Re: problem using xleap and tleap

From: Bill Ross <>
Date: Wed 22 Aug 2001 10:23:27 -0700 (PDT)

        1. I can't load pdb files using xleap and tleap programs. It gives an
        error message like:
        ERROR: Syntax error

What command are you giving it (verbatim)? It should be

> x = loadpdb filename

        2. I've ran a simple minimization problem. I've the output file and
        a file with ext. of XYZ. If I want to visualize the file, which
        program should I use. If it is xleap program, what command
        (I used "load" command, but it gave me the same error message).

Assuming the .xyz is a restrt file ('-r restrt' in sander), use
ambpdb to convert to pdb for viewing.

        when I test AMBER with test.all command, it gives
        me an Failer error message when running leap. It says
        "the environment is not set". Even when I set the environment,
        it still gives me the same error message.
What shell are you running? What command are you using to set
the environment?

Bill Ross
Received on Wed Aug 22 2001 - 10:23:27 PDT
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