How to fix broken Java header files? I have an Apple laptop running 10.6.7 and I somehow managed to get into a situation where Java header files are actually (empty) directories. The laptop came with 10.6.7 pre-installed. I ran "Software Update", installed Xcode 3.2.6, and installed MacPorts. When trying to install port "db46" I get compilation errors, because jni.h is broken. 

How do I fix this?

bash-3.2# pwd
/System/Library/Frameworks/JavaVM.framework/Versions/Current/Headers
bash-3.2# ls -la
total 64
drwxr-xr-x  17 root  wheel    578 May  5 11:28 .
drwxr-xr-x  10 root  wheel    340 Mar 29 19:22 ..
drwxr-xr-x   2 root  wheel     68 May  5 11:28 AWTCocoaComponent.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 JDWP.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 JDWPCommands.h
-rw-r--r--   1 root  wheel    179 Oct 24  2010 JavaVM.h
-rw-r--r--   1 root  wheel   2390 Oct 24  2010 NSJavaConfiguration.h
-rw-r--r--   1 root  wheel   2060 Oct 24  2010 NSJavaVirtualMachine.h
-rw-r--r--   1 root  wheel  19394 Oct 24  2010 classfile_constants.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jawt.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jawt_md.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jdwpTransport.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jni.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jni_md.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jvmdi.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jvmpi.h
drwxr-xr-x   2 root  wheel     68 May  5 11:28 jvmti.h
Try re-installing Java using this update.  It is the Java Update for Snow Leopard.  Hopefully that will fix the problems your seeing here.

Let us know if that works, if not we can do some more troubleshooting and help you out.