def createFWD(pkg, classes):
nameOfClass = pkg + 'fwd'
codeName = nameOfClass + '.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, nameOfClass)
fileHeaders.addLicence(fileOut)
fileOut.write('#ifndef {0}_H\n'.format(nameOfClass))
fileOut.write('#define {0}_H\n\n'.format(nameOfClass))
fileOut.write('/**\n')
fileOut.write(' * Forward declaration of all opaque C types.\n')
fileOut.write(' *\n')
fileOut.write(' * Declaring all types up-front avoids "redefinition of type Foo" compile\n')
fileOut.write(' * errors and allows our combined C/C++ headers to depend minimally upon\n')
fileOut.write(' * each other. Put another way, the type definitions below serve the same\n')
fileOut.write(' * purpose as "class Foo;" forward declarations in C++ code.\n')
fileOut.write(' */\n\n')
fileOut.write('#ifdef __cplusplus\n')
fileOut.write('# define CLASS_OR_STRUCT class\n')
fileOut.write('#else\n')
fileOut.write('# define CLASS_OR_STRUCT struct\n')
fileOut.write('#endif /* __cplusplus */ \n\n')
fileOut.write('LIBSBML_CPP_NAMESPACE_BEGIN\n\n')
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
fileOut.write('typedef CLASS_OR_STRUCT {0} {0}_t;\n'.format(classes[i]['name']))
fileOut.write('\nLIBSBML_CPP_NAMESPACE_END\n\n')
fileOut.write('#undef CLASS_OR_STRUCT\n\n')
fileOut.write('\n#endif /* {0}_H */\n\n'.format(nameOfClass))
def createCode(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sedmltypecode = element['typecode']
hasSedListOf = element['hasSedListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
baseClass = 'SedBase'
if element != None and element.has_key('baseClass'):
baseClass = element['baseClass']
codeName = nameOfElement + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfElement)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfElement, nameOfPackage, hasMath)
writeConstructors(nameOfElement, nameOfPackage, code, attributes, hasChildren, hasMath, element)
writeAttributeCode(attributes, code, nameOfElement)
generalFunctions.writeCommonCPPCode(code, nameOfElement, sedmltypecode, attributes, False, hasChildren, hasMath, element,baseClass)
generalFunctions.writeInternalCPPCode(code, nameOfElement, attributes, False, hasChildren or hasSedListOf, hasMath,baseClass)
generalFunctions.writeProtectedCPPCode(code, nameOfElement, attributes, False, hasChildren, hasMath,baseClass)
if element.has_key('additionalCPPImpls'):
code.write(open(element['additionalCPPImpls'], 'r').read())
if hasSedListOf:
writeListOfCode.createCode(element, code)
writeCCode.createCode(element, code)
def createCode(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sedmltypecode = element['typecode']
hasSedListOf = element['hasSedListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
baseClass = 'SedBase'
if element != None and element.has_key('baseClass'):
baseClass = element['baseClass']
codeName = nameOfElement + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfElement)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfElement, nameOfPackage, hasMath)
writeConstructors(nameOfElement, nameOfPackage, code, attributes,
hasChildren, hasMath, element)
writeAttributeCode(attributes, code, nameOfElement)
generalFunctions.writeCommonCPPCode(code, nameOfElement, sedmltypecode,
attributes, False, hasChildren,
hasMath, element, baseClass)
generalFunctions.writeInternalCPPCode(code, nameOfElement, attributes,
False, hasChildren or hasSedListOf,
hasMath, baseClass)
generalFunctions.writeProtectedCPPCode(code, nameOfElement, attributes,
False, hasChildren, hasMath,
baseClass)
if element.has_key('additionalCPPImpls'):
code.write(open(element['additionalCPPImpls'], 'r').read())
if hasSedListOf:
writeListOfCode.createCode(element, code)
writeCCode.createCode(element, code)
def createValidatorHeader(pkg):
inputFile = os.path.dirname(__file__) + '/templateValidHead.txt'
headerName = pkg + 'Validator.h'
header = open(headerName, 'w')
nameOfElement = pkg + 'Validator'
fileHeaders.addFilename(header, headerName, nameOfElement)
fileHeaders.addLicence(header)
