Options specific to tools that work with water/internal-water. More...
|void||addGeneric (po::options_description &opts)|
|Appends generic options (those that the user can see) |
|bool||postConditions (po::variables_map &map)|
|Post-processing of options returning true if there were no problems, otherwise false. More...|
|std::string||print () const|
|Returns a string listing the encapsulated options, suitable for logging. |
|Public Member Functions inherited from loos::OptionsFramework::OptionsPackage|
|virtual void||addHidden (po::options_description &opts)|
|Appends hidden options (these generally match positional) |
|virtual void||addPositional (po::positional_options_description &opts)|
|Appends positional options. |
|virtual bool||check (po::variables_map &map)|
|Validates passed options, returning true if there is a problem or false if not. More...|
|virtual std::string||help () const|
|Returns a slice of the example command-line in the help output. More...|
|Parameters sent to various decorators. |
|Extra padding for water. |
|Optional parameter used in by the WaterFilter. |
|User-specified strings. |
|User-specified strings (used internally by the WaterFilter decorators) |
|Filter for determining internal waters. |
|DensityTools::DensityGrid< int >||the_grid|
|Grid mask for internal waters. |
Options specific to tools that work with water/internal-water.
Allows definition of water, protein, padding, among others. Also includes a "factory" for setting how internal waters are defined (selected).
Mode can be: axis (distance from principal axis), box (a bounding box), and grid (grid-mask).
Decorations include Z-range (clamping to a set-zrange), and "bulked", which adds back in the entire system above and below a z-plane.
Post-processing of options returning true if there were no problems, otherwise false.
postConditions() is called after options parsing and validation is complete. This is a mechanism for a subclass to do additional processing with the options it has been provided. For example, a model option subclass might read in the specified model and copy coordinates from an optionally specified file.
Reimplemented from loos::OptionsFramework::OptionsPackage.