Merge "reftable: split off generic code from DFS code"

org.eclipse.jgit.http.test/src/org/eclipse/jgit/http/test/RefsUnreadableInMemoryRepository.java

@@ -43,10 +43,14 @@
 package org.eclipse.jgit.http.test;
 
 import java.io.IOException;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
 
 import org.eclipse.jgit.internal.storage.dfs.DfsRepositoryDescription;
 import org.eclipse.jgit.internal.storage.dfs.InMemoryRepository;
-import org.eclipse.jgit.internal.storage.reftable.Reftable;
+import org.eclipse.jgit.lib.ObjectId;
+import org.eclipse.jgit.lib.Ref;
 import org.eclipse.jgit.lib.RefDatabase;
 
 /**
@@ -82,12 +86,43 @@ class RefsUnreadableInMemoryRepository extends InMemoryRepository {
 	}
 
 	private class RefsUnreadableRefDatabase extends MemRefDatabase {
+
+		/** {@inheritDoc} */
+		@Override
+		public Ref exactRef(String name) throws IOException {
+			if (failing) {
+				throw new IOException("disk failed, no refs found");
+			}
+			return super.exactRef(name);
+		}
+
+		/** {@inheritDoc} */
+		@Override
+		public Map<String, Ref> getRefs(String prefix) throws IOException {
+			if (failing) {
+				throw new IOException("disk failed, no refs found");
+			}
+
+			return super.getRefs(prefix);
+		}
+
+		/** {@inheritDoc} */
+		@Override
+		public List<Ref> getRefsByPrefix(String prefix) throws IOException {
+			if (failing) {
+				throw new IOException("disk failed, no refs found");
+			}
+
+			return super.getRefsByPrefix(prefix);
+		}
+
+		/** {@inheritDoc} */
 		@Override
-		protected Reftable reader() throws IOException {
+		public Set<Ref> getTipsWithSha1(ObjectId id) throws IOException {
 			if (failing) {
 				throw new IOException("disk failed, no refs found");
 			}
-			return super.reader();
+			return super.getTipsWithSha1(id);
 		}
 	}
 }

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/dfs/DfsReftableBatchRefUpdate.java

@@ -0,0 +1,196 @@
+/*
+ * Copyright (C) 2019, Google Inc.
+ * 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.internal.storage.dfs;
+
+import org.eclipse.jgit.internal.storage.dfs.DfsObjDatabase.PackSource;
+import org.eclipse.jgit.internal.storage.io.BlockSource;
+import org.eclipse.jgit.internal.storage.pack.PackExt;
+import org.eclipse.jgit.internal.storage.reftable.ReftableBatchRefUpdate;
+import org.eclipse.jgit.internal.storage.reftable.ReftableCompactor;
+import org.eclipse.jgit.internal.storage.reftable.ReftableConfig;
+import org.eclipse.jgit.internal.storage.reftable.ReftableReader;
+import org.eclipse.jgit.internal.storage.reftable.ReftableWriter;
+import org.eclipse.jgit.lib.Ref;
+import org.eclipse.jgit.transport.ReceiveCommand;
+
+import java.io.ByteArrayOutputStream;
+import java.io.IOException;
+import java.io.OutputStream;
+import java.util.ArrayList;
+import java.util.Collections;
+import java.util.List;
+import java.util.Set;
+
+import static org.eclipse.jgit.internal.storage.pack.PackExt.REFTABLE;
+
+/**
+ * {@link org.eclipse.jgit.lib.BatchRefUpdate} for
+ * {@link org.eclipse.jgit.internal.storage.dfs.DfsReftableDatabase}.
+ */
+public class DfsReftableBatchRefUpdate extends ReftableBatchRefUpdate {
+	private static final int AVG_BYTES = 36;
+
+	private final DfsReftableDatabase refdb;
+
+	private final DfsObjDatabase odb;
+
+	/**
+	 * Initialize batch update.
+	 *
+	 * @param refdb
+	 *            database the update will modify.
+	 * @param odb
+	 *            object database to store the reftable.
+	 */
+	protected DfsReftableBatchRefUpdate(DfsReftableDatabase refdb,
+			DfsObjDatabase odb) {
+		super(refdb, refdb.reftableDatabase, refdb.getLock(), refdb.getRepository());
+		this.refdb = refdb;
+		this.odb = odb;
+	}
+
+	@Override
+	protected void applyUpdates(List<Ref> newRefs, List<ReceiveCommand> pending)
+			throws IOException {
+		Set<DfsPackDescription> prune = Collections.emptySet();
+		DfsPackDescription pack = odb.newPack(PackSource.INSERT);
+		try (DfsOutputStream out = odb.writeFile(pack, REFTABLE)) {
+			ReftableConfig cfg = DfsPackCompactor
+					.configureReftable(refdb.getReftableConfig(), out);
+
+			ReftableWriter.Stats stats;
+			if (refdb.compactDuringCommit()
+					&& newRefs.size() * AVG_BYTES <= cfg.getRefBlockSize()
+					&& canCompactTopOfStack(cfg)) {
+				ByteArrayOutputStream tmp = new ByteArrayOutputStream();
+				ReftableWriter rw = new ReftableWriter(cfg, tmp);
+				write(rw, newRefs, pending);
+				rw.finish();
+				stats = compactTopOfStack(out, cfg, tmp.toByteArray());
+				prune = toPruneTopOfStack();
+			} else {
+				ReftableWriter rw = new ReftableWriter(cfg, out);
+				write(rw, newRefs, pending);
+				rw.finish();
+				stats = rw.getStats();
+			}
+			pack.addFileExt(REFTABLE);
+			pack.setReftableStats(stats);
+		}
+
+		odb.commitPack(Collections.singleton(pack), prune);
+		odb.addReftable(pack, prune);
+		refdb.clearCache();
+	}
+
+	private boolean canCompactTopOfStack(ReftableConfig cfg)
+			throws IOException {
+		refdb.getLock().lock();
+		try {
+			DfsReftableStack stack = refdb.stack();
+			List<ReftableReader> readers = stack.readers();
+			if (readers.isEmpty()) {
+				return false;
+			}
+
+			int lastIdx = readers.size() - 1;
+			DfsReftable last = stack.files().get(lastIdx);
+			DfsPackDescription desc = last.getPackDescription();
+			if (desc.getPackSource() != PackSource.INSERT
+				|| !packOnlyContainsReftable(desc)) {
+				return false;
+			}
+
+			ReftableReader table = readers.get(lastIdx);
+			int bs = cfg.getRefBlockSize();
+			return table.size() <= 3 * bs;
+		} finally {
+			refdb.getLock().unlock();
+		}
+	}
+
+	private ReftableWriter.Stats compactTopOfStack(OutputStream out,
+			ReftableConfig cfg, byte[] newTable) throws IOException {
+		refdb.getLock().lock();
+		try {
+			List<ReftableReader> stack = refdb.stack().readers();
+
+			ReftableReader last = stack.get(stack.size() - 1);
+
+			List<ReftableReader> tables = new ArrayList<>(2);
+			tables.add(last);
+			tables.add(new ReftableReader(BlockSource.from(newTable)));
+
+			ReftableCompactor compactor = new ReftableCompactor(out);
+			compactor.setConfig(cfg);
+			compactor.setIncludeDeletes(true);
+			compactor.addAll(tables);
+			compactor.compact();
+			return compactor.getStats();
+		} finally {
+			refdb.getLock().unlock();
+		}
+	}
+
+	private Set<DfsPackDescription> toPruneTopOfStack() throws IOException {
+		refdb.getLock().lock();
+		try {
+			List<DfsReftable> stack = refdb.stack().files();
+
+			DfsReftable last = stack.get(stack.size() - 1);
+			return Collections.singleton(last.getPackDescription());
+		} finally {
+			refdb.getLock().unlock();
+		}
+	}
+
+	private boolean packOnlyContainsReftable(DfsPackDescription desc) {
+		for (PackExt ext : PackExt.values()) {
+			if (ext != REFTABLE && desc.hasFileExt(ext)) {
+				return false;
+			}
+		}
+		return true;
+	}
+}