header.write('\n#ifndef {0}Validator__H\n'.format(pkg))
header.write('#define {0}Validator__H\n\n\n'.format(pkg))
header.write('#ifdef __cplusplus\n\n\n')
generalFunctions.writeInternalStart(header)
header.write('#include <list>\n')
header.write('#include <string>\n')
generalFunctions.writeInternalEnd(header)
input = open(inputFile, 'r')
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, pkg)
header.write(line)
else:
break
header.write('#endif /* __cplusplus*/\n')
header.write('#endif /* {0}Validator__H */\n'.format(pkg))
input.close()
header.close()
def createHeader(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sbmltypecode = element['typecode']
isListOf = element['hasListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
headerName = nameOfElement + '.h'
header = open(headerName, 'w')
fileHeaders.addFilename(header, headerName, nameOfElement)
fileHeaders.addLicence(header)
writeIncludes(header, nameOfElement, nameOfPackage, attributes, element)
writeClass(attributes, header, nameOfElement, nameOfPackage, hasChildren, hasMath, False, element)
if isListOf == True:
writeListOfHeader.createHeader(element, header)
writeCPPEnd(header)
writeCStart(header)
writeCHeader.createHeader(element, header)
writeCEnd(header, nameOfElement)
#if len(sys.argv) != 2:
# print 'Usage: writeHeader.py element'
#else:
# element = createNewElementDictObj.createFBCObj()
# createHeader(element)
def createExtensionTypes(nameOfPackage, pkg, plugins, classes):
nameOfClass = nameOfPackage + 'ExtensionTypes'
codeName = nameOfClass + '.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, nameOfClass)
fileHeaders.addLicence(fileOut)
fileOut.write('#ifndef {0}_H\n'.format(nameOfClass))
fileOut.write('#define {0}_H\n\n'.format(nameOfClass))
fileOut.write(
'#include <sbml/packages/{0}/common/{0}fwd.h>\n\n'.format(pkg))
fileOut.write(
'#include <sbml/packages/{0}/extension/{1}Extension.h>\n'.format(
pkg, nameOfPackage))
fileOut.write(
'#include <sbml/packages/{0}/extension/{1}SBMLDocumentPlugin.h>\n'.
format(pkg, nameOfPackage))
for i in range(0, len(plugins)):
fileOut.write(
'#include <sbml/packages/{0}/extension/{1}{2}Plugin.h>\n'.format(
pkg, nameOfPackage, plugins[i]['sbase']))
fileOut.write('\n')
for i in range(0, len(classes)):
if classes[i]['typecode'] != 'HACK':
fileOut.write('#include <sbml/packages/{0}/sbml/{1}.h>\n'.format(
pkg, classes[i]['name']))
fileOut.write('\n#endif /* {0}_H */\n\n'.format(nameOfClass))
def createHeader(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sbmltypecode = element['typecode']
isListOf = element['hasListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
headerName = nameOfElement + '.h'
header = open(headerName, 'w')
fileHeaders.addFilename(header, headerName, nameOfElement)
fileHeaders.addLicence(header)
writeIncludes(header, nameOfElement, nameOfPackage, attributes, element)
writeClass(attributes, header, nameOfElement, nameOfPackage, hasChildren, hasMath, False, element)
if isListOf == True:
writeListOfHeader.createHeader(element, header)
writeCPPEnd(header)
writeCStart(header)
writeCHeader.createHeader(element, header)
writeCEnd(header, nameOfElement)
#if len(sys.argv) != 2:
# print 'Usage: writeHeader.py element'
#else:
# element = createNewElementDictObj.createFBCObj()
# createHeader(element)
def writeCode(name):
capName = name.upper()
codeName = name + '-register.cxx'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, name)
fileHeaders.addLicence(fileOut)
fileOut.write('\n')
fileOut.write('#ifdef USE_{0}\n'.format(capName))
fileOut.write(' {0}Extension::init();\n'.format(strFunctions.cap(name)))
fileOut.write('#endif\n')
def writeHeader(name):
capName = name.upper()
codeName = name + '-register.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, name)
fileHeaders.addLicence(fileOut)
fileOut.write('\n')
fileOut.write('#ifdef USE_{0}\n'.format(capName))
fileOut.write(' #include <sbml/packages/{0}/extension/{1}Extension.h>\n'.format(name, strFunctions.cap(name)))
fileOut.write('#endif\n\n')
