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SciJava Common is a shared library for SciJava software. It provides a plugin framework, with an extensible mechanism for service discovery, backed by its own annotation processor, so that plugins can be loaded dynamically. It is used by downstream projects in the SciJava ecosystem, such as ImageJ and SCIFIO.
/*
* #%L
* SciJava Common shared library for SciJava software.
* %%
* Copyright (C) 2009 - 2014 Board of Regents of the University of
* Wisconsin-Madison, Broad Institute of MIT and Harvard, and Max Planck
* Institute of Molecular Cell Biology and Genetics.
* %%
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are met:
*
* 1. Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
* 2. 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.
*
* 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 HOLDERS 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.
* #L%
*/
package org.scijava.util;
import java.io.ByteArrayInputStream;
import java.io.File;
import java.io.FileInputStream;
import java.io.FileNotFoundException;
import java.io.FileOutputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.OutputStream;
import java.net.HttpURLConnection;
import java.net.MalformedURLException;
import java.net.URL;
import java.net.URLConnection;
import java.util.ArrayList;
import java.util.Collections;
import java.util.HashMap;
import java.util.LinkedHashMap;
import java.util.LinkedHashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.TreeSet;
import java.util.concurrent.ExecutorService;
import java.util.concurrent.Executors;
import java.util.concurrent.TimeUnit;
/**
* This program mirrors a given website.
*
* Its primary purpose is to provide the code necessary to keep ImageJ Mirror up-to-date.
*
*
* @author Johannes Schindelin
*/
public class MirrorWebsite {
public final static int THREAD_COUNT = 20;
public final static long DELAY_IN_MICROSECONDS = 0;
private String baseURL;
private String basePath; // the local directory for file:// baseURL, otherwise null
private File localDirectory;
private Map linkMap = new HashMap();
private Set missingLinks = new LinkedHashSet();
private ExecutorService executorService;
private Map jobs;
private Set done;
private int threadCount;
private long delay;
public MirrorWebsite(final String baseURL, final File localDirectory,
final int threadCount, final long delay) {
this.baseURL = baseURL + (baseURL.endsWith("/") ? "" : "/");
this.basePath = baseURL.startsWith("file:") ? baseURL.substring(5) : null;
this.localDirectory = localDirectory;
this.threadCount = threadCount;
this.delay = delay;
}
public void run() throws InterruptedException {
synchronized (this) {
if (jobs != null)
throw new RuntimeException("Mirroring already in progress!");
executorService = Executors.newFixedThreadPool(threadCount);
done = new TreeSet();
jobs = new LinkedHashMap();
mirror("index.html");
}
executorService.awaitTermination(Long.MAX_VALUE, TimeUnit.SECONDS);
}
public void mirror(String path) {
final MirrorJob job;
synchronized (this) {
if (jobs.containsKey(path)) return;
job = new MirrorJob(path);
jobs.put(path, job);
}
try {
executorService.execute(job);
} catch (Throwable t) {
t.printStackTrace();
done.add(path);
}
}
private static long getRemoteTimestamp(String url) throws IOException {
URLConnection connection = null;
try {
connection = new URL(url).openConnection();
} catch (FileNotFoundException e) {
if (url.endsWith("/index.html"))
connection = new URL(url.substring(0, url.length() - 10)).openConnection();
else
throw e;
}
if (connection instanceof HttpURLConnection)
((HttpURLConnection)connection).setRequestMethod("HEAD");
connection.setUseCaches(false);
long lastModified = connection.getLastModified();
connection.getInputStream().close();
return lastModified;
}
// returns 0 if it is up-to-date, otherwise the desired lastModified
private long upToDate(String path) throws IOException {
long remote = getRemoteTimestamp(baseURL + path);
File file = new File(localDirectory, path);
if (!file.exists())
return remote;
long local = file.lastModified();
return remote < 0 || local == remote ? 0 : remote;
}
private String getValue(String html, int startOffset) {
int offset = startOffset;
while (offset < html.length() &&
(html.charAt(offset) == '\n' || html.charAt(offset) == '\r' || html.charAt(offset) == ' '))
offset++;
if (offset + 1 >= html.length())
return "";
char delim = ' ', delim2 = '>';
char c = html.charAt(offset);
if (c == '"' || c == '\'') {
delim = delim2 = c;
offset++;
}
for (int end = offset; end < html.length(); end++)
if (html.charAt(end) == delim || html.charAt(end) == delim2)
return html.substring(offset, end);
return html.substring(offset);
}
private void addLinkRelation(List result, String sourceURL, String url) {
String normalized = normalizeURL(url);
if (normalized == null)
return;
result.add(normalized);
synchronized(linkMap) {
String previous = linkMap.get(normalized);
if (previous == null)
linkMap.put(normalized, sourceURL);
else if ((" " + previous + " ").indexOf(" " + sourceURL + " ") < 0)
linkMap.put(normalized, previous + " " + sourceURL);
}
}
private List getLinks(String relativePath, String path, String html) {
List result = new ArrayList();
int offset = -1;
for (;;) {
int newOffset = -1;
for (String pattern : new String[] { " href=", " src=", " HREF=", " SRC=" }) {
int tmp = html.indexOf(pattern, offset + 1);
if (tmp >= 0 && (newOffset < 0 || newOffset > tmp))
newOffset = tmp + pattern.length();
}
if (newOffset < 0)
break;
offset = newOffset;
String value = getValue(html, offset);
