Task *QDTandemActor::getAlgorithmTask(const QVector<U2Region> &location) {
settings.minPeriod = cfg->getParameter(MIN_PERIOD_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
settings.maxPeriod = cfg->getParameter(MAX_PERIOD_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
settings.algo = (TSConstants::TSAlgo)cfg->getParameter(ALGORITHM_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
settings.minTandemSize = cfg->getParameter(MIN_TANDEM_SIZE_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
settings.minRepeatCount = cfg->getParameter(MIN_REPEAT_COUNT_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
settings.showOverlappedTandems = cfg->getParameter(SHOW_OVERLAPPED_TANDEMS_ATTRIBUTE)->getAttributeValueWithoutScript<bool>();
settings.nThreads = cfg->getParameter(N_THREADS_ATTRIBUTE)->getAttributeValueWithoutScript<int>();
const DNASequence& dnaSeq = scheme->getSequence();
Task *task = new Task(tr("TandemQDTask"), TaskFlag_NoRun);
foreach(const U2Region &r, location) {
FindTandemsTaskSettings localSettings(settings);
localSettings.seqRegion = r;
TandemFinder *subTask = new TandemFinder(localSettings, dnaSeq);
task->addSubTask(subTask);
subTasks.append(subTask);
}
void SettingsStore::copyDefaultSettings(const QString &fileName,
bool overwrite) {
// Locate config.ini in standard locations
QString settingsFile = QStandardPaths::locate(
QStandardPaths::DataLocation,
fileName,
QStandardPaths::LocateFile);
// If couldn't locate config.ini in DataLocation dirs,
// search in the binary path.
if (settingsFile.isEmpty()) {
settingsFile = QDir(QCoreApplication::applicationDirPath())
.filePath(fileName);
}
// Set final settings path
QString localSettingsFile = settings->fileName();
QString localSettingsDir = QFileInfo(localSettingsFile).absolutePath();
// Free settings file
delete settings;
// Create directory if it doesn't exist
QDir dir(localSettingsDir);
if (!dir.exists()) {
dir.mkpath(localSettingsDir);
}
// Copy settings
if (overwrite == true) {
// Remove if already exists
QFile localSettings(localSettingsFile);
if (localSettings.exists() == true) {
localSettings.remove();
}
}
QFile::copy(settingsFile, localSettingsFile);
// Reload settings
settings = new QSettings(QSettings::IniFormat,
QSettings::UserScope,
"visualino",
"visualino");
}
