byte[] getJar(String address) {
// System.out.println("getJar: "+address);
byte[] data;
try {
URL url = new URL(address);
IJ.showStatus("Connecting to " + IJ.URL);
URLConnection uc = url.openConnection();
int len = uc.getContentLength();
if (IJ.debugMode) IJ.log("Updater (url): " + address + " " + len);
if (len <= 0) return null;
String name = address.contains("wsr") ? "daily build (" : "ij.jar (";
IJ.showStatus("Downloading " + name + IJ.d2s((double) len / 1048576, 1) + "MB)");
InputStream in = uc.getInputStream();
data = new byte[len];
int n = 0;
while (n < len) {
int count = in.read(data, n, len - n);
if (count < 0) throw new EOFException();
n += count;
IJ.showProgress(n, len);
}
in.close();
} catch (IOException e) {
if (IJ.debugMode) IJ.log("" + e);
return null;
}
if (IJ.debugMode) IJ.wait(6000);
return data;
}
public Set<String> listResources(String subdir) {
try {
Set<String> result = new HashSet<String>();
if (resourceURL != null) {
String protocol = resourceURL.getProtocol();
if (protocol.equals("jar")) {
String resPath = resourceURL.getPath();
int pling = resPath.lastIndexOf("!");
URL jarURL = new URL(resPath.substring(0, pling));
String resDirInJar = resPath.substring(pling + 2);
String prefix = resDirInJar + subdir + "/";
// System.out.printf("BaseMod.listResources: looking for names starting with %s\n",
// prefix);
JarFile jar = new JarFile(new File(jarURL.toURI()));
Enumeration<JarEntry> entries = jar.entries();
while (entries.hasMoreElements()) {
String name = entries.nextElement().getName();
if (name.startsWith(prefix) && !name.endsWith("/") && !name.contains("/.")) {
// System.out.printf("BaseMod.listResources: name = %s\n", name);
result.add(name.substring(prefix.length()));
}
}
} else throw new RuntimeException("Resource URL protocol " + protocol + " not supported");
}
return result;
} catch (Exception e) {
throw new RuntimeException(e);
}
}
static void openURL(
JopSession session, String name, boolean newFrame, String frameName, String bookmark) {
System.out.println("openURL " + name);
Object root = session.getRoot();
// Replace any URL symbol
name = replaceUrlSymbol(session, name);
try {
String url_str = null;
if (name.substring(0, 5).equals("http:")) {
url_str = name;
if (url_str.lastIndexOf(".html") == -1
&& url_str.lastIndexOf(".shtml") == -1
&& url_str.lastIndexOf(".htm") == -1
&& url_str.lastIndexOf(".pdf") == -1) url_str = url_str + ".html";
} else if (name.startsWith("$pwr_doc/")) {
URL current = ((JApplet) root).getDocumentBase();
String current_str = current.toString();
int idx1 = current_str.indexOf('/');
if (idx1 != -1 && current_str.length() > idx1 + 1) {
idx1 = current_str.indexOf('/', idx1 + 1);
if (idx1 != -1 && current_str.length() > idx1 + 1) {
idx1 = current_str.indexOf('/', idx1 + 1);
if (idx1 != -1 && current_str.length() > idx1 + 1) {
url_str = current_str.substring(0, idx1 + 1) + "pwr_doc/" + name.substring(9);
if (url_str.lastIndexOf(".html") == -1
&& url_str.lastIndexOf(".shtml") == -1
&& url_str.lastIndexOf(".htm") == -1
&& url_str.lastIndexOf(".pdf") == -1) url_str = url_str + ".html";
}
}
}
} else {
URL current = ((JApplet) root).getCodeBase();
String current_str = current.toString();
int idx1 = current_str.lastIndexOf('/');
int idx2 = current_str.lastIndexOf(':');
int idx = idx1;
if (idx2 > idx) idx = idx2;
String path = current_str.substring(0, idx + 1);
if (name.lastIndexOf(".html") == -1
&& name.lastIndexOf(".shtml") == -1
&& name.lastIndexOf(".htm") == -1
&& name.lastIndexOf(".pdf") == -1) url_str = new String(path + name + ".html");
else url_str = new String(path + name);
if (bookmark != null) url_str += "#" + bookmark;
}
System.out.println("Opening URL: " + url_str);
URL url = new URL(url_str);
AppletContext appCtx = ((JApplet) root).getAppletContext();
if (newFrame) appCtx.showDocument(url, "_blank");