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/dfs/DfsReftableDatabase.java

@@ -45,19 +45,17 @@ package org.eclipse.jgit.internal.storage.dfs;
 
 import java.io.IOException;
 import java.util.Arrays;
-import java.util.ArrayList;
-import java.util.Collections;
 import java.util.HashSet;
 import java.util.List;
 import java.util.Map;
 import java.util.Set;
+import java.util.TreeSet;
 import java.util.concurrent.locks.ReentrantLock;
 
 import org.eclipse.jgit.annotations.Nullable;
 import org.eclipse.jgit.internal.storage.reftable.MergedReftable;
-import org.eclipse.jgit.internal.storage.reftable.RefCursor;
-import org.eclipse.jgit.internal.storage.reftable.Reftable;
 import org.eclipse.jgit.internal.storage.reftable.ReftableConfig;
+import org.eclipse.jgit.internal.storage.reftable.ReftableDatabase;
 import org.eclipse.jgit.lib.BatchRefUpdate;
 import org.eclipse.jgit.lib.NullProgressMonitor;
 import org.eclipse.jgit.lib.ObjectId;
@@ -81,13 +79,10 @@ import org.eclipse.jgit.util.RefMap;
  * and one will fail.
  */
 public class DfsReftableDatabase extends DfsRefDatabase {
-	private final ReentrantLock lock = new ReentrantLock(true);
+	final ReftableDatabase reftableDatabase;
 
 	private DfsReader ctx;
-
-	private DfsReftableStack tableStack;
-
-	private MergedReftable mergedTables;
+	private DfsReftableStack stack;
 
 	/**
 	 * Initialize the reference database for a repository.
@@ -97,6 +92,18 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 	 */
 	protected DfsReftableDatabase(DfsRepository repo) {
 		super(repo);
+		reftableDatabase = new ReftableDatabase() {
+			@Override
+			public MergedReftable openMergedReftable() throws IOException {
+				DfsReftableDatabase.this.getLock().lock();
+				try {
+					return new MergedReftable(stack().readers());
+				} finally {
+					DfsReftableDatabase.this.getLock().unlock();
+				}
+			}
+		};
+		stack = null;
 	}
 
 	/** {@inheritDoc} */
@@ -115,7 +122,7 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 	@Override
 	public BatchRefUpdate newBatchUpdate() {
 		DfsObjDatabase odb = getRepository().getObjectDatabase();
-		return new ReftableBatchRefUpdate(this, odb);
+		return new DfsReftableBatchRefUpdate(this, odb);
 	}
 
 	/**
@@ -133,7 +140,7 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 	 * @return the lock protecting this instance's state.
 	 */
 	protected ReentrantLock getLock() {
-		return lock;
+		return reftableDatabase.getLock();
 	}
 
 	/**
@@ -147,134 +154,55 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 		return true;
 	}
 
-	/**
-	 * Obtain a handle to the merged reader.
-	 *
-	 * @return (possibly cached) handle to the merged reader.
-	 * @throws java.io.IOException
-	 *             if tables cannot be opened.
-	 */
-	protected Reftable reader() throws IOException {
-		lock.lock();
-		try {
-			if (mergedTables == null) {
-				mergedTables = new MergedReftable(stack().readers());
-			}
-			return mergedTables;
-		} finally {
-			lock.unlock();
-		}
-	}
 
 	/**
-	 * Obtain a handle to the stack of reftables.
+	 * Obtain a handle to the stack of reftables. Must hold lock.
 	 *
 	 * @return (possibly cached) handle to the stack.
 	 * @throws java.io.IOException
 	 *             if tables cannot be opened.
 	 */
 	protected DfsReftableStack stack() throws IOException {
-		lock.lock();
-		try {
-			if (tableStack == null) {
-				DfsObjDatabase odb = getRepository().getObjectDatabase();
-				if (ctx == null) {
-					ctx = odb.newReader();
-				}
-				tableStack = DfsReftableStack.open(ctx,
-						Arrays.asList(odb.getReftables()));
-			}
-			return tableStack;
-		} finally {
-			lock.unlock();
+		assert getLock().isLocked();
+		DfsObjDatabase odb = getRepository().getObjectDatabase();
+
+		if (ctx == null) {
+			ctx = odb.newReader();
 		}
+		if (stack == null) {
+			stack = DfsReftableStack.open(ctx, Arrays.asList(odb.getReftables()));
+		}
+		return stack;
 	}
 
