Support more of AutoCRLF

This patch introduces CRLF handling to the DirCacheCheckout and
WorkingTreeIterator supporting the AutoCRLF for add, checkout
reset and status and hopefully some other places that depende
on the underlying logic of the affected API's.

The patch includes test cases for the Status command provided by
Tomasz Zarna for bug 353867.

The core.eol and core.safecrlf options are not yet supported.

Bug: 301775
Bug: 353867
Change-Id: I2280a2dc0698829475de6a662a6c6e80b1df7663

3 files changed, 233 insertions, 3 deletions

diff --git a/org.eclipse.jgit/src/org/eclipse/jgit/util/IO.java b/org.eclipse.jgit/src/org/eclipse/jgit/util/IO.java
index 439fe09b5e..cafc94057b 100644
--- a/org.eclipse.jgit/src/org/eclipse/jgit/util/IO.java
+++ b/org.eclipse.jgit/src/org/eclipse/jgit/util/IO.java
@@ -142,7 +142,13 @@ public class IO {
 				throw new IOException(MessageFormat.format(
 						JGitText.get().fileIsTooLarge, path));
 			final byte[] buf = new byte[(int) sz];
-			IO.readFully(in, buf, 0, buf.length);
+			int actSz = IO.readFully(in, buf, 0);
+
+			if (actSz == sz) {
+				byte[] ret = new byte[actSz];
+				System.arraycopy(buf, 0, ret, 0, actSz);
+				return ret;
+			}
 			return buf;
 		} finally {
 			try {
@@ -254,6 +260,31 @@ public class IO {
 	}
 
