OpenSim
OpenSim 3.1
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An abstract class for specifying the interface for an investigation. More...
#include <AbstractTool.h>
Public Member Functions | |
virtual | ~AbstractTool () |
Destructor. | |
AbstractTool () | |
Default constructor. | |
AbstractTool (const std::string &aFileName, bool aUpdateFromXMLNode=true) | |
Construct from file, and an optional GuiModel. | |
AbstractTool (const AbstractTool &aObject) | |
Copy constructor. | |
AbstractTool & | operator= (const AbstractTool &aTool) |
Assignment operator. | |
virtual void | setModel (Model &aModel) SWIG_DECLARE_EXCEPTION |
Set the model to be investigated. | |
virtual Model & | getModel () const |
Get the model to be investigated. | |
bool | getReplaceForceSet () const |
void | setReplaceForceSet (bool aReplace) |
std::string | getNextAvailableForceName (const std::string prefix="Force") const |
const ExternalLoads & | getExternalLoads () const |
ExternalLoads & | updExternalLoads () |
void | setExternalLoads (ExternalLoads &el) |
const std::string & | getExternalLoadsFileName () const |
void | setExternalLoadsFileName (const std::string &aFileName) |
Array< std::string > & | getForceSetFiles () |
void | setForceSetFiles (const Array< std::string > &aForceSetFiles) |
int | getOutputPrecision () const |
void | setOutputPrecision (int aPrecision) |
AnalysisSet & | getAnalysisSet () const |
const std::string & | getResultsDir () const |
Get Results Directory. | |
void | setResultsDir (const std::string &aString) |
double | getInitialTime () const |
double | getFinalTime () const |
void | setInitialTime (const double aInitialTime) |
void | setFinalTime (const double aFinalTime) |
double | getStartTime () const |
void | setStartTime (const double aStartTime) |
int | getMaximumNumberOfSteps () const |
void | setMaximumNumberOfSteps (int aMaxSteps) |
double | getMaxDT () const |
void | setMaxDT (double aMaxDT) |
double | getMinDT () const |
void | setMinDT (double aMinDT) |
double | getErrorTolerance () const |
void | setErrorTolerance (double aErrorTolerance) |
const std::string & | getModelFilename () const |
void | setModelFilename (const std::string &aModelFile) |
bool | getSolveForEquilibrium () const |
void | setSolveForEquilibrium (bool aSolve) |
void | loadModel (const std::string &aToolSetupFileName, ForceSet *rOriginalForceSet=0) |
Load and construct a model based on the property settings of this investigation. | |
void | updateModelForces (Model &model, const std::string &aToolSetupFileName, ForceSet *rOriginalForceSet=0) SWIG_DECLARE_EXCEPTION |
Update the forces applied to a model. | |
void | addAnalysisSetToModel () |
Adds Analysis objects from analysis set to model. | |
void | addControllerSetToModel () |
void | removeControllerSetFromModel () |
Remove Analysis objects that were added earlier from analysis set to model. | |
void | removeAnalysisSetFromModel () |
void | setToolOwnsModel (const bool trueFalse) |
const bool | getToolOwnsModel () const |
std::string | getControlsFileName () const |
void | setControlsFileName (const std::string &controlsFilename) |
virtual bool | run () SWIG_DECLARE_EXCEPTION=0 |
virtual void | printResults (const std::string &aBaseName, const std::string &aDir="", double aDT=-1.0, const std::string &aExtension=".sto") |
Print the results of the analysis. | |
bool | createExternalLoads (const std::string &aExternalLoadsFileName, Model &aModel, const Storage *loadKinematics=NULL) |
virtual void | updateFromXMLNode (SimTK::Xml::Element &aNode, int versionNumber) |
Use this method to deserialize an object from a SimTK::Xml::Element. | |
virtual void | loadQStorage (const std::string &statesFileName, Storage &rQStore) const |
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virtual | ~Object () |
Virtual destructor for cleanup. | |
virtual Object * | clone () const =0 |
Create a new heap-allocated copy of the concrete object to which this Object refers. | |
virtual const std::string & | getConcreteClassName () const =0 |
Returns the class name of the concrete Object-derived class of the actual object referenced by this Object, as a string. | |
virtual const VisibleObject * | getDisplayer () const |
Methods to support making the object displayable in the GUI or Visualizer Implemented only in few objects. | |
virtual VisibleObject * | updDisplayer () |
get Non const pointer to VisibleObject | |
bool | isEqualTo (const Object &aObject) const |
Equality operator wrapper for use from languages not supporting operator overloading. | |
Object & | operator= (const Object &aObject) |
Copy assignment copies he base class fields, including the properties. | |
virtual bool | operator== (const Object &aObject) const |
Determine if two objects are equal. | |
virtual bool | operator< (const Object &aObject) const |
Provide an ordering for objects so they can be put in sorted containers. | |
void | setName (const std::string &name) |
Set the name of the Object. | |