else if (frameName != null) appCtx.showDocument(url, frameName);
else appCtx.showDocument(url, "_self");
} catch (MalformedURLException e) {
System.out.println("MalformedURL : " + name);
}
}
protected void addPathFile(final File pathComponent) throws IOException {
if (!this.pathComponents.contains(pathComponent)) {
this.pathComponents.addElement(pathComponent);
}
if (pathComponent.isDirectory()) {
return;
}
final String absPathPlusTimeAndLength =
pathComponent.getAbsolutePath()
+ pathComponent.lastModified()
+ "-"
+ pathComponent.length();
String classpath = AntClassLoader.pathMap.get(absPathPlusTimeAndLength);
if (classpath == null) {
JarFile jarFile = null;
try {
jarFile = new JarFile(pathComponent);
final Manifest manifest = jarFile.getManifest();
if (manifest == null) {
return;
}
classpath = manifest.getMainAttributes().getValue(Attributes.Name.CLASS_PATH);
} finally {
if (jarFile != null) {
jarFile.close();
}
}
if (classpath == null) {
classpath = "";
}
AntClassLoader.pathMap.put(absPathPlusTimeAndLength, classpath);
}
if (!"".equals(classpath)) {
final URL baseURL = AntClassLoader.FILE_UTILS.getFileURL(pathComponent);
final StringTokenizer st = new StringTokenizer(classpath);
while (st.hasMoreTokens()) {
final String classpathElement = st.nextToken();
final URL libraryURL = new URL(baseURL, classpathElement);
if (!libraryURL.getProtocol().equals("file")) {
this.log(
"Skipping jar library "
+ classpathElement
+ " since only relative URLs are supported by this"
+ " loader",
3);
} else {
final String decodedPath = Locator.decodeUri(libraryURL.getFile());
final File libraryFile = new File(decodedPath);
if (!libraryFile.exists() || this.isInPath(libraryFile)) {
continue;
}
this.addPathFile(libraryFile);
}
}
}
}
private static String[] findStandardMBeans(URL codeBase) throws Exception {
Set<String> names;
if (codeBase.getProtocol().equalsIgnoreCase("file") && codeBase.toString().endsWith("/"))
names = findStandardMBeansFromDir(codeBase);
else names = findStandardMBeansFromJar(codeBase);
Set<String> standardMBeanNames = new TreeSet<String>();
for (String name : names) {
if (name.endsWith("MBean")) {
String prefix = name.substring(0, name.length() - 5);
if (names.contains(prefix)) standardMBeanNames.add(prefix);
}
}
return standardMBeanNames.toArray(new String[0]);
}
String openUrlAsString(String address, int maxLines) {
StringBuffer sb;
try {
URL url = new URL(address);
InputStream in = url.openStream();
BufferedReader br = new BufferedReader(new InputStreamReader(in));
sb = new StringBuffer();
int count = 0;
String line;
while ((line = br.readLine()) != null && count++ < maxLines) sb.append(line + "\n");
in.close();
} catch (IOException e) {
sb = null;
}
return sb != null ? new String(sb) : null;
}
String[] openUrlAsList(String address) {
Vector v = new Vector();
try {
URL url = new URL(address);
InputStream in = url.openStream();
BufferedReader br = new BufferedReader(new InputStreamReader(in));
String line;
while (true) {
line = br.readLine();
if (line == null) break;
if (!line.equals("")) v.addElement(line);
}
br.close();
} catch (Exception e) {
}
String[] lines = new String[v.size()];
v.copyInto((String[]) lines);
return lines;
}
private static Set<String> findStandardMBeansFromJar(URL codeBase) throws Exception {
InputStream is = codeBase.openStream();
JarInputStream jis = new JarInputStream(is);
Set<String> names = new TreeSet<String>();
JarEntry entry;
while ((entry = jis.getNextJarEntry()) != null) {
String name = entry.getName();
if (!name.endsWith(".class")) continue;
name = name.substring(0, name.length() - 6);
name = name.replace('/', '.');
names.add(name);
}
return names;
}
byte[] getJar(String address) {
byte[] data;
boolean gte133 = version().compareTo("1.33u") >= 0;
try {
URL url = new URL(address);
URLConnection uc = url.openConnection();
int len = uc.getContentLength();
