sane environment defaults for Mac OS X, based on former App1/script -- e.g. relevant for MacTeX PATH;

--- a/Admin/MacOS/Info.plist-part2	Fri Jun 27 00:21:11 2014 +0100
+++ b/Admin/MacOS/Info.plist-part2	Fri Jun 27 11:30:42 2014 +0200
@@ -1,4 +1,5 @@
 <string>-Disabelle.home=$APP_ROOT/Contents/Resources/{ISABELLE_NAME}</string>
+<string>-Disabelle.app=true</string>
 </array>
 <key>JVMArguments</key>
 <array>

--- a/lib/scripts/getsettings	Fri Jun 27 00:21:11 2014 +0100
+++ b/lib/scripts/getsettings	Fri Jun 27 11:30:42 2014 +0200
@@ -16,6 +16,11 @@
   function tar() { /usr/bin/gnutar "$@"; }
 fi
 
+#sane environment defaults (notably on Mac OS X)
+if [ "$ISABELLE_APP" = true -a -x /usr/libexec/path_helper ]; then
+  eval $(/usr/libexec/path_helper -s)
+fi
+
 #Cygwin vs. POSIX
 if [ "$OSTYPE" = cygwin ]
 then

--- a/src/Pure/System/isabelle_system.scala	Fri Jun 27 00:21:11 2014 +0100
+++ b/src/Pure/System/isabelle_system.scala	Fri Jun 27 11:30:42 2014 +0200
@@ -75,12 +75,22 @@
       }
 
       set_cygwin_root()
-      val env0 = sys.env + ("ISABELLE_JDK_HOME" -> posix_path(jdk_home()))
+
+      val env =
+      {
+        val user_home = System.getProperty("user.home", "")
+        val isabelle_app = System.getProperty("isabelle.app", "")
 
-      val user_home = System.getProperty("user.home", "")
-      val env =
-        if (user_home == "" || env0.isDefinedAt("HOME")) env0
-        else env0 + ("HOME" -> user_home)
+        val env0 = sys.env + ("ISABELLE_JDK_HOME" -> posix_path(jdk_home()))
+        val env1 =
+          if (user_home == "" || env0.isDefinedAt("HOME")) env0
+          else env0 + ("HOME" -> user_home)
+        val env2 =
+          if (isabelle_app == "") env1
+          else env1 + ("ISABELLE_APP" -> "true")
+
+        env2
+      }
 
       val system_home =
         if (isabelle_home != null && isabelle_home != "") isabelle_home