def writeCode(name):
capName = name.upper()
codeName = name + '-register.cxx'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, name)
fileHeaders.addLicence(fileOut)
fileOut.write('\n')
fileOut.write('#ifdef USE_{0}\n'.format(capName))
fileOut.write(' {0}Extension::init();\n'.format(strFunctions.cap(name)))
fileOut.write('#endif\n')
def createHeader(package, plugin):
nameOfPackage = package['name']
nameOfPlugin = plugin['sbase']
nameOfClass = nameOfPackage + nameOfPlugin + 'Plugin'
codeName = nameOfClass + '.h'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfPackage, nameOfClass, plugin['extension'])
writeClassDefn(code, nameOfClass, nameOfPackage, plugin['extension'])
writeIncludeEnds(code, nameOfClass)
def createHeader(package):
nameOfPackage = package["name"]
nameOfClass = nameOfPackage + "Extension"
codeName = nameOfClass + ".h"
code = open(codeName, "w")
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfClass, nameOfPackage)
writeClassDefn(code, nameOfClass, nameOfPackage)
writeTypeDefns(code, nameOfClass, nameOfPackage, package["elements"], package["number"])
writeIncludeEnds(code, nameOfClass)
def writeHeader(name):
capName = name.upper()
codeName = name + '-register.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, name)
fileHeaders.addLicence(fileOut)
fileOut.write('\n')
fileOut.write('#ifdef USE_{0}\n'.format(capName))
fileOut.write(
' #include <sbml/packages/{0}/extension/{1}Extension.h>\n'.format(
name, strFunctions.cap(name)))
fileOut.write('#endif\n\n')
def createHeader(package):
nameOfPackage = package['name']
nameOfClass = nameOfPackage + 'Extension'
codeName = nameOfClass + '.h'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfClass, nameOfPackage)
writeClassDefn(code, nameOfClass, nameOfPackage, package)
writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'],
package['number'], package['enums'])
writeIncludeEnds(code, nameOfClass)
def createHeader(package): nameOfPackage = package['name'] nameOfClass = nameOfPackage + 'SBMLDocumentPlugin' codeName = nameOfClass + '.h' code = open(codeName, 'w') fileHeaders.addFilename(code, codeName, nameOfClass) fileHeaders.addLicence(code) writeIncludes(code, nameOfClass, nameOfPackage) writeClassDefn(code, nameOfClass, nameOfPackage) writeIncludeEnds(code, nameOfClass)
def writeJavaFiles(name, plugins, classes):
capName = name.upper()
codeName = "local-downcast-extension-" + name + ".i"
fileOut = open(codeName, "w")
writeBindingsFiles.writeJavaExt(fileOut, name)
codeName1 = "local-downcast-namespaces-" + name + ".i"
fileOut1 = open(codeName1, "w")
writeBindingsFiles.writeJavaNS(fileOut1, name)
codeName2 = "local-packages-" + name + ".i"
fileOut2 = open(codeName2, "w")
fileHeaders.addFilename(fileOut2, codeName2, name)
fileHeaders.addLicence(fileOut2)
writeBindingsFiles.writeJava(fileOut2, name, plugins, classes)
def createHeader(package): nameOfPackage = package['name'] nameOfClass = nameOfPackage + 'Extension' codeName = nameOfClass + '.h' code = open(codeName, 'w') fileHeaders.addFilename(code, codeName, nameOfClass) fileHeaders.addLicence(code) writeIncludes(code, nameOfClass, nameOfPackage) writeClassDefn(code, nameOfClass, nameOfPackage) writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'], package['number']) writeIncludeEnds(code, nameOfClass)
def createHeader(package, plugin): nameOfPackage = package['name'] nameOfPlugin = plugin['sbase'] nameOfClass = nameOfPackage + nameOfPlugin + 'Plugin' codeName = nameOfClass + '.h' code = open(codeName, 'w') fileHeaders.addFilename(code, codeName, nameOfClass) fileHeaders.addLicence(code) writeIncludes(code, nameOfPackage, nameOfClass, plugin['extension'], plugin['attribs']) writeClassDefn(code, nameOfClass, nameOfPackage, plugin['extension'], plugin['attribs'], plugin) writeIncludeEnds(code, nameOfClass)