String name = address.endsWith("ij/ij.jar") ? "daily build" : "ij.jar";
IJ.showStatus("Downloading ij.jar (" + IJ.d2s((double) len / 1048576, 1) + "MB)");
InputStream in = uc.getInputStream();
data = new byte[len];
int n = 0;
while (n < len) {
int count = in.read(data, n, len - n);
if (count < 0) throw new EOFException();
n += count;
if (gte133) IJ.showProgress(n, len);
}
in.close();
} catch (IOException e) {
return null;
}
return data;
}
public void run(String arg) {
if (arg.equals("menus")) {
updateMenus();
return;
}
if (IJ.getApplet() != null) return;
URL url = getClass().getResource("/ij/IJ.class");
String ij_jar = url == null ? null : url.toString().replaceAll("%20", " ");
if (ij_jar == null || !ij_jar.startsWith("jar:file:")) {
error("Could not determine location of ij.jar");
return;
}
int exclamation = ij_jar.indexOf('!');
ij_jar = ij_jar.substring(9, exclamation);
if (IJ.debugMode) IJ.log("Updater (jar loc): " + ij_jar);
File file = new File(ij_jar);
if (!file.exists()) {
error("File not found: " + file.getPath());
return;
}
if (!file.canWrite()) {
String msg = "No write access: " + file.getPath();
error(msg);
return;
}
String[] list = openUrlAsList(IJ.URL + "/download/jars/list.txt");
int count = list.length + 3;
String[] versions = new String[count];
String[] urls = new String[count];
String uv = getUpgradeVersion();
if (uv == null) return;
versions[0] = "v" + uv;
urls[0] = IJ.URL + "/upgrade/ij.jar";
if (versions[0] == null) return;
for (int i = 1; i < count - 2; i++) {
String version = list[i - 1];
versions[i] = version.substring(0, version.length() - 1); // remove letter
urls[i] =
IJ.URL + "/download/jars/ij" + version.substring(1, 2) + version.substring(3, 6) + ".jar";
}
versions[count - 2] = "daily build";
urls[count - 2] = IJ.URL + "/ij.jar";
versions[count - 1] = "previous";
urls[count - 1] = IJ.URL + "/upgrade/ij2.jar";
int choice = showDialog(versions);
if (choice == -1 || !Commands.closeAll()) return;
// System.out.println("choice: "+choice);
// for (int i=0; i<urls.length; i++) System.out.println(" "+i+" "+urls[i]);
byte[] jar = null;
if ("daily build".equals(versions[choice]) && notes != null && notes.contains(" </title>"))
jar = getJar("http://wsr.imagej.net/download/daily-build/ij.jar");
if (jar == null) jar = getJar(urls[choice]);
if (jar == null) {
error("Unable to download ij.jar from " + urls[choice]);
return;
}
Prefs.savePreferences();
// System.out.println("saveJar: "+file);
saveJar(file, jar);
if (choice < count - 2) // force macro Function Finder to download fresh list
new File(IJ.getDirectory("macros") + "functions.html").delete();
System.exit(0);
}
public void run(String arg) {
if (arg.equals("menus")) {
updateMenus();
return;
}
if (IJ.getApplet() != null) return;
// File file = new File(Prefs.getHomeDir() + File.separator + "ij.jar");
// if (isMac() && !file.exists())
// file = new File(Prefs.getHomeDir() + File.separator +
// "ImageJ.app/Contents/Resources/Java/ij.jar");
URL url = getClass().getResource("/ij/IJ.class");
String ij_jar = url == null ? null : url.toString().replaceAll("%20", " ");
if (ij_jar == null || !ij_jar.startsWith("jar:file:")) {
error("Could not determine location of ij.jar");
return;
}
int exclamation = ij_jar.indexOf('!');
ij_jar = ij_jar.substring(9, exclamation);
if (IJ.debugMode) IJ.log("Updater: " + ij_jar);
File file = new File(ij_jar);
if (!file.exists()) {
error("File not found: " + file.getPath());
return;
}
if (!file.canWrite()) {
String msg = "No write access: " + file.getPath();
if (IJ.isVista()) msg += Prefs.vistaHint;
error(msg);
return;
}
String[] list = openUrlAsList(IJ.URL + "/download/jars/list.txt");
int count = list.length + 2;
String[] versions = new String[count];
String[] urls = new String[count];
String uv = getUpgradeVersion();
if (uv == null) return;
versions[0] = "v" + uv;
