import jalview.schemes.UserColourScheme;
import jalview.structure.StructureImportSettings;
import jalview.urls.IdOrgSettings;
+import jalview.util.ChannelProperties;
import jalview.util.ColorUtils;
import jalview.util.MessageManager;
import jalview.util.Platform;
}
};
+ /* build Properties (not all saved to .jalview_properties) */
+ public static Properties buildProperties = new Properties();
+
/** Default file is ~/.jalview_properties */
static String propertiesFile;
// lcastor.addAppender(ap);
// jalview.bin.Cache.log.addAppender(ap);
// Tell the user that debug is enabled
- jalview.bin.Cache.log.debug("Jalview Debugging Output Follows.");
+ jalview.bin.Cache.log.debug(ChannelProperties.getProperty("app_name")
+ + " Debugging Output Follows.");
} catch (Exception ex)
{
System.err.println("Problems initializing the log4j system\n");
class VersionChecker extends Thread
{
+
@Override
public void run()
{
+ String remoteBuildPropertiesUrl = Cache
+ .getAppbaseBuildProperties();
+
String orgtimeout = System
.getProperty("sun.net.client.defaultConnectTimeout");
if (orgtimeout == null)
{
System.setProperty("sun.net.client.defaultConnectTimeout",
"5000");
- java.net.URL url = new java.net.URL(Cache
- .getDefault("www.jalview.org", "http://www.jalview.org")
- + "/webstart/jalview.jnlp");
+ java.net.URL url = new java.net.URL(remoteBuildPropertiesUrl);
+
BufferedReader in = new BufferedReader(
new InputStreamReader(url.openStream()));
- String line = null;
- while ((line = in.readLine()) != null)
- {
- if (line.indexOf("jalview.version") == -1)
- {
- continue;
- }
- line = line.substring(line.indexOf("value=") + 7);
- line = line.substring(0, line.lastIndexOf("\""));
- remoteVersion = line;
- break;
- }
+ Properties remoteBuildProperties = new Properties();
+ remoteBuildProperties.load(in);
+ remoteVersion = remoteBuildProperties.getProperty("VERSION");
} catch (Exception ex)
{
- System.out.println(
- "Non-fatal exception when checking version at www.jalview.org :");
+ System.out
+ .println("Non-fatal exception when checking version at "
+ + remoteBuildPropertiesUrl + ":");
System.out.println(ex);
remoteVersion = getProperty("VERSION");
}
String buildDetails = resolveResourceURLFor("/.build_properties");
URL localJarFileURL = new URL(buildDetails);
InputStream in = localJarFileURL.openStream();
- applicationProperties.load(in);
+ buildProperties.load(in);
in.close();
+ if (buildProperties.getProperty("BUILD_DATE", null) != null)
+ {
+ applicationProperties.put("BUILD_DATE",
+ buildProperties.getProperty("BUILD_DATE"));
+ }
+ if (buildProperties.getProperty("INSTALLATION", null) != null)
+ {
+ applicationProperties.put("INSTALLATION",
+ buildProperties.getProperty("INSTALLATION"));
+ }
+ if (buildProperties.getProperty("VERSION", null) != null)
+ {
+ applicationProperties.put("VERSION",
+ buildProperties.getProperty("VERSION"));
+ }
} catch (Exception ex)
{
System.out.println("Error reading build details: " + ex);
new BuildDetails(codeVersion, null, codeInstallation);
if (printVersion && reportVersion)
{
- System.out.println(
- "Jalview Version: " + codeVersion + codeInstallation);
+ System.out.println(ChannelProperties.getProperty("app_name")
+ + " Version: " + codeVersion + codeInstallation);
}
}
lvclient.addAppender(log.getAppender("JalviewLogger"));
// Tell the user that debug is enabled
- lvclient.debug("Jalview Vamsas Client Debugging Output Follows.");
+ lvclient.debug(ChannelProperties.getProperty("app_name")
+ + " Vamsas Client Debugging Output Follows.");
}
} catch (Exception e)
{
lgclient.addAppender(log.getAppender("JalviewLogger"));
// Tell the user that debug is enabled
- lgclient.debug("Jalview Groovy Client Debugging Output Follows.");
+ lgclient.debug(ChannelProperties.getProperty("app_name")
+ + " Groovy Client Debugging Output Follows.");
}
} catch (Error e)
{
.getConstructor(new Class[]
{ String.class, String.class, String.class })
.newInstance(new Object[]