-	/** {@inheritDoc} */
 	@Override
 	public boolean isNameConflicting(String refName) throws IOException {
-		lock.lock();
-		try {
-			Reftable table = reader();
-
-			// Cannot be nested within an existing reference.
-			int lastSlash = refName.lastIndexOf('/');
-			while (0 < lastSlash) {
-				if (table.hasRef(refName.substring(0, lastSlash))) {
-					return true;
-				}
-				lastSlash = refName.lastIndexOf('/', lastSlash - 1);
-			}
-
-			// Cannot be the container of an existing reference.
-			return table.hasRefsWithPrefix(refName + '/');
-		} finally {
-			lock.unlock();
-		}
+		return reftableDatabase.isNameConflicting(refName, new TreeSet<>(), new HashSet<>());
 	}
 
 	/** {@inheritDoc} */
 	@Override
 	public Ref exactRef(String name) throws IOException {
-		lock.lock();
-		try {
-			Reftable table = reader();
-			Ref ref = table.exactRef(name);
-			if (ref != null && ref.isSymbolic()) {
-				return table.resolve(ref);
-			}
-			return ref;
-		} finally {
-			lock.unlock();
-		}
+		return reftableDatabase.exactRef(name);
 	}
 
 	/** {@inheritDoc} */
 	@Override
 	public Map<String, Ref> getRefs(String prefix) throws IOException {
-		RefList.Builder<Ref> all = new RefList.Builder<>();
-		lock.lock();
-		try {
-			Reftable table = reader();
-			try (RefCursor rc = ALL.equals(prefix) ? table.allRefs()
-					: (prefix.endsWith("/") ? table.seekRefsWithPrefix(prefix) //$NON-NLS-1$
-							: table.seekRef(prefix))) {
-				while (rc.next()) {
-					Ref ref = table.resolve(rc.getRef());
-					if (ref != null && ref.getObjectId() != null) {
-						all.add(ref);
-					}
-				}
-			}
-		} finally {
-			lock.unlock();
+		List<Ref> refs = reftableDatabase.getRefsByPrefix(prefix);
+		RefList.Builder<Ref> builder = new RefList.Builder<>(refs.size());
+		for (Ref r : refs) {
+			builder.add(r);
 		}
-
-		RefList<Ref> none = RefList.emptyList();
-		return new RefMap(prefix, all.toRefList(), none, none);
+		return new RefMap(prefix, builder.toRefList(), RefList.emptyList(),
+			RefList.emptyList());
 	}
 
 	/** {@inheritDoc} */
 	@Override
 	public List<Ref> getRefsByPrefix(String prefix) throws IOException {
-		List<Ref> all = new ArrayList<>();
-		lock.lock();
-		try {
-			Reftable table = reader();
-			try (RefCursor rc = ALL.equals(prefix) ? table.allRefs()
-					: table.seekRefsWithPrefix(prefix)) {
-				while (rc.next()) {
-					Ref ref = table.resolve(rc.getRef());
-					if (ref != null && ref.getObjectId() != null) {
-						all.add(ref);
-					}
-				}
-			}
-		} finally {
-			lock.unlock();
-		}
 
-		return Collections.unmodifiableList(all);
+		return reftableDatabase.getRefsByPrefix(prefix);
 	}
 
 	/** {@inheritDoc} */
@@ -283,17 +211,7 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 		if (!getReftableConfig().isIndexObjects()) {
 			return super.getTipsWithSha1(id);
 		}
-		lock.lock();
-		try {
-			RefCursor cursor = reader().byObjectId(id);
-			Set<Ref> refs = new HashSet<>();
-			while (cursor.next()) {
-				refs.add(cursor.getRef());
-			}
-			return refs;
-		} finally {
-			lock.unlock();
-		}
+		return reftableDatabase.getTipsWithSha1(id);
 	}
 
 	/** {@inheritDoc} */
@@ -314,19 +232,19 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 
 	@Override
 	void clearCache() {
-		lock.lock();
+		getLock().lock();
 		try {
-			if (tableStack != null) {
-				tableStack.close();
-				tableStack = null;
-			}
 			if (ctx != null) {
 				ctx.close();
 				ctx = null;
 			}
-			mergedTables = null;
+			reftableDatabase.clearCache();
+			if (stack != null) {
+				stack.close();
+				stack = null;
+			}
 		} finally {
-			lock.unlock();
+			getLock().unlock();
 		}
 	}
 
@@ -334,7 +252,7 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 	@Override
 	protected boolean compareAndPut(Ref oldRef, @Nullable Ref newRef)
 			throws IOException {
-		ReceiveCommand cmd = toCommand(oldRef, newRef);
+		ReceiveCommand cmd = ReftableDatabase.toCommand(oldRef, newRef);
 		try (RevWalk rw = new RevWalk(getRepository())) {
 			rw.setRetainBody(false);
 			newBatchUpdate().setAllowNonFastForwards(true).addCommand(cmd)
@@ -351,58 +269,6 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 		}
 	}
 
