void convertLayoutToL2()
{
if (_doc == NULL || _doc->getModel() == NULL)
return;
layoutNsUri = "http://projects.eml.org/bcb/sbml/level2";
layoutNs = new LayoutPkgNamespaces(2, 1);
#ifdef LIBSBML_HAS_PACKAGE_RENDER
foundRenderElements = false;
renderNsUri = "http://projects.eml.org/bcb/sbml/render/level2";
renderNs = new RenderPkgNamespaces(2, 1);
#endif
LayoutModelPlugin* plugin
= (LayoutModelPlugin*)_doc->getModel()->getPlugin("layout");
if (plugin == NULL)
return;
ConversionProperties prop(new SBMLNamespaces(2, 4));
prop.addOption("strict", false);
prop.addOption("setLevelAndVersion", true);
prop.addOption("ignorePackages", true);
if (_doc->convert(prop) != LIBSBML_OPERATION_SUCCESS)
{
cout << "Conversion failed!" << endl;
_doc->printErrors();
exit(2);
}
plugin->setElementNamespace(layoutNsUri);
SBMLDocumentPlugin *docPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("layout");
if (docPlugin != NULL)
docPlugin->setElementNamespace(layoutNsUri);
updateNs(plugin->getListOfLayouts());
_doc->getSBMLNamespaces()->removePackageNamespace(3, 1, "layout", 1);
#ifdef LIBSBML_HAS_PACKAGE_RENDER
SBMLDocumentPlugin *rdocPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("render");
if (rdocPlugin!= NULL)
rdocPlugin->setElementNamespace(renderNsUri);
_doc->getSBMLNamespaces()->removePackageNamespace(3, 1, "render", 1);
#endif
}
void convertLayoutToL3()
{
if (_doc == NULL || _doc->getModel() == NULL)
return;
layoutNsUri = "http://www.sbml.org/sbml/level3/version1/layout/version1";
layoutNs = new LayoutPkgNamespaces(3, 1, 1);
#ifdef CONVERT_RENDER
renderNsUri = "http://www.sbml.org/sbml/level3/version1/render/version1";
renderNs = new RenderPkgNamespaces(3, 1, 1);
#endif
LayoutModelPlugin* plugin = (LayoutModelPlugin*)_doc->getModel()->getPlugin("layout");
if (plugin == NULL)
return;
ConversionProperties prop(new SBMLNamespaces(3, 1));
prop.addOption("strict", false);
prop.addOption("setLevelAndVersion", true);
prop.addOption("ignorePackages", true);
_doc->convert(prop);
plugin->setElementNamespace(layoutNsUri);
SBMLDocumentPlugin *docPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("layout");
if (docPlugin != NULL)
docPlugin->setElementNamespace(layoutNsUri);
updateNs(plugin->getListOfLayouts());
_doc->getSBMLNamespaces()->addPackageNamespace("layout", 1);
_doc->setPackageRequired("layout", false);
#ifdef CONVERT_RENDER
SBMLDocumentPlugin *rdocPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("render");
if (rdocPlugin != NULL)
rdocPlugin->setElementNamespace(renderNsUri);
_doc->getSBMLNamespaces()->addPackageNamespace("render", 1);
_doc->setPackageRequired("render", false);
#endif
}
void convertLayoutToL3()
{
if (_doc == NULL || _doc->getModel() == NULL)
return;
layoutNsUri = "http://www.sbml.org/sbml/level3/version1/layout/version1";
layoutNs = new LayoutPkgNamespaces(3, 1, 1);
#ifdef LIBSBML_HAS_PACKAGE_RENDER
renderNsUri = "http://www.sbml.org/sbml/level3/version1/render/version1";
renderNs = new RenderPkgNamespaces(3, 1, 1);
#endif
LayoutModelPlugin* plugin = (LayoutModelPlugin*)_doc->getModel()->getPlugin("layout");
if (plugin == NULL)
return;
ConversionProperties prop(new SBMLNamespaces(3, 1));
prop.addOption("strict", false);
prop.addOption("setLevelAndVersion", true);
prop.addOption("ignorePackages", true);
if (_doc->convert(prop) != LIBSBML_OPERATION_SUCCESS)
{
cout << "Conversion failed!" << endl;
_doc->printErrors();
exit(2);
}
//plugin->setElementNamespace(layoutNsUri);
SBMLDocumentPlugin *docPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("layout");
if (docPlugin != NULL)
docPlugin->setElementNamespace(layoutNsUri);
_doc->getSBMLNamespaces()->addPackageNamespace("layout", 1);
_doc->setPackageRequired("layout", false);
#ifdef LIBSBML_HAS_PACKAGE_RENDER
SBMLDocumentPlugin *rdocPlugin = (SBMLDocumentPlugin*)_doc->getPlugin("render");
if (rdocPlugin != NULL)
{
//rdocPlugin->setElementNamespace(renderNsUri);
_doc->getSBMLNamespaces()->addPackageNamespace("render", 1);
}
else
{
_doc->enablePackage(renderNsUri, "render", true);
}
_doc->setPackageRequired("render", false);
#endif
}
END_TEST
START_TEST ( test_RenderExtension_convertLevel )
{
string filename(TestDataDirectory);
filename += "FutileCycle.xml";
// read document
SBMLDocument* doc = readSBMLFromFile(filename.c_str());
doc->checkConsistency();
// assert all is good
fail_unless (doc->getModel() != NULL);
fail_unless (doc->getNumErrors(LIBSBML_SEV_ERROR) == 0);
// convert to L3 *without* upgrading the layout / render package
bool result = doc->setLevelAndVersion(3,1, false, true);
fail_unless(result == true);
// write to string
std::string l3SBML = writeSBMLToStdString(doc);
delete doc;
// read string back
doc = readSBMLFromString(l3SBML.c_str());
doc->checkConsistency();
// assert all is good
fail_unless (doc->getModel() != NULL);
fail_unless (doc->getNumErrors(LIBSBML_SEV_ERROR) == 0);
delete doc;
filename = TestDataDirectory;
filename += "FutileCycle.xml";
// read document
doc = readSBMLFromFile(filename.c_str());
SBMLNamespaces nsl3v1(3, 1);
ConversionProperties prop(&nsl3v1);
prop.addOption("strict", false);
prop.addOption("setLevelAndVersion", true);
prop.addOption("ignorePackages", true);
fail_unless(doc->convert(prop) == LIBSBML_OPERATION_SUCCESS);
// now upgrade layout / render package
SBMLDocumentPlugin *docPlugin = (SBMLDocumentPlugin*)doc->getPlugin("layout");
if (docPlugin != NULL)
docPlugin->setElementNamespace(LayoutExtension::getXmlnsL3V1V1());
doc->getSBMLNamespaces()->addPackageNamespace("layout", 1);
doc->setPackageRequired("layout", false);
docPlugin = (SBMLDocumentPlugin*)doc->getPlugin("render");
if (docPlugin != NULL)
docPlugin->setElementNamespace(RenderExtension::getXmlnsL3V1V1());
else
doc->enablePackage(RenderExtension::getXmlnsL3V1V1(), "render", true);
doc->getSBMLNamespaces()->addPackageNamespace("render", 1);
doc->setPackageRequired("render", false);
doc->checkConsistency();
// assert all is good
fail_unless (doc->getModel() != NULL);
fail_unless (doc->getNumErrors(LIBSBML_SEV_ERROR) == 0);
//l3SBML = writeSBMLToString(doc);
delete doc;
}