Merge branch 'stable-3.5'

* stable-3.5:
  Prepare 3.5.1-SNAPSHOT builds
  JGit v3.5.0.201409260305-r
  Fix PackWriterBitmapWalker handling non-existing uninteresting objects
  Enable maven site generation for jgit
  Generate javadocs as part of Maven site project reports
  Compare API changes with clirr against 3.4.1
  [cli] Use chaining credentials provider to enable .netrc
  Add chaining credentials provider
  [Java 8] Configure doclint to accept missing descriptions
  Do not use .netrc implicitly if no CredentialsProvider was set
  Prepare post 3.5.0-rc1 builds
  JGit 3.5.0.201409071800-rc1
  Fix the ls-remote command when there is no local repo

Change-Id: Iaa4485cac6ff9c7917380e89e12e416e0f52a557
Signed-off-by: Matthias Sohn <matthias.sohn@sap.com>

org.eclipse.jgit.console/src/org/eclipse/jgit/console/ConsoleCredentialsProvider.java

 import java.io.Console;
 
 import org.eclipse.jgit.errors.UnsupportedCredentialItem;
+import org.eclipse.jgit.transport.ChainingCredentialsProvider;
 import org.eclipse.jgit.transport.CredentialItem;
 import org.eclipse.jgit.transport.CredentialsProvider;
+import org.eclipse.jgit.transport.NetRCCredentialsProvider;
 import org.eclipse.jgit.transport.URIish;
 
 /** Interacts with the user during authentication by using the text console. */
 		if (c.cons == null)
 			throw new NoClassDefFoundError(
 					ConsoleText.get().noSystemConsoleAvailable);
-		CredentialsProvider.setDefault(c);
+		CredentialsProvider cp = new ChainingCredentialsProvider(
+				new NetRCCredentialsProvider(), c);
+		CredentialsProvider.setDefault(cp);
 	}
 
 	private final Console cons = System.console();

org.eclipse.jgit.pgm/src/org/eclipse/jgit/pgm/LsRemote.java

 		}
 	}
 
+	@Override
+	protected boolean requiresRepository() {
+		return false;
+	}
+
 	private void show(final AnyObjectId id, final String name)
 			throws IOException {
 		outw.print(id.name());

org.eclipse.jgit.test/tst/org/eclipse/jgit/internal/storage/file/PackWriterTest.java

 import java.io.File;
 import java.io.FileOutputStream;
 import java.io.IOException;
+import java.text.ParseException;
 import java.util.ArrayList;
 import java.util.Arrays;
 import java.util.Collections;
 		// shouldn't throw anything
 	}
 
+	/**
+	 * Try to pass non-existing object as uninteresting, with ignoring setting.
+	 * Use a repo with bitmap indexes because then PackWriter will use
+	 * PackWriterBitmapWalker which had problems with this situation.
+	 *
+	 * @throws IOException
+	 * @throws ParseException
+	 */
+	@Test
+	public void testIgnoreNonExistingObjectsWithBitmaps() throws IOException,
+			ParseException {
+		final ObjectId nonExisting = ObjectId
+				.fromString("0000000000000000000000000000000000000001");
+		new GC(db).gc();
+		createVerifyOpenPack(EMPTY_SET_OBJECT,
+				Collections.singleton(nonExisting), false, true, true);
+		// shouldn't throw anything
+	}
+
 	/**
 	 * Create pack basing on only interesting objects, then precisely verify
 	 * content. No delta reuse here.
 			final Set<ObjectId> uninterestings, final boolean thin,
 			final boolean ignoreMissingUninteresting)
 			throws MissingObjectException, IOException {
+		createVerifyOpenPack(interestings, uninterestings, thin,
+				ignoreMissingUninteresting, false);
+	}
+
+	private void createVerifyOpenPack(final Set<ObjectId> interestings,
+			final Set<ObjectId> uninterestings, final boolean thin,
+			final boolean ignoreMissingUninteresting, boolean useBitmaps)
+			throws MissingObjectException, IOException {
 		NullProgressMonitor m = NullProgressMonitor.INSTANCE;
 		writer = new PackWriter(config, db.newObjectReader());
+		writer.setUseBitmaps(useBitmaps);
 		writer.setThin(thin);
 		writer.setIgnoreMissingUninteresting(ignoreMissingUninteresting);
 		writer.preparePack(m, interestings, uninterestings);