def writeCSharpFiles(name, plugins, classes): capName = name.upper() codeName = 'local-downcast-extension-' + name + '.i' fileOut = open(codeName, 'w') writeBindingsFiles.writeCSharpExt(fileOut, name) codeName1 = 'local-downcast-namespaces-' + name + '.i' fileOut1 = open(codeName1, 'w') writeBindingsFiles.writeCSharpNS(fileOut1, name) codeName2 = 'local-packages-' + name + '.i' fileOut2 = open(codeName2, 'w') fileHeaders.addFilename(fileOut2, codeName2, name) fileHeaders.addLicence(fileOut2) writeBindingsFiles.writeCSharp(fileOut2, name, plugins, classes)
def writeJavaFiles(name, plugins, classes): capName = name.upper() codeName = 'local-downcast-extension-' + name + '.i' fileOut = open(codeName, 'w') writeBindingsFiles.writeJavaExt(fileOut, name) codeName1 = 'local-downcast-namespaces-' + name + '.i' fileOut1 = open(codeName1, 'w') writeBindingsFiles.writeJavaNS(fileOut1, name) codeName2 = 'local-packages-' + name + '.i' fileOut2 = open(codeName2, 'w') fileHeaders.addFilename(fileOut2, codeName2, name) fileHeaders.addLicence(fileOut2) writeBindingsFiles.writeJava(fileOut2, name, plugins, classes)
def createConsistencyFiles(pkg, type): nameOfElement = pkg + type + 'ConsistencyValidator' fileName = nameOfElement + '.h' output = open(fileName, 'w') generalFunctions.writeInternalStart(output) fileHeaders.addFilename(output, fileName, nameOfElement) fileHeaders.addLicence(output) writeConsistencyHeader(output, nameOfElement, pkg, type) fileName1 = nameOfElement + '.cpp' output1 = open(fileName1, 'w') generalFunctions.writeInternalStart(output1) fileHeaders.addFilename(output1, fileName1, nameOfElement) fileHeaders.addLicence(output1) writeConsistencyFile(output1, nameOfElement, pkg, type)
def createCode(package):
nameOfPackage = package['name']
nameOfClass = nameOfPackage + 'Extension'
plugins = package['plugins']
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfClass, nameOfPackage, plugins)
writeClass(code, nameOfClass, nameOfPackage, package['elements'])
writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'],
package['number'])
writeInitFunction(code, nameOfPackage, nameOfClass, plugins)
writeIncludeEnds(code, nameOfClass)
def createCode(package): nameOfPackage = package['name'] nameOfClass = nameOfPackage + 'Extension' plugins = package['plugins'] codeName = nameOfClass + '.cpp' code = open(codeName, 'w') fileHeaders.addFilename(code, codeName, nameOfClass) fileHeaders.addLicence(code) writeIncludes(code, nameOfClass, nameOfPackage, plugins) writeClass(code, nameOfClass, nameOfPackage, package['elements']) writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'], package['number']) writeInitFunction(code, nameOfPackage, nameOfClass, plugins) writeIncludeEnds(code, nameOfClass)
def createCode(package):
nameOfPackage = package['name']
nameOfClass = nameOfPackage + 'SBMLDocumentPlugin'
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
inputFile = os.path.dirname(__file__) + '/templateDocPluginCPP.txt'
input = open(inputFile, 'r')
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, nameOfPackage)
code.write(line)
else:
break
def createErrorFiles(pkg, offset, classes): nameOfElement = pkg + 'SBMLError' fileName = nameOfElement + '.h' output = open(fileName, 'w') fileHeaders.addFilename(output, fileName, nameOfElement) fileHeaders.addLicence(output) writeError(output, nameOfElement, pkg, offset, classes) nameOfElement1 = pkg + 'SBMLErrorTable' fileName1 = nameOfElement1 + '.h' output1 = open(fileName1, 'w') fileHeaders.addFilename(output1, fileName1, nameOfElement1) fileHeaders.addLicence(output1) fileName2 = nameOfElement + '.txt' output2 = open(fileName2, 'w') writeErrorTable(output1, nameOfElement1, pkg, offset, classes)
def createCode(package, plugin):
nameOfPackage = package['name']
nameOfPlugin = plugin['sbase']
nameOfClass = nameOfPackage + nameOfPlugin + 'Plugin'
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfPackage, nameOfClass)
writeClassDefn(code, nameOfClass, nameOfPackage, plugin['extension'],
plugin['attribs'], plugin)
if plugin.has_key('addDefs'):
code.write(open(plugin['addDefs'], 'r').read())
writeIncludeEnds(code, nameOfClass)
def createConstraintsFile(pkg, type):