-	private static ReceiveCommand toCommand(Ref oldRef, Ref newRef) {
-		ObjectId oldId = toId(oldRef);
-		ObjectId newId = toId(newRef);
-		String name = toName(oldRef, newRef);
-
-		if (oldRef != null && oldRef.isSymbolic()) {
-			if (newRef != null) {
-				if (newRef.isSymbolic()) {
-					return ReceiveCommand.link(oldRef.getTarget().getName(),
-							newRef.getTarget().getName(), name);
-				} else {
-					return ReceiveCommand.unlink(oldRef.getTarget().getName(),
-							newId, name);
-				}
-			} else {
-				return ReceiveCommand.unlink(oldRef.getTarget().getName(),
-						ObjectId.zeroId(), name);
-			}
-		}
-
-		if (newRef != null && newRef.isSymbolic()) {
-			if (oldRef != null) {
-				if (oldRef.isSymbolic()) {
-					return ReceiveCommand.link(oldRef.getTarget().getName(),
-							newRef.getTarget().getName(), name);
-				} else {
-					return ReceiveCommand.link(oldId,
-							newRef.getTarget().getName(), name);
-				}
-			} else {
-				return ReceiveCommand.link(ObjectId.zeroId(),
-						newRef.getTarget().getName(), name);
-			}
-		}
-
-		return new ReceiveCommand(oldId, newId, name);
-	}
-
-	private static ObjectId toId(Ref ref) {
-		if (ref != null) {
-			ObjectId id = ref.getObjectId();
-			if (id != null) {
-				return id;
-			}
-		}
-		return ObjectId.zeroId();
-	}
-
-	private static String toName(Ref oldRef, Ref newRef) {
-		return oldRef != null ? oldRef.getName() : newRef.getName();
-	}
-
 	/** {@inheritDoc} */
 	@Override
 	protected boolean compareAndRemove(Ref oldRef) throws IOException {
@@ -417,12 +283,12 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 
 	@Override
 	void stored(Ref ref) {
-		// Unnecessary; ReftableBatchRefUpdate calls clearCache().
+		// Unnecessary; DfsReftableBatchRefUpdate calls clearCache().
 	}
 
 	@Override
 	void removed(String refName) {
-		// Unnecessary; ReftableBatchRefUpdate calls clearCache().
+		// Unnecessary; DfsReftableBatchRefUpdate calls clearCache().
 	}
 
 	/** {@inheritDoc} */
@@ -430,4 +296,5 @@ public class DfsReftableDatabase extends DfsRefDatabase {
 	protected void cachePeeledState(Ref oldLeaf, Ref newLeaf) {
 		// Do not cache peeled state in reftable.
 	}
+
 }

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/reftable/ReftableBatchRefUpdate.java

@@ -1,5 +1,5 @@
 /*
- * Copyright (C) 2017, Google Inc.
+ * Copyright (C) 2019, Google Inc.
  * and other copyright owners as documented in the project's IP log.
  *
  * This program and the accompanying materials are made available
@@ -41,40 +41,11 @@
  * ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
  */
 
-package org.eclipse.jgit.internal.storage.dfs;
-
-import static org.eclipse.jgit.internal.storage.pack.PackExt.REFTABLE;
-import static org.eclipse.jgit.lib.Ref.Storage.NEW;
-import static org.eclipse.jgit.lib.Ref.Storage.PACKED;
-import static org.eclipse.jgit.transport.ReceiveCommand.Result.LOCK_FAILURE;
-import static org.eclipse.jgit.transport.ReceiveCommand.Result.NOT_ATTEMPTED;
-import static org.eclipse.jgit.transport.ReceiveCommand.Result.OK;
-import static org.eclipse.jgit.transport.ReceiveCommand.Result.REJECTED_MISSING_OBJECT;
-import static org.eclipse.jgit.transport.ReceiveCommand.Result.REJECTED_NONFASTFORWARD;
-import static org.eclipse.jgit.transport.ReceiveCommand.Type.UPDATE_NONFASTFORWARD;
-
-import java.io.ByteArrayOutputStream;
-import java.io.IOException;
-import java.io.OutputStream;
-import java.util.ArrayList;
-import java.util.Collections;
-import java.util.HashMap;
-import java.util.HashSet;
-import java.util.List;
-import java.util.Map;
-import java.util.Set;
-import java.util.concurrent.locks.ReentrantLock;
+package org.eclipse.jgit.internal.storage.reftable;
 
 import org.eclipse.jgit.annotations.Nullable;
 import org.eclipse.jgit.errors.MissingObjectException;
-import org.eclipse.jgit.internal.storage.dfs.DfsObjDatabase.PackSource;
-import org.eclipse.jgit.internal.storage.io.BlockSource;
-import org.eclipse.jgit.internal.storage.pack.PackExt;
-import org.eclipse.jgit.internal.storage.reftable.Reftable;
-import org.eclipse.jgit.internal.storage.reftable.ReftableCompactor;
-import org.eclipse.jgit.internal.storage.reftable.ReftableConfig;
-import org.eclipse.jgit.internal.storage.reftable.ReftableReader;
-import org.eclipse.jgit.internal.storage.reftable.ReftableWriter;
+import org.eclipse.jgit.internal.JGitText;
 import org.eclipse.jgit.lib.AnyObjectId;
 import org.eclipse.jgit.lib.BatchRefUpdate;
 import org.eclipse.jgit.lib.ObjectId;
@@ -82,43 +53,65 @@ import org.eclipse.jgit.lib.ObjectIdRef;
 import org.eclipse.jgit.lib.PersonIdent;
 import org.eclipse.jgit.lib.ProgressMonitor;
 import org.eclipse.jgit.lib.Ref;
+import org.eclipse.jgit.lib.RefDatabase;
 import org.eclipse.jgit.lib.ReflogEntry;
+import org.eclipse.jgit.lib.Repository;
 import org.eclipse.jgit.lib.SymbolicRef;
 import org.eclipse.jgit.revwalk.RevObject;
 import org.eclipse.jgit.revwalk.RevTag;
 import org.eclipse.jgit.revwalk.RevWalk;
 import org.eclipse.jgit.transport.ReceiveCommand;
 
-/**
- * {@link org.eclipse.jgit.lib.BatchRefUpdate} for
- * {@link org.eclipse.jgit.internal.storage.dfs.DfsReftableDatabase}.
- */
-public class ReftableBatchRefUpdate extends BatchRefUpdate {
-	private static final int AVG_BYTES = 36;
+import java.io.IOException;
+import java.util.ArrayList;
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeSet;
+import java.util.concurrent.locks.Lock;
+import java.util.stream.Collectors;
+
+import static org.eclipse.jgit.lib.Ref.Storage.NEW;
+import static org.eclipse.jgit.lib.Ref.Storage.PACKED;
 