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/pack/PackWriter.java

 			Set<? extends ObjectId> have)
 			throws MissingObjectException, IncorrectObjectTypeException,
 			IOException {
-		BitmapBuilder haveBitmap = bitmapWalker.findObjects(have, null);
+		BitmapBuilder haveBitmap = bitmapWalker.findObjects(have, null, true);
 		bitmapWalker.reset();
-		BitmapBuilder wantBitmap = bitmapWalker.findObjects(want, haveBitmap);
+		BitmapBuilder wantBitmap = bitmapWalker.findObjects(want, haveBitmap,
+				false);
 		BitmapBuilder needBitmap = wantBitmap.andNot(haveBitmap);
 
 		if (useCachedPacks && reuseSupport != null
 				walker = bitmapPreparer.newBitmapWalker();
 
 			BitmapBuilder bitmap = walker.findObjects(
-					Collections.singleton(cmit), null);
+					Collections.singleton(cmit), null, false);
 
 			if (last != null && cmit.isReuseWalker() && !bitmap.contains(last))
 				throw new IllegalStateException(MessageFormat.format(

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/pack/PackWriterBitmapWalker.java

 		this.pm = (pm == null) ? NullProgressMonitor.INSTANCE : pm;
 	}
 
-	BitmapBuilder findObjects(Set<? extends ObjectId> start, BitmapBuilder seen)
+	BitmapBuilder findObjects(Set<? extends ObjectId> start, BitmapBuilder seen, boolean ignoreMissingStart)
 			throws MissingObjectException, IncorrectObjectTypeException,
 			IOException {
 		final BitmapBuilder bitmapResult = bitmapIndex.newBitmapBuilder();
 
 		boolean marked = false;
 		for (ObjectId obj : start) {
-			if (!bitmapResult.contains(obj)) {
-				walker.markStart(walker.parseAny(obj));
-				marked = true;
+			try {
+				if (!bitmapResult.contains(obj)) {
+					walker.markStart(walker.parseAny(obj));
+					marked = true;
+				}
+			} catch (MissingObjectException e) {
+				if (ignoreMissingStart)
+					continue;
+				throw e;
 			}
 		}
 

