@Override
protected void parseArgs(CommandLine cli, String[] args)
throws ParseException, ArrayIndexOutOfBoundsException, HelpException {
if (args.length == 5) {
super.parseArgs(cli, args);
orig_trace_name = args[1];
dest_trace_name = args[2];
minTime = Long.parseLong(args[3]);
maxTime = Long.parseLong(args[4]);
} else {
orig_store_file = new File(args[0]);
dest_store_file = new File(args[1]);
minTime = Long.parseLong(args[2]);
maxTime = Long.parseLong(args[3]);
force = cli.hasOption(forceOption);
}
}
@Override
protected void parseArgs(CommandLine cli, String[] args)
throws ParseException, ArrayIndexOutOfBoundsException, HelpException {
super.parseArgs(cli, args);
long tau = Long.parseLong(args[1]);
long delay = Long.parseLong(args[2]);
String lower_prefix =
cli.hasOption(lowerPrefixOption)
? cli.getOptionValue(lowerPrefixOption)
: LinkTrace.defaultName;
lower_name = ReachabilityTrace.defaultName(lower_prefix, tau, delay);
String upper_prefix =
cli.hasOption(upperPrefixOption)
? cli.getOptionValue(upperPrefixOption)
: lower_prefix + "_upper";
upper_name = ReachabilityTrace.defaultName(upper_prefix, tau, delay);
}
private void delete(String id) {
System.out.println();
final Long i = Long.valueOf(id);
if (monitorConfigService.delete(i)) {
System.out.println("Deleted monitor " + id);
} else {
System.out.println("Could not delete monitor " + id);
}
}
public void process(String[] params) {
CommandLine cmd;
try {
cmd = parser.parse(options, params);
} catch (org.apache.commons.cli.ParseException ex) {
throw new RuntimeException(ex);
}
if (cmd.hasOption(LIST)) {
list();
}
if (cmd.hasOption(DELETE)) {
delete(cmd.getOptionValue(DELETE));
}
if (cmd.hasOption(START)) {
long timeout = 10000;
long wait = 120000;
if (cmd.hasOption(WAIT)) {
wait = Long.parseLong(cmd.getOptionValue(WAIT));
}
if (cmd.hasOption(TIMEOUT)) {
timeout = Long.parseLong(cmd.getOptionValue(TIMEOUT));
}
pollService.start(wait, timeout);
}
if (cmd.hasOption(ALARMS)) {
Long threshold = 20L;
Integer minutes = 20;
if (cmd.hasOption(THRESHOLD)) {
threshold = Long.parseLong(cmd.getOptionValue(THRESHOLD));
}
if (cmd.hasOption(PERIOD)) {
minutes = Integer.parseInt(cmd.getOptionValue(PERIOD));
}
showAlarms(threshold, minutes);
}
}
private long parseLong(final String longValue) throws ParseException {
long value;
try {
value = Long.parseLong(longValue);
} catch (final NumberFormatException ex) {
throw new ParseException("Could not parse '" + longValue + "' as a long value.");
}
return value;
}
@Override
protected void parseArgs(CommandLine cli, String[] args) throws ParseException, HelpException {
super.parseArgs(cli, args);
graph_options.parse(cli);
ext_fmt.parse(cli);
if (cli.hasOption(maxTimeOption)) maxTime = Long.parseLong(cli.getOptionValue(maxTimeOption));
dtps = getTicsPerSecond(cli.getOptionValue(destTimeUnitOption, "s"));
if (dtps == null) throw new HelpException();
d_interval = Double.parseDouble(cli.getOptionValue(intervalOption, "1"));
}
private static long getTermCount(
SolrServer server,
Map<String, Integer> singleCountMap,
SearchTermAndList searchTermAndList,
Map<String, String> filterGrayList,
Map<String, String> keepGrayList) {
List<String[]> searchTerms = searchTermAndList.asListArray();
Integer searchTermCountObject =
searchTerms.size() != 1 ? null : singleCountMap.get(join(searchTerms.get(0), ","));
long searchTermCount = 0;
if (searchTermCountObject == null) {
// didn't find it in map, so need to go get count
SolrQuery query = new SolrQuery();
query.setQuery("+text:(*:*)");
query.addFilterQuery("+pub_date_year:[1993 TO 2013]");
query.setParam("fl", "pmid");
for (int i = 0; i < searchTerms.size(); i++) {
String term1 = "";
for (String aTermArray : searchTerms.get(i)) {
if (filterGrayList.containsKey(aTermArray.toLowerCase())) {
String filterTerms = filterGrayList.get(aTermArray.toLowerCase());
String[] splitFilterTerms = filterTerms.split(",");
term1 = term1 + "(+\"" + aTermArray + "\" -(";
for (String splitFilterTerm : splitFilterTerms) {
term1 = term1 + "\"" + splitFilterTerm + "\" ";
}
term1 = term1 + ")) ";
} else if (keepGrayList.containsKey(aTermArray.toLowerCase())) {
String keepTerms = keepGrayList.get(aTermArray.toLowerCase());
String[] splitKeepTerms = keepTerms.split(",");
term1 = term1 + "(+\"" + aTermArray + "\" +(";
for (String splitKeepTerm : splitKeepTerms) {
term1 = term1 + "\"" + splitKeepTerm + "\" ";
}
term1 = term1 + ")) ";
} else {
term1 = term1 + "\"" + aTermArray + "\" ";
}
}
query.addFilterQuery("+text:(" + term1 + ")");
}
try {
QueryResponse rsp = server.query(query);
searchTermCount = rsp.getResults().getNumFound();
singleCountMap.put(
join(searchTerms.get(0), ","), Integer.parseInt(Long.toString(searchTermCount)));
} catch (SolrServerException e) {
// exit out if there is an error
log.warning(e.getMessage());
System.exit(1);
}
} else {
searchTermCount = searchTermCountObject;
}
return searchTermCount;
}
