bool CMIRIAMInfo::save()
{
CCopasiObject * pCopasiObject = dynamic_cast< CCopasiObject * >(CCopasiRootContainer::getKeyFactory()->get(mKey));
if (pCopasiObject && mpRDFGraph)
{
mpRDFGraph->clean();
mpRDFGraph->updateNamespaces();
std::string XML = CRDFWriter::xmlFromGraph(mpRDFGraph);
CAnnotation * pAnnotation = CAnnotation::castObject(pCopasiObject);
if (pAnnotation == NULL)
{
return false;
}
pAnnotation->setMiriamAnnotation(XML, pAnnotation->getKey(), pAnnotation->getKey());
return true;
}
return false;
}
bool AnnotateDialog::SetNewLineFoundIfMatches(unsigned int index,
const std::string& searchString,
bool caseSensitive)
{
CAnnotation* annotation = (*myAnnotations)[index];
if (annotation->IsTextMatching(searchString, caseSensitive))
{
if (index != myFoundLineIndex)
{
if (myFoundLineIndex != std::numeric_limits<unsigned int>::max())
{
*((wxColour*)(*myAnnotations)[myFoundLineIndex]->Data()) =
myFoundLinePreviousColour;
myListCtrl->RefreshItem(myFoundLineIndex);
}
myFoundLinePreviousColour = *((wxColour*)annotation->Data());
myFoundLineIndex = index;
*((wxColour*)annotation->Data()) = wxColour(ANNOTATE_HIGHLIGHT_FIND_RGB);
}
myAnnotateCanvas->RefreshLineColors(myAnnotations,
myAnnotations->AnnotationCount(),
myListCtrl->GetCountPerPage(),
myHighlightType);
myListCtrl->EnsureVisible(myFoundLineIndex);
myListCtrl->RefreshItem(myFoundLineIndex);
return true;
}
return false;
}
void AnnotateDialog::ListItemClick(wxListEvent& event)
{
if (myShowLogMessages)
{
CAnnotation* annotation = (*myAnnotations)[event.GetIndex()];
myStatusBar->SetStatusText(wxText(annotation->LogMessage()), 1);
}
}
void CQNotes::save()
{
if (mpObject != NULL &&
mValidity == QValidator::Acceptable)
{
QString Notes;
CAnnotation * pAnnotation = CAnnotation::castObject(mpObject);
CReportDefinition * pReportDefinition = static_cast< CReportDefinition * >(mpObject);
if (pAnnotation != NULL)
{
Notes = FROM_UTF8(pAnnotation->getNotes());
}
else if (pReportDefinition != NULL)
{
Notes = FROM_UTF8(pReportDefinition->getComment());
}
if (mpEdit->toPlainText() != Notes)
{
std::string PlainText = TO_UTF8(mpEdit->toPlainText());
if (mpValidatorXML->needsWrap())
{
// We wrap the HTML in a body element if it does not contain a top level html or body element.
PlainText = "<body xmlns=\"http://www.w3.org/1999/xhtml\">" + PlainText + "</body>";
}
if (pAnnotation != NULL)
{
pAnnotation->setNotes(PlainText);
}
else if (pReportDefinition != NULL)
{
pReportDefinition->setComment(PlainText);
}
mChanged = true;
}
}
if (mChanged)
{
if (mpDataModel != NULL)
{
mpDataModel->changed();
}
protectedNotify(ListViews::MODEL, ListViews::CHANGE, mKey);
mChanged = false;
}
return;
}
void CMIRIAMInfo::load(const std::string& key)
{
pdelete(mpRDFGraph);
mKey = key;
CCopasiObject * pCopasiObject = dynamic_cast< CCopasiObject * >(CCopasiRootContainer::getKeyFactory()->get(mKey));
if (pCopasiObject != NULL)
{
const std::string * pMiriamAnnotation = NULL;
CAnnotation * pAnnotation = CAnnotation::castObject(pCopasiObject);
if (pAnnotation != NULL)
{
pMiriamAnnotation = &pAnnotation->getMiriamAnnotation();
}
if (pMiriamAnnotation && *pMiriamAnnotation != "")
mpRDFGraph = CRDFParser::graphFromXml(*pMiriamAnnotation);
}
if (mpRDFGraph == NULL)
mpRDFGraph = new CRDFGraph;
// We make sure that we always have an about node.
