void PhylipPlugin::processCmdlineOptions() {
CMDLineRegistry *cmdLineRegistry = AppContext::getCMDLineRegistry();
CHECK(cmdLineRegistry->hasParameter(PhylipCmdlineTask::PHYLIP_CMDLINE), );
CHECK(cmdLineRegistry->hasParameter(CmdlineInOutTaskRunner::OUT_DB_ARG), );
CHECK(cmdLineRegistry->hasParameter(CmdlineInOutTaskRunner::IN_DB_ARG), );
CHECK(cmdLineRegistry->hasParameter(CmdlineInOutTaskRunner::IN_ID_ARG), );
CreatePhyTreeSettings settings = fetchSettings();
QString outDbString = cmdLineRegistry->getParameterValue(CmdlineInOutTaskRunner::OUT_DB_ARG);
QString inDbString = cmdLineRegistry->getParameterValue(CmdlineInOutTaskRunner::IN_DB_ARG);
QString idString = cmdLineRegistry->getParameterValue(CmdlineInOutTaskRunner::IN_ID_ARG);
U2OpStatus2Log os;
U2DbiRef outDbiRef = CmdlineInOutTaskRunner::parseDbiRef(outDbString, os);
CHECK_OP(os, );
U2DbiRef inDbiRef = CmdlineInOutTaskRunner::parseDbiRef(inDbString, os);
CHECK_OP(os, );
U2DataId dataId = CmdlineInOutTaskRunner::parseDataId(idString, inDbiRef, os);
CHECK_OP(os, );
Task *t = new PhylipTask(U2EntityRef(inDbiRef, dataId), outDbiRef, settings);
connect(AppContext::getPluginSupport(), SIGNAL(si_allStartUpPluginsLoaded()), new TaskStarter(t), SLOT(registerTask()));
}
void ConsoleLogDriver::setLogSettings() {
CMDLineRegistry *cmd = AppContext::getCMDLineRegistry();
if(cmd->hasParameter(CMDLineCoreOptions::LOG_FORMAT)) {
QString logFormat = cmd->getParameterValue(CMDLineCoreOptions::LOG_FORMAT);
settings.showLevel = logFormat.contains("L", Qt::CaseSensitive);
settings.showCategory = logFormat.contains("C", Qt::CaseSensitive);
settings.showDate = logFormat.contains(QRegExp("[M{2}Y{2,4}d{2}H{2}m{2}s{2}z{3}]"));
settings.logPattern = logFormat;
} else if(cmd->hasParameter( LOG_SHOW_DATE_CMD_OPTION ) || //old options
cmd->hasParameter( LOG_SHOW_LEVEL_CMD_OPTION ) ||
cmd->hasParameter( LOG_SHOW_CATEGORY_CMD_OPTION )){
settings.logPattern = "";
if (cmd->hasParameter( LOG_SHOW_DATE_CMD_OPTION )) {
settings.showDate = true;
settings.logPattern += "[hh:mm]";
}
if (cmd->hasParameter( LOG_SHOW_LEVEL_CMD_OPTION )) {
settings.showLevel = true;
settings.logPattern += "[L]";
}
if (cmd->hasParameter( LOG_SHOW_CATEGORY_CMD_OPTION )) {
settings.showCategory = true;
settings.logPattern += "[C]";
}
} else{
settings.logPattern = "[hh:mm][L]";
}
QString logLevel;
if(cmd->hasParameter(CMDLineCoreOptions::LOG_LEVEL)){
logLevel = cmd->getParameterValue(CMDLineCoreOptions::LOG_LEVEL);
} else if( cmd->hasParameter( LOG_LEVEL_NONE_CMD_OPTION ) ){
logLevel = "NONE";
} else if(cmd->hasParameter( LOG_LEVEL_ERROR_CMD_OPTION )) {
logLevel = "ERROR";
}else if( cmd->hasParameter( LOG_LEVEL_INFO_CMD_OPTION ) ) {
logLevel = "INFO";
} else if( cmd->hasParameter( LOG_LEVEL_DETAILS_CMD_OPTION ) ) {
logLevel = "DETAILS";
} else if( cmd->hasParameter( LOG_LEVEL_TRACE_CMD_OPTION ) ) {
logLevel = "TRACE";
}else {
logLevel = "ERROR";
}
LogServer* ls = LogServer::getInstance();
const QStringList& categoryList = ls->getCategories();
logLevel = logLevel.remove(" ");
QStringList cats = logLevel.split(QRegExp("[,=]"));
LogCategories::init();
if(cats.size() == 1) {
int minLevel = 10;
for (int i=0; i<LogLevel_NumLevels; i++) {
if(getLevelName((LogLevel)i) == logLevel) {
minLevel = i;
}
}
for (int i=0; i<LogLevel_NumLevels; i++) {
settings.activeLevelGlobalFlag[i] = (i >= minLevel);
}
foreach(const QString &str, categoryList) {
LoggerSettings cs;
cs.categoryName = str;
for (int i=0; i<LogLevel_NumLevels; i++) {
cs.activeLevelFlag[i] = (i >= minLevel);
}
settings.categories[str] = cs;
}