 	/**
+	 * Read the entire byte array into memory, unless input is shorter
+	 *
+	 * @param fd
+	 *            input stream to read the data from.
+	 * @param dst
+	 *            buffer that must be fully populated, [off, off+len).
+	 * @param off
+	 *            position within the buffer to start writing to.
+	 * @return number of bytes in buffer or stream, whichever is shortest
+	 * @throws IOException
+	 *             there was an error reading from the stream.
+	 */
+	public static int readFully(InputStream fd, byte[] dst, int off)
+			throws IOException {
+		int r;
+		int len = 0;
+		while ((r = fd.read(dst, off, dst.length - off)) >= 0
+				&& len < dst.length) {
+			off += r;
+			len += r;
+		}
+		return len;
+	}
+
+	/**
 	 * Skip an entire region of an input stream.
 	 * <p>
 	 * The input stream's position is moved forward by the number of requested
diff --git a/org.eclipse.jgit/src/org/eclipse/jgit/util/io/AutoCRLFOutputStream.java b/org.eclipse.jgit/src/org/eclipse/jgit/util/io/AutoCRLFOutputStream.java
new file mode 100644
index 0000000000..a4c1573909
--- /dev/null
+++ b/org.eclipse.jgit/src/org/eclipse/jgit/util/io/AutoCRLFOutputStream.java
@@ -0,0 +1,187 @@
+/*
+ * Copyright (C) 2011, Robin Rosenberg
+ * 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.util.io;
+
+import java.io.IOException;
+import java.io.OutputStream;
+
+import org.eclipse.jgit.diff.RawText;
+
+/**
+ * An OutputStream that expands LF to CRLF.
+ * <p>
+ * Existing CRLF are not expanded to CRCRLF, but retained as is.
+ */
+public class AutoCRLFOutputStream extends OutputStream {
+
+	private final OutputStream out;
+
+	private int buf = -1;
+
+	private byte[] binbuf = new byte[8000];
+
+	private int binbufcnt = 0;
+
+	private boolean isBinary;
+
+	/**
+	 * @param out
+	 */
+	public AutoCRLFOutputStream(OutputStream out) {
+		this.out = out;
+	}
+
+	@Override
+	public void write(int b) throws IOException {
+		int overflow = buffer((byte) b);
+		if (overflow >= 0)
+			return;
+		if (isBinary) {
+			out.write(b);
+			return;
+		}
+		if (b == '\n') {
+			if (buf == '\r') {
+				out.write('\n');
+				buf = -1;
+			} else if (buf == -1) {
+				out.write('\r');
+				out.write('\n');
+				buf = -1;
+			}
+		} else if (b == '\r') {
+			out.write(b);
+			buf = '\r';
+		} else {
+			out.write(b);
+			buf = -1;
+		}
+	}
+
+	@Override
+	public void write(byte[] b) throws IOException {
+		int overflow = buffer(b, 0, b.length);
+		if (overflow > 0)
+			write(b, b.length - overflow, overflow);
+	}
+
+	@Override
+	public void write(byte[] b, int off, int len) throws IOException {
+		int overflow = buffer(b, off, len);
+		if (overflow < 0)
+			return;
+		off = off + len - overflow;
+		len = overflow;
+		if (len == 0)
+			return;
+		int lastw = off;
+		if (isBinary) {
+			out.write(b, off, len);
+			return;
+		}
+		for (int i = off; i < off + len; ++i) {
+			byte c = b[i];
+			if (c == '\r') {
+				buf = '\r';
+			} else if (c == '\n') {
+				if (buf != '\r') {
+					if (lastw < i) {
+						out.write(b, lastw, i - lastw);
+					}
+					out.write('\r');
+					lastw = i;
+				}
+				buf = -1;
+			} else {
+				buf = -1;
+			}
+		}
+		if (lastw < off + len) {
+			out.write(b, lastw, off + len - lastw);
+		}
+		if (b[off + len - 1] == '\r')
+			buf = '\r';
+	}
+
+	private int buffer(byte b) throws IOException {
+		if (binbufcnt > binbuf.length)
+			return 1;
+		binbuf[binbufcnt++] = b;
+		if (binbufcnt == binbuf.length)
+			decideMode();
+		return 0;
+	}
+
+	private int buffer(byte[] b, int off, int len) throws IOException {
+		if (binbufcnt > binbuf.length)
+			return len;
+		int copy = Math.min(binbuf.length - binbufcnt, len);
+		System.arraycopy(b, off, binbuf, binbufcnt, copy);
+		binbufcnt += copy;
+		int remaining = len - copy;
+		if (remaining > 0)
+			decideMode();
+		return remaining;
+	}
+
+	private void decideMode() throws IOException {
+		isBinary = RawText.isBinary(binbuf, binbufcnt);
+		int cachedLen = binbufcnt;
+		binbufcnt = binbuf.length + 1; // full!
+		write(binbuf, 0, cachedLen);
+	}
+
+	@Override
+	public void flush() throws IOException {
+		if (binbufcnt < binbuf.length)
+			decideMode();
+		buf = -1;
+	}
+
+	@Override
+	public void close() throws IOException {
+		flush();
+		super.close();
+	}
+}
diff --git a/org.eclipse.jgit/src/org/eclipse/jgit/util/io/EolCanonicalizingInputStream.java b/org.eclipse.jgit/src/org/eclipse/jgit/util/io/EolCanonicalizingInputStream.java
index 4bdd2b3e55..387d9b82bf 100644
--- a/org.eclipse.jgit/src/org/eclipse/jgit/util/io/EolCanonicalizingInputStream.java
+++ b/org.eclipse.jgit/src/org/eclipse/jgit/util/io/EolCanonicalizingInputStream.java
@@ -46,8 +46,11 @@ package org.eclipse.jgit.util.io;
 import java.io.IOException;
 import java.io.InputStream;
 
+import org.eclipse.jgit.diff.RawText;
+
 /**
- * An input stream which canonicalizes EOLs bytes on the fly to '\n'.
+ * An input stream which canonicalizes EOLs bytes on the fly to '\n', unless the
+ * first 8000 bytes indicate the stream is binary.
  *
  * Note: Make sure to apply this InputStream only to text files!
  */
@@ -62,6 +65,10 @@ public class EolCanonicalizingInputStream extends InputStream {
 
 	private int ptr;
 
+	private boolean isBinary;
+
+	private boolean modeDetected;
+
 	/**
 	 * Creates a new InputStream, wrapping the specified stream
 	 *
@@ -95,7 +102,8 @@ public class EolCanonicalizingInputStream extends InputStream {
 			}
 
 			byte b = buf[ptr++];
-			if (b != '\r') {
+			if (isBinary || b != '\r') {
+				// Logic for binary files ends here
 				bs[off++] = b;
 				continue;
 			}
@@ -124,6 +132,10 @@ public class EolCanonicalizingInputStream extends InputStream {
 		cnt = in.read(buf, 0, buf.length);
 		if (cnt < 1)
 			return false;
+		if (!modeDetected) {
+			isBinary = RawText.isBinary(buf, cnt);
+			modeDetected = true;
+		}
 		ptr = 0;
 		return true;
 	}