if (pCopasiObject != NULL)
mTriplet.pObject = mpRDFGraph->createAboutNode(pCopasiObject->getKey());
else
mTriplet.pObject = mpRDFGraph->createAboutNode("");
// Load the created date if set;
CRDFPredicate::Path Path = mTriplet.pObject->getPath();
std::set< CRDFTriplet > Triples =
mTriplet.pObject->getDescendantsWithPredicate(CRDFPredicate::dcterms_created);
if (Triples.size() > 0)
mCreated = *Triples.begin();
else
mCreated = CRDFTriplet(); // This is an invalid triplet, i.e., !mCreated is true.
loadCreators();
loadReferences();
loadModifications();
loadBiologicalDescriptions();
return;
}
void AnnotateDialog::Populate(CAnnotationList* annotationList)
{
TDEBUG_ENTER("AnnotateDialog::Populate");
myAnnotations = annotationList;
unsigned int annotateCount = annotationList->AnnotationCount();
myListCtrl->SetItemCount(annotateCount);
// Create the line color array
delete[] myLineColors;
myLineColors = new wxColour[annotateCount];
for (unsigned int i = 0; i < annotateCount; i++)
{
CAnnotation* item = (*annotationList)[i];
TDEBUG_TRACE("Item " << i << ": " << asctime(&(item->Date())) << item->Text());
item->SetData(&myLineColors[i]);
}
ApplySort();
}
void CQNotes::load()
{
if (mpObject != NULL)
{
QString Notes;
CAnnotation * pAnnotation = CAnnotation::castObject(mpObject);
CReportDefinition * pReportDefinition = static_cast< CReportDefinition * >(mpObject);
if (pAnnotation != NULL)
{
Notes = FROM_UTF8(pAnnotation->getNotes());
}
else if (pReportDefinition != NULL)
{
Notes = FROM_UTF8(pReportDefinition->getComment());
}
// The notes are UTF8 encoded however the html does not specify an encoding
// thus Qt uses locale settings.
mpWebView->setHtml(Notes);
mpEdit->setPlainText(Notes);
mpValidatorXML->saved();
slotValidateXML();
if (!mpValidatorXML->isFreeText() && mEditMode)
{
slotToggleMode();
}
mValidity = QValidator::Acceptable;
}
mChanged = false;
return;
}
bool CQMiriamWidget::enterProtected()
{
if (mKey == "")
return false;
CCopasiMessage::clearDeque();
if (mKeyToCopy != "")
{
CAnnotation * pAnnotation = CAnnotation::castObject(dynamic_cast< CCopasiObject * >(CCopasiRootContainer::getKeyFactory()->get(mKeyToCopy)));
std::string pMiriamAnnotation = pAnnotation->getMiriamAnnotation();
pAnnotation = CAnnotation::castObject(mpObject);
pAnnotation->setMiriamAnnotation(pMiriamAnnotation, mKey, mKeyToCopy);
mKeyToCopy = "";
}
mpMIRIAMInfo->load(mKey);
//Set Models for the 4 TableViews
std::vector<CQTableView*>::const_iterator it = mWidgets.begin();
std::vector<CQTableView*>::const_iterator end = mWidgets.end();
std::vector<CQBaseDataModel*>::const_iterator itDM = mDMs.begin();
std::vector<CQBaseDataModel*>::const_iterator endDM = mDMs.end();
std::vector<CQSortFilterProxyModel*>::const_iterator itPDM = mProxyDMs.begin();
std::vector<CQSortFilterProxyModel*>::const_iterator endPDM = mProxyDMs.end();
for (; it != end && itDM != endDM && itPDM != endPDM; it++, itDM++, itPDM++)
{
(*itPDM)->setSourceModel(*itDM);
(*it)->setModel(NULL);
(*it)->setModel(*itPDM);
(*it)->resizeColumnsToContents();
}
QDateTime DTCreated;
if (mpMIRIAMInfo->getCreatedDT() != "")
DTCreated = QDateTime::fromString(FROM_UTF8(mpMIRIAMInfo->getCreatedDT()), Qt::ISODate);
if (DTCreated.isValid())
mpDTCreated->setDateTime(DTCreated);
else
{
mpDTCreated->setDateTime(QDateTime::currentDateTime());
}
if (CCopasiMessage::size() > 0)
{
mMessageType = CCopasiMessage::getHighestSeverity();
mMessage = CCopasiMessage::getAllMessageText();
CCopasiMessage::clearDeque();
showEvent(NULL);
}
else
{
mMessageType = -1;
mMessage = "";
}
return true;
}
