
 OPTIM version 22983, Copyright (C) David J. Wales
 OPTIM comes with ABSOLUTELY NO WARRANTY; for details supply WARRANTY as an input keyword.
 This is free software, and you are welcome to redistribute it
 under certain conditions; provide keyword COPYRIGHT to see the details.

 getparams> Number of atoms (or variables)  determined as    145
 keyword> Constraint potential parameters read from file congeom.dat
 keyword> Local permutational alignment: alignment threshold=        1.00000
 keyword> Local permutational alignment: alignment cutoff=           5.00000
 keyword> Number of groups of permutable atoms=     6
CHARMMTYPE set to  2
1
                 Chemistry at HARvard Macromolecular Mechanics
                   (CHARMM) - Developmental Version 35b4   February 15, 2010   
       Copyright(c) 1984-2001  President and Fellows of Harvard College
                              All Rights Reserved
      Current operating system: Linux-2.6.16.54-0.2.5-smp(x86_64)@comp29.ch.
                 Created on  5/28/12 at 10:34:23 by user: wales       

            Maximum number of ATOMS:     25140, and RESidues:       14000
            Current HEAP size:         2048000, and STACK size:    500000

 RDTITL> * INPUT FILE FOR TRYPZIP 1LE1
 RDTITL> *
  
 CHARMM>    BOMLev -2
 Parameter: TOP <- "toph19_eef1_bs360.inp"
 Parameter: PAR <- "param19_eef1_bs360.inp"
  
 CHARMM>    WRNLEV -1
  
 CHARMM>    PRNLEV 1
 NBOND          152
 NTHETA          223
 NPHI           88

chsetdihe> number of internal coordinates for segment    1
 chsetdihe> NPHIPSI           24
 chsetdihe> NOMEGAC           11
 chsetdihe> NSIDECHAIN           27
 chsetdihe> NCHIRAL           13

chsetdihe> total number of internal coordinates
 chsetdihe> NPHIPSITOT=            24
 chsetdihe> NOMEGACTOT=            11
 chsetdihe> NSIDECHAINTOT=            27
 chsetdihe> NCHIRALTOT=            13

 chsetdihe>            51  twistable dihedrals identified
chsetdihe> SEG-NR, NSEGATOMS :    1     145

 fetchz> Hybrid EF/BFGS transition state search, maximum steps= 250
         maximum tangent space steps=   5 or  100 when overlap is better than     0.999900
 fetchz> Uphill mode is    0 for initial step and    0 after that
 fetchz> Steps for largest Hessian e/vector= 100, smallest e/vector=2000 convergence at       0.0020%

 fetchz>  435 Cartesian coordinates will be optimised for  145 CHARMM atoms

 fetchz> Lowest   1 eigenvalues and eigenvectors will be calculated non-iteratively
 fetchz> Point group checked when RMS force <     0.00100000, highest symmetry axis tested for=  6
 fetchz> Initial distance and eigenvalue tolerances in symmetry determination=     0.00010000     0.00010000
 fetchz> Minimum number of optimization steps=     0
 fetchz> Using constraint potential for initial interpolation in each cycle
         with absolute distance change tolerance         0.30000
         extra distance before turning on constraint potential         0.17500
         constraint spring constant=       10.00000
         image distance spring constant=        1.00000
         repulsion factor between unconstrained atoms=      100.00000
         repulsion cutoff will be the minimum of         1.55000 and the shortest distance in the end points
         fraction for restoring true potential=        0.99000
         maximum separation of atoms in sequence for constraint=   218
         minimum separation of atoms in sequence for repulsion=     0
         maximum optimization steps for constrained potential=  300001
         initial # images for constrained potential, maximum, check interval=       3      75      25
         number of interpolation attempts and initial image increment=       2      12
         RMS gradient per image tolerance for constrained potential=        0.01000
         maximum optimization steps for constrained/real potential=      25
         maximum steps for relaxation after adding a new atom before backtrack=     200
         maximum number of constraints per atom=     6
         maximum energy per image for convergence during constraint potential phase=        0.1000000000
         interval for checking repulsive interactions=    10
         multiple of cutoff for repulsion neighbour list=        2.0000000000
         adding terms for constraint internal minima
         Minimum and Maximum image separations:         0.10000       10.00000
 keywords> Cutoff for identifying atoms in the same orbit=    0.2000000000    
 keywords> lpermdist neighbours, threshold, max sep=    10     1.000000000         3
 fetchz> Convergence criterion for LBFGS optimization: RMS force< 0.10000000E-05 maximum steps= 10000
 fetchz> Maximum energy rise in LBFGS minimization=    0.1000000000E-01
 fetchz> Number of updates in LBFGS=    10000
 fetchz> Number of updates in XLBFGS=   4
 fetchz> Number of updates in mind=   4
 fetchz> Number of updates in qci=   4
 fetchz> Initial guess for diagonal elements in LBFGS=     0.0100
 fetchz> Initial guess for diagonal elements in XLBFGS=    0.1000
 fetchz> Maximum step size in LBFGS energy minimization=     0.1000
 fetchz> Maximum step size in XLBFGS=    0.2000
 fetchz> Maximum step size in LBFGS neb image minimization=                 0.2000
 fetchz> Warnings will be issued if atoms become closer than 0.5 units
 fetchz> Coordinates for intermediate steps will not be dumped to file points


