Index: testsrc/org/aspectj/tools/ajc/AjcTestCase.java
===================================================================
RCS file: /home/technology/org.aspectj/modules/org.aspectj.ajdt.core/testsrc/org/aspectj/tools/ajc/AjcTestCase.java,v
retrieving revision 1.29
diff -u -r1.29 AjcTestCase.java
--- testsrc/org/aspectj/tools/ajc/AjcTestCase.java	21 Dec 2005 11:47:41 -0000	1.29
+++ testsrc/org/aspectj/tools/ajc/AjcTestCase.java	3 May 2006 15:46:00 -0000
@@ -558,7 +558,8 @@
 		lastRunResult = null;
 		StringBuffer cp = new StringBuffer();
 		if (classpath != null) {
-			cp.append(classpath);
+			// allow replacing this special variable, rather than copying all files to allow tests of jars that don't end in .jar
+			cp.append(substituteSandbox(classpath));
 			cp.append(File.pathSeparator);
 		}
 		cp.append(ajc.getSandboxDirectory().getAbsolutePath());
@@ -622,6 +623,10 @@
 		}
 		return lastRunResult;
 	}
+
+	private String substituteSandbox(String classpath) {
+		return classpath.replace("$sandbox", ajc.getSandboxDirectory().getAbsolutePath());
+	}
     
     /**
      * Any central pre-processing of args.
@@ -639,6 +644,7 @@
         		args[i] = adaptToPlatform(args[i]);
             if ("-classpath".equals(args[i])) {
                 cpIndex = i;
+                args[i+1] = substituteSandbox(args[i+1]);
                 String next = args[i+1];
                 hasruntime = ((null != next) 
                         && (-1 != next.indexOf("aspectjrt.jar")));
Index: src/org/aspectj/ajdt/ajc/BuildArgParser.java
===================================================================
RCS file: /home/technology/org.aspectj/modules/org.aspectj.ajdt.core/src/org/aspectj/ajdt/ajc/BuildArgParser.java,v
retrieving revision 1.51
diff -u -r1.51 BuildArgParser.java
--- src/org/aspectj/ajdt/ajc/BuildArgParser.java	9 Mar 2006 17:25:44 -0000	1.51
+++ src/org/aspectj/ajdt/ajc/BuildArgParser.java	3 May 2006 15:45:59 -0000
@@ -397,14 +397,14 @@
 					while (st.hasMoreTokens()) {
 						String filename = st.nextToken();
 						File file = makeFile(filename);
-						if (file.exists() && FileUtil.hasZipSuffix(filename)) {
+						if (FileUtil.isZipFile(file)) {
 							inPath.add(file);    
 						} else {
 							if (file.isDirectory()) {
 								inPath.add(file);
 							} else 
 		            		
-							showError("bad inpath component: " + filename);  
+							showWarning("skipping missing, empty or corrupt inpath entry: " + filename);  
 						}
 					}
 					buildConfig.setInPath(inPath);
@@ -420,7 +420,7 @@
 		            while (st.hasMoreTokens()) {
 		            	String filename = st.nextToken();
 		            	File jarFile = makeFile(filename);
-		            	if (jarFile.exists() && FileUtil.hasZipSuffix(filename)) {
+		            	if (FileUtil.isZipFile(jarFile)) {
 			            	buildConfig.getInJars().add(jarFile);    
 		            	} else {
 		            		File dirFile = makeFile(filename);
@@ -428,7 +428,7 @@
 		            			buildConfig.getInJars().add(dirFile);
 		            		} else 
 		            		
-                            showError("bad injar: " + filename);  
+                            showWarning("skipping missing, empty or corrupt injar: " + filename);  
 		            	}
 		            }
 					
@@ -442,10 +442,10 @@
 		            while (st.hasMoreTokens()) {
 		            	String filename = st.nextToken();
 		            	File jarFile = makeFile(filename);
-                        if (jarFile.exists() && (FileUtil.hasZipSuffix(filename) || jarFile.isDirectory())) {
+                        if (FileUtil.isZipFile(jarFile) || jarFile.isDirectory()) {
 			            	buildConfig.getAspectpath().add(jarFile);    
 		            	} else {
-                            showError("bad aspectpath: " + filename);
+                            showWarning("skipping missing, empty or corrupt aspectpath entry: " + filename);  
 		            	}
 		            }
 					