urls[0] = IJ.URL + "/upgrade/ij.jar";
if (versions[0] == null) return;
for (int i = 1; i < count - 1; i++) {
String version = list[i - 1];
versions[i] = version.substring(0, version.length() - 1); // remove letter
urls[i] =
IJ.URL + "/download/jars/ij" + version.substring(1, 2) + version.substring(3, 6) + ".jar";
}
versions[count - 1] = "daily build";
urls[count - 1] = IJ.URL + "/ij.jar";
int choice = showDialog(versions);
if (choice == -1) return;
if (!versions[choice].startsWith("daily")
&& versions[choice].compareTo("v1.39") < 0
&& Menus.getCommands().get("ImageJ Updater") == null) {
String msg =
"This command is not available in versions of ImageJ prior\n"
+ "to 1.39 so you will need to install the plugin version at\n"
+ "<"
+ IJ.URL
+ "/plugins/imagej-updater.html>.";
if (!IJ.showMessageWithCancel("Update ImageJ", msg)) return;
}
byte[] jar = getJar(urls[choice]);
// file.renameTo(new File(file.getParent()+File.separator+"ij.bak"));
if (version().compareTo("1.37v") >= 0) Prefs.savePreferences();
// if (!renameJar(file)) return; // doesn't work on Vista
saveJar(file, jar);
if (choice < count - 1) // force macro Function Finder to download fresh list
new File(IJ.getDirectory("macros") + "functions.html").delete();
System.exit(0);
}
public String what(String key, boolean oneliner) throws Exception {
byte[] sha;
Matcher m = SHA_P.matcher(key);
if (m.matches()) {
sha = Hex.toByteArray(key);
} else {
m = URL_P.matcher(key);
if (m.matches()) {
URL url = new URL(key);
sha = SHA1.digest(url.openStream()).digest();
} else {
File jarfile = new File(key);
if (!jarfile.exists()) {
reporter.error("File does not exist: %s", jarfile.getCanonicalPath());
}
sha = SHA1.digest(jarfile).digest();
}
}
reporter.trace("sha %s", Hex.toHexString(sha));
Revision revision = library.getRevision(sha);
if (revision == null) {
return null;
}
StringBuilder sb = new StringBuilder();
Formatter f = new Formatter(sb);
Justif justif = new Justif(120, 20, 70, 20, 75);
DateFormat dateFormat = DateFormat.getDateInstance();
try {
if (oneliner) {
f.format("%20s %s%n", Hex.toHexString(revision._id), createCoord(revision));
} else {
f.format("Artifact: %s%n", revision.artifactId);
if (revision.organization != null && revision.organization.name != null) {
f.format(" (%s)", revision.organization.name);
}
f.format("%n");
f.format("Coordinates\t0: %s%n", createCoord(revision));
f.format("Created\t0: %s%n", dateFormat.format(new Date(revision.created)));
f.format("Size\t0: %d%n", revision.size);
f.format("Sha\t0: %s%n", Hex.toHexString(revision._id));
f.format("URL\t0: %s%n", createJpmLink(revision));
f.format("%n");
f.format("%s%n", revision.description);
f.format("%n");
f.format("Dependencies\t0:%n");
boolean flag = false;
Iterable<RevisionRef> closure = library.getClosure(revision._id, true);
for (RevisionRef dep : closure) {
f.format(
" - %s \t2- %s \t3- %s%n",
dep.name, createCoord(dep), dateFormat.format(new Date(dep.created)));
flag = true;
}
if (!flag) {
f.format(" None%n");
}
f.format("%n");
}
f.flush();
justif.wrap(sb);
return sb.toString();
} finally {
f.close();
}
}
public static Image getImage(JopSession session, String image) {
String fullName;
if (session.getRoot() instanceof JopApplet) {
String name;
try {
URL current = ((JApplet) session.getRoot()).getCodeBase();
String current_str = current.toString();
int idx1 = current_str.lastIndexOf('/');
int idx2 = current_str.lastIndexOf(':');
int idx = idx1;
if (idx2 > idx) idx = idx2;
String path = current_str.substring(0, idx + 1);
String url_str;
// String url_str = new String( path + name);
if (image.substring(0, 5).compareTo("jpwr/") == 0) {
idx = image.lastIndexOf('/');
name = image.substring(5, idx);
url_str = new String("jar:" + path + "pwr_" + name + ".jar!/" + image);
} else {
idx = image.lastIndexOf('/');
if (idx == -1) name = new String(image);
