
org.broadinstitute.hellbender.CommandLineArgumentValidatorMain Maven / Gradle / Ivy
The newest version!
package org.broadinstitute.hellbender;
import org.broadinstitute.hellbender.cmdline.CommandLineProgram;
import org.broadinstitute.hellbender.cmdline.CommandLineArgumentValidator;
import java.util.Arrays;
/**
* Main class to be used as an alternative entry point to {@code org.broadinstitute.hellbender.Main} for performing
* command line validation only rather than executing the tool. Used only for testing. Failures manifest as exceptions.
*/
public class CommandLineArgumentValidatorMain extends Main {
// The main entry point to run GATK tools in command line validation mode only.
public static void main(final String[] argv) {
new CommandLineArgumentValidatorMain().validateCommandLine(argv);
}
/**
* Call the command line program (specified in the input arguments) in command line validation mode only.
* @param argv the raw arguments, including the name of the target tool, to run in command line validation mode
*/
public void validateCommandLine(final String[] argv) {
final CommandLineProgram program = setupConfigAndExtractProgram(argv, getPackageList(), getClassList(), getCommandLineName());
final String[] mainArgs = Arrays.copyOfRange(argv, 1, argv.length);
new CommandLineArgumentValidator(program).instanceMain(mainArgs);
}
}
© 2015 - 2025 Weber Informatics LLC | Privacy Policy