/* * Copyright (c) 2010 The Broad Institute * * Permission is hereby granted, free of charge, to any person * obtaining a copy of this software and associated documentation * files (the "Software"), to deal in the Software without * restriction, including without limitation the rights to use, * copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the * Software is furnished to do so, subject to the following * conditions: * * The above copyright notice and this permission notice shall be * included in all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES * OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND * NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT * HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, * WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING * FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR * THE USE OR OTHER DEALINGS IN THE SOFTWARE. */ package org.broadinstitute.sting.commandline; import org.broadinstitute.sting.utils.exceptions.ReviewedStingException; import java.util.Collection; import java.util.HashSet; import java.util.Iterator; import java.util.Set; /** * A collection of argument definitions. */ public class ArgumentDefinitions implements Iterable { /** * Backing data set of argument stored by short name and long name. */ private Set argumentDefinitions = new HashSet(); /** * The groupings of argument definitions. Used mainly for help output. */ private Set argumentDefinitionGroups = new HashSet(); /** * Adds an argument to the this argument definition list. * @param argumentDefinitionGroup The group of arguments to add. */ public void add( ArgumentDefinitionGroup argumentDefinitionGroup ) { for( ArgumentDefinition definition: argumentDefinitionGroup ) { // Do some basic validation before adding the definition. if( definition.fullName.length() == 0 ) throw new IllegalArgumentException( "Argument cannot have 0-length fullname." ); if( hasArgumentDefinition( definition.fullName, FullNameDefinitionMatcher ) ) throw new ReviewedStingException("Duplicate definition of argument with full name: " + definition.fullName); if( definition.shortName != null && hasArgumentDefinition( definition.shortName, ShortNameDefinitionMatcher ) ) throw new ReviewedStingException("Duplicate definition of argument with short name: " + definition.shortName); argumentDefinitions.add( definition ); } // Find an existing argument definition group with this name. // If one exists, merge this group into the other. Iterator definitionGroupIterator = argumentDefinitionGroups.iterator(); while( definitionGroupIterator.hasNext() ) { ArgumentDefinitionGroup candidate = definitionGroupIterator.next(); if( candidate.groupNameMatches(argumentDefinitionGroup) ) { argumentDefinitionGroup = candidate.merge(argumentDefinitionGroup); definitionGroupIterator.remove(); } } // Otherwise, add the new group. argumentDefinitionGroups.add( argumentDefinitionGroup ); } /** * Are there any argument definitions matching the given property? * @param property Property to find. * @param matcher Method of matching a given property. * @return True if one or multiple argument definitions match; false otherwise. */ public boolean hasArgumentDefinition( Object property, DefinitionMatcher matcher ) { return findArgumentDefinitions( property, matcher ).size() > 0; } /** * Find the given definition matching this property. * @param property Property to find. * @param matcher Method of matching a given property. * @return The ArgumentDefinition matching the given property. Null if none matches. * @throws IllegalArgumentException if multiple arguments match this definition. */ public ArgumentDefinition findArgumentDefinition( Object property, DefinitionMatcher matcher ) { Collection selectedDefinitions = findArgumentDefinitions( property, matcher ); if( selectedDefinitions.size() > 1 ) throw new IllegalArgumentException("Multiple argument definitions match the selected property: " + property); if( selectedDefinitions.size() == 0 ) return null; return selectedDefinitions.iterator().next(); } /** * Find all argument definitions matching a certain category. * @param property Property to inspect. * @param matcher Test to see whether property matches. * @return All argument definitions matching a certain object. */ public Collection findArgumentDefinitions( Object property, DefinitionMatcher matcher ) { Set selectedArgumentDefinitions = new HashSet(); for( ArgumentDefinition argumentDefinition: argumentDefinitions ) { if( matcher.matches( argumentDefinition, property ) ) selectedArgumentDefinitions.add( argumentDefinition ); } return selectedArgumentDefinitions; } /** * Return a list of the available argument groups. * @return All the argument groups that have been added. */ public Collection getArgumentDefinitionGroups() { return argumentDefinitionGroups; } /** * Iterates through all command-line arguments. * @return an iterator over command-line arguments. */ public Iterator iterator() { return argumentDefinitions.iterator(); } /** * Match the full name of a definition. */ static DefinitionMatcher FullNameDefinitionMatcher = new DefinitionMatcher() { public boolean matches( ArgumentDefinition definition, Object key ) { if( definition.fullName == null ) return key == null; else return definition.fullName.equals( key ); } }; /** * Match the short name of a definition. */ static DefinitionMatcher ShortNameDefinitionMatcher = new DefinitionMatcher() { public boolean matches( ArgumentDefinition definition, Object key ) { if( definition.shortName == null ) return key == null; else return definition.shortName.equals( key ); } }; /** * Find all required definitions. */ static DefinitionMatcher RequiredDefinitionMatcher = new DefinitionMatcher() { public boolean matches( ArgumentDefinition definition, Object key ) { if( !(key instanceof Boolean) ) throw new IllegalArgumentException("RequiredDefinitionMatcher requires boolean key"); return definition.required == (Boolean)key; } }; static DefinitionMatcher VerifiableDefinitionMatcher = new DefinitionMatcher() { public boolean matches( ArgumentDefinition definition, Object key ) { return definition.validation != null; } }; } /** * A Comparator-esque interface for finding argument definitions within a collection. */ interface DefinitionMatcher { /** * Does the given definition match the provided key? * @param definition The definition to inspect. * @param key The value to match. * @return True if the key matches the definition, false otherwise. */ boolean matches( ArgumentDefinition definition, Object key ); }