CarlosSantanaMolina
commented
6 years ago Concernign to AU test bug, thanks for share this info. Following the instrucctions in IQ-tree webpage (http://www.iqtree.org/doc/Advanced-Tutorial), I also had problems performing the AU topology-test with next warnings:
"""
WARNING: Too few replicates for AU test. At least -zb 10000 for reliable results!
0 MB required for AU test
terminate called after throwing an instance of 'std::cxx11::basic_string<char, std::char_traits
"""
As Kinggerm said, with 6.1 version it works perfectly. Cheers, Carlos
bqminh
IQ-TREE multicore version 1.6.6 for Mac OS X 64-bit built Jul 1 2018 Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams.
Host: KMBP (AVX2, FMA3, 16 GB RAM) Command: iqtree -s test.fasta -z no_br.trees -zb 1000 -au -nt 2 Seed: 36129 (Using SPRNG - Scalable Parallel Random Number Generator) Time: Sun Jul 22 16:08:34 2018 Kernel: AVX+FMA - 2 threads (8 CPU cores detected)
Reading alignment file test.fasta ... Fasta format detected Alignment most likely contains DNA/RNA sequences Alignment has 4 sequences with 10 columns, 8 distinct patterns 2 parsimony-informative, 3 singleton sites, 5 constant sites Gap/Ambiguity Composition p-value 1 A 0.00% passed 98.80% 2 B 0.00% passed 74.18% 3 C 0.00% passed 76.05% 4 D 0.00% passed 95.78% **** TOTAL 0.00% 0 sequences failed composition chi2 test (p-value<5%; df=3)
Create initial parsimony tree by phylogenetic likelihood library (PLL)... 0.002 seconds NOTE: ModelFinder requires 0 MB RAM! ModelFinder will test 286 DNA models (sample size: 10) ... No. Model -LnL df AIC AICc BIC WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 1 JC 32.615 5 75.230 90.230 76.743 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 2 JC+I 32.615 6 77.230 105.230 79.045 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 3 JC+G4 32.616 6 77.231 105.231 79.047 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 4 JC+I+G4 32.893 7 79.786 135.786 81.904 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 5 JC+R2 32.628 7 79.256 135.256 81.374 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 6 JC+R3 32.618 9 83.236 263.236 85.959 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 14 F81+F 32.170 8 80.339 224.339 82.760 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 15 F81+F+I 32.170 9 82.339 262.339 85.063 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 16 F81+F+G4 32.171 9 82.341 262.341 85.064 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 17 F81+F+I+G4 32.411 10 84.821 304.821 87.847 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 18 F81+F+R2 32.171 10 84.343 304.343 87.368 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 19 F81+F+R3 32.170 12 88.340 400.340 91.971 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 27 K2P 30.837 6 73.674 101.674 75.489 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 28 K2P+I 30.837 7 75.674 131.674 77.792 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 29 K2P+G4 30.838 7 75.675 131.675 77.794 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 30 K2P+I+G4 31.037 8 78.074 222.074 80.495 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 31 K2P+R2 30.837 8 77.674 221.674 80.095 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 32 K2P+R3 30.837 10 81.674 301.674 84.700 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 40 HKY+F 30.217 9 78.433 258.433 81.156 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 41 HKY+F+I 30.217 10 80.433 300.433 83.459 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 42 HKY+F+G4 30.218 10 80.435 300.435 83.461 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 43 HKY+F+I+G4 30.405 11 82.810 346.810 86.138 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 44 HKY+F+R2 30.217 11 82.433 346.433 85.762 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 45 HKY+F+R3 30.217 13 86.433 450.433 90.367 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 53 TNe 30.837 7 75.674 131.674 77.792 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 54 TNe+I 30.837 8 77.674 221.674 80.094 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 55 TNe+G4 30.838 8 77.675 221.675 80.096 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 56 TNe+I+G4 30.960 9 79.920 259.920 82.643 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 57 TNe+R2 30.837 9 79.674 259.674 82.397 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 58 TNe+R3 30.837 11 83.674 347.674 87.002 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 66 TN+F 30.217 10 80.433 300.433 83.459 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 67 TN+F+I 30.217 11 82.433 346.433 85.762 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 68 TN+F+G4 30.218 11 82.435 346.435 85.764 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 69 TN+F+I+G4 30.336 12 84.671 396.671 88.302 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 70 TN+F+R2 30.217 12 84.433 396.433 88.064 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 71 TN+F+R3 30.217 14 88.433 508.433 92.669 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 79 K3P 30.756 7 75.512 131.512 77.630 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 80 K3P+I 30.725 8 77.450 221.450 79.871 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 81 K3P+G4 30.726 8 77.452 221.452 79.873 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 82 K3P+I+G4 30.804 9 79.607 259.607 82.331 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 83 K3P+R2 30.725 9 79.450 259.450 82.174 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 84 K3P+R3 30.725 11 83.450 347.450 86.779 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 92 K3Pu+F 30.100 10 80.201 300.201 83.227 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 93 K3Pu+F+I 30.100 11 82.201 346.201 85.529 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 94 K3Pu+F+G4 30.101 11 