import java.util.zip.GZIPInputStream;
import jalview.bin.MemorySetting;
-import com.install4j.api.launcher.Variables;
+//import com.install4j.api.launcher.Variables;
import com.threerings.getdown.util.*;
// avoid ambiguity with java.util.Base64 which we can't use as it's 1.8+
}
}
- // test for jalview/s URL
+ // test for jalview/s URL. Insert startupNotification URI into start of _appargs
+ if (! StringUtil.isBlank(_jalviewUri)) {
+ _appargs.add(0, _jalviewUri);
+ }
if (_appargs.size() > 0) {
String uri = _appargs.get(0);
try {
log.info("TRYING TO PARSE URL '"+uri+"'");
URI jalviewUri = new URI(uri);
- if (jalviewUri.getScheme().equals("jalview") || jalviewUri.getScheme().equals("jalviews")) {
- boolean https = jalviewUri.getScheme().equals("jalviews");
- String host = jalviewUri.getHost();
- int port = jalviewUri.getPort();
- String file = jalviewUri.getPath();
- String ref = jalviewUri.getFragment();
- String query = jalviewUri.getQuery();
-
- _appargs.clear();
- _appargs.add("-open");
- if (host != null && host.length() > 0) {
- URL newUrl = new URL(
- (https?"https":"http")
- + "://"
- + host
- + (port > -1? String.valueOf(port) : "")
- + jalviewUri.getRawPath()
- + (query != null && query.length() > 0 ? "?" + jalviewUri.getRawQuery() : "")
- );
- _appargs.add(newUrl.toString());
- } else {
- _appargs.add(file);
- }
-
- if (ref != null && ref.length() > 0) {
- String[] refArgs = ref.split("&");
- for (String refArg : refArgs) {
- if (refArg.startsWith("jvmmempc=")) {
- jvmmempc = refArg.substring(9);
- continue;
- }
- if (refArg.startsWith("jvmmemmax=")) {
- jvmmemmax = refArg.substring(10);
- continue;
+ if (jalviewUri != null) {
+ String scheme = jalviewUri.getScheme();
+ if (scheme != null && (scheme.equals("jalview") || scheme.equals("jalviews"))) {
+ boolean https = jalviewUri.getScheme().equals("jalviews");
+ String host = jalviewUri.getHost();
+ int port = jalviewUri.getPort();
+ String file = jalviewUri.getPath();
+ String ref = jalviewUri.getFragment();
+ String query = jalviewUri.getQuery();
+
+ _appargs.clear();
+ _appargs.add("-open");
+ if (host != null && host.length() > 0) {
+ URL newUrl = new URL(
+ (https?"https":"http")
+ + "://"
+ + host
+ + (port > -1? String.valueOf(port) : "")
+ + jalviewUri.getRawPath()
+ + (query != null && query.length() > 0 ? "?" + jalviewUri.getRawQuery() : "")
+ );
+ _appargs.add(newUrl.toString());
+ } else {
+ _appargs.add(file);
+ }
+
+ if (ref != null && ref.length() > 0) {
+ String[] refArgs = ref.split("&");
+ for (String refArg : refArgs) {
+ if (refArg.startsWith("jvmmempc=")) {
+ jvmmempc = refArg.substring(9);
+ continue;
+ }
+ if (refArg.startsWith("jvmmemmax=")) {
+ jvmmemmax = refArg.substring(10);
+ continue;
+ }
+ _appargs.add(URLDecoder.decode(refArg, "UTF-8"));
}
- _appargs.add(URLDecoder.decode(refArg, "UTF-8"));
}
+
}
-
}
} catch (URISyntaxException e) {
log.error("Malformed jalview URI", uri);
for (int i = 0; i < filenames.length; i++) {
String filename = filenames[i];
// skip any other locator files in a multiple file list
- if (! filename.toLowerCase().endsWith("."+Application.LOCATOR_FILE_EXTENSION)) {
+ if (filename.startsWith("jalview://") || filename.startsWith("jalviews://")) {
+ setJalviewUri(filename);
+ } else if (! filename.toLowerCase().endsWith("."+Application.LOCATOR_FILE_EXTENSION)) {
addStartupFile(filename);
}
}
_startupFiles.add(new File(filename));
}
+ public static void setJalviewUri(String uri) {
+ _jalviewUri = uri;
+ }
+
private Config createLocatorConfig(Config.ParseOpts opts) {
if (_locatorFile == null) {
return null;
protected static File _locatorFile;
protected static List<File> _startupFiles = new ArrayList<>();
+ protected static String _jalviewUri;
public static final String LOCATOR_FILE_EXTENSION = "jvl";
private boolean _initialised = false;