X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=getdown%2Fsrc%2Fgetdown%2Fcore%2Fsrc%2Fmain%2Fjava%2Fcom%2Fthreerings%2Fgetdown%2Fdata%2FApplication.java;fp=getdown%2Fsrc%2Fgetdown%2Fcore%2Fsrc%2Fmain%2Fjava%2Fcom%2Fthreerings%2Fgetdown%2Fdata%2FApplication.java;h=95397445ae8b6774627517051210ed45cc7edb01;hb=70249b10fbfa41c17038efce103ad086b650d9e2;hp=799b5bb6b8be6e6a3c93056023e30a0736c42377;hpb=af5bc802477affd6e7843fc367f8e91a7831f741;p=jalview.git

diff --git a/getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/Application.java b/getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/Application.java
index 799b5bb..9539744 100644
--- a/getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/Application.java
+++ b/getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/Application.java
@@ -789,20 +789,35 @@ public class Application
             jvmargs = config.getMultiValue(appPrefix + "jvmarg");
             addAll(jvmargs, _jvmargs);
         }
+        
+        // extract jvmargs and jvmmempc from command line appargs.  These will appear after and override the previous jvmargs
+        addAll(processCliJvmArgs(_envc.appArgs), _jvmargs);
 
-        // see if a percentage of physical memory option exists
-        int jvmmempc = config.getInt("jvmmempc", -1);
-        // app_id prefixed setting overrides
-        if (appPrefix.length() > 0) {
-            jvmmempc = config.getInt(appPrefix + "jvmmempc", jvmmempc);
+        // get the set of optimum JVM arguments
+        _optimumJvmArgs = config.getMultiValue("optimum_jvmarg");
+
+        // transfer our application arguments
+        String[] appargs = config.getMultiValue(appPrefix + "apparg");
+        addAll(appargs, _appargs);
+
+        // add the launch specific application arguments
+        _appargs.addAll(_envc.appArgs);
+
+        // see if a percentage of physical memory option exists if it hasn't been set by cli args
+        if (_jvmmempc > -1) {
+          _jvmmempc = config.getInt("jvmmempc", -1);
+          // app_id prefixed setting overrides
+          if (appPrefix.length() > 0) {
+              _jvmmempc = config.getInt(appPrefix + "jvmmempc", _jvmmempc);
+          }
         }
-        if (0 <= jvmmempc && jvmmempc <= 100) {
+        if (0 <= _jvmmempc && _jvmmempc <= 100) {
           
           long maxMemLong = -1;
 
           try
           {
-            maxMemLong = MemorySetting.memPercent(jvmmempc);
+            maxMemLong = MemorySetting.memPercent(_jvmmempc);
           } catch (Exception e)
           {
             e.printStackTrace();
@@ -825,19 +840,9 @@ public class Application
             
           }
 
-        } else if (jvmmempc != -1) {
-          System.out.println("'jvmmempc' value must be in range 0 to 100 (read as '"+Integer.toString(jvmmempc)+"')");
+        } else if (_jvmmempc != -1) {
+          System.out.println("'jvmmempc' value must be in range 0 to 100 (read as '"+Integer.toString(_jvmmempc)+"')");
         }
-
-        // get the set of optimum JVM arguments
-        _optimumJvmArgs = config.getMultiValue("optimum_jvmarg");
-
-        // transfer our application arguments
-        String[] appargs = config.getMultiValue(appPrefix + "apparg");
-        addAll(appargs, _appargs);
-
-        // add the launch specific application arguments
-        _appargs.addAll(_envc.appArgs);
         
         // look for custom arguments
         fillAssignmentListFromPairs("extra.txt", _txtJvmArgs);
@@ -1130,6 +1135,9 @@ public class Application
           }
           if (ext != null && LOCATOR_FILE_EXTENSION.equals(ext.toLowerCase())) {
             // this file extension should have been dealt with in Getdown class
+          } else if (filename.startsWith("-")) {
+            // probably an argument to jvm or jalview
+            log.info("DOING NOTHING WITH ARG", "appargs", _appargs);
           } else {
             _appargs.add(0, "-open");
           }
@@ -1943,6 +1951,25 @@ public class Application
     	return _appbase;
     }
     
+    protected String[] processCliJvmArgs(List<String> args) {
+      List<String> extracted = new ArrayList<>();
+      if (args != null) {
+        for (String arg : args) {
+          if (arg.startsWith("-"+CLI_JVM_ARG_PREFIX)) {
+            String newArg = arg.substring(CLI_JVM_ARG_PREFIX.length() + 1);
+            extracted.add(newArg);
+          } else if (arg.startsWith("-jvmmempc=")) {
+            try {
+              _jvmmempc = Integer.parseInt(arg.substring(10));
+            } catch (NumberFormatException e){
+              log.warning("Could not parse jvmmempc command line argument", "arg", arg);
+            }
+          }
+        }
+      }
+      return extracted.toArray(new String[0]);
+    }
+    
     protected final EnvConfig _envc;
     protected File _config;
     protected File _backupConfig;
@@ -1992,6 +2019,10 @@ public class Application
 
     protected List<String> _txtJvmArgs = new ArrayList<>();
 
+    /** jvmmempc for memory settings and other cli arguments for the JVM */
+    protected int _jvmmempc = -1;
+    protected static final String CLI_JVM_ARG_PREFIX = "JVM";
+    
     /** If a warning has been issued about not being able to set modtimes. */
     protected boolean _warnedAboutSetLastModified;