const std::string & | getName () const |
Get the name of this Object. | |
void | setDescription (const std::string &description) |
Set description, a one-liner summary. | |
const std::string & | getDescription () const |
Get description, a one-liner summary. | |
const std::string & | getAuthors () const |
Get Authors of this Object. | |
void | setAuthors (const std::string &authors) |
Set Authors of this object, call this method in your constructor if needed. | |
const std::string & | getReferences () const |
Get references or publications to cite if using this object. | |
void | setReferences (const std::string &references) |
Set references or publications to cite if using this object. | |
int | getNumProperties () const |
Determine how many properties are stored with this Object. | |
const AbstractProperty & | getPropertyByIndex (int propertyIndex) const |
Get a const reference to a property by its index number, returned as an AbstractProperty. | |
AbstractProperty & | updPropertyByIndex (int propertyIndex) |
Get a writable reference to a property by its index number, returned as an AbstractProperty. | |
bool | hasProperty (const std::string &name) const |
Return true if this Object has a property of any type with the given name, which must not be empty. | |
const AbstractProperty & | getPropertyByName (const std::string &name) const |
Get a const reference to a property by its name, returned as an AbstractProperty. | |
AbstractProperty & | updPropertyByName (const std::string &name) |
Get a writable reference to a property by its name, returned as an AbstractProperty. | |
template<class T > | |
bool | hasProperty () const |
Return true if this Object contains an unnamed, one-object property that contains objects of the given template type T. | |
template<class T > | |
const Property< T > & | getProperty (const PropertyIndex &index) const |
Get property of known type Property<T> as a const reference; the property must be present and have the right type. | |
template<class T > | |
Property< T > & | updProperty (const PropertyIndex &index) |
Get property of known type Property<T> as a writable reference; the property must be present and have the right type. | |
void | setObjectIsUpToDateWithProperties () |
When an object is initialized using the current values of its properties, it can set a flag indicating that it is up to date. | |
bool | isObjectUpToDateWithProperties () const |
Returns true if no property's value has changed since the last time setObjectIsUpToDateWithProperties() was called. | |
void | readObjectFromXMLNodeOrFile (SimTK::Xml::Element &objectElement, int versionNumber) |
We're given an XML element from which we are to populate this Object. | |
virtual void | updateXMLNode (SimTK::Xml::Element &parent) |
Serialize this object into the XML node that represents it. | |
bool | getInlined () const |
Inlined means an in-memory Object that is not associated with an XMLDocument. | |
void | setInlined (bool aInlined, const std::string &aFileName="") |
Mark this as inlined or not and optionally provide a file name to associate with the new XMLDocument for the non-inline case. | |
std::string | getDocumentFileName () const |
If there is a document associated with this object then return the file name maintained by the document. | |
void | setAllPropertiesUseDefault (bool aUseDefault) |
bool | print (const std::string &fileName) |
Write this Object into an XML file of the given name; conventionally the suffix to use is ".osim". | |
std::string | dump (bool dumpName=false) |
dump the XML representation of this Object into an std::string and return it. | |
void | clearObjectIsUpToDateWithProperties () |
For testing or debugging purposes, manually clear the "object is up to
date with respect to properties" flag. | |
virtual bool | isA (const char *type) const |
The default implementation returns true only if the supplied string is "Object"; each Object-derived class overrides this to match its own class name. | |
const std::string & | toString () const |
Wrapper to be used on Java side to display objects in tree; this returns just the object's name. | |
PropertySet & | getPropertySet () |
OBSOLETE: Get a reference to the PropertySet maintained by the Object. | |
const PropertySet & | getPropertySet () const |
Protected Attributes | |
Model * | _model |
Pointer to the model being investigated. | |
PropertyStr | _modelFileProp |
Name of the xml file used to deserialize or construct a model. | |
std::string & | _modelFile |
PropertyBool | _replaceForceSetProp |
Whether the force set included in the model file is replaced (if true) or appended to (if false) with force sets read in from file. | |
bool & | _replaceForceSet |
PropertyStrArray | _forceSetFilesProp |
Names of the xml files used to construct an force set for the model. | |
Array< std::string > & | _forceSetFiles |
PropertyStr | _resultsDirProp |
Directory used for writing results. | |
std::string & | _resultsDir |