nameOfElement = pkg + type + 'ConsistencyConstraints'
fileName = nameOfElement + '.cpp'
output = open(fileName, 'w')
generalFunctions.writeInternalStart(output)
fileHeaders.addFilename(output, fileName, nameOfElement)
fileHeaders.addLicence(output)
output.write('\n#ifndef AddingConstraintsToValidator\n\n')
output.write('#include <sbml/validator/VConstraint.h>\n\n')
output.write('#include <sbml/packages/{0}/validator/{1}SBMLError.h>\n\n'.format(pkg.lower(), pkg))
output.write('#endif /* AddingConstrainstToValidator */\n\n')
output.write('#include <sbml/validator/ConstraintMacros.h>\n\n')
output.write('/** @cond doxygenIgnored */\n\n')
output.write('using namespace std;\n\n')
output.write('/** @endcond */\n\n')
output.write('/** PUT CONSTRAINTS HERE */\n\n')
generalFunctions.writeInternalEnd(output)
def createExtensionTypes(nameOfPackage, pkg, plugins, classes):
nameOfClass = nameOfPackage + 'ExtensionTypes'
codeName = nameOfClass + '.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, nameOfClass)
fileHeaders.addLicence(fileOut)
fileOut.write('#ifndef {0}_H\n'.format(nameOfClass))
fileOut.write('#define {0}_H\n\n'.format(nameOfClass))
fileOut.write('#include <sbml/packages/{0}/common/{0}fwd.h>\n\n'.format(pkg))
fileOut.write('#include <sbml/packages/{0}/extension/{1}Extension.h>\n'.format(pkg, nameOfPackage))
fileOut.write('#include <sbml/packages/{0}/extension/{1}SBMLDocumentPlugin.h>\n'.format(pkg, nameOfPackage))
for i in range (0, len(plugins)):
fileOut.write('#include <sbml/packages/{0}/extension/{1}{2}Plugin.h>\n'.format(pkg, nameOfPackage, plugins[i]['sbase']))
fileOut.write('\n')
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
fileOut.write('#include <sbml/packages/{0}/sbml/{1}.h>\n'.format(pkg, classes[i]['name']))
fileOut.write('\n#endif /* {0}_H */\n\n'.format(nameOfClass))
def createCode(package, plugin):
nameOfPackage = package['name']
nameOfPlugin = plugin['sbase']
nameOfClass = nameOfPackage + nameOfPlugin + 'Plugin'
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfPackage, nameOfClass)
writeClassDefn(code, nameOfClass, nameOfPackage, plugin['extension'],plugin['attribs'], plugin)
if plugin.has_key('addDefs'):
code.write(open(plugin['addDefs'], 'r').read())
writeIncludeEnds(code, nameOfClass)
def createCode(package):
nameOfPackage = package['name']
nameOfClass = nameOfPackage + 'Extension'
plugins = package['plugins']
offset = package['offset']
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfClass, nameOfPackage, plugins)
writeClass(code, nameOfClass, nameOfPackage, package['elements'])
writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'],
package['number'], package['enums'])
writeInitFunction(code, nameOfPackage, nameOfClass, plugins)
writeErrorFunction(code, nameOfPackage, nameOfClass, offset)
if package.has_key('addDefs'):
code.write(open(package['addDefs'], 'r').read())
writeIncludeEnds(code, nameOfClass)
def createHeader(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sedmltypecode = element['typecode']
hasSedListOf = element['hasSedListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
headerName = nameOfElement + '.h'
header = open(headerName, 'w')
fileHeaders.addFilename(header, headerName, nameOfElement)
fileHeaders.addLicence(header)
writeIncludes(header, nameOfElement, nameOfPackage)
writeClass(attributes, header, nameOfElement, nameOfPackage, hasChildren, hasMath, False, element)
if hasSedListOf == True:
writeListOfHeader.createHeader(element, header)
writeCPPEnd(header)
writeCStart(header)
writeCHeader.createHeader(element, header)
writeCEnd(header, nameOfElement)
def createCode(package):
nameOfPackage = package['name']
nameOfClass = nameOfPackage + 'Extension'
plugins = package['plugins']
offset = package['offset']
codeName = nameOfClass + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfClass)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfClass, nameOfPackage, plugins)
writeClass(code, nameOfClass, nameOfPackage, package['elements'])
