Java CmdLineParser.IllegalOptionValueException方法代码示例

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
protected Object parseValue( String arg, Locale locale )
    throws CmdLineParser.IllegalOptionValueException {
    try {
        DateFormat dateFormat =
            DateFormat.getDateInstance(DateFormat.SHORT, locale);
        return dateFormat.parse(arg);
    }
    catch (ParseException e) {
        throw new CmdLineParser.IllegalOptionValueException(this, arg);
    }
}
 

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
public void testBadFormat() throws Exception {
	CmdLineParser parser = new CmdLineParser();
	CmdLineParser.Option size = parser.addIntegerOption('s', "size");
	try {
		parser.parse(new String[] { "--size=blah" });
		fail("Expected IllegalOptionValueException");
	} catch (CmdLineParser.IllegalOptionValueException e) {
		// pass
	}
}
 

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
public void testMissingValueForStringOption() throws Exception {
	CmdLineParser parser = new CmdLineParser();
	parser.addBooleanOption('v', "verbose");
	parser.addStringOption('c', "config");

	try {
		parser.parse(new String[] {"-v", "-c"});
		fail();
	} catch (CmdLineParser.IllegalOptionValueException e) {
	}
}
 

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
public void testIllegalCustomOption() throws Exception {
    CmdLineParser parser = new CmdLineParser();
    CmdLineParser.Option date =
        parser.addOption(new ShortDateOption('d', "date"));
    try {
        parser.parse(new String[]{"-d", "foobar"}, Locale.US);
        fail("Expected IllegalOptionValueException");
    }
    catch (CmdLineParser.IllegalOptionValueException e) {
        //pass
    }
}
 

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
public static void main(String[] argv) throws CmdLineParser.UnknownOptionException, CmdLineParser.IllegalOptionValueException {
    Globals.setHeadless(true);

    if (argv.length == 0 || argv[0].equals("-h") || argv[0].equals("--help") || argv[0].equals("-V") || argv[0].equals("--version")) {
        CLTFactory.generalUsage();
        System.exit(0);
    }

    String cmdName = argv[0].toLowerCase();

    CmdLineParser parser = new CommandLineParser();
    if (CommandLineParserForJuicer.isJuicerCommand(cmdName)) {
        parser = new CommandLineParserForJuicer();
        HiCGlobals.useCache = false; //TODO until memory leak cleared
    }
    boolean help;
    boolean version;
    parser.parse(argv);

    if (CommandLineParserForJuicer.isJuicerCommand(cmdName)) {
        HiCGlobals.printVerboseComments = ((CommandLineParserForJuicer)parser).getVerboseOption();
        HiCGlobals.isLegacyOutputPrintingEnabled = ((CommandLineParserForJuicer) parser).getLegacyOutputOption();
        help = ((CommandLineParserForJuicer)parser).getHelpOption();
        version =  ((CommandLineParserForJuicer)parser).getVersionOption();
    }
    else {
        HiCGlobals.printVerboseComments = ((CommandLineParser)parser).getVerboseOption();
        help = ((CommandLineParser)parser).getHelpOption();
        version = ((CommandLineParser)parser).getVersionOption();
        if (((CommandLineParser)parser).getAllPearsonsOption()) {
            HiCGlobals.MAX_PEARSON_ZOOM = 1;
        }
    }
    String[] args = parser.getRemainingArgs();

    JuiceboxCLT instanceOfCLT;
    String cmd = "";
    if (args.length == 0) {
        instanceOfCLT = null;
    } else {
        cmd = args[0];
        instanceOfCLT = CLTFactory.getCLTCommand(cmd);
    }
    if (instanceOfCLT != null) {
        if (version) {
            System.out.println("Juicer tools version " + HiCGlobals.versionNum);
        }
        if (args.length == 1 || help) {
            instanceOfCLT.printUsageAndExit();
        }

        instanceOfCLT.readArguments(args, parser);
        instanceOfCLT.run();
    } else {
        throw new RuntimeException("Unknown command: " + cmd);
    }
}
 

import jargs.gnu.CmdLineParser; //导入方法依赖的package包/类
public static void main(String[] argv) throws IOException, CmdLineParser.UnknownOptionException, CmdLineParser.IllegalOptionValueException {

        String hicFilePaths="/Users/nathanielmusial/CS_Projects/SMART_Projects/Testing_Files/HiC/gm12878_intra_nofrag_30.hic";//.Hic
        String PeaksFile="/Users/nathanielmusial/CS_Projects/SMART_Projects/Testing_Files/Other/GM12878_loop_list.txt";//.txt
        String SaveFolderPath="/Users/nathanielmusial/CS_Projects/SMART_Projects/Output";

        /*
        APAvsDistance test= new APAvsDistance();
        test.run();

        */


        String seqPath = "/Users/muhammadsaadshamim/Desktop/FractalArt/Time_Sequence";
        String newPath = "/Users/muhammadsaadshamim/Desktop/FractalArt/temp_sim_merged_nodups.txt";

        //writeMergedNoDupsFromTimeSeq(seqPath, newPath);

        String[] ll51231123 = {"pre", "-r", "1000,500,100,50,10",
                newPath,
                "/Users/muhammadsaadshamim/Desktop/FractalArt/sim.hic",
                "/Users/muhammadsaadshamim/Desktop/FractalArt/art.chrom.sizes"};

        HiCTools.main(ll51231123);


        /*
        String[] ll51231123 = {"motifs",
                "hg19",
                "/Users/muhammadsaadshamim/Desktop/test_motifs/gm12878_2",
                "/Users/muhammadsaadshamim/Desktop/test_motifs/loops_clean.txt"};


        HiCTools.main(ll51231123);
*/

    }