
 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)@comp34.ch.
                 Created on  5/28/12 at 10:34: 4 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=    -385.5882506     RMS force=    0.8992855792E-06
 OPTIM> Final energy  =    -386.2566717     RMS force=    0.8722734070E-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      9.536167307    
 >>>>>>>>>>>>>>>>>>>>> CONNECT CYCLE 1 >>>>>>>>>>>>>>>>>>>>> 2 minima and 0 ts are known >>>>>>>>>>>>>>>>>>>>
 decide> Shortest path in Dijkstra has      1 steps with      1 missing connections, weight=     864.18    
 decide> The unconnected minima in the chain and their distances are:
     2        9.52     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=   130
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> switch on true potential at step     34 fraction=    0.990000 images=     3 time=       0.0
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After     59 steps, energy/image=    -378.6973258     RMS=.8280933598     images=   3
 intlbfgs> First  minimum number      1
 intlbfgs> Second minimum number      2
 intlbfgs> DNEB for minima      1     2 dist=   12.01     Attempts, images and iterations=     0     3   105
 lbfgs> Final DNEB force constant      5.846792891    
 Double-ended search iterations= 105 RMS= 0.4368 Dev= 0.42% S= 9.93 time= 0.42
 Following    1 images are candidates for TS:    1  
 Converged to TS (number of iterations):         37
 DNEB run yielded 1 true transition state(s) time=   4.52

 >>>>>  Path run for ts 1 ...
 Plus  side of path:                     972 steps. Energy=    -386.2382846       time=       3.38
 Minus side of path:                     922 steps. Energy=    -385.5882506       time=       2.85

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -386.2382846  2.5096         -383.7286934  1.8596         -385.5882506  10.206   8.594   5.749  25.223
        *NEW* (Placed in 3)                                     Known (#1)
 checkperc> Increasing con cutoff atoms    13   25 from     0.47244E-02 to     0.50564E-02 ref=     1.5257    
 checkperc> Increasing con cutoff atoms   109  116 from     0.48667E-01 to     0.49191E-01 ref=     2.4446    
 checkperc> Increasing con cutoff atoms   109  117 from     0.10453     to     0.10595     ref=     2.5332    
 checkperc> Increasing con cutoff atoms   115  116 from     0.25947E-01 to     0.26437E-01 ref=     2.2537    
 Unconnected minimum 3 found its way to S set.
 >>>>>>>>>>>>>>>>>>>>> CONNECT CYCLE 2 >>>>>>>>>>>>>>>>>>>>> 3 minima and 1 ts are known >>>>>>>>>>>>>>>>>>>>
 decide> Shortest path in Dijkstra has      2 steps with      1 missing connections, weight=     92.888    
 decide> The unconnected minima in the chain and their distances are:
     2        4.52     3 
 

 tryconnect> Interpolation for minima 2_F and 3_S 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=   141
 intlbfgs> Freezing    130 atoms
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> switch on true potential at step     37 fraction=    0.990000 images=     3 time=       0.0
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After     62 steps, energy/image=    -380.4632872     RMS=1.625708904     images=   3
 intlbfgs> First  minimum number      2
 intlbfgs> Second minimum number      3
 intlbfgs> DNEB for minima      2     3 dist=   7.735     Attempts, images and iterations=     0     2    70
 lbfgs> Final DNEB force constant      11.02500000    
 Double-ended search iterations= 70 RMS= 0.5285 Dev= 1.37% S= 6.02 time= 0.18
 Following    1 images are candidates for TS:    1  
 Converged to TS (number of iterations):         65
 DNEB run yielded 1 true transition state(s) time=   7.14

 >>>>>  Path run for ts 2 ...
 Plus  side of path:                     960 steps. Energy=    -386.2566717       time=       3.46
 Minus side of path:                     913 steps. Energy=    -386.5478379       time=       2.60

