] Model parameter optimization (eps = 1.000000)
[00:37:41 -60487.582320] SLOW spr round 1 (radius: 5)
[00:38:42 -60462.234988] SLOW spr round 2 (radius: 5)
[00:39:42 -60459.051077] SLOW spr round 3 (radius: 5)
[00:40:40 -60458.347930] SLOW spr round 4 (radius: 5)
[00:41:40 -60450.184779] SLOW spr round 5 (radius: 5)
[00:42:39 -60447.915947] SLOW spr round 6 (radius: 5)
[00:43:35 -60447.915798] SLOW spr round 7 (radius: 10)
[00:44:33 -60447.915792] SLOW spr round 8 (radius: 15)
[00:46:39 -60447.876473] SLOW spr round 9 (radius: 20)
[00:49:30 -60447.876369] SLOW spr round 10 (radius: 25)
[00:52:27 -60447.876367] Model parameter optimization (eps = 0.100000)

[00:52:34] [worker #0] ML tree search #4, logLikelihood: -60447.263081

[00:52:34 -149099.214159] Initial branch length optimization
[00:52:35 -127976.328088] Model parameter optimization (eps = 10.000000)
[00:53:04 -127634.651125] AUTODETECT spr round 1 (radius: 5)
[00:53:48 -105055.442912] AUTODETECT spr round 2 (radius: 10)
[00:54:41 -79523.375008] AUTODETECT spr round 3 (radius: 15)
[00:55:44 -70382.557975] AUTODETECT spr round 4 (radius: 20)
[00:57:01 -68092.101162] AUTODETECT spr round 5 (radius: 25)
[00:58:33 -66659.185426] SPR radius for FAST iterations: 25 (autodetect)
[00:58:33 -66659.185426] Model parameter optimization (eps = 3.000000)
[00:58:43 -66629.313123] FAST spr round 1 (radius: 25)
[00:59:51 -60769.021767] FAST spr round 2 (radius: 25)
[01:00:42 -60485.362388] FAST spr round 3 (radius: 25)
[01:01:26 -60470.065765] FAST spr round 4 (radius: 25)
[01:01:44] [worker #1] ML tree search #5, logLikelihood: -60470.006244
[01:02:04 -60468.924682] FAST spr round 5 (radius: 25)
[01:02:41 -60468.923889] Model parameter optimization (eps = 1.000000)
[01:02:47 -60465.962403] SLOW spr round 1 (radius: 5)
[01:03:42 -60441.012058] SLOW spr round 2 (radius: 5)
[01:04:36 -60438.182526] SLOW spr round 3 (radius: 5)
[01:05:25 -60438.179921] SLOW spr round 4 (radius: 10)
[01:06:13 -60438.179758] SLOW spr round 5 (radius: 15)
[01:08:01 -60438.179739] SLOW spr round 6 (radius: 20)
[01:09:53] [worker #2] ML tree search #6, logLikelihood: -60450.368172
[01:10:40 -60438.179736] SLOW spr round 7 (radius: 25)
[01:14:08 -60438.179735] Model parameter optimization (eps = 0.100000)

[01:14:13] [worker #0] ML tree search #7, logLikelihood: -60438.051939

[01:14:13 -150038.965609] Initial branch length optimization
[01:14:14 -129229.225600] Model parameter optimization (eps = 10.000000)
[01:14:46 -128925.150763] AUTODETECT spr round 1 (radius: 5)
[01:15:38 -105039.421887] AUTODETECT spr round 2 (radius: 10)
[01:16:45 -78027.090716] AUTODETECT spr round 3 (radius: 15)
[01:18:07 -67960.132456] AUTODETECT spr round 4 (radius: 20)
[01:19:45 -65383.460788] AUTODETECT spr round 5 (radius: 25)
[01:21:45 -65350.336173] SPR radius for FAST iterations: 25 (autodetect)
[01:21:45 -65350.336173] Model parameter optimization (eps = 3.000000)
[01:21:58 -65307.584590] FAST spr round 1 (radius: 25)
[01:23:21 -60739.982760] FAST spr round 2 (radius: 25)
[01:24:25 -60521.526062] FAST spr round 3 (radius: 25)
[01:25:16 -60493.385526] FAST spr round 4 (radius: 25)
[01:26:03 -60481.713126] FAST spr round 5 (radius: 25)
[01:26:50 -60478.931253] FAST spr round 6 (radius: 25)
[01:27:34 -60478.929920] Model parameter optimization (eps = 1.000000)
[01:27:38 -60478.581281] SLOW spr round 1 (radius: 5)
[01:28:41 -60460.565740] SLOW spr round 2 (radius: 5)
[01:29:41 -60460.559867] SLOW spr round 3 (radius: 10)
[01:30:42 -60457.466319] SLOW spr round 4 (radius: 5)
[01:31:56 -60457.466175] SLOW spr round 5 (radius: 10)
[01:33:05 -60457.466174] SLOW spr round 6 (radius: 15)
[01:35:03 -60457.466174] SLOW spr round 7 (radius: 20)
[01:38:06 -60457.466174] SLOW spr round 8 (radius: 25)
[01:40:51] [worker #2] ML tree search #9, logLikelihood: -60458.250947
[01:41:29 -60457.466174] Model parameter optimization (eps = 0.100000)

