== Java ==

For compiling Java code with MUSCLE, the Java archives in {{{$MUSCLE_HOME/share/muscle/java}}} and {{{$MUSCLE_HOME/share/muscle/java/thirdparty}}} should be added to the classpath. To get these files formatted as a classpath, run
{{{
muscle2 --print-env=CLASSPATH
}}}

MUSCLE automatically includes these in the class path when running. To add your own dependencies, modify the classpath of MUSCLE by adding the following lines to the configuration files
{{{
add_classpath "path/to/dependency1.jar"
add_classpath "path/to/dependency2.jar"
}}}

== Other languages ==

The `INCLUDE_PATH` environment variable for C and C++ should include {{{$MUSCLE_HOME/include}}} and the executables should be linked with the {{{$MUSCLE_HOME/lib/libmuscle2.so}}} or {{{$MUSCLE_HOME/lib/libmuscle2.dylib}}} library (depending on the operating system). To add any other libraries to the dynamic library path, modify the configuration file as follows:
{{{
add_libpath "path/to/dependency1/lib"
add_libpath "path/to/dependency2/lib"
}}}

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