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -386.2566717  3.1321         -383.1246086  3.4232         -386.5478379  15.443  12.006   6.987  20.751
        Known (#2)                                              *NEW* (Placed in 4)
 checkperc> Increasing con cutoff atoms    29   34 from     0.40421E-02 to     0.60762E-02 ref=     1.5271    
 checkperc> Increasing con cutoff atoms    29   36 from     0.35130E-01 to     0.51366E-01 ref=     2.4528    
 checkperc> Increasing con cutoff atoms    29   37 from     0.64293E-01 to     0.99032E-01 ref=     2.5588    
 checkperc> Increasing con cutoff atoms    29   38 from     0.26753E-01 to     0.45727E-01 ref=     3.8232    
 checkperc> Increasing con cutoff atoms    29   39 from     0.13913     to     0.15791     ref=     4.7759    
 checkperc> Increasing con cutoff atoms    30   34 from     0.27459E-01 to     0.32595E-01 ref=     2.5472    
 checkperc> Increasing con cutoff atoms    34   36 from     0.34042E-02 to     0.45421E-02 ref=     1.3373    
 checkperc> Increasing con cutoff atoms    34   37 from     0.12443E-01 to     0.15930E-01 ref=     1.9980    
 checkperc> Increasing con cutoff atoms    35   36 from     0.22446E-01 to     0.22931E-01 ref=     2.2496    
 checkperc> Increasing con cutoff atoms    35   38 from     0.65567E-01 to     0.65647E-01 ref=     2.8021    
 checkperc> Increasing con cutoff atoms    36   37 from     0.34318E-02 to     0.37662E-02 ref=    0.98112    
 checkperc> Increasing con cutoff atoms    37   38 from     0.12590E-01 to     0.13762E-01 ref=     2.1170    
 checkperc> Increasing con cutoff atoms    55   60 from     0.38823E-01 to     0.40193E-01 ref=     2.5168    
 checkperc> Increasing con cutoff atoms    75   76 from     0.57391E-02 to     0.60182E-02 ref=     1.5230    
 Unconnected minimum 4 found its way to F set.
 >>>>>>>>>>>>>>>>>>>>> CONNECT CYCLE 3 >>>>>>>>>>>>>>>>>>>>> 4 minima and 2 ts are known >>>>>>>>>>>>>>>>>>>>
 decide> Shortest path in Dijkstra has      2 steps with      1 missing connections, weight=     185.78    
 decide> The unconnected minima in the chain and their distances are:
     2        4.52     3 
 

 tryconnect> Interpolation for minima 2_F and 3_S using 15 initial images  (interp attempt #2)  ...
 intlbfgs> Maximum number of steps for constraint potential phase is 300001
 intlbfgs> Total number of atoms moving less than threshold=   141
 intlbfgs> Freezing    130 atoms
 intlbfgs> constrained potential finished, time=       0.0
 intlbfgs> switch on true potential at step     40 fraction=    0.990000 images=    15 time=       0.0
 intlbfgs> Allowing     25 further optimization steps
 intlbfgs> After     65 steps, energy/image=    -381.6542598     RMS=3.363665586     images=  15
 intlbfgs> First  minimum number      2
 intlbfgs> Second minimum number      3
 intlbfgs> DNEB for minima      2     3 dist=   8.354     Attempts, images and iterations=     1    19   665
 lbfgs> Final DNEB force constant      18.85649142    
 Double-ended search iterations= 665 RMS= 0.1872 Dev= 2.67% S= 7.50 time= 16.59
 Following    1 images are candidates for TS:   11  
 Converged to TS (number of iterations):         26
 DNEB run yielded 1 true transition state(s) time=   4.13

 >>>>>  Path run for ts 3 ...
 Plus  side of path:                     946 steps. Energy=    -386.2382846       time=       2.74
 Minus side of path:                     981 steps. Energy=    -386.2566717       time=       3.01

         E+        Ets - E+           Ets       Ets - E-           E-          S       D      gamma   ~N
     -386.2382846  5.7032         -380.5350669  5.7216         -386.2566717  15.565   4.530  21.424   6.768
        Known (#3)                                              Known (#2)
 Connected path found
  ts        E+         Ets - E+          Ets       Ets - E-          E-          S       D      gamma   ~N
   1     -385.5882506  1.8596        -383.7286934  2.5096        -386.2382846  10.206   8.594   5.749  25.223
   3     -386.2382846  5.7032        -380.5350669  5.7216        -386.2566717  15.565   4.530  21.424   6.768

 Number of TS in the path       =      2
 Number of cycles               =      3

 Elapsed time=                                51.99
 OPTIM> # of energy calls=                          6 time=           0.01 %=  0.0
 OPTIM> # of energy+gradient calls=             22346 time=          28.36 %= 54.5
 OPTIM> # of energy+gradient+Hessian calls=       128 time=           0.60 %=  1.2