-	private final DfsReftableDatabase refdb;
+import static org.eclipse.jgit.transport.ReceiveCommand.Result.LOCK_FAILURE;
+import static org.eclipse.jgit.transport.ReceiveCommand.Result.NOT_ATTEMPTED;
+import static org.eclipse.jgit.transport.ReceiveCommand.Result.OK;
+import static org.eclipse.jgit.transport.ReceiveCommand.Result.REJECTED_MISSING_OBJECT;
+import static org.eclipse.jgit.transport.ReceiveCommand.Result.REJECTED_NONFASTFORWARD;
+import static org.eclipse.jgit.transport.ReceiveCommand.Type.DELETE;
+import static org.eclipse.jgit.transport.ReceiveCommand.Type.UPDATE_NONFASTFORWARD;
 
-	private final DfsObjDatabase odb;
+/**
+ * {@link org.eclipse.jgit.lib.BatchRefUpdate} for Reftable based RefDatabase.
+ */
+public abstract class ReftableBatchRefUpdate extends BatchRefUpdate {
+	private final Lock lock;
 
-	private final ReentrantLock lock;
+	private final ReftableDatabase refDb;
 
-	private final ReftableConfig reftableConfig;
+	private final Repository repository;
 
 	/**
-	 * Initialize batch update.
+	 * Initialize.
 	 *
 	 * @param refdb
-	 *            database the update will modify.
-	 * @param odb
-	 *            object database to store the reftable.
+	 *            The RefDatabase
+	 * @param reftableDb
+	 *            The ReftableDatabase
+	 * @param lock
+	 *            A lock protecting the refdatabase's state
+	 * @param repository
+	 *            The repository on which this update will run
 	 */
-	protected ReftableBatchRefUpdate(DfsReftableDatabase refdb,
-			DfsObjDatabase odb) {
+	protected ReftableBatchRefUpdate(RefDatabase refdb, ReftableDatabase reftableDb, Lock lock,
+			Repository repository) {
 		super(refdb);
-		this.refdb = refdb;
-		this.odb = odb;
-		lock = refdb.getLock();
-		reftableConfig = refdb.getReftableConfig();
+		this.refDb = reftableDb;
+		this.lock = lock;
+		this.repository = repository;
 	}
 
 	/** {@inheritDoc} */
@@ -135,24 +128,36 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 			if (!checkObjectExistence(rw, pending)) {
 				return;
 			}
+			// if we are here, checkObjectExistence might have flagged some problems
+			// but the transaction is not atomic, so we should proceed with the other
+			// pending commands.
+			pending = getPending();
 			if (!checkNonFastForwards(rw, pending)) {
 				return;
 			}
+			pending = getPending();
 
 			lock.lock();
 			try {
 				if (!checkExpected(pending)) {
 					return;
 				}
+				pending = getPending();
 				if (!checkConflicting(pending)) {
 					return;
 				}
+				pending = getPending();
 				if (!blockUntilTimestamps(MAX_WAIT)) {
 					return;
 				}
-				applyUpdates(rw, pending);
+
+				List<Ref> newRefs = toNewRefs(rw, pending);
+				applyUpdates(newRefs, pending);
 				for (ReceiveCommand cmd : pending) {
-					cmd.setResult(OK);
+					if (cmd.getResult() == NOT_ATTEMPTED) {
+						// XXX this is a bug in DFS ?
+						cmd.setResult(OK);
+					}
 				}
 			} finally {
 				lock.unlock();
@@ -163,6 +168,19 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 		}
 	}
 
+	/**
+	 * Implements the storage-specific part of the update.
+	 *
+	 * @param newRefs
+	 *            the new refs to create
+	 * @param pending
+	 *            the pending receive commands to be executed
+	 * @throws IOException
+	 *             if any of the writes fail.
+	 */
+	protected abstract void applyUpdates(List<Ref> newRefs,
+			List<ReceiveCommand> pending) throws IOException;
+
 	private List<ReceiveCommand> getPending() {
 		return ReceiveCommand.filter(getCommands(), NOT_ATTEMPTED);
 	}
@@ -180,8 +198,10 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 				// used for a missing object. Eagerly handle this case so we
 				// can set the right result.
 				cmd.setResult(REJECTED_MISSING_OBJECT);
-				ReceiveCommand.abort(pending);
-				return false;
+				if (isAtomic()) {
+					ReceiveCommand.abort(pending);
+					return false;
+				}
 			}
 		}
 		return true;
@@ -196,8 +216,10 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 			cmd.updateType(rw);
 			if (cmd.getType() == UPDATE_NONFASTFORWARD) {
 				cmd.setResult(REJECTED_NONFASTFORWARD);
-				ReceiveCommand.abort(pending);
-				return false;
+				if (isAtomic()) {
+					ReceiveCommand.abort(pending);
+					return false;
+				}
 			}
 		}
 		return true;
@@ -205,40 +227,55 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 
 	private boolean checkConflicting(List<ReceiveCommand> pending)
 			throws IOException {
-		Set<String> names = new HashSet<>();
-		for (ReceiveCommand cmd : pending) {
-			names.add(cmd.getRefName());
-		}
+		TreeSet<String> added = new TreeSet<>();
+		Set<String> deleted =
+				pending.stream()
+						.filter(cmd -> cmd.getType() == DELETE)
+						.map(c -> c.getRefName())
+						.collect(Collectors.toSet());
 