else name = image.substring(idx + 1);
url_str = new String("jar:" + path + "pwrp_" + systemName + "_web.jar!/" + name);
}
System.out.println("Opening URL: " + url_str);
URL url = new URL(url_str);
return Toolkit.getDefaultToolkit().getImage(url);
} catch (MalformedURLException e) {
}
return null;
} else {
// Add default directory /pwrp/img
System.out.println("Image: " + image);
// int idx = image.lastIndexOf('/');
// if ( idx == -1)
// fullName = new String("/pwrp/img/" + image);
// else
fullName = new String(image);
// return Toolkit.getDefaultToolkit().getImage( fullName);
try {
String name;
String url_str;
int idx;
String path = new String("file://");
if (image.substring(0, 5).compareTo("jpwr/") == 0) {
idx = image.lastIndexOf('/');
name = image.substring(5, idx);
url_str = new String("$pwr_lib/pwr_" + name + ".jar");
url_str = Gdh.translateFilename(url_str);
url_str = new String("jar:" + path + url_str + "!/" + image);
} else {
idx = image.lastIndexOf('/');
if (idx == -1) name = new String(image);
else name = image.substring(idx + 1);
url_str = new String("$pwrp_lib/pwrp_" + systemName + ".jar");
System.out.println("java: " + url_str);
url_str = Gdh.translateFilename(url_str);
url_str = new String("jar:" + path + url_str + "!/" + name);
}
System.out.println("Opening URL: " + url_str);
URL url = new URL(url_str);
return Toolkit.getDefaultToolkit().getImage(url);
} catch (MalformedURLException e) {
}
}
return null;
}
private static Set<String> findStandardMBeansFromDir(URL codeBase) throws Exception {
File dir = new File(new URI(codeBase.toString()));
Set<String> names = new TreeSet<String>();
scanDir(dir, "", names);
return names;
}
/** Submits POST command to the server, and reads the reply. */
public boolean post(
String url,
String fileName,
String cryptToken,
String type,
String path,
String content,
String comment)
throws IOException {
String sep = "89692781418184";
while (content.indexOf(sep) != -1) sep += "x";
String message = makeMimeForm(fileName, cryptToken, type, path, content, comment, sep);
// for test
// URL server = new URL("http", "localhost", 80, savePath);
URL server =
new URL(getCodeBase().getProtocol(), getCodeBase().getHost(), getCodeBase().getPort(), url);
URLConnection connection = server.openConnection();
connection.setAllowUserInteraction(false);
connection.setDoOutput(true);
// connection.setDoInput(true);
connection.setUseCaches(false);
connection.setRequestProperty("Content-type", "multipart/form-data; boundary=" + sep);
connection.setRequestProperty("Content-length", Integer.toString(message.length()));
// System.out.println(url);
String replyString = null;
try {
DataOutputStream out = new DataOutputStream(connection.getOutputStream());
out.writeBytes(message);
out.close();
// System.out.println("Wrote " + message.length() +
// " bytes to\n" + connection);
try {
BufferedReader in = new BufferedReader(new InputStreamReader(connection.getInputStream()));
String reply = null;
while ((reply = in.readLine()) != null) {
if (reply.startsWith("ERROR ")) {
replyString = reply.substring("ERROR ".length());
}
}
in.close();
} catch (IOException ioe) {
replyString = ioe.toString();
}
} catch (UnknownServiceException use) {
replyString = use.getMessage();
System.out.println(message);
}
if (replyString != null) {
// System.out.println("---- Reply " + replyString);
if (replyString.startsWith("URL ")) {
URL eurl = getURL(replyString.substring("URL ".length()));
getAppletContext().showDocument(eurl);
} else if (replyString.startsWith("java.io.FileNotFoundException")) {
// debug; when run from appletviewer, the http connection
// is not available so write the file content
if (path.endsWith(".draw") || path.endsWith(".map")) System.out.println(content);
} else showStatus(replyString);
return false;
} else {
showStatus(url + " saved");
return true;
}
}