void CfgExternalToolModel::initFormats() {
QList<DocumentFormatId> ids = AppContext::getDocumentFormatRegistry()->getRegisteredFormats();
DocumentFormatConstraints commonConstraints;
commonConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
commonConstraints.addFlagToExclude(DocumentFormatFlag_SingleObjectFormat);
commonConstraints.addFlagToExclude(DocumentFormatFlag_CannotBeCreated);
DocumentFormatConstraints seqWrite(commonConstraints);
seqWrite.supportedObjectTypes += GObjectTypes::SEQUENCE;
DocumentFormatConstraints seqRead(commonConstraints);
seqRead.supportedObjectTypes += GObjectTypes::SEQUENCE;
DocumentFormatConstraints msaWrite(commonConstraints);
msaWrite.supportedObjectTypes += GObjectTypes::MULTIPLE_SEQUENCE_ALIGNMENT;
DocumentFormatConstraints msaRead(commonConstraints);
msaRead.supportedObjectTypes += GObjectTypes::MULTIPLE_SEQUENCE_ALIGNMENT;
DocumentFormatConstraints annWrite(commonConstraints);
annWrite.supportedObjectTypes += GObjectTypes::ANNOTATION_TABLE;
DocumentFormatConstraints annRead(commonConstraints);
annRead.supportedObjectTypes += GObjectTypes::ANNOTATION_TABLE;
foreach(const DocumentFormatId& id, ids) {
DocumentFormat* df = AppContext::getDocumentFormatRegistry()->getFormatById(id);
if (df->checkConstraints(seqWrite)) {
seqFormatsW[df->getFormatName()] = df->getFormatId();
}
if (df->checkConstraints(seqRead)) {
seqFormatsR[df->getFormatName()] = df->getFormatId();
}
if (df->checkConstraints(msaWrite)) {
msaFormatsW[df->getFormatName()] = df->getFormatId();
}
if (df->checkConstraints(msaRead)) {
msaFormatsR[df->getFormatName()] = df->getFormatId();
}
if (df->checkConstraints(annWrite)) {
annFormatsW[df->getFormatName()] = df->getFormatId();
}
if (df->checkConstraints(annRead)) {
annFormatsR[df->getFormatName()] = df->getFormatId();
}
}
void ExportBlastResultDialog::initSaveController(const QString &defaultUrl) {
SaveDocumentControllerConfig config;
config.defaultFileName = defaultUrl;
config.defaultFormatId = BaseDocumentFormats::CLUSTAL_ALN;
config.fileDialogButton = fileButton;
config.fileNameEdit = fileNameEdit;
config.formatCombo = formatCombo;
config.parentWidget = this;
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::MULTIPLE_SEQUENCE_ALIGNMENT;
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
saveController = new SaveDocumentController(config, formatConstraints, this);
}
void SaveSelectedSequenceFromMSADialogController::initSaveController() {
SaveDocumentControllerConfig config;
config.defaultFormatId = BaseDocumentFormats::FASTA;
config.fileDialogButton = fileButton;
config.fileNameEdit = fileNameEdit;
config.formatCombo = formatCombo;
config.parentWidget = this;
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::SEQUENCE;
formatConstraints.addFlagToExclude(DocumentFormatFlag_SingleObjectFormat);
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
saveController = new SaveDocumentController(config, formatConstraints, this);
}
void ImportAnnotationsFromCSVDialog::initSaveController() {
SaveDocumentControllerConfig config;
config.fileDialogButton = saveFileButton;
config.fileNameEdit = saveFileName;
config.formatCombo = saveFormatCombo;
config.parentWidget = this;
config.saveTitle = tr("Save imported annotations to");
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::ANNOTATION_TABLE;
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
formatConstraints.formatsToExclude << BaseDocumentFormats::VECTOR_NTI_SEQUENCE;
saveController = new SaveDocumentController(config, formatConstraints, this);
}
void ExportMSA2MSADialog::initSaveController(const QString& defaultFileName, const DocumentFormatId& defaultFormatId) {
SaveDocumentControllerConfig config;
config.defaultFileName = defaultFileName;
config.defaultFormatId = defaultFormatId;
config.fileDialogButton = fileButton;
config.fileNameEdit = fileNameEdit;
config.formatCombo = formatCombo;
config.parentWidget = this;
config.saveTitle = tr("Export alignment");
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::MULTIPLE_ALIGNMENT;
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
saveController = new SaveDocumentController(config, formatConstraints, this);
}
void ExportMSA2SequencesDialog::initSaveController() {
SaveDocumentControllerConfig config;
config.defaultFormatId = BaseDocumentFormats::FASTA;
config.fileDialogButton = fileButton;
config.fileNameEdit = fileNameEdit;
config.formatCombo = formatCombo;
config.parentWidget = this;
config.defaultFileName = defaultDir + "/" + defaultFileName + "." +AppContext::getDocumentFormatRegistry()->getFormatById(config.defaultFormatId)->getSupportedDocumentFileExtensions().first();
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::SEQUENCE;
formatConstraints.addFlagToExclude(DocumentFormatFlag_SingleObjectFormat);
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
saveController = new SaveDocumentController(config, formatConstraints, this);
}
void ExtractAssemblyRegionDialog::initSaveController() {
SaveDocumentControllerConfig config;
config.defaultFileName = settings->fileUrl;
config.defaultFormatId = settings->fileFormat;
config.fileDialogButton = filepathToolButton;
config.fileNameEdit = filepathLineEdit;
config.formatCombo = documentFormatComboBox;
config.parentWidget = this;
config.saveTitle = tr("Export Assembly Region");
DocumentFormatConstraints formatConstraints;
formatConstraints.supportedObjectTypes << GObjectTypes::ASSEMBLY;
formatConstraints.addFlagToSupport(DocumentFormatFlag_SupportWriting);
saveController = new SaveDocumentController(config, formatConstraints, this);
}