@@ -476,7 +476,7 @@
 				if (args.size() > nextArgIndex) {
 //					buildConfig.getAjOptions().put(AjCompilerOptions.OPTION_OutJAR, CompilerOptions.GENERATE);
 					File jarFile = makeFile(((ConfigParser.Arg)args.get(nextArgIndex)).getValue());
-					if (FileUtil.hasZipSuffix(jarFile)) {
+					if (!jarFile.isDirectory()) {
 						try {
 							if (!jarFile.exists()) {
                                 jarFile.createNewFile();
Index: testsrc/org/aspectj/ajdt/ajc/BuildArgParserTestCase.java
===================================================================
RCS file: /home/technology/org.aspectj/modules/org.aspectj.ajdt.core/testsrc/org/aspectj/ajdt/ajc/BuildArgParserTestCase.java,v
retrieving revision 1.21
diff -u -r1.21 BuildArgParserTestCase.java
--- testsrc/org/aspectj/ajdt/ajc/BuildArgParserTestCase.java	7 Nov 2005 10:53:23 -0000	1.21
+++ testsrc/org/aspectj/ajdt/ajc/BuildArgParserTestCase.java	3 May 2006 15:45:59 -0000
@@ -115,6 +115,7 @@
 		String FILE_PATH =   "@" + TEST_DIR + "configWithClasspathExtdirsBootCPArgs.lst";
 		AjBuildConfig config = genBuildConfig(new String[] { FILE_PATH }, messageWriter);
 		List classpath = config.getFullClasspath();
+		// note that empty or corrupt jars are NOT included in the classpath
 		// should have three entries, resolved relative to location of .lst file
 		assertEquals("Three entries in classpath",3,classpath.size());
 		Iterator cpIter = classpath.iterator();
@@ -507,6 +508,71 @@
 		assertEquals("Wrong outxml","custom/aop.xml",config.getOutxmlName());
 		assertTrue("Following option currupted",config.getShowWeavingInformation());
 	}
+
+	public void testNonstandardInjars() {
+		AjBuildConfig config = setupNonstandardPath("-injars");
+		assertEquals("bad path: " + config.getInJars(), 3, config.getInJars().size());
+	}
+	
+	public void testNonstandardInpath() {
+		AjBuildConfig config = setupNonstandardPath("-inpath");
+		assertEquals("bad path: " + config.getInpath(), 3, config.getInpath().size());
+	}
+	
+	public void testNonstandardAspectpath() {
+		AjBuildConfig config = setupNonstandardPath("-aspectpath");
+		assertEquals("bad path: " + config.getAspectpath(), 3, config.getAspectpath().size());
+	}
+
+	public void testNonstandardClasspath() throws IOException {
+		AjBuildConfig config = setupNonstandardPath("-classpath");
+		checkPathSubset(config.getClasspath());
+	}
+	
+	public void testNonstandardBootpath() throws IOException {
+		AjBuildConfig config = setupNonstandardPath("-bootclasspath");
+		checkPathSubset(config.getBootclasspath());
+	}
+	
+	private void checkPathSubset(List path) throws IOException {
+		String files[] = { "aspectjJar.file", "jarChild", "parent.zip" };
+		for (int i = 0; i < files.length; i++) {
+			File file = new File(NONSTANDARD_JAR_DIR+files[i]);
+			assertTrue("bad path: " + path, path.contains(file.getCanonicalPath()));			
+		}
+	}
+
+	public void testNonstandardOutjar() {
+		final String OUT_JAR = NONSTANDARD_JAR_DIR + File.pathSeparator + "outputFile";
+		
+		AjBuildConfig config = genBuildConfig(new String[] { 
+			"-outjar", OUT_JAR }, 
+			messageWriter);
+
+		File newJar = new File(OUT_JAR);
+		assertEquals(
+			getCanonicalPath(newJar),config.getOutputJar().getAbsolutePath()); 
+	
+		newJar.delete();
+	}
+
+	public void testNonstandardOutputDirectorySetting() throws InvalidInputException {
+		String filePath = AjdtAjcTests.TESTDATA_PATH + File.separator + "ajc.jar" + File.separator;
+		File testDir = new File(filePath);
+		AjBuildConfig config = genBuildConfig(new String[] {  "-d", filePath }, messageWriter);
+		
+		assertEquals(testDir.getAbsolutePath(), config.getOutputDir().getAbsolutePath());	
+	}
+	
+	private static final String NONSTANDARD_JAR_DIR = AjdtAjcTests.TESTDATA_PATH + "/OutjarTest/folder.jar/";
+	
+	private AjBuildConfig setupNonstandardPath(String pathType) {
+		String NONSTANDARD_PATH_ENTRY = NONSTANDARD_JAR_DIR+"aspectjJar.file" + File.pathSeparator + NONSTANDARD_JAR_DIR+"aspectJar.file" + File.pathSeparator + NONSTANDARD_JAR_DIR+"jarChild" + File.pathSeparator + NONSTANDARD_JAR_DIR+"parent.zip";		
+		
+		return genBuildConfig(new String[] { 
+			pathType, NONSTANDARD_PATH_ENTRY }, 
+			messageWriter);
+	}
 	
 	protected void setUp() throws Exception {
 		super.setUp();