writeTypeDefns(code, nameOfClass, nameOfPackage, package['elements'], package['number'], package['enums'])
writeInitFunction(code, nameOfPackage, nameOfClass, plugins)
writeErrorFunction(code, nameOfPackage, nameOfClass, offset)
if package.has_key('addDefs'):
code.write(open(package['addDefs'], 'r').read())
writeIncludeEnds(code, nameOfClass)
def createFWD(pkg, classes):
nameOfClass = pkg + 'fwd'
codeName = nameOfClass + '.h'
fileOut = open(codeName, 'w')
fileHeaders.addFilename(fileOut, codeName, nameOfClass)
fileHeaders.addLicence(fileOut)
fileOut.write('#ifndef {0}_H\n'.format(nameOfClass))
fileOut.write('#define {0}_H\n\n'.format(nameOfClass))
fileOut.write('/**\n')
fileOut.write(' * Forward declaration of all opaque C types.\n')
fileOut.write(' *\n')
fileOut.write(
' * Declaring all types up-front avoids "redefinition of type Foo" compile\n'
)
fileOut.write(
' * errors and allows our combined C/C++ headers to depend minimally upon\n'
)
fileOut.write(
' * each other. Put another way, the type definitions below serve the same\n'
)
fileOut.write(
' * purpose as "class Foo;" forward declarations in C++ code.\n')
fileOut.write(' */\n\n')
fileOut.write('#ifdef __cplusplus\n')
fileOut.write('# define CLASS_OR_STRUCT class\n')
fileOut.write('#else\n')
fileOut.write('# define CLASS_OR_STRUCT struct\n')
fileOut.write('#endif /* __cplusplus */ \n\n')
fileOut.write('LIBSBML_CPP_NAMESPACE_BEGIN\n\n')
for i in range(0, len(classes)):
if classes[i]['typecode'] != 'HACK':
fileOut.write('typedef CLASS_OR_STRUCT {0} {0}_t;\n'.format(
classes[i]['name']))
fileOut.write('\nLIBSBML_CPP_NAMESPACE_END\n\n')
fileOut.write('#undef CLASS_OR_STRUCT\n\n')
fileOut.write('\n#endif /* {0}_H */\n\n'.format(nameOfClass))
def createCode(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sbmltypecode = element['typecode']
isListOf = element['hasListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
baseClass = 'SBase'
childrenOverwrite = element.has_key('childrenOverwriteElementName') and element['childrenOverwriteElementName']
if element != None and element.has_key('baseClass'):
baseClass = element['baseClass']
if baseClass == None:
baseClass = 'SBase'
codeName = nameOfElement + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfElement)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfElement, nameOfPackage, hasMath, element)
writeConstructors(nameOfElement, nameOfPackage, code, attributes, hasChildren, hasMath, element, childrenOverwrite)
writeAttributeCode(attributes, code, nameOfElement, nameOfPackage, element)
if hasMath == True or generalFunctions.hasSIdRef(attributes) == True:
generalFunctions.writeRenameSIdCode(code, nameOfElement, attributes, hasMath)
if hasChildren == True:
generalFunctions.writeGetAllElementsCode(code, nameOfElement, attributes)
generalFunctions.writeCommonCPPCode(code, nameOfElement, sbmltypecode, attributes, False, hasChildren, hasMath, element,baseClass)
generalFunctions.writeInternalCPPCode(code, nameOfElement, attributes, hasChildren, hasMath,baseClass, isListOf)
generalFunctions.writeProtectedCPPCode(code, nameOfElement, attributes, False, hasChildren, hasMath, nameOfPackage,
isListOf, baseClass, element)
if generalFunctions.hasArray(element):
# writes the array to model
code.write('void\n{0}::write(XMLOutputStream& stream) const\n'.format(element['name']))
code.write('{\n')
code.write(' stream.startElement(getElementName(), getPrefix());\n')
code.write(' writeAttributes(stream);\n')
att = generalFunctions.getByType(element['attribs'], 'array')
if att != None:
capAttName = strFunctions.cap(att['name'])
attType = att['element'];
if attType == 'int':
attType = 'long'
code.write(' if(isSet{0}())\n'.format(capAttName))
code.write(' {\n')
code.write(' for (int i = 0; i < m{0}Length; ++i)\n'.format(capAttName))
code.write(' {\n')
code.write(' stream << ({0})m{1}[i] << " ";\n'.format(attType, capAttName))
code.write(' }\n')
code.write(' }\n')
code.write(' stream.endElement(getElementName(), getPrefix());\n')
