PLUMED: PLUMED is starting
PLUMED: Version: 2.10.0 (git: 09264719e) compiled on Jun 10 2026 at 10:34:57
PLUMED: Please cite these papers when using PLUMED [1][2]
PLUMED: For further information see the PLUMED web page at http://www.plumed.org
PLUMED: Root: /home/runner/opt/lib/plumed
PLUMED: LibraryPath: /home/runner/opt/lib/libplumedKernel.so
PLUMED: For installed feature, see /home/runner/opt/lib/plumed/src/config/config.txt
PLUMED: Molecular dynamics engine: driver
PLUMED: Precision of reals: 8
PLUMED: Running over 1 node
PLUMED: Number of threads: 1
PLUMED: Cache line size: 512
PLUMED: Number of atoms: 100000
PLUMED: File suffix: 
PLUMED: FILE: logn_jeff.dat
PLUMED: Action GROUP
PLUMED:   with label batoms
PLUMED:   importing group 'batoms' from index file index.ndx
PLUMED:   list of atoms:
PLUMED:  7 24 39 50 67 86 108 132 143 165 187 201 212 231 241 271 290 304 314 326 343 360 376 387 397
PLUMED:  416 435 447 457 475 489 500 519 538 559 570 585 646 684 704 715 730 740 751 768 783 792 811 830 844
PLUMED:  858 877 887 899 923 938 957 973 990 1007 1026 1040 1064 1074 1096 1120 1139 1148 1157 1177 1193 1205 1224 1238 1257
PLUMED:  1274 1286 1303 1319 1336 1355 1374 1389 1400 1410 1434 1453 1468 1487 1506 1523 1540 1549 1568 1584 1608 1632 1643 1660 1675
PLUMED:  1695 1704 1713 1735 1754 1773 1793 1806 1817 1831 1850 1869 1888 1900 1924 1938 1953 1962 1984 1995 2011 2024 2033 2050 2066
PLUMED:  2081 2100 2120 2132 2149 2168 2187 2197 2211 2222 2233 2257 2277 2301 2318 2335 2349 2368 2383 2392 2407 2422 2442 2458 2469
PLUMED:  2488 2510 2521 2540 2559 2578 2597 2611 2620 2629 2645 2666 2680 2700 2719 2730 2741 2755 2774 2796 2807 2826 2841 2856 2878
PLUMED:  2890 2907 2926 2943 2967 2983 3002 3014 3036 3055 3069 3081 3095 3114 3133 3150 3169 3186 3196 3218 3235 3254 3268 3287 3304
PLUMED:  3321 3338 3355 3372 3396 3415 3425 3442 3461 3480 3499 3518 3537 3548 3565 3584 3608 3625 3642 3653 3667 3687 3696 3713 3728
PLUMED:  3745 3764 3785 3796 3813 3835 3846 3868 3882 3898 3917 3928 3947 3968 3980 3999 4018 4037 4052 4069 4088 4100 4110 4127 4151
PLUMED:  4170 4239 4256 4271 4282 4299 4318 4340 4364 4375 4397 4419 4433 4444 4463 4473 4503 4522 4536 4546 4558 4575 4592 4608 4619
PLUMED:  4629 4648 4667 4679 4689 4707 4721 4732 4751 4770 4791 4802 4817 4878 4916 4936 4947 4962 4972 4983 5000 5015 5024 5043 5062
PLUMED:  5076 5090 5109 5119 5131 5155 5170 5189 5205 5222 5239 5258 5272 5296 5306 5328 5352 5371 5380 5389 5409 5425 5437 5456 5470
PLUMED:  5489 5506 5518 5535 5551 5568 5587 5606 5621 5632 5642 5666 5685 5700 5719 5738 5755 5772 5781 5800 5816 5840 5864 5875 5892
PLUMED:  5907 5927 5936 5945 5967 5986 6005 6025 6038 6049 6063 6082 6101 6120 6132 6156 6170 6185 6194 6216 6227 6243 6256 6265 6282
PLUMED:  6298 6313 6332 6352 6364 6381 6400 6419 6429 6443 6454 6465 6489 6509 6533 6550 6567 6581 6600 6615 6624 6639 6654 6674 6690
PLUMED:  6701 6720 6742 6753 6772 6791 6810 6829 6843 6852 6861 6877 6898 6912 6932 6951 6962 6973 6987 7006 7028 7039 7058 7073 7088
PLUMED:  7110 7122 7139 7158 7175 7199 7215 7234 7246 7268 7287 7301 7313 7327 7346 7365 7382 7401 7418 7428 7450 7467 7486 7500 7519
PLUMED:  7536 7553 7570 7587 7604 7628 7647 7657 7674 7693 7712 7731 7750 7769 7780 7797 7816 7840 7857 7874 7885 7899 7919 7928 7945
PLUMED:  7960 7977 7996 8017 8028 8045 8067 8078 8100 8114 8130 8149 8160 8179 8200 8212 8231 8250 8269 8284 8301 8320 8332 8342 8359
PLUMED:  8383 8402 8471 8493 8510 8532 8551 8570 8587 8611 8630 8649 8666 8689 8703 8725 8742 8764 8783 8802 8819 8843 8862 8881 8898
PLUMED:  8921
PLUMED: Action BAIES
PLUMED:   with label baies
PLUMED:   number of atoms involved : 526
PLUMED:   AF2 fit parameters file : logn.out
PLUMED:   prior type : JEFFREYS
PLUMED:   noise model type : lognormal
PLUMED:   number of pairs involved : 1672
PLUMED:   temperature of the system in energy unit : 2.478541
PLUMED:   minimum value of sigma : -1.000000
PLUMED:   using periodic boundary conditions
PLUMED:   added component to this action:  baies.ene 
PLUMED:   Bibliography [3][4]
PLUMED: Action PRINT
PLUMED:   with label @2
PLUMED:   with stride 500
PLUMED:   with arguments : 
PLUMED:    scalar with label baies.ene 
PLUMED:   on file COLVAR
PLUMED:   with format  %f
PLUMED: Action BIASVALUE
PLUMED:   with label bbias
PLUMED:   with arguments : 
PLUMED:    scalar with label baies.ene 
PLUMED:   added component to this action:  bbias.bias 
PLUMED:   multiple time step 4 [5]
PLUMED:   added component to this action:  bbias.baies.ene_bias 
PLUMED: END FILE: logn_jeff.dat
PLUMED: Timestep: 1.000000
PLUMED: KbT: 2.490000
PLUMED: Relevant bibliography:
PLUMED:   [1] The PLUMED consortium, Nat. Methods 16, 670 (2019)
PLUMED:   [2] Tribello, Bonomi, Branduardi, Camilloni, and Bussi, Comput. Phys. Commun. 185, 604 (2014)
PLUMED:   [3] Bonomi, Camilloni, Bioinformatics, 33, 3999 (2017)
PLUMED:   [4] Schnapka, Morozova, Sen, Bonomi, bioRxiv (2025) doi: XXX
PLUMED:   [5] Ferrarotti, Bottaro, Perez-Villa, and Bussi, J. Chem. Theory Comput. 11, 139 (2015)
PLUMED: Please read and cite where appropriate!
PLUMED: Finished setup
PLUMED:                                               Cycles        Total      Average      Minimum      Maximum
PLUMED:                                                    1     0.014252     0.014252     0.014252     0.014252