 		boolean ok = true;
 		for (ReceiveCommand cmd : pending) {
+			if (cmd.getType() == DELETE) {
+				continue;
+			}
+
 			String name = cmd.getRefName();
-			if (refdb.isNameConflicting(name)) {
-				cmd.setResult(LOCK_FAILURE);
-				ok = false;
-			} else {
-				int s = name.lastIndexOf('/');
-				while (0 < s) {
-					if (names.contains(name.substring(0, s))) {
-						cmd.setResult(LOCK_FAILURE);
-						ok = false;
-						break;
-					}
-					s = name.lastIndexOf('/', s - 1);
+			if (refDb.isNameConflicting(name, added, deleted)) {
+				if (isAtomic()) {
+					cmd.setResult(
+							ReceiveCommand.Result.REJECTED_OTHER_REASON, JGitText.get().transactionAborted);
+				} else {
+					cmd.setResult(LOCK_FAILURE);
 				}
+
+				ok = false;
 			}
+			added.add(name);
 		}
-		if (!ok && isAtomic()) {
-			ReceiveCommand.abort(pending);
-			return false;
+
+		if (isAtomic()) {
+			if (!ok) {
+				pending.stream()
+						.filter(cmd -> cmd.getResult() == NOT_ATTEMPTED)
+						.forEach(cmd -> cmd.setResult(LOCK_FAILURE));
+			}
+			return ok;
 		}
-		return ok;
+
+		for (ReceiveCommand cmd : pending) {
+			if (cmd.getResult() == NOT_ATTEMPTED) {
+				return true;
+			}
+		}
+
+		return false;
 	}
 
 	private boolean checkExpected(List<ReceiveCommand> pending)
 			throws IOException {
 		for (ReceiveCommand cmd : pending) {
-			if (!matchOld(cmd, refdb.exactRef(cmd.getRefName()))) {
+			if (!matchOld(cmd, refDb.exactRef(cmd.getRefName()))) {
 				cmd.setResult(LOCK_FAILURE);
 				if (isAtomic()) {
 					ReceiveCommand.abort(pending);
@@ -252,7 +289,7 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 	private static boolean matchOld(ReceiveCommand cmd, @Nullable Ref ref) {
 		if (ref == null) {
 			return AnyObjectId.isEqual(ObjectId.zeroId(), cmd.getOldId())
-					&& cmd.getOldSymref() == null;
+				&& cmd.getOldSymref() == null;
 		} else if (ref.isSymbolic()) {
 			return ref.getTarget().getName().equals(cmd.getOldSymref());
 		}
@@ -263,47 +300,26 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 		return cmd.getOldId().equals(id);
 	}
 
-	private void applyUpdates(RevWalk rw, List<ReceiveCommand> pending)
-			throws IOException {
-		List<Ref> newRefs = toNewRefs(rw, pending);
-		long updateIndex = nextUpdateIndex();
-		Set<DfsPackDescription> prune = Collections.emptySet();
-		DfsPackDescription pack = odb.newPack(PackSource.INSERT);
-		try (DfsOutputStream out = odb.writeFile(pack, REFTABLE)) {
-			ReftableConfig cfg = DfsPackCompactor
-					.configureReftable(reftableConfig, out);
-
-			ReftableWriter.Stats stats;
-			if (refdb.compactDuringCommit()
-					&& newRefs.size() * AVG_BYTES <= cfg.getRefBlockSize()
-					&& canCompactTopOfStack(cfg)) {
-				ByteArrayOutputStream tmp = new ByteArrayOutputStream();
-				write(tmp, cfg, updateIndex, newRefs, pending);
-				stats = compactTopOfStack(out, cfg, tmp.toByteArray());
-				prune = toPruneTopOfStack();
-			} else {
-				stats = write(out, cfg, updateIndex, newRefs, pending);
-			}
-			pack.addFileExt(REFTABLE);
-			pack.setReftableStats(stats);
-		}
-
-		odb.commitPack(Collections.singleton(pack), prune);
-		odb.addReftable(pack, prune);
-		refdb.clearCache();
-	}
-
-	private ReftableWriter.Stats write(OutputStream os, ReftableConfig cfg,
-			long updateIndex, List<Ref> newRefs, List<ReceiveCommand> pending)
-			throws IOException {
-		ReftableWriter writer = new ReftableWriter(cfg, os)
-				.setMinUpdateIndex(updateIndex).setMaxUpdateIndex(updateIndex)
+	/**
+	 * Writes the refs to the writer, and calls finish.
+	 *
+	 * @param writer
+	 *            the writer on which we should write.
+	 * @param newRefs
+	 *            the ref data to write..
+	 * @param pending
+	 *            the log data to write.
+	 * @throws IOException
+	 *            in case of problems.
+	 */
+	protected void write(ReftableWriter writer, List<Ref> newRefs,
+			List<ReceiveCommand> pending) throws IOException {
+		long updateIndex = refDb.nextUpdateIndex();
+		writer.setMinUpdateIndex(updateIndex).setMaxUpdateIndex(updateIndex)
 				.begin().sortAndWriteRefs(newRefs);
 		if (!isRefLogDisabled()) {
 			writeLog(writer, updateIndex, pending);
 		}
-		writer.finish();
-		return writer.getStats();
 	}
 
 	private void writeLog(ReftableWriter writer, long updateIndex,
@@ -318,7 +334,7 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 
 		PersonIdent ident = getRefLogIdent();
 		if (ident == null) {
-			ident = new PersonIdent(refdb.getRepository());
+			ident = new PersonIdent(repository);
 		}
 		for (String name : byName) {
 			ReceiveCommand cmd = cmds.get(name);
@@ -360,20 +376,25 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 		}
 	}
 
+	// Extracts and peels the refs out of the ReceiveCommands
 	private static List<Ref> toNewRefs(RevWalk rw, List<ReceiveCommand> pending)
-			throws IOException {
+		throws IOException {
 		List<Ref> refs = new ArrayList<>(pending.size());
 		for (ReceiveCommand cmd : pending) {
+			if (cmd.getResult() != NOT_ATTEMPTED) {
+				continue;
+			}
+
 			String name = cmd.getRefName();
 			ObjectId newId = cmd.getNewId();
 			String newSymref = cmd.getNewSymref();
 			if (AnyObjectId.isEqual(ObjectId.zeroId(), newId)
-					&& newSymref == null) {
+				&& newSymref == null) {
 				refs.add(new ObjectIdRef.Unpeeled(NEW, name, null));
 				continue;
 			} else if (newSymref != null) {
 				refs.add(new SymbolicRef(name,
-						new ObjectIdRef.Unpeeled(NEW, newSymref, null)));
+					new ObjectIdRef.Unpeeled(NEW, newSymref, null)));
 				continue;
 			}
 