code.write('}\n\n\n')
# set element text, parses the text
code.write('void\n{0}::setElementText(const std::string &text)\n'.format(element['name']))
code.write('{\n')
code.write(' stringstream strStream(text); // Insert the string into a stream\n')
code.write(' {0} val;\n'.format(att['element']))
code.write(' vector<{0}> valuesVector;\n'.format(att['element']))
code.write(' while (strStream >> val)\n')
code.write(' {\n')
code.write(' valuesVector.push_back(val);\n')
code.write(' }\n')
code.write('\n')
code.write(' // convert the vector to an array\n')
code.write(' unsigned int length = (unsigned int)valuesVector.size();\n')
code.write(' if (length > 0)\n')
code.write(' {\n')
code.write('\n')
code.write(' {0}* data = new {0}[length];\n'.format(att['element']))
code.write(' for (unsigned int i = 0; i < length; ++i)\n')
code.write(' {\n')
code.write(' data[i] = valuesVector.at(i);\n')
code.write(' }\n')
code.write('\n')
code.write(' set{0}(data, length);\n'.format(strFunctions.cap(att['name'])))
code.write(' delete[] data;\n')
code.write(' }\n')
code.write('}\n')
if element.has_key('addDefs'):
code.write(open(element['addDefs'], 'r').read())
if isListOf == True:
writeListOfCode.createCode(element, code)
writeCCode.createCode(element, code)
#if len(sys.argv) != 2:
# print 'Usage: writeCode.py element'
#else:
# element = createNewElementDictObj.createFBCObjective()
# createCode(element)
def createCode(element):
nameOfElement = element['name']
nameOfPackage = element['package']
sbmltypecode = element['typecode']
isListOf = element['hasListOf']
attributes = element['attribs']
hasChildren = element['hasChildren']
hasMath = element['hasMath']
baseClass = 'SBase'
childrenOverwrite = element.has_key('childrenOverwriteElementName') and element['childrenOverwriteElementName']
if element != None and element.has_key('baseClass'):
baseClass = element['baseClass']
if baseClass == None:
baseClass = 'SBase'
codeName = nameOfElement + '.cpp'
code = open(codeName, 'w')
fileHeaders.addFilename(code, codeName, nameOfElement)
fileHeaders.addLicence(code)
writeIncludes(code, nameOfElement, nameOfPackage, hasMath, element)
writeConstructors(nameOfElement, nameOfPackage, code, attributes, hasChildren, hasMath, element, childrenOverwrite)
writeAttributeCode(attributes, code, nameOfElement, nameOfPackage, element)
if hasMath == True or generalFunctions.hasSIdRef(attributes) == True:
generalFunctions.writeRenameSIdCode(code, nameOfElement, attributes, hasMath)
if hasChildren == True:
generalFunctions.writeGetAllElementsCode(code, nameOfElement, attributes)
generalFunctions.writeCommonCPPCode(code, nameOfElement, sbmltypecode, attributes, False, hasChildren, hasMath, element,baseClass)
generalFunctions.writeInternalCPPCode(code, nameOfElement, attributes, hasChildren, hasMath,baseClass, isListOf)
generalFunctions.writeProtectedCPPCode(code, nameOfElement, attributes, False, hasChildren, hasMath, nameOfPackage,
isListOf, baseClass, element)
if generalFunctions.hasArray(element):
# writes the array to model
code.write('void\n{0}::write(XMLOutputStream& stream) const\n'.format(element['name']))
code.write('{\n')
code.write(' stream.startElement(getElementName(), getPrefix());\n')
code.write(' writeAttributes(stream);\n')
att = generalFunctions.getByType(element['attribs'], 'array')
if att != None:
capAttName = strFunctions.cap(att['name'])
attType = att['element'];
if attType == 'int':
attType = 'long'
code.write(' if(isSet{0}())\n'.format(capAttName))
code.write(' {\n')
code.write(' for (int i = 0; i < m{0}Length; ++i)\n'.format(capAttName))
code.write(' {\n')
code.write(' stream << ({0})m{1}[i] << " ";\n'.format(attType, capAttName))
code.write(' }\n')
code.write(' }\n')
code.write(' stream.endElement(getElementName(), getPrefix());\n')
code.write('}\n\n\n')
# set element text, parses the text
code.write('void\n{0}::setElementText(const std::string &text)\n'.format(element['name']))
code.write('{\n')
code.write(' stringstream strStream(text); // Insert the string into a stream\n')