- { "Jalview Desktop",
+ { ChannelProperties.getProperty("app_name") + " Desktop",
(vrs = jalview.bin.Cache.getProperty("VERSION") + "_"
+ jalview.bin.Cache.getDefault("BUILD_DATE",
"unknown")),
public static String getVersionDetailsForConsole()
{
StringBuilder sb = new StringBuilder();
- sb.append("Jalview Version: ");
+ sb.append(ChannelProperties.getProperty("app_name"))
+ .append(" Version: ");
sb.append(jalview.bin.Cache.getDefault("VERSION", "TEST"));
sb.append("\n");
- sb.append("Jalview Installation: ");
+ sb.append(ChannelProperties.getProperty("app_name"))
+ .append(" Installation: ");
sb.append(jalview.bin.Cache.getDefault("INSTALLATION", "unknown"));
sb.append("\n");
sb.append("Build Date: ");
{
appendIfNotNull(sb, "Getdown appdir: ",
System.getProperty("getdownappdir"), "\n", null);
+ appendIfNotNull(sb, "Getdown appbase: ",
+ System.getProperty("getdownappbase"), "\n", null);
appendIfNotNull(sb, "Java home: ", System.getProperty("java.home"),
"\n", "unknown");
}
Arrays.fill(displayHttpPw, '*');
Cache.debug("CACHE Proxy: setting new Authenticator with httpUser='"
+ httpUser + "' httpPassword='" + displayHttpPw + "'");
- Authenticator.setDefault(new Authenticator()
+ if (!Platform.isJS())
+ /* *
+ * java.net.Authenticator not implemented in SwingJS yet
+ *
+ * @j2sIgnore
+ *
+ */
{
- @Override
- protected PasswordAuthentication getPasswordAuthentication()
+ Authenticator.setDefault(new Authenticator()
{
- if (getRequestorType() == RequestorType.PROXY)
+ @Override
+ protected PasswordAuthentication getPasswordAuthentication()
{
- String protocol = getRequestingProtocol();
- boolean needProxyPasswordSet = false;
- if (customProxySet &&
- // we have a username but no password for the scheme being
- // requested
- (protocol.equalsIgnoreCase("http")
- && (httpUser != null && httpUser.length() > 0
- && (httpPassword == null
- || httpPassword.length == 0)))
- || (protocol.equalsIgnoreCase("https")
- && (httpsUser != null
- && httpsUser.length() > 0
- && (httpsPassword == null
- || httpsPassword.length == 0))))
+ if (getRequestorType() == RequestorType.PROXY)
{
- // open Preferences -> Connections
- String message = MessageManager
- .getString("label.proxy_password_required");
- Preferences.openPreferences(Preferences.CONNECTIONS_TAB,
- message);
- Preferences.getInstance().proxyAuthPasswordCheckHighlight(true);
- }
- else
- {
- try
+ String protocol = getRequestingProtocol();
+ boolean needProxyPasswordSet = false;
+ if (customProxySet &&
+ // we have a username but no password for the scheme being
+ // requested
+ (protocol.equalsIgnoreCase("http")
+ && (httpUser != null && httpUser.length() > 0
+ && (httpPassword == null
+ || httpPassword.length == 0)))
+ || (protocol.equalsIgnoreCase("https")
+ && (httpsUser != null
+ && httpsUser.length() > 0
+ && (httpsPassword == null
+ || httpsPassword.length == 0))))
+ {
+ // open Preferences -> Connections
+ String message = MessageManager
+ .getString("label.proxy_password_required");
+ Preferences.openPreferences(Preferences.CONNECTIONS_TAB,
+ message);
+ Preferences.getInstance()
+ .proxyAuthPasswordCheckHighlight(true, true);
+ }
+ else
{
- if (protocol.equalsIgnoreCase("http")
- && getRequestingHost().equalsIgnoreCase(httpHost)
- && getRequestingPort() == Integer
- .valueOf(httpPort))
+ try
{
- Cache.debug(
- "AUTHENTICATOR returning PasswordAuthentication(\""
- + httpUser + "\", '"
- + new String(displayHttpPw) + "')");
- return new PasswordAuthentication(httpUser,
- httpPassword);
- }
- if (protocol.equalsIgnoreCase("https")
- && getRequestingHost().equalsIgnoreCase(httpsHost)
- && getRequestingPort() == Integer
- .valueOf(httpsPort))
+ if (protocol.equalsIgnoreCase("http")
+ && getRequestingHost()
+ .equalsIgnoreCase(httpHost)
+ && getRequestingPort() == Integer
+ .valueOf(httpPort))
+ {
+ Cache.debug(
+ "AUTHENTICATOR returning PasswordAuthentication(\""
+ + httpUser + "\", '"
+ + new String(displayHttpPw) + "')");