offset += value.length();
if (value.startsWith("mailto:") || value.startsWith("MAILTO:"))
continue;
for (char c : new char[] { '#', '?', ';' }) {
int hash = value.indexOf(c);
if (hash >= 0)
value = value.substring(0, hash);
}
if (value.endsWith("/"))
value += "index.html";
if (value.startsWith("/")) {
int colon = baseURL.indexOf("://");
int slash = baseURL.indexOf('/', colon + 3);
value = baseURL.substring(0, slash) + value;
}
else if (value.indexOf("://") < 0) {
if (!value.equals(""))
addLinkRelation(result, path, relativePath + value);
if (offset < 0)
break;
continue;
}
if (value.startsWith(baseURL))
addLinkRelation(result, path, value.substring(baseURL.length()));
if (offset < 0)
break;
}
return result;
}
private static boolean isHTML(String path) {
String lower = path.toLowerCase();
return lower.endsWith(".htm") || lower.endsWith(".html");
}
private static void copyStream(InputStream in, StringBuffer string, OutputStream out) throws IOException {
byte[] buffer = new byte[65536];
for (;;) {
int count = in.read(buffer);
if (count < 0)
break;
if (string != null)
string.append(new String(buffer, 0, count));
if (out != null)
out.write(buffer, 0, count);
}
in.close();
if (out != null)
out.close();
}
private List ensureUptodate(String path) throws IOException {
StringBuffer string = new StringBuffer();
String relativePath = path.substring(0, path.lastIndexOf('/') + 1);
File file = new File(localDirectory, path);
// special-case local case: file:/.../ does not list the directory contents
if (basePath != null && ("/" + path).endsWith("/index.html") && !new File(basePath + path).exists()) {
final String directory = path.substring(0, path.length() - 10);
final File[] list = new File(basePath + directory).listFiles();
if (list == null) return Collections.emptyList();
final List result = new ArrayList();
for (final File item : list) {
if (item.isDirectory()) result.add(directory + item.getName() + "/index.html");
else result.add(directory + item.getName());
}
return result;
}
long remoteLastModified;
try {
remoteLastModified = upToDate(path);
if (remoteLastModified == 0) {
if (!isHTML(path))
return Collections.emptyList();
copyStream(new FileInputStream(file), string, null);
return getLinks(relativePath, path, string.toString());
}
} catch (FileNotFoundException e) {
if (!path.endsWith("/index.html"))
throw e;
remoteLastModified = -1;
}
InputStream in = null;
try {
in = new URL(baseURL + path).openStream();
}
catch (MalformedURLException e) {
throw new MalformedURLException(baseURL + path);
}
catch (FileNotFoundException e) {
if (path.endsWith("/index.html"))
in = new URL(baseURL + path.substring(0, path.length() - 10)).openStream();
else
throw e;
}
System.err.println("Downloading " + path);
File tmp = new File(localDirectory, path + ".download.tmp");
tmp.getParentFile().mkdirs();
FileOutputStream out = new FileOutputStream(tmp);
if (isHTML(path)) {
copyStream(in, string, null);
String rewritten = string.toString()
.replaceAll("http://rsb.info.nih.gov",
"http://imagej.nih.gov");
String replacement = "", path2 = path;
for (;;) {
path2 = path2.substring(0, path2.lastIndexOf('/') + 1);
rewritten = rewritten.replaceAll(baseURL + path2, replacement);
// special-case rewriting from a local mirror
if (basePath != null) {
rewritten = rewritten.replaceAll("http://imagej.nih.gov/ij/" + path2, replacement);
}
if (path2.equals(""))
break;
// strip trailing slash
path2 = path2.substring(0, path2.length() - 1);
replacement = "../" + replacement;
}
copyStream(new ByteArrayInputStream(rewritten.getBytes()),
null, out);
}
else
copyStream(in, null, out);
tmp.renameTo(file);
if (remoteLastModified >= 0)
file.setLastModified(remoteLastModified);
if (!isHTML(path))
return Collections.emptyList();
return getLinks(relativePath, path, string.toString());
}
private static String normalizeURL(String originalPath) {
String path = originalPath;
for (;;) {
int dot = path.indexOf("/./");
if (dot >= 0) {
path = path.substring(0, dot) + path.substring(dot + 2);
continue;
}
int dotdot = path.indexOf("/../");
if (dotdot < 0)
break;
if (dotdot == 0)
return null;
int slash = path.lastIndexOf(dotdot - 1);
if (slash < 0)
return null;
path = path.substring(0, slash) + path.substring(dotdot + 3);
}
if (path.startsWith("../"))
throw new RuntimeException("ignore");
return path;
}
private void reportMissingLinks() {
if (missingLinks.size() == 0) return;
System.err.println("Found broken links:");
for (final String path : missingLinks) {
final String source = linkMap.get(path);
System.err.println(path + (source == null ? "" : " (linked from " + source + ")"));
}
}
private class MirrorJob implements Runnable {
private String path;
public MirrorJob(String path) {
this.path = path;
}
@Override
public void run() {
try {
System.err.println("Looking at " + path + " (" + (1 + done.size()) + "/" + jobs.size() + ")");
for (String path2 : ensureUptodate(path)) try {
mirror(path2);
}
catch (Throwable e) {
System.err.println("" + e);
}
}
catch (FileNotFoundException e) {
String source = linkMap.get(path);
System.err.println("" + e + (source == null ? "" : " (linked from " + source + ")"));
missingLinks.add(path);
}
catch (Throwable e) {
System.err.println("Error while trying to mirror " + path);
e.printStackTrace();
}
if (delay > 0) try {
Thread.sleep(delay);
} catch (InterruptedException e) {
// ignore
}
synchronized (MirrorWebsite.this) {
done.add(path);
if (done.size() == jobs.size()) {
executorService.shutdown();
reportMissingLinks();
}
}
}
}
private static void usage() {
System.err.println("Usage: MirrorWebsite [