 OPTIM> Using translational/rotational ev shift=     1000000.000    
 OPTIM> Initial energy=    -379.9078830     RMS force=    0.9982737733E-06
 OPTIM> Final energy  =    -379.7128734     RMS force=    0.9533959835E-06
 KeyConnect> Maximum cycles = 50, maximum images = 23
 KeyConnect> Maximum attempts per pair of minima = 3, with increment image density of 2.00
 KeyConnect> Image density = 0.30, iteration density = 35.00
 KeyNEB> Initial and final NEB force constants     10.00000000        10.00000000     factor=    1.010000000    
 KeyNEB> Number of images will vary depending on the separation of the endpoints
 KeyGrad> Overall rotation and translation will NOT be removed
 KeyGrad> Using doubly nudged elastic band gradient
 KeyOutput> Transition state candidates will be optimized
 KeyOutput> Concise printing during transition states optimization
 KeyOutput> Transition state candidates are maxima along NEB
 KeyMin> Maximal number of iterations will vary, depending on the number of images in the band
 KeyMin> RMS convergence criterion is set to 0.001
 KeyMin> L-BFGS minimization
 KeyLBFGS> Maximum step size per image =     0.2000000000    
 KeyLBFGS> 4 Hessian updates per iteration
 KeyLBFGS> Guess for inverse Hessian diagonal elements =     0.1000000000E-02
 KeyTau> Using Henkelman and Jonsson's improved tangent
 KeyDecide> Cost function in Dijkstra algorithm from interp function and dist, power=     3

 initialise> Interpolation metric value for minima 1 and 2 is      84.05591105    
 >>>>>>>>>>>>>>>>>>>>> CONNECT CYCLE 1 >>>>>>>>>>>>>>>>>>>>> 2 minima and 0 ts are known >>>>>>>>>>>>>>>>>>>>
 decide> Shortest path in Dijkstra has      1 steps with      1 missing connections, weight=     5225.3    
 decide> The unconnected minima in the chain and their distances are:
     2       17.27     1 
 