code.write(' {0} val;\n'.format(att['element']))
code.write(' vector<{0}> valuesVector;\n'.format(att['element']))
code.write(' while (strStream >> val)\n')
code.write(' {\n')
code.write(' valuesVector.push_back(val);\n')
code.write(' }\n')
code.write('\n')
code.write(' // convert the vector to an array\n')
code.write(' unsigned int length = (unsigned int)valuesVector.size();\n')
code.write(' if (length > 0)\n')
code.write(' {\n')
code.write('\n')
code.write(' {0}* data = new {0}[length];\n'.format(att['element']))
code.write(' for (unsigned int i = 0; i < length; ++i)\n')
code.write(' {\n')
code.write(' data[i] = valuesVector.at(i);\n')
code.write(' }\n')
code.write('\n')
code.write(' set{0}(data, length);\n'.format(strFunctions.cap(att['name'])))
code.write(' delete[] data;\n')
code.write(' }\n')
code.write('}\n')
if element.has_key('addDefs'):
code.write(open(element['addDefs'], 'r').read())
if isListOf == True:
writeListOfCode.createCode(element, code)
writeCCode.createCode(element, code)
#if len(sys.argv) != 2:
# print 'Usage: writeCode.py element'
#else:
# element = createNewElementDictObj.createFBCObjective()
# createCode(element)
def createValidatorFile(pkg, classes):
inputFile = os.path.dirname(__file__) + '/templateValidCPP.txt'
fileName = pkg + 'Validator.cpp'
output = open(fileName, 'w')
nameOfElement = pkg + 'Validator'
fileHeaders.addFilename(output, fileName, nameOfElement)
fileHeaders.addLicence(output)
output.write('#include <sbml/validator/VConstraint.h>\n\n')
output.write('#include <sbml/packages/{0}/common/{1}ExtensionTypes.h>\n'.format(pkg.lower(), pkg))
output.write('#include <sbml/packages/{0}/validator/{1}Validator.h>\n\n'.format(pkg.lower(), pkg))
generalFunctions.writeInternalStart(output)
output.write('using namespace std;\n\n')
generalFunctions.writeInternalEnd(output)
output.write('LIBSBML_CPP_NAMESPACE_BEGIN\n\n')
input = open(inputFile, 'r')
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, pkg)
output.write(line)
else:
break
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
output.write(' ConstraintSet<{0}> m{0};\n'.format(classes[i]['name']))
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, pkg)
output.write(line)
else:
break
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
output.write(' if (dynamic_cast< TConstraint<{0}>* >(c) != NULL)\n'.format(classes[i]['name']))
output.write(' {\n')
output.write(' m{0}.add( static_cast< TConstraint<{0}>* >(c) );\n'.format(classes[i]['name']))
output.write(' return;\n }\n\n')
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, pkg)
output.write(line)
else:
break
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
output.write(' bool visit (const {0} &x)\n'.format(classes[i]['name']))
output.write(' {\n')
output.write(' v.m{0}Constraints->m{1}.applyTo(m, x);\n'.format(pkg, classes[i]['name']))
output.write(' return !v.m{0}Constraints->m{1}.empty();\n'.format(pkg, classes[i]['name']))
output.write(' }\n\n')
output.write(' virtual bool visit(const SBase &x)\n')
output.write(' {\n')
output.write(' if (x.getPackageName() != "{0}")\n'.format(pkg.lower()))
output.write(' {\n return SBMLVisitor::visit(x);\n }\n\n')
output.write(' int code = x.getTypeCode();\n\n')
output.write(' const ListOf* list = dynamic_cast<const ListOf*>(&x);\n\n')
output.write(' if (list != NULL)\n')
output.write(' {\n')
output.write(' return SBMLVisitor::visit(x);\n')
output.write(' }\n')
output.write(' else\n')
output.write(' {\n')
order = 0
for i in range (0, len(classes)):
if classes[i]['typecode'] != 'HACK':
if order == 0:
output.write(' if (code == {0})\n'.format(classes[i]['typecode']))
order = order + 1
else:
output.write(' else if (code == {0})\n'.format(classes[i]['typecode']))
output.write(' {\n')
output.write(' return visit((const {0}&)x);\n'.format(classes[i]['name']))
output.write(' }\n')
for line in input:
if line[0:13] != 'TEMPLATE_STOP':
line = replaceTags(line, pkg)
output.write(line)
else:
break
input.close()
output.close()