@@ -384,76 +405,11 @@ public class ReftableBatchRefUpdate extends BatchRefUpdate {
 			}
 			if (peel != null) {
 				refs.add(new ObjectIdRef.PeeledTag(PACKED, name, newId,
-						peel.copy()));
+					peel.copy()));
 			} else {
 				refs.add(new ObjectIdRef.PeeledNonTag(PACKED, name, newId));
 			}
 		}
 		return refs;
 	}
-
-	private long nextUpdateIndex() throws IOException {
-		long updateIndex = 0;
-		for (Reftable r : refdb.stack().readers()) {
-			if (r instanceof ReftableReader) {
-				updateIndex = Math.max(updateIndex,
-						((ReftableReader) r).maxUpdateIndex());
-			}
-		}
-		return updateIndex + 1;
-	}
-
-	private boolean canCompactTopOfStack(ReftableConfig cfg)
-			throws IOException {
-		DfsReftableStack stack = refdb.stack();
-		List<ReftableReader> readers = stack.readers();
-		if (readers.isEmpty()) {
-			return false;
-		}
-
-		int lastIdx = readers.size() - 1;
-		DfsReftable last = stack.files().get(lastIdx);
-		DfsPackDescription desc = last.getPackDescription();
-		if (desc.getPackSource() != PackSource.INSERT
-				|| !packOnlyContainsReftable(desc)) {
-			return false;
-		}
-
-		Reftable table = readers.get(lastIdx);
-		int bs = cfg.getRefBlockSize();
-		return table instanceof ReftableReader
-				&& ((ReftableReader) table).size() <= 3 * bs;
-	}
-
-	private ReftableWriter.Stats compactTopOfStack(OutputStream out,
-			ReftableConfig cfg, byte[] newTable) throws IOException {
-		List<ReftableReader> stack = refdb.stack().readers();
-		ReftableReader last = stack.get(stack.size() - 1);
-
-		List<ReftableReader> tables = new ArrayList<>(2);
-		tables.add(last);
-		tables.add(new ReftableReader(BlockSource.from(newTable)));
-
-		ReftableCompactor compactor = new ReftableCompactor(out);
-		compactor.setConfig(cfg);
-		compactor.setIncludeDeletes(true);
-		compactor.addAll(tables);
-		compactor.compact();
-		return compactor.getStats();
-	}
-
-	private Set<DfsPackDescription> toPruneTopOfStack() throws IOException {
-		List<DfsReftable> stack = refdb.stack().files();
-		DfsReftable last = stack.get(stack.size() - 1);
-		return Collections.singleton(last.getPackDescription());
-	}
-
-	private boolean packOnlyContainsReftable(DfsPackDescription desc) {
-		for (PackExt ext : PackExt.values()) {
-			if (ext != REFTABLE && desc.hasFileExt(ext)) {
-				return false;
-			}
-		}
-		return true;
-	}
 }

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/reftable/ReftableDatabase.java