82.203 346.203 85.531 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 95 K3Pu+F+I+G4 30.179 12 84.357 396.357 87.989 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 96 K3Pu+F+R2 30.100 12 84.201 396.201 87.832 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 97 K3Pu+F+R3 30.100 14 88.201 508.201 92.437 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 105 TPM2+F 30.127 10 80.254 300.254 83.279 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 106 TPM2+F+I 30.052 11 82.103 346.103 85.432 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 107 TPM2+F+G4 30.053 11 82.105 346.105 85.434 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 108 TPM2+F+I+G4 30.120 12 84.240 396.240 87.871 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 109 TPM2+F+R2 30.052 12 84.103 396.103 87.734 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 110 TPM2+F+R3 30.052 14 88.103 508.103 92.339 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 118 TPM2u+F 30.052 10 80.103 300.103 83.129 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 119 TPM2u+F+I 30.052 11 82.103 346.103 85.432 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 120 TPM2u+F+G4 30.053 11 82.105 346.105 85.434 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 121 TPM2u+F+I+G4 30.104 12 84.208 396.208 87.839 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 122 TPM2u+F+R2 30.052 12 84.103 396.103 87.734 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 123 TPM2u+F+R3 30.052 14 88.103 508.103 92.339 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 131 TPM3+F 30.187 10 80.375 300.375 83.401 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 132 TPM3+F+I 30.186 11 82.371 346.371 85.699 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 133 TPM3+F+G4 30.187 11 82.373 346.373 85.702 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 134 TPM3+F+I+G4 30.222 12 84.444 396.444 88.075 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 135 TPM3+F+R2 30.186 12 84.371 396.371 88.002 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 136 TPM3+F+R3 30.186 14 88.371 508.371 92.607 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 144 TPM3u+F 30.186 10 80.371 300.371 83.397 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 145 TPM3u+F+I 30.186 11 82.371 346.371 85.699 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 146 TPM3u+F+G4 30.187 11 82.373 346.373 85.702 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 147 TPM3u+F+I+G4 30.215 12 84.430 396.430 88.061 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 148 TPM3u+F+R2 30.186 12 84.371 396.371 88.002 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 149 TPM3u+F+R3 30.186 14 88.371 508.371 92.607 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 157 TIMe 30.756 8 77.512 221.512 79.933 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 158 TIMe+I 30.726 9 79.452 259.452 82.175 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 159 TIMe+G4 30.726 9 79.452 259.452 82.175 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 160 TIMe+I+G4 30.745 10 81.490 301.490 84.516 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 161 TIMe+R2 30.725 10 81.450 301.450 84.476 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 162 TIMe+R3 30.725 12 85.450 397.450 89.081 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 170 TIM+F 30.100 11 82.201 346.201 85.529 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 171 TIM+F+I 30.100 12 84.201 396.201 87.832 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 172 TIM+F+G4 30.101 12 84.203 396.203 87.834 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 173 TIM+F+I+G4 30.120 13 86.241 450.241 90.174 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 174 TIM+F+R2 30.100 13 86.201 450.201 90.134 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 175 TIM+F+R3 30.100 15 90.201 570.201 94.739 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 183 TIM2e 30.753 8 77.505 221.505 79.926 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 184 TIM2e+I 30.715 9 79.430 259.430 82.153 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 185 TIM2e+G4 30.715 9 79.430 259.430 82.153 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 186 TIM2e+I+G4 30.729 10 81.457 301.457 84.483 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 187 TIM2e+R2 30.714 10 81.428 301.428 84.454 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 188 TIM2e+R3 30.714 12 85.428 397.428 89.059 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 196 TIM2+F 30.052 11 82.104 346.104 85.433 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 197 TIM2+F+I 30.052 12 84.103 396.103 87.734 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 198 TIM2+F+G4 30.053 12 84.105 396.105 87.736 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 199 TIM2+F+I+G4 30.067 13 86.133 450.133 90.067 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 200 TIM2+F+R2 30.052 13 86.103 450.103 90.037 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 201 TIM2+F+R3 30.052 15 90.103 570.103 94.642 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 209 TIM3e 30.780 8 77.560 221.560 79.980 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 210 TIM3e+I 30.773 9 79.546 259.546 82.269 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 211 TIM3e+G4 30.773 9 79.546 259.546 82.270 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 212 TIM3e+I+G4 30.781 10 81.562 301.562 84.588 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 213 TIM3e+R2 30.772 10 81.545 301.545 84.570 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 214 TIM3e+R3 30.772 12 85.545 397.545 89.176 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 222 TIM3+F 30.186 11 82.371 346.371 85.699 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 223 TIM3+F+I 30.186 12 84.371 396.371 