 tryconnect> Interpolation for minima 1_S and 2_F using 3 initial images  (interp attempt #1)  ...
 intlbfgs> Maximum number of steps for constraint potential phase is 300001
 intlbfgs> Total number of atoms moving less than threshold=   114
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> Backtracking      1 steps, current active atoms=   117
 intlbfgs> Backtracking      1 steps, current active atoms=   117
 intlbfgs> Backtracking      1 steps, current active atoms=   119
 intlbfgs> Backtracking      2 steps, current active atoms=   120
 intlbfgs> Backtracking      2 steps, current active atoms=   119
 intlbfgs> Backtracking      1 steps, current active atoms=   118
 intlbfgs> Backtracking      1 steps, current active atoms=   120
 intlbfgs> Backtracking      2 steps, current active atoms=   120
 intlbfgs> Backtracking      2 steps, current active atoms=   121
 intlbfgs> Backtracking      3 steps, current active atoms=   127
 intlbfgs> Backtracking      4 steps, current active atoms=   125
 intlbfgs> Backtracking      5 steps, current active atoms=   126
 intlbfgs> Backtracking      5 steps, current active atoms=   123
 intlbfgs> Backtracking      2 steps, current active atoms=   123
 intlbfgs> Backtracking      3 steps, current active atoms=   130
 intlbfgs> Backtracking      4 steps, current active atoms=   142
 intlbfgs> Backtracking      5 steps, current active atoms=   144
 intlbfgs> Backtracking      6 steps, current active atoms=   142
 intlbfgs> Backtracking      7 steps, current active atoms=   141
 intlbfgs> Backtracking      8 steps, current active atoms=   145
 intlbfgs> Backtracking      9 steps, current active atoms=   141
 intlbfgs> Backtracking     10 steps, current active atoms=   134
 intlbfgs> Backtracking      8 steps, current active atoms=   126
 intlbfgs> Backtracking      2 steps, current active atoms=   120
 intlbfgs> Backtracking      2 steps, current active atoms=   122
 intlbfgs> Backtracking      3 steps, current active atoms=   128
 intlbfgs> Backtracking      4 steps, current active atoms=   129
 intlbfgs> Backtracking      5 steps, current active atoms=   127
 intlbfgs> Backtracking      6 steps, current active atoms=   140
 intlbfgs> Backtracking      7 steps, current active atoms=   138
 intlbfgs> Backtracking      8 steps, current active atoms=   140
 intlbfgs> Backtracking      9 steps, current active atoms=   139
 intlbfgs> Backtracking     10 steps, current active atoms=   136
 intlbfgs> Backtracking     10 steps, current active atoms=   127
 intlbfgs> Backtracking      1 steps, current active atoms=   129
 intlbfgs> Backtracking      2 steps, current active atoms=   129
 intlbfgs> Backtracking      3 steps, current active atoms=   128
 intlbfgs> Backtracking      4 steps, current active atoms=   138
 intlbfgs> Backtracking      5 steps, current active atoms=   135
 intlbfgs> Backtracking      6 steps, current active atoms=   142
 intlbfgs> Backtracking      7 steps, current active atoms=   137
 intlbfgs> Backtracking      8 steps, current active atoms=   137
 intlbfgs> Backtracking      9 steps, current active atoms=   145
 intlbfgs> Backtracking     10 steps, current active atoms=   145
 intlbfgs> Backtracking     11 steps, current active atoms=   136
 intlbfgs> Backtracking      9 steps, current active atoms=   137
 intlbfgs> Backtracking     10 steps, current active atoms=   138
 intlbfgs> Backtracking     11 steps, current active atoms=   137
 intlbfgs> Backtracking     10 steps, current active atoms=   141
 intlbfgs> Backtracking     11 steps, current active atoms=   138
 intlbfgs> Backtracking     11 steps, current active atoms=   135
 intlbfgs> Backtracking      8 steps, current active atoms=   134
 intlbfgs> Backtracking      9 steps, current active atoms=   128
 intlbfgs> Backtracking      3 steps, current active atoms=   121
 intlbfgs> Backtracking      2 steps, current active atoms=   124
 intlbfgs> Backtracking      3 steps, current active atoms=   126
 intlbfgs> Backtracking      4 steps, current active atoms=   125
 intlbfgs> Backtracking      5 steps, current active atoms=   124
 intlbfgs> Backtracking      3 steps, current active atoms=   124
 intlbfgs> Backtracking      4 steps, current active atoms=   131
 intlbfgs> Backtracking      5 steps, current active atoms=   130
 intlbfgs> Backtracking      6 steps, current active atoms=   129
 intlbfgs> Backtracking      7 steps, current active atoms=   126
 intlbfgs> Backtracking      3 steps, current active atoms=   128
 intlbfgs> Backtracking      4 steps, current active atoms=   132
 intlbfgs> Backtracking      5 steps, current active atoms=   135
 intlbfgs> Backtracking      6 steps, current active atoms=   145
 intlbfgs> switch on true potential at step  33003 fraction=    0.990000 images=     3 time=      10.9
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After  33028 steps, energy/image=    -342.3501284     RMS=1.979839433     images=   3
 intlbfgs> First  minimum number      1
 intlbfgs> Second minimum number      2
 intlbfgs> DNEB for minima      1     2 dist=   26.07     Attempts, images and iterations=     0     7   245
 lbfgs> Final DNEB force constant     0.9156391332    
 Double-ended search iterations= 245 RMS= 0.2313 Dev= 1.22% S= 28.86 time= 1.99
 Following    2 images are candidates for TS:    2    6  
 Converged to TS (number of iterations):         50
 Converged to TS (number of iterations):         48
 DNEB run yielded 2 true transition state(s) time=  10.16

 >>>>>  Path run for ts 1 ...
 Plus  side of path:                    1122 steps. Energy=    -380.6973297       time=       3.49
 Minus side of path:                    1024 steps. Energy=    -379.9078830       time=       3.24

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -380.6973297  7.9653         -372.7320018  7.1759         -379.9078830  25.665  12.726   9.441  15.359
        *NEW* (Placed in 3)                                     Known (#1)
 Unconnected minimum 3 found its way to S set.