PropertyInt | _outputPrecisionProp |
Output precision. | |
int & | _outputPrecision |
PropertyDbl | _tiProp |
Initial time for the investigation. | |
double & | _ti |
PropertyDbl | _tfProp |
Final time for the investigation. | |
double & | _tf |
OpenSim::PropertyBool | _solveForEquilibriumForAuxiliaryStatesProp |
A flag used to specify whether or not equilibrium is solved for for the auxiliary states. | |
bool & | _solveForEquilibriumForAuxiliaryStates |
PropertyInt | _maxStepsProp |
Maximum number of steps for the integrator. | |
int & | _maxSteps |
PropertyDbl | _maxDTProp |
Maximum integration step size. | |
double & | _maxDT |
PropertyDbl | _minDTProp |
Minimum integration step size. | |
double & | _minDT |
PropertyDbl | _errorToleranceProp |
Integrator error tolerance. | |
double & | _errorTolerance |
PropertyObj | _analysisSetProp |
Set of analyses to be run during the study. | |
AnalysisSet & | _analysisSet |
PropertyObj | _controllerSetProp |
ControllerSet & | _controllerSet |
bool | _toolOwnsModel |
Whether the tool owns the model it operates on. | |
OpenSim::PropertyStr | _externalLoadsFileNameProp |
Name of the file containing the external loads applied to the model. | |
std::string & | _externalLoadsFileName |
ExternalLoads | _externalLoads |
Actual external forces being applied. | |
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PropertySet | _propertySet |
OBSOLETE: Property_Deprecated set for serializable member variables of this and derived classes. |
Additional Inherited Members | |
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static void | registerType (const Object &defaultObject) |
Register an instance of a class; if the class is already registered it will be replaced. | |
static void | renameType (const std::string &oldTypeName, const std::string &newTypeName) |
Support versioning by associating the current Object type with an old name. | |
static const Object * | getDefaultInstanceOfType (const std::string &concreteClassName) |
Return a pointer to the default instance of the registered (concrete) Object whose class name is given, or NULL if the type is not registered. | |
template<class T > | |
static bool | isObjectTypeDerivedFrom (const std::string &concreteClassName) |
Return true if the given concrete object type represents a subclass of the template object type T, and thus could be referenced with a T*. | |
static Object * | newInstanceOfType (const std::string &concreteClassName) |
Create a new instance of the concrete Object type whose class name is given as concreteClassName. | |
static void | getRegisteredTypenames (Array< std::string > &typeNames) |
Retrieve all the typenames registered so far. | |
template<class T > | |
static void | getRegisteredObjectsOfGivenType (ArrayPtrs< T > &rArray) |
Return an array of pointers to the default instances of all registered (concrete) Object types that derive from a given Object-derived type that does not have to be concrete. | |
static void | PrintPropertyInfo (std::ostream &os, const std::string &classNameDotPropertyName) |
Dump formatted property information to a given output stream, useful for creating a "help" facility for registered objects. | |
static void | PrintPropertyInfo (std::ostream &os, const std::string &className, const std::string &propertyName) |
Same as the other signature but the class name and property name are provided as two separate strings. | |
static Object * | makeObjectFromFile (const std::string &fileName) |
Create an OpenSim object whose type is based on the tag at the root node of the XML file passed in. | |
static const std::string & | getClassName () |
Return the name of this class as a string; i.e., "Object". | |
static void | setSerializeAllDefaults (bool shouldSerializeDefaults) |
Static function to control whether all registered objects and their properties are written to the defaults section of output files rather than only those values for which the default was explicitly overwritten when read in from an input file or set programmatically. | |
static bool | getSerializeAllDefaults () |
Report the value of the "serialize all defaults" flag. | |
static bool | isKindOf (const char *type) |
Returns true if the passed-in string is "Object"; each Object-derived class defines a method of this name for its own class name. | |
static void | setDebugLevel (int newLevel) |
Set the debug level to get verbose output. | |
static int | getDebugLevel () |
Get current setting of debug level. | |
static Object * | SafeCopy (const Object *aObject) |
Use the clone() method to duplicate the given object unless the pointer is null in which case null is returned. | |
static void | RegisterType (const Object &defaultObject) |
OBSOLETE alternate name for registerType(). | |
static void | RenameType (const std::string &oldName, const std::string &newName) |
OBSOLETE alternate name for renameType(). | |
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static const std::string | DEFAULT_NAME |