@@ -0,0 +1,295 @@
+package org.eclipse.jgit.internal.storage.reftable;
+
+import java.io.IOException;
+import java.util.ArrayList;
+import java.util.Collections;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Set;
+import java.util.TreeSet;
+import java.util.concurrent.locks.ReentrantLock;
+
+import org.eclipse.jgit.annotations.Nullable;
+import org.eclipse.jgit.lib.ObjectId;
+import org.eclipse.jgit.lib.Ref;
+import org.eclipse.jgit.lib.RefDatabase;
+import org.eclipse.jgit.lib.ReflogReader;
+import org.eclipse.jgit.transport.ReceiveCommand;
+
+/**
+ * Operations on {@link MergedReftable} that is common to various reftable-using
+ * subclasses of {@link RefDatabase}. See
+ * {@link org.eclipse.jgit.internal.storage.dfs.DfsReftableDatabase} for an
+ * example.
+ */
+public abstract class ReftableDatabase {
+	// Protects mergedTables.
+	private final ReentrantLock lock = new ReentrantLock(true);
+
+	private Reftable mergedTables;
+
+	/**
+	 * ReftableDatabase lazily initializes its merged reftable on the first read after
+	 * construction or clearCache() call. This function should always instantiate a new
+	 * MergedReftable based on the list of reftables specified by the underlying storage.
+	 *
+	 * @return the ReftableStack for this instance
+	 * @throws IOException
+	 *             on I/O problems.
+	 */
+	abstract protected MergedReftable openMergedReftable() throws IOException;
+
+	/**
+	 * @return the next available logical timestamp for an additional reftable
+	 *         in the stack.
+	 * @throws java.io.IOException
+	 *             on I/O problems.
+	 */
+	public long nextUpdateIndex() throws IOException {
+		lock.lock();
+		try {
+			return reader().maxUpdateIndex() + 1;
+		} finally {
+			lock.unlock();
+		}
+	}
+
+	/**
+	 * @return a ReflogReader for the given ref
+	 * @param refname
+	 *            the name of the ref.
+	 * @throws IOException
+	 *             on I/O problems
+	 */
+	public ReflogReader getReflogReader(String refname) throws IOException {
+		lock.lock();
+		try {
+			return new ReftableReflogReader(lock, reader(), refname);
+		} finally {
+			lock.unlock();
+		}
+	}
+
+	/**
+	 * @return a ReceiveCommand for the change from oldRef to newRef
+	 * @param oldRef
+	 *            a ref
+	 * @param newRef
+	 *            a ref
+	 */
+	public static ReceiveCommand toCommand(Ref oldRef, Ref newRef) {
+		ObjectId oldId = toId(oldRef);
+		ObjectId newId = toId(newRef);
+		String name = oldRef != null ? oldRef.getName() : newRef.getName();
+
+		if (oldRef != null && oldRef.isSymbolic()) {
+			if (newRef != null) {
+				if (newRef.isSymbolic()) {
+					return ReceiveCommand.link(oldRef.getTarget().getName(),
+							newRef.getTarget().getName(), name);
+				} else {
+					// This should pass in oldId for compat with
+					// RefDirectoryUpdate
+					return ReceiveCommand.unlink(oldRef.getTarget().getName(),
+							newId, name);
+				}
+			} else {
+				return ReceiveCommand.unlink(oldRef.getTarget().getName(),
+						ObjectId.zeroId(), name);
+			}
+		}
+
+		if (newRef != null && newRef.isSymbolic()) {
+			if (oldRef != null) {
+				if (oldRef.isSymbolic()) {
+					return ReceiveCommand.link(oldRef.getTarget().getName(),
+							newRef.getTarget().getName(), name);
+				} else {
+					return ReceiveCommand.link(oldId,
+							newRef.getTarget().getName(), name);
+				}
+			} else {
+				return ReceiveCommand.link(ObjectId.zeroId(),
+						newRef.getTarget().getName(), name);
+			}
+		}
+
+		return new ReceiveCommand(oldId, newId, name);
+	}
+
+	private static ObjectId toId(Ref ref) {
+		if (ref != null) {
+			ObjectId id = ref.getObjectId();
+			if (id != null) {
+				return id;
+			}
+		}
+		return ObjectId.zeroId();
+	}
+
+	/**
+	 * @return the lock protecting underlying ReftableReaders against concurrent
+	 *         reads.
+	 */
+	public ReentrantLock getLock() {
+		return lock;
+	}
+
+	/**
+	 * @return the merged reftable that is implemented by the stack of
+	 *         reftables. Return value must be accessed under lock.
+	 * @throws IOException
+	 *             on I/O problems
+	 */
+	private Reftable reader() throws IOException {
+		assert lock.isLocked();
+		if (mergedTables == null) {
+			mergedTables = openMergedReftable();
+		}
+		return mergedTables;
+	}
+
+	/**
+	 * @return whether the given refName would be illegal in a repository that
+	 *         uses loose refs.
+	 * @param refName
+	 *            the name to check
+	 * @param added
+	 *            a sorted set of refs we pretend have been added to the
+	 *            database.
+	 * @param deleted
+	 *            a set of refs we pretend have been removed from the database.
+	 * @throws IOException
+	 *             on I/O problems
+	 */
+	public boolean isNameConflicting(String refName, TreeSet<String> added,
+			Set<String> deleted) throws IOException {
+		lock.lock();
+		try {
+			Reftable table = reader();
+
+			// Cannot be nested within an existing reference.
+			int lastSlash = refName.lastIndexOf('/');
+			while (0 < lastSlash) {
+				String prefix = refName.substring(0, lastSlash);
+				if (!deleted.contains(prefix)
+						&& (table.hasRef(prefix) || added.contains(prefix))) {
+					return true;
+				}
+				lastSlash = refName.lastIndexOf('/', lastSlash - 1);
+			}
+
+			// Cannot be the container of an existing reference.
+			String prefix = refName + '/';
+			RefCursor c = table.seekRefsWithPrefix(prefix);
+			while (c.next()) {
+				if (!deleted.contains(c.getRef().getName())) {
+					return true;
+				}
+			}
+
+			String it = added.ceiling(refName + '/');
+			if (it != null && it.startsWith(prefix)) {
+				return true;
+			}
+			return false;
+		} finally {
+			lock.unlock();
+		}
+	}
+
+	/**
+	 * Read a single reference.
+	 * <p>
+	 * This method expects an unshortened reference name and does not search
+	 * using the standard search path.
+	 *
+	 * @param name
+	 *            the unabbreviated name of the reference.
+	 * @return the reference (if it exists); else {@code null}.
+	 * @throws java.io.IOException
+	 *             the reference space cannot be accessed.
+	 */
+	@Nullable
+	public Ref exactRef(String name) throws IOException {
+		lock.lock();
+		try {
+			Reftable table = reader();
+			Ref ref = table.exactRef(name);
+			if (ref != null && ref.isSymbolic()) {
+				return table.resolve(ref);
+			}
+			return ref;
+		} finally {
+			lock.unlock();
+		}
+	}
+
+	/**
+	 * Returns refs whose names start with a given prefix.
+	 *
+	 * @param prefix
+	 *            string that names of refs should start with; may be empty (to
+	 *            return all refs).
+	 * @return immutable list of refs whose names start with {@code prefix}.
+	 * @throws java.io.IOException
+	 *             the reference space cannot be accessed.
+	 */
+	public List<Ref> getRefsByPrefix(String prefix) throws IOException {
+		List<Ref> all = new ArrayList<>();
+		lock.lock();
+		try {
+			Reftable table = reader();
+			try (RefCursor rc = RefDatabase.ALL.equals(prefix) ? table.allRefs()
+					: table.seekRefsWithPrefix(prefix)) {
+				while (rc.next()) {
+					Ref ref = table.resolve(rc.getRef());
+					if (ref != null && ref.getObjectId() != null) {
+						all.add(ref);
+					}
+				}
+			}
+		} finally {
+			lock.unlock();
+		}
+
+		return Collections.unmodifiableList(all);
+	}
+
+	/**
+	 * Returns all refs that resolve directly to the given {@link ObjectId}.
+	 * Includes peeled {@linkObjectId}s.
+	 *
+	 * @param id
+	 *            {@link ObjectId} to resolve
+	 * @return a {@link Set} of {@link Ref}s whose tips point to the provided
+	 *         id.
+	 * @throws java.io.IOException
+	 *             on I/O errors.
+	 */
+	public Set<Ref> getTipsWithSha1(ObjectId id) throws IOException {
+		lock.lock();
+		try {
+			RefCursor cursor = reader().byObjectId(id);
+			Set<Ref> refs = new HashSet<>();
+			while (cursor.next()) {
+				refs.add(cursor.getRef());
+			}
+			return refs;
+		} finally {
+			lock.unlock();
+		}
+	}
+
+	/**
+	 * Drops all data that might be cached in memory.
+	 */
+	public void clearCache() {
+		lock.lock();
+		try {
+			mergedTables = null;
+		} finally {
+			lock.unlock();
+		}
+	}
+}