[01:41:33] [worker #0] ML tree search #10, logLikelihood: -60457.377355

[01:41:33 -149381.746475] Initial branch length optimization
[01:41:35 -128659.041907] Model parameter optimization (eps = 10.000000)
[01:41:56 -128266.220492] AUTODETECT spr round 1 (radius: 5)
[01:42:48 -106449.869692] AUTODETECT spr round 2 (radius: 10)
[01:43:50 -81935.969303] AUTODETECT spr round 3 (radius: 15)
[01:45:15 -70254.070663] AUTODETECT spr round 4 (radius: 20)
[01:47:01 -66103.073980] AUTODETECT spr round 5 (radius: 25)
[01:49:21 -65357.897830] SPR radius for FAST iterations: 25 (autodetect)
[01:49:21 -65357.897830] Model parameter optimization (eps = 3.000000)
[01:49:35 -65309.421080] FAST spr round 1 (radius: 25)
[01:50:57 -60778.275993] FAST spr round 2 (radius: 25)
[01:51:57 -60510.558097] FAST spr round 3 (radius: 25)
[01:52:48 -60494.541764] FAST spr round 4 (radius: 25)
[01:53:38 -60478.975514] FAST spr round 5 (radius: 25)
[01:54:21 -60478.141028] FAST spr round 6 (radius: 25)
[01:55:06 -60478.140687] Model parameter optimization (eps = 1.000000)
[01:55:14 -60475.764043] SLOW spr round 1 (radius: 5)
[01:55:30] [worker #1] ML tree search #8, logLikelihood: -60447.218129
[01:56:19 -60453.989181] SLOW spr round 2 (radius: 5)
[01:57:20 -60453.278419] SLOW spr round 3 (radius: 5)
[01:58:22 -60453.277175] SLOW spr round 4 (radius: 10)
[01:59:26 -60451.153353] SLOW spr round 5 (radius: 5)
[02:00:42 -60451.153254] SLOW spr round 6 (radius: 10)
[02:01:54 -60451.153250] SLOW spr round 7 (radius: 15)
[02:04:02 -60451.153250] SLOW spr round 8 (radius: 20)
[02:07:47 -60451.117806] SLOW spr round 9 (radius: 25)
[02:11:25 -60451.117125] Model parameter optimization (eps = 0.100000)

[02:11:29] [worker #0] ML tree search #13, logLikelihood: -60451.065065

[02:11:29 -149740.268727] Initial branch length optimization
[02:11:31 -128608.230527] Model parameter optimization (eps = 10.000000)
[02:12:10 -128273.703784] AUTODETECT spr round 1 (radius: 5)
[02:13:00 -104480.165446] AUTODETECT spr round 2 (radius: 10)
[02:14:03 -81492.206034] AUTODETECT spr round 3 (radius: 15)
[02:15:23 -71121.839084] AUTODETECT spr round 4 (radius: 20)
[02:17:08 -66951.900380] AUTODETECT spr round 5 (radius: 25)
[02:18:58 -66539.809461] SPR radius for FAST iterations: 25 (autodetect)
[02:18:58 -66539.809461] Model parameter optimization (eps = 3.000000)
[02:19:11 -66507.669733] FAST spr round 1 (radius: 25)
[02:20:36 -60773.815625] FAST spr round 2 (radius: 25)
[02:21:38 -60559.308848] FAST spr round 3 (radius: 25)
[02:22:30 -60499.954474] FAST spr round 4 (radius: 25)
[02:23:17 -60491.481865] FAST spr round 5 (radius: 25)
[02:24:00 -60491.480729] Model parameter optimization (eps = 1.000000)
[02:24:08 -60489.282147] SLOW spr round 1 (radius: 5)
[02:25:14 -60450.988111] SLOW spr round 2 (radius: 5)
[02:26:08] [worker #1] ML tree search #11, logLikelihood: -60470.950017
[02:26:19 -60442.574392] SLOW spr round 3 (radius: 5)
[02:27:23 -60440.319647] SLOW spr round 4 (radius: 5)
[02:28:11] [worker #2] ML tree search #12, logLikelihood: -60467.649524
[02:28:22 -60439.873966] SLOW spr round 5 (radius: 5)
[02:29:23 -60439.873667] SLOW spr round 6 (radius: 10)
[02:30:27 -60437.029925] SLOW spr round 7 (radius: 5)
[02:31:43 -60435.465268] SLOW spr round 8 (radius: 5)
[02:32:49 -60434.688855] SLOW spr round 9 (radius: 5)
[02:33:51 -60433.830092] SLOW spr round 10 (radius: 5)
[02:34:50 -60433.825780] SLOW spr round 11 (radius: 10)
[02:35:49 -60432.770549] SLOW spr round 12 (radius: 5)
[02:37:10 -60431.714288] SLOW spr round 13 (radius: 5)
[02:38:15 -60431.714079] SLOW spr round 14 (radius: 10)
[02:39:19 -60431.714058] SLOW spr round 15 (radius: 15)
[02:41:28 -60431.307958] SLOW spr round 16 (radius: 5)
[02:42:45 -60430.571802] SLOW spr round 17 (radius: 5)
[02:43:51 -60430.571801] SLOW spr round 18 (radius: 10)
[02:44:54 -60430.571801] SLOW spr round 19 (radius: 15)
[02:47:02 -60430.571801] SLOW spr round 20 (radius: 20)
[02:50:26 -60430.488865] SLOW spr round 21 (radius: 25)
[02:54:08 -60430.488529] Model parameter optimization (eps = 0.100000)