Name used for default objects when they are serialized. | |
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Object () | |
The default constructor is only for use by constructors of derived types. | |
Object (const std::string &fileName, bool aUpdateFromXMLNode=true) SWIG_DECLARE_EXCEPTION | |
Constructor from a file, to be called from other constructors that take a file as input. | |
Object (const Object &source) | |
Copy constructor is invoked automatically by derived classes with default copy constructors; otherwise it must be invoked explicitly. | |
Object (SimTK::Xml::Element &aElement) | |
Construct the base class portion of an Object from a given Xml element that describes this Object. | |
template<class T > | |
PropertyIndex | addProperty (const std::string &name, const std::string &comment, const T &value) |
Define a new single-value property of known type T, with the given name, associated comment, and initial value. | |
template<class T > | |
PropertyIndex | addOptionalProperty (const std::string &name, const std::string &comment) |
Add an optional property, meaning it can contain either no value or a single value. | |
template<class T > | |
PropertyIndex | addOptionalProperty (const std::string &name, const std::string &comment, const T &value) |
Add an optional property, meaning it can contain either no value or a single value. | |
template<class T > | |
PropertyIndex | addListProperty (const std::string &name, const std::string &comment, int minSize, int maxSize) |
Define a new list-valued property of known type T, with the given name, associated comment, minimum (==0) and maximum (>0) allowable list lengths, and a zero-length initial value. | |
template<class T , template< class > class Container> | |
PropertyIndex | addListProperty (const std::string &name, const std::string &comment, int minSize, int maxSize, const Container< T > &valueList) |
Define a new list-valued property as above, but assigning an initial value via some templatized container class that supports size() and indexing. | |
PropertyIndex | getPropertyIndex (const std::string &name) const |
Look up a property by name and return its PropertyIndex if it is found. | |
template<class T > | |
PropertyIndex | getPropertyIndex () const |
Look up an unnamed property by the type of object it contains, and return its PropertyIndex if it is found. | |
void | updateFromXMLDocument () |
Use this method only if you're deserializing from a file and the object is at the top level; that is, primarily in constructors that take a file name as input. | |
void | setDocument (XMLDocument *doc) |
Unconditionally set the XMLDocument associated with this object. | |
const XMLDocument * | getDocument () const |
Get a const pointer to the document (if any) associated with this object. | |
XMLDocument * | updDocument () |
Get a writable pointer to the document (if any) associated with this object. | |
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#define | OpenSim_DECLARE_CONCRETE_OBJECT(ConcreteClass, SuperClass) |
Macro to be included as the first line of the class declaration for any non-templatized, concrete class that derives from OpenSim::Object. | |
#define | OpenSim_DECLARE_ABSTRACT_OBJECT(ConcreteClass, SuperClass) |
Macro to be included as the first line of the class declaration for any still-abstract class that derives from OpenSim::Object. | |
#define | OpenSim_DECLARE_CONCRETE_OBJECT_T(ConcreteClass, TArg, SuperClass) |
Macro to be included as the first line of the class declaration for any templatized, concrete class that derives from OpenSim::Object, like Set<T>. | |
#define | OpenSim_DECLARE_ABSTRACT_OBJECT_T(ConcreteClass, TArg, SuperClass) |
Macro to be included as the first line of the class declaration for any templatized, still-abstract class that derives from OpenSim::Object. |
An abstract class for specifying the interface for an investigation.
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Destructor.
OpenSim::AbstractTool::AbstractTool | ( | ) |
Default constructor.
OpenSim::AbstractTool::AbstractTool | ( | const std::string & | aFileName, |
bool | aUpdateFromXMLNode = true |
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Construct from file, and an optional GuiModel.
The object is constructed from the root element of the XML document. The type of object is the tag name of the XML root element.
aFileName | File name of the document. |
aUpdateFromXMLNode |
OpenSim::AbstractTool::AbstractTool | ( | const AbstractTool & | aObject | ) |
Copy constructor.
Copy constructors for all SimulationTools only copy the non-XML variable members of the object; that is, the object's DOMnode and XMLDocument are not copied but set to NULL. This is because the object and all its derived classes need to establish the correct connection to the XML document nodes. Thus the object needs to reconstruct based on the XML document, not the values of the object's member variables.