+ return new PasswordAuthentication(httpUser,
+ httpPassword);
+ }
+ if (protocol.equalsIgnoreCase("https")
+ && getRequestingHost()
+ .equalsIgnoreCase(httpsHost)
+ && getRequestingPort() == Integer
+ .valueOf(httpsPort))
+ {
+ char[] displayHttpsPw = new char[httpPassword.length];
+ Arrays.fill(displayHttpsPw, '*');
+ Cache.debug(
+ "AUTHENTICATOR returning PasswordAuthentication(\""
+ + httpsUser + "\", '" + displayHttpsPw
+ + "'");
+ return new PasswordAuthentication(httpsUser,
+ httpsPassword);
+ }
+ } catch (NumberFormatException e)
{
- char[] displayHttpsPw = new char[httpPassword.length];
- Arrays.fill(displayHttpsPw, '*');
- Cache.debug(
- "AUTHENTICATOR returning PasswordAuthentication(\""
- + httpsUser + "\", '" + displayHttpsPw
- + "'");
- return new PasswordAuthentication(httpsUser,
- httpsPassword);
+ Cache.error("Problem with proxy port values [http:"
+ + httpPort + ", https:" + httpsPort + "]");
}
- } catch (NumberFormatException e)
- {
- Cache.error("Problem with proxy port values [http:"
- + httpPort + ", https:" + httpsPort + "]");
+ Cache.debug(
+ "AUTHENTICATOR after trying to get PasswordAuthentication");
}
- Cache.debug(
- "AUTHENTICATOR after trying to get PasswordAuthentication");
}
+ // non proxy request
+ Cache.debug("AUTHENTICATOR returning null");
+ return null;
}
- // non proxy request
- Cache.debug("AUTHENTICATOR returning null");
- return null;
- }
- });
+ });
+ } // end of j2sIgnore for java.net.Authenticator
+
// required to re-enable basic authentication (should be okay for a
// local proxy)
Cache.debug(
/* as noted above, due to bug in java this doesn't work if the sun.net.www.protocol.http.AuthCache
* has working credentials. No workaround for Java 11.
*/
- Cache.debug("AUTHENTICATOR setting default Authenticator to null");
- Authenticator.setDefault(null);
+ if (!Platform.isJS())
+ /* *
+ * java.net.Authenticator not implemented in SwingJS yet
+ *
+ * @j2sIgnore
+ *
+ */
+ {
+ Cache.debug("AUTHENTICATOR setting default Authenticator to null");
+ Authenticator.setDefault(null);
+ }
}
// nonProxyHosts not currently configurable in Preferences
{
println(ERROR, message);
}
-}
\ No newline at end of file
+
+ /**
+ * Getdown appbase methods
+ */
+
+ private static final String releaseAppbase;
+
+ private static String getdownAppbase;
+
+ private static String getdownDistDir;
+
+ static
+ {
+ if (!Platform.isJS())
+ {
+ Float specversion = Float
+ .parseFloat(System.getProperty("java.specification.version"));
+ releaseAppbase = (specversion < 9)
+ ? "https://www.jalview.org/getdown/release/1.8"
+ : "https://www.jalview.org/getdown/release/11";
+ }
+ else
+ {
+ // this value currenly made up, can be changed to URL that will be
+ // "https://www.jalview.org/jalview-js/swingjs/j2s/build_properties"
+ releaseAppbase = "https://www.jalview.org/jalview-js";
+ getdownAppbase = releaseAppbase;
+ getdownDistDir = "/swingjs/j2s";
+ }
+ }
+
+ // look for properties (passed in by getdown) otherwise default to release
+ private static void setGetdownAppbase()
+ {
+ if (getdownAppbase != null)
+ {
+ return;
+ }
+ String appbase = System.getProperty("getdownappbase");
+ String distDir = System.getProperty("getdowndistdir");
+ if (appbase == null)
+ {
+ appbase = buildProperties.getProperty("GETDOWNAPPBASE");
+ distDir = buildProperties.getProperty("GETDOWNAPPDISTDIR");
+ }
+ if (appbase == null)
+ {
+ appbase = releaseAppbase;
+ distDir = "release";
+ }
+ if (appbase.endsWith("/"))
+ {
+ appbase = appbase.substring(0, appbase.length() - 1);
+ }
+ if (distDir == null)
+ {
+ distDir = appbase.equals(releaseAppbase) ? "release" : "alt";
+ }
+ getdownAppbase = appbase;
+ getdownDistDir = distDir;
+ }
+
+ public static String getGetdownAppbase()
+ {
+ setGetdownAppbase();
+ return getdownAppbase;
+ }
+
+ public static String getAppbaseBuildProperties()
+ {
+ String appbase = getGetdownAppbase();
+ return appbase + "/" + getdownDistDir + "/build_properties";
+ }
+}