[02:54:15] [worker #0] ML tree search #16, logLikelihood: -60430.034656

[02:54:15 -149795.027106] Initial branch length optimization
[02:54:17 -128622.653831] Model parameter optimization (eps = 10.000000)
[02:54:45 -128313.420496] AUTODETECT spr round 1 (radius: 5)
[02:55:36 -103928.499882] AUTODETECT spr round 2 (radius: 10)
[02:56:41 -81618.758972] AUTODETECT spr round 3 (radius: 15)
[02:57:57 -70256.488059] AUTODETECT spr round 4 (radius: 20)
[02:59:31 -67353.039011] AUTODETECT spr round 5 (radius: 25)
[03:00:35] [worker #2] ML tree search #15, logLikelihood: -60451.766298
[03:01:32 -66747.466756] SPR radius for FAST iterations: 25 (autodetect)
[03:01:32 -66747.466756] Model parameter optimization (eps = 3.000000)
[03:01:45 -66680.893944] FAST spr round 1 (radius: 25)
[03:03:06 -60761.137333] FAST spr round 2 (radius: 25)
[03:04:08 -60545.707366] FAST spr round 3 (radius: 25)
[03:05:00 -60515.470435] FAST spr round 4 (radius: 25)
[03:05:47 -60501.973188] FAST spr round 5 (radius: 25)
[03:06:36 -60498.259036] FAST spr round 6 (radius: 25)
[03:07:21 -60493.236067] FAST spr round 7 (radius: 25)
[03:08:04 -60491.788474] FAST spr round 8 (radius: 25)
[03:08:46 -60491.304510] FAST spr round 9 (radius: 25)
[03:09:31 -60491.304422] Model parameter optimization (eps = 1.000000)
[03:09:38] [worker #1] ML tree search #14, logLikelihood: -60454.066573
[03:09:44 -60477.684539] SLOW spr round 1 (radius: 5)
[03:10:48 -60451.947557] SLOW spr round 2 (radius: 5)
[03:11:50 -60448.513566] SLOW spr round 3 (radius: 5)
[03:12:49 -60447.846837] SLOW spr round 4 (radius: 5)
[03:13:46 -60447.845916] SLOW spr round 5 (radius: 10)
[03:14:46 -60447.845848] SLOW spr round 6 (radius: 15)
[03:17:10 -60447.800119] SLOW spr round 7 (radius: 20)
[03:20:20 -60447.799403] SLOW spr round 8 (radius: 25)
[03:23:39 -60447.799352] Model parameter optimization (eps = 0.100000)

[03:23:43] [worker #0] ML tree search #19, logLikelihood: -60447.715354

[03:48:23] [worker #2] ML tree search #18, logLikelihood: -60444.755504
[03:56:27] [worker #1] ML tree search #17, logLikelihood: -60444.669283
[04:32:49] [worker #1] ML tree search #20, logLikelihood: -60446.097904

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.091452,0.244474) (0.265576,0.376342) (0.323294,0.800078) (0.319677,1.936434) 
   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: -60430.034656

AIC score: 123182.069311 / AICc score: 2821346.069311 / BIC score: 126605.579544
Free parameters (model + branch lengths): 1161

WARNING: Number of free parameters (K=1161) is larger than alignment size (n=141).
         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/A6NKG5/3_mltree/A6NKG5.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/3_mltree/A6NKG5.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/3_mltree/A6NKG5.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/A6NKG5/3_mltree/A6NKG5.raxml.log

Analysis started: 02-Jul-2021 09:43:25 / finished: 02-Jul-2021 14:16:15

Elapsed time: 16369.833 seconds

Consumed energy: 1095.989 Wh (= 5 km in an electric car, or 27 km with an e-scooter!)