 >>>>>  Path run for ts 2 ...
 Plus  side of path:                    1020 steps. Energy=    -380.1934631       time=       3.59
 Minus side of path:                    1040 steps. Energy=    -380.9263577       time=       3.28

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -380.1934631  4.5270         -375.6664321  5.2599         -380.9263577  17.287  11.567  20.063   7.227
        *NEW* (Placed in 4)                                     *NEW* (Placed in 5)
 Connection established between members of the U set.
 >>>>>>>>>>>>>>>>>>>>> CONNECT CYCLE 2 >>>>>>>>>>>>>>>>>>>>> 5 minima and 2 ts are known >>>>>>>>>>>>>>>>>>>>
 decide> Shortest path in Dijkstra has      4 steps with      2 missing connections, weight=     1082.4    
 decide> The unconnected minima in the chain and their distances are:
     2       10.00     4     5        4.29     3 
 

 tryconnect> Interpolation for minima 2_F and 4_U using 3 initial images  (interp attempt #1)  ...
 intlbfgs> Maximum number of steps for constraint potential phase is 300001
 intlbfgs> Total number of atoms moving less than threshold=   124
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> switch on true potential at step     48 fraction=    0.990000 images=     3 time=       0.0
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After     73 steps, energy/image=    -375.3525886     RMS=.6363429213     images=   3
 intlbfgs> First  minimum number      2
 intlbfgs> Second minimum number      4
 intlbfgs> DNEB for minima      2     4 dist=   12.10     Attempts, images and iterations=     0     3   105
 lbfgs> Final DNEB force constant      6.446089162    
 Double-ended search iterations= 105 RMS= 0.2335 Dev= 1.42% S= 10.26 time= 0.35
 Following    1 images are candidates for TS:    2  
 Converged to TS (number of iterations):         22
 DNEB run yielded 1 true transition state(s) time=   3.36

 >>>>>  Path run for ts 3 ...
 Plus  side of path:                    1003 steps. Energy=    -379.7128734       time=       2.26
 Minus side of path:                    1031 steps. Energy=    -380.1934631       time=       2.35

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -379.7128734  2.0834         -377.6294833  2.5640         -380.1934631  12.004  10.014   5.784  25.069
        Known (#2)                                              Known (#4)
 Unconnected minimum 4 found its way to F set.

 tryconnect> Interpolation for minima 3_S and 5_F using 3 initial images  (interp attempt #1)  ...
 intlbfgs> Maximum number of steps for constraint potential phase is 300001
 intlbfgs> Total number of atoms moving less than threshold=   143
 intlbfgs> Freezing    130 atoms
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> switch on true potential at step     19 fraction=    0.990000 images=     3 time=       0.0
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After     44 steps, energy/image=    -368.8450009     RMS=6.754302932     images=   3
 intlbfgs> First  minimum number      3
 intlbfgs> Second minimum number      5
 intlbfgs> DNEB for minima      3     5 dist=   12.05     Attempts, images and iterations=     0     3   105
 lbfgs> Final DNEB force constant      7.106813301    
 Double-ended search iterations= 105 RMS= 0.0433 Dev= 0.81% S= 4.32 time= 0.34
 Following    1 images are candidates for TS:    2  
 Converged to TS (number of iterations):         13
 DNEB run yielded 1 true transition state(s) time=   2.90

 >>>>>  Path run for ts 4 ...
 Plus  side of path:                    1024 steps. Energy=    -380.9263577       time=       2.39
 Minus side of path:                     985 steps. Energy=    -380.6973297       time=       2.22

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -380.9263577 0.42612         -380.5002342 0.19710         -380.6973297   5.081   4.286   3.587  40.422
        Known (#5)                                              Known (#3)
 Connected path found
  ts        E+         Ets - E+          Ets       Ets - E-          E-          S       D      gamma   ~N
   1     -379.9078830  7.1759        -372.7320018  7.9653        -380.6973297  25.665  12.726   9.441  15.359
   4     -380.6973297 0.19710        -380.5002342 0.42612        -380.9263577   5.081   4.286   3.587  40.422
   2     -380.9263577  5.2599        -375.6664321  4.5270        -380.1934631  17.287  11.567  20.063   7.227
   3     -380.1934631  2.5640        -377.6294833  2.0834        -379.7128734  12.004  10.014   5.784  25.069

 Number of TS in the path       =      4
 Number of cycles               =      2

 Elapsed time=                                53.30
 OPTIM> # of energy calls=                          6 time=           0.01 %=  0.0
 OPTIM> # of energy+gradient calls=             14949 time=          15.98 %= 30.0
 OPTIM> # of energy+gradient+Hessian calls=       133 time=           0.54 %=  1.0
