CellMLToSharedLibraryConverter Class Reference

#include <CellMLToSharedLibraryConverter.hpp>

Collaboration diagram for CellMLToSharedLibraryConverter:

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List of all members.

Public Member Functions

 CellMLToSharedLibraryConverter (bool preserveGeneratedSources=false, std::string component="heart")
DynamicCellModelLoaderConvert (const FileFinder &rFilePath, bool isCollective=true)
void CreateOptionsFile (const OutputFileHandler &rHandler, const std::string &rModelName, const std::vector< std::string > &rArgs, const std::string &rExtraXml="")

Private Member Functions

void ConvertCellmlToSo (const std::string &rCellmlFullPath, const std::string &rCellmlFolder, const std::string &rModelLeafName)

Private Attributes

bool mPreserveGeneratedSources
std::string mComponentName


Detailed Description

This class encapsulates all the complexity needed to generate a loadable module from a CellML file.

Definition at line 43 of file CellMLToSharedLibraryConverter.hpp.


Constructor & Destructor Documentation

CellMLToSharedLibraryConverter::CellMLToSharedLibraryConverter ( bool  preserveGeneratedSources = false,
std::string  component = "heart" 
)

Create a converter.

Parameters:
preserveGeneratedSources whether to save copies of generated C++ source files in the directory containing the .cellml file.
component the name of the Chaste component (or project) in which to build the loadable module (if required). Allows projects to have specialised base classes for dynamically loaded cell models.

Definition at line 42 of file CellMLToSharedLibraryConverter.cpp.


Member Function Documentation

DynamicCellModelLoader * CellMLToSharedLibraryConverter::Convert ( const FileFinder rFilePath,
bool  isCollective = true 
)

Get a loadable module from the given file, and return a loader for it. The file can be a .so, in which case there isn't much to do, just create the loader. The interesting case comes when it is a .cellml file. If the file has any other extension, an exception is thrown.

Parameters:
rFilePath the model to load
isCollective whether this method is being called collectively. If it is not, then we require the .so to already exist, rather than trying to avoid race conditions.
Note:
If you do not pass isCollective=false, must be called collectively.

Definition at line 49 of file CellMLToSharedLibraryConverter.cpp.

References RelativeTo::Absolute, ConvertCellmlToSo(), EXCEPTION, FileFinder::Exists(), FileFinder::GetAbsolutePath(), DynamicModelLoaderRegistry::GetLoader(), DynamicModelLoaderRegistry::Instance(), and FileFinder::IsNewerThan().

void CellMLToSharedLibraryConverter::CreateOptionsFile ( const OutputFileHandler rHandler,
const std::string &  rModelName,
const std::vector< std::string > &  rArgs,
const std::string &  rExtraXml = "" 
)

Create a PyCml options file for the given model.

Parameters:
rHandler where to create the file
rModelName base name of the model file (which will be "rModelName.cellml")
rArgs extra command-line arguments for the model conversion
rExtraXml any extra XML to go in the config file (e.g. LT settings)

Definition at line 161 of file CellMLToSharedLibraryConverter.cpp.

References PetscTools::AmMaster(), PetscTools::Barrier(), and OutputFileHandler::OpenOutputFile().

void CellMLToSharedLibraryConverter::ConvertCellmlToSo ( const std::string &  rCellmlFullPath,
const std::string &  rCellmlFolder,
const std::string &  rModelLeafName 
) [private]

Helper method performing the actual conversion of a .cellml file to a .so.

Note:
Must be called collectively.
Parameters:
rCellmlFullPath full path to the .cellml file
rCellmlFolder folder containing the CellML file, with trailing slash
rModelLeafName leaf name of the CellML file, minus extension (but including the .)

Definition at line 100 of file CellMLToSharedLibraryConverter.cpp.

References RelativeTo::Absolute, PetscTools::AmMaster(), ChasteBuildDirName(), ChasteBuildRootDir(), ChasteBuildType(), EXCEPT_IF_NOT, EXCEPTION, EXPECT0, Exception::GetMessage(), mComponentName, mPreserveGeneratedSources, and PetscTools::ReplicateException().

Referenced by Convert().


Member Data Documentation

Whether to save copies of generated C++ source files.

Definition at line 102 of file CellMLToSharedLibraryConverter.hpp.

Referenced by ConvertCellmlToSo().

Which component to build the loadable module in.

Definition at line 105 of file CellMLToSharedLibraryConverter.hpp.

Referenced by ConvertCellmlToSo().


The documentation for this class was generated from the following files:

Generated on Mon Apr 18 11:36:42 2011 for Chaste by  doxygen 1.5.5