There are three proper ways to generate an XML document for a AbstractTool:
1) Construction based on XML file (
2) Construction by AbstractTool(const XMLDocument *aDocument). This constructor explictly requests construction based on an XML document. In this way the proper connection between an object's node and the corresponding node within the XML document is established. This constructor is a copy constructor of sorts because all essential AbstractTool member variables should be held within the XML document. The advantage of this style of construction is that nodes within the XML document, such as comments that may not have any associated AbstractTool member variable, are preserved.
3) A call to generateXMLDocument(). This method generates an XML document for the AbstractTool from scratch. Only the essential document nodes are created (that is, nodes that correspond directly to member variables.).
aObject | Object to be copied. |
void OpenSim::AbstractTool::addAnalysisSetToModel | ( | ) |
Adds Analysis objects from analysis set to model.
NOTE: Makes copies of analyses. Also, both this tool and the model have ownership of their analysis objects, thereofre making a copy is necessary so a single analysis won't be deleted twice.
To avoid leaking when the tool is run from the GUI, pointers to the model's copy of the analyses are kept around so that they can be removed at the end of tool execution. _analysisCopies is used to do this book keeping.
void OpenSim::AbstractTool::addControllerSetToModel | ( | ) |
bool OpenSim::AbstractTool::createExternalLoads | ( | const std::string & | aExternalLoadsFileName, |
Model & | aModel, | ||
const Storage * | loadKinematics = NULL |
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AnalysisSet& OpenSim::AbstractTool::getAnalysisSet | ( | ) | const |
std::string OpenSim::AbstractTool::getControlsFileName | ( | ) | const |
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Reimplemented in OpenSim::CMCTool, and OpenSim::RRATool.
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Get the model to be investigated.
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std::string OpenSim::AbstractTool::getNextAvailableForceName | ( | const std::string | prefix = "Force" | ) | const |
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Get Results Directory.
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void OpenSim::AbstractTool::loadModel | ( | const std::string & | aToolSetupFileName, |
ForceSet * | rOriginalForceSet = 0 |
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Load and construct a model based on the property settings of this investigation.
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AbstractTool& OpenSim::AbstractTool::operator= | ( | const AbstractTool & | aTool | ) |
Assignment operator.
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Print the results of the analysis.
aBaseName | Basename file to which to print the data. |
aDir | Directory to which to print the data into. |
aDT | Time interval between results (linear interpolation is used). If not included as an argument or negative, all time steps are printed without interpolation. |
aExtension | Extension for written files. |
void OpenSim::AbstractTool::removeAnalysisSetFromModel | ( | ) |
void OpenSim::AbstractTool::removeControllerSetFromModel | ( | ) |
Remove Analysis objects that were added earlier from analysis set to model.
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Implemented in OpenSim::CMCTool, OpenSim::RRATool, OpenSim::AnalyzeTool, and OpenSim::ForwardTool.
void OpenSim::AbstractTool::setControlsFileName | ( | const std::string & | controlsFilename | ) |
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Reimplemented in OpenSim::CMCTool, and OpenSim::RRATool.
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Set the model to be investigated.
NOTE: setup() should have been called on the model prior to calling this method
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Use this method to deserialize an object from a SimTK::Xml::Element.
The element is assumed to be in the format consistent with the passed-in versionNumber. If there is a file attribute in objectElement it will be ignored; if you want it processed you should call readObjectFromXMLNodeOrFile() instead.
Reimplemented from OpenSim::Object.
Reimplemented in OpenSim::RRATool, and OpenSim::ForwardTool.
void OpenSim::AbstractTool::updateModelForces | ( | Model & | model, |
const std::string & | aToolSetupFileName, | ||
ForceSet * | rOriginalForceSet = 0 |
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Update the forces applied to a model.
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Set of analyses to be run during the study.
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Integrator error tolerance.
When the error is greater, the integrator step size is decreased.
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Actual external forces being applied.
e.g. GRF
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Name of the file containing the external loads applied to the model.
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Names of the xml files used to construct an force set for the model.
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Maximum integration step size.
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Maximum number of steps for the integrator.
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Minimum integration step size.
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Pointer to the model being investigated.
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Name of the xml file used to deserialize or construct a model.
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Output precision.
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Whether the force set included in the model file is replaced (if true) or appended to (if false) with force sets read in from file.
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Directory used for writing results.
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A flag used to specify whether or not equilibrium is solved for for the auxiliary states.
This often needs to be done auxiliary sates whose starting values are unknown (e.g., muscle fiber lengths).
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Final time for the investigation.
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Initial time for the investigation.
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Whether the tool owns the model it operates on.
Important for cleanup when done