org.eclipse.jgit/src/org/eclipse/jgit/transport/ChainingCredentialsProvider.java

+/*
+ * Copyright (C) 2014, Matthias Sohn <matthias.sohn@sap.com>
+ * and other copyright owners as documented in the project's IP log.
+ *
+ * This program and the accompanying materials are made available
+ * under the terms of the Eclipse Distribution License v1.0 which
+ * accompanies this distribution, is reproduced below, and is
+ * available at http://www.eclipse.org/org/documents/edl-v10.php
+ *
+ * All rights reserved.
+ *
+ * Redistribution and use in source and binary forms, with or
+ * without modification, are permitted provided that the following
+ * conditions are met:
+ *
+ * - Redistributions of source code must retain the above copyright
+ *   notice, this list of conditions and the following disclaimer.
+ *
+ * - Redistributions in binary form must reproduce the above
+ *   copyright notice, this list of conditions and the following
+ *   disclaimer in the documentation and/or other materials provided
+ *   with the distribution.
+ *
+ * - Neither the name of the Eclipse Foundation, Inc. nor the
+ *   names of its contributors may be used to endorse or promote
+ *   products derived from this software without specific prior
+ *   written permission.
+ *
+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND
+ * CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
+ * INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES
+ * OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ * ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR
+ * CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+ * SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
+ * NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+ * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+ * CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT,
+ * STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ * ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
+ * ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ */
+package org.eclipse.jgit.transport;
+
+import java.util.ArrayList;
+import java.util.Arrays;
+import java.util.List;
+
+import org.eclipse.jgit.errors.UnsupportedCredentialItem;
+
+/**
+ * A credentials provider chaining multiple credentials providers
+ *
+ * @since 3.5
+ */
+public class ChainingCredentialsProvider extends CredentialsProvider {
+
+	private List<CredentialsProvider> credentialProviders;
+
+	/**
+	 * Create a new chaining credential provider. This provider tries to
+	 * retrieve credentials from the chained credential providers in the order
+	 * they are given here. If multiple providers support the requested items
+	 * and have non-null credentials the first of them will be used.
+	 *
+	 * @param providers
+	 *            credential providers asked for credentials in the order given
+	 *            here
+	 */
+	public ChainingCredentialsProvider(CredentialsProvider... providers) {
+		this.credentialProviders = new ArrayList<CredentialsProvider>(
+				Arrays.asList(providers));
+		for (CredentialsProvider p : providers)
+			credentialProviders.add(p);
+	}
+
+	/**
+	 * @return {@code true} if any of the credential providers in the list is
+	 *         interactive, otherwise {@code false}
+	 * @see org.eclipse.jgit.transport.CredentialsProvider#isInteractive()
+	 */
+	@Override
+	public boolean isInteractive() {
+		for (CredentialsProvider p : credentialProviders)
+			if (p.isInteractive())
+				return true;
+		return false;
+	}
+
+	/**
+	 * @return {@code true} if any of the credential providers in the list
+	 *         supports the requested items, otherwise {@code false}
+	 * @see org.eclipse.jgit.transport.CredentialsProvider#supports(org.eclipse.jgit.transport.CredentialItem[])
+	 */
+	@Override
+	public boolean supports(CredentialItem... items) {
+		for (CredentialsProvider p : credentialProviders)
+			if (p.supports(items))
+				return true;
+		return false;
+	}
+
+	/**
+	 * Populates the credential items with the credentials provided by the first
+	 * credential provider in the list which populates them with non-null values
+	 *
+	 * @return {@code true} if any of the credential providers in the list
+	 *         supports the requested items, otherwise {@code false}
+	 * @see org.eclipse.jgit.transport.CredentialsProvider#supports(org.eclipse.jgit.transport.CredentialItem[])
+	 */
+	@Override
+	public boolean get(URIish uri, CredentialItem... items)
+			throws UnsupportedCredentialItem {
+		for (CredentialsProvider p : credentialProviders) {
+			if (p.supports(items)) {
+				p.get(uri, items);
+				if (isAnyNull(items))
+					continue;
+				return true;
+			}
+		}
+		return false;
+	}
+
+	private boolean isAnyNull(CredentialItem... items) {
+		for (CredentialItem i : items)
+			if (i == null)
+				return true;
+		return false;
+	}
+}

org.eclipse.jgit/src/org/eclipse/jgit/transport/Transport.java

 	public static Transport open(final Repository local, final String remote,
 			final Operation op) throws NotSupportedException,
 			URISyntaxException, TransportException {
-		final RemoteConfig cfg = new RemoteConfig(local.getConfig(), remote);
-		if (doesNotExist(cfg))
-			return open(local, new URIish(remote), null);
-		return open(local, cfg, op);
+		if (local != null) {
+			final RemoteConfig cfg = new RemoteConfig(local.getConfig(), remote);
+			if (doesNotExist(cfg))
+				return open(local, new URIish(remote), null);
+			return open(local, cfg, op);
+		} else
+			return open(new URIish(remote));
+
 	}
 
 	/**

org.eclipse.jgit/src/org/eclipse/jgit/transport/TransportHttp.java

 		}
 		http = local.getConfig().get(HTTP_KEY);
 		proxySelector = ProxySelector.getDefault();
-
-		if (getCredentialsProvider() == null)
-			setCredentialsProvider(new NetRCCredentialsProvider());
 	}
 
 	/**