88.002 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 224 TIM3+F+G4 30.187 12 84.373 396.373 88.004 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 225 TIM3+F+I+G4 30.195 13 86.389 450.389 90.323 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 226 TIM3+F+R2 30.186 13 86.371 450.371 90.305 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 227 TIM3+F+R3 30.186 15 90.371 570.371 94.910 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 235 TVMe 30.609 9 79.217 259.217 81.941 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 236 TVMe+I 30.587 10 81.173 301.173 84.199 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 237 TVMe+G4 30.573 10 81.146 301.146 84.172 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 238 TVMe+I+G4 30.578 11 83.156 347.156 86.485 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 239 TVMe+R2 30.571 11 83.143 347.143 86.471 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 240 TVMe+R3 30.571 13 87.143 451.143 91.076 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 248 TVM+F 29.941 12 83.882 395.882 87.513 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 249 TVM+F+I 29.941 13 85.882 449.882 89.816 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 250 TVM+F+G4 29.942 13 85.885 449.885 89.818 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 251 TVM+F+I+G4 29.948 14 87.897 507.897 92.133 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 252 TVM+F+R2 29.941 14 87.882 507.882 92.119 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 253 TVM+F+R3 29.941 16 91.882 635.882 96.724 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 261 SYM 30.571 10 81.143 301.143 84.169 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 262 SYM+I 30.571 11 83.142 347.142 86.471 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 263 SYM+G4 30.572 11 83.144 347.144 86.473 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 264 SYM+I+G4 30.576 12 85.152 397.152 88.783 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 265 SYM+R2 30.571 12 85.142 397.142 88.773 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 266 SYM+R3 30.571 14 89.142 509.142 93.379 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 274 GTR+F 29.941 13 85.883 449.883 89.816 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 275 GTR+F+I 29.941 14 87.882 507.882 92.118 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 276 GTR+F+G4 29.942 14 87.884 507.884 92.121 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 277 GTR+F+I+G4 29.946 15 89.892 569.892 94.431 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 278 GTR+F+R2 29.941 15 89.882 569.882 94.421 WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. 279 GTR+F+R3 29.941 17 93.882 705.882 99.026 Akaike Information Criterion: K2P Corrected Akaike Information Criterion: JC Bayesian Information Criterion: K2P Best-fit model: K2P chosen according to BIC
All model information printed to test.fasta.model.gz CPU time for ModelFinder: 0.157 seconds (0h:0m:0s) Wall-clock time for ModelFinder: 0.098 seconds (0h:0m:0s)
NOTE: 0 MB RAM (0 GB) is required! WARNING: Number of threads seems too high for short alignments. Use -nt AUTO to determine best number of threads. Estimate model parameters (epsilon = 0.100)
Current log-likelihood: -30.840 Optimal log-likelihood: -30.837 Rate parameters: A-C: 1.00000 A-G: 0.00010 A-T: 1.00000 C-G: 1.00000 C-T: 0.00010 G-T: 1.00000 Base frequencies: A: 0.250 C: 0.250 G: 0.250 T: 0.250 Parameters optimization took 2 rounds (0.001 sec) Computing ML distances based on estimated model parameters... 0.001 sec Computing BIONJ tree... 0.000 seconds Log-likelihood of BIONJ tree: -30.837
| INITIALIZING CANDIDATE TREE SET |
Generating 99 parsimony trees... 0.007 second Computing log-likelihood of 2 initial trees ... 0.000 seconds Current best score: -30.837
Do NNI search on 3 best initial trees UPDATE BEST LOG-LIKELIHOOD: -30.837 Finish initializing candidate tree set (3) Current best tree score: -30.837 / CPU time: 0.009 Number of iterations: 3
| OPTIMIZING CANDIDATE TREE SET |
UPDATE BEST LOG-LIKELIHOOD: -30.837 Iteration 10 / LogL: -30.839 / Time: 0h:0m:0s UPDATE BEST LOG-LIKELIHOOD: -30.837 Iteration 20 / LogL: -30.839 / Time: 0h:0m:0s Iteration 30 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 40 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 50 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 60 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 70 / LogL: -30.839 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 80 / LogL: -30.839 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 90 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) Iteration 100 / LogL: -30.837 / Time: 0h:0m:0s (0h:0m:0s left) TREE SEARCH COMPLETED AFTER 101 ITERATIONS / Time: 0h:0m:0s
| FINALIZING TREE SEARCH |
Performs final model parameters optimization Estimate model parameters (epsilon = 0.010)
Total number of iterations: 101 CPU time used for tree search: 0.069 sec (0h:0m:0s) Wall-clock time used for tree search: 0.036 sec (0h:0m:0s) Total CPU time used: 0.084 sec (0h:0m:0s) Total wall-clock time used: 0.045 sec (0h:0m:0s)
Reading trees in no_br.trees ... 2 trees detected Note: 0.061 MB of RAM required! Creating 1000 bootstrap replicates... done Tree 1 / LogL: -30.837 Tree 2 / LogL: -34.343 Performing RELL-BP test... Performing KH and SH test... Performing ELW test... Performing approximately unbiased (AU) test... WARNING: Too few replicates for AU test. At least -zb 10000 for reliable results! 0 MB required for AU test Generating 10 x 1000 multiscale bootstrap replicates... ERROR: STACK TRACE FOR ERROR: DEBUGGING:* IQ-TRE CRA ERROR: SHES WITH SIGNAL ABORTED ERROR: For bug report please send to developers: ERROR: Log file: test.fasta.log ERROR: *** Alignment files (if possible)
Alignment (test.fasta):
Trees (no_br.tre):