Setup

This page is dedicated to setting up your galaxy account so that you can compile Java code. If you have a Java compiler available on another system you will have to consult your system administrator or the person who installed the compiler to figure out how to set it up.

Setting up your account automatically

  1. Log in to galaxy.
  2. Run the command ~dbutler/bin/fixpath.
  3. Follow the directions on the command line.
  4. If you have any problems contact me.

Setting up your account manually

  2. Log on to galaxy.
  3. Edit the .cshrc file in your home directory.
  4. Modify your PATH environment variable so that you can run the Java compiler. Find the line in the file that says:

    setenv PATH /some/directory:/some/other/directory

    Add the directory /opt/java/bin to this line so that your path now looks like this:

    setenv PATH /some/directory:/some/other/directory:/opt/java/bin

    Remember not to forget to put the : before adding /opt/java/bin to your path.

  5. Add the line:

    setenv JAVA_HOME /opt/java

  6. Type source .cshrc at the command line.

If you do not hava a .cshrc file in your home directory and do not know how to modify your environment like the above steps then come and see me.


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