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Merge pull request #42 from broadinstitute/yf_add_version_information_CL_option

This commit is contained in:
MauricioCarneiro 2013-02-15 21:39:33 -08:00
parent bbfbe1bc26 aa99a5f47c
commit 307f709cc7
1 changed files with 28 additions and 0 deletions
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28
public/java/src/org/broadinstitute/sting/commandline/CommandLineProgram.java
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@ -62,6 +62,11 @@ public abstract class CommandLineProgram {
@Argument(fullName = "help", shortName = "h", doc = "Generate this help message", required = false) @Argument(fullName = "help", shortName = "h", doc = "Generate this help message", required = false)
public Boolean help = false; public Boolean help = false;
/** This is used to indicate if they've asked for the version information */
@Argument(fullName = "version", shortName = "version", doc ="Output version information", required = false)
public Boolean version = false;
/** our logging output patterns */ /** our logging output patterns */
private static final String patternString = "%-5p %d{HH:mm:ss,SSS} %C{1} - %m %n"; private static final String patternString = "%-5p %d{HH:mm:ss,SSS} %C{1} - %m %n";
@ -199,6 +204,9 @@ public abstract class CommandLineProgram {
parser.addArgumentSource(clp.getArgumentSourceName(argumentSource), argumentSource); parser.addArgumentSource(clp.getArgumentSourceName(argumentSource), argumentSource);
parsedArgs = parser.parse(args); parsedArgs = parser.parse(args);
if (isVersionPresent(parser))
printVersionAndExit();
if (isHelpPresent(parser)) if (isHelpPresent(parser))
printHelpAndExit(clp, parser); printHelpAndExit(clp, parser);
@ -315,6 +323,26 @@ public abstract class CommandLineProgram {
System.exit(0); System.exit(0);
} }
/**
* Do a cursory search for the argument "version".
*
* @param parser Parser
*
* @return True if version is present; false otherwise.
*/
private static boolean isVersionPresent(ParsingEngine parser) {
return parser.isArgumentPresent("version");
}
/**
* Print help and exit.
*/
private static void printVersionAndExit() {
System.out.println(CommandLineGATK.getVersionNumber().toString());
System.exit(0);
}
private static void errorPrintf(String format, Object... s) { private static void errorPrintf(String format, Object... s) {
String formatted = String.format(format, s); String formatted = String.format(format, s);