OPT_DUMMY
This is part of the ves module
It is only available if you configure PLUMED with ./configure –enable-modules=ves . Furthermore, this feature is still being developed so take care when using it and report any problems on the mailing list.

Dummy optimizer for debugging.

This is dummy optimizer that can be used for debugging. It will not update the coefficients but can be used to monitor the gradient and Hessian for a given VES bias.

Examples

In the following input we use the OPT_DUMMY to monitor the gradient and Hessian for a given VES bias every 1 iteration.

Click on the labels of the actions for more information on what each action computes
tested on master
phi: TORSION 
ATOMS
the four atoms involved in the torsional angle
=5,7,9,15 bf1: BF_FOURIER
ORDER
compulsory keyword The order of the basis function expansion.
=5
MINIMUM
compulsory keyword The minimum of the interval on which the basis functions are defined.
=-pi
MAXIMUM
compulsory keyword The maximum of the interval on which the basis functions are defined.
=pi ves1: VES_LINEAR_EXPANSION ...
ARG
compulsory keyword the labels of the scalars on which the bias will act
=phi
BASIS_FUNCTIONS
compulsory keyword the label of the one dimensional basis functions that should be used.
=bf1
TEMP
the system temperature - this is needed if the MD code does not pass the temperature to PLUMED.
=300.0
GRID_BINS
the number of bins used for the grid.
=100 ... o1: OPT_DUMMY ...
BIAS
compulsory keyword the label of the VES bias to be optimized
=ves1
STRIDE
compulsory keyword the frequency of updating the coefficients given in the number of MD steps.
=1000
MONITOR_HESSIAN
( default=off ) also monitor the Hessian
GRADIENT_FILE
the name of output file for the gradient
=gradient.data
GRADIENT_OUTPUT
how often the gradient should be written to file.
=1
GRADIENT_FMT
specify format for gradient file(s) (useful for decrease the number of digits in regtests)
=%12.6f
HESSIAN_FILE
the name of output file for the Hessian
=hessian.data
HESSIAN_OUTPUT
how often the Hessian should be written to file.
=1
HESSIAN_FMT
specify format for hessian file(s) (useful for decrease the number of digits in regtests)
=%12.6f ...
Glossary of keywords and components
Description of components

By default the value of the calculated quantity can be referenced elsewhere in the input file by using the label of the action. Alternatively this Action can be used to calculate the following quantities by employing the keywords listed below. These quantities can be referenced elsewhere in the input by using this Action's label followed by a dot and the name of the quantity required from the list below.

Quantity Description
.#!value a scalar

In addition the following quantities can be calculated by employing the keywords listed below

Quantity Keyword Description
gradrms MONITOR_INSTANTANEOUS_GRADIENT the root mean square value of the coefficient gradient. For multiple biases this component is labeled using the number of the bias as gradrms-#.
gradmax MONITOR_INSTANTANEOUS_GRADIENT the largest absolute value of the coefficient gradient. For multiple biases this component is labeled using the number of the bias as gradmax-#.
avergradrms MONITOR_AVERAGE_GRADIENT the root mean square value of the averaged coefficient gradient. For multiple biases this component is labeled using the number of the bias as gradrms-#.
avergradmax MONITOR_AVERAGE_GRADIENT the largest absolute value of the averaged coefficient gradient. For multiple biases this component is labeled using the number of the bias as gradmax-#.
Compulsory keywords
BIAS the label of the VES bias to be optimized
STRIDE the frequency of updating the coefficients given in the number of MD steps.
COEFFS_FILE ( default=coeffs.data ) the name of output file for the coefficients
COEFFS_OUTPUT ( default=100 ) how often the coefficients should be written to file. This parameter is given as the number of iterations.
Options
MONITOR_INSTANTANEOUS_GRADIENT ( default=off ) if quantities related to the instantaneous gradient should be outputted.
MULTIPLE_WALKERS ( default=off ) if optimization is to be performed using multiple walkers connected via MPI
MONITOR_AVERAGE_GRADIENT ( default=off ) if the averaged gradient should be monitored and quantities related to it should be outputted.
MONITOR_HESSIAN

( default=off ) also monitor the Hessian

COEFFS_FMT specify format for coefficient file(s) (useful for decrease the number of digits in regtests)
COEFFS_SET_ID_PREFIX suffix to add to the filename given in FILE to identify the bias, should only be given if a single filename is given in FILE when optimizing multiple biases.
INITIAL_COEFFS the name(s) of file(s) with the initial coefficients
TARGETDIST_AVERAGES_FILE the name of output file for the target distribution averages. By default it is targetdist-averages.data.
TARGETDIST_AVERAGES_OUTPUT how often the target distribution averages should be written out to file. Note that the value is given in terms of coefficient iterations. If no value is given are the averages only written at the beginning of the optimization
BIAS_OUTPUT how often the bias(es) should be written out to file. Note that the value is given in terms of coefficient iterations.
FES_OUTPUT how often the FES(s) should be written out to file. Note that the value is given in terms of coefficient iterations.
FES_PROJ_OUTPUT how often the projections of the FES(s) should be written out to file. Note that the value is given in terms of coefficient iterations.
RESTART allows per-action setting of restart (YES/NO/AUTO)
UPDATE_FROM Only update this action from this time
UPDATE_UNTIL Only update this action until this time
MONITOR_AVERAGES_GRADIENT_EXP_DECAY use an exponentially decaying averaging with a given time constant when monitoring the averaged gradient