CNS faq (local)

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    How do I start CNS on claude?

    setup cns by typing             cnssetup

    To start the netscape-based interface, then type cns_web
    Run computational jobs from the command line using at

    Where is this setup file?

    /usr/local/cns/cns_solve_1.0/cns_solve_env

    How do I run CNS on another unix system (bartok, baez, gilmour)?

    The same way as on claude. If it doesn't work, see me and I'll set up the system.

    How do I run CNS on ravel (SGI NT)

    In a command window, type H:\cns\cns_solve_1.0\windows-nt\cns_solve_env.bat
    Now you can run cns_solve from the command line.
    Start cns-web from the software help page. (http://claude/~sue/software.html)

    Why won't CNS run? I get an incorrect versions error.

    You're using an input file for an older version of CNS. To fix it you have 3 options.

    1. generate a new input file using cns_web or editing a sample input file

    2. use cns_edit to transfer parameters from the old file to a new input file
    Procedure: Copy the new version of the input file to your directory. Run cns_edit. ( cns_edit -def oldfile.inp newfile.inp ) Check the new file for errors.
    3. edit the old file to change checkversions to the new value.
    WARNING: If the input file has changed significantly, this could lead to lots of wasted time.
    IMO, #2 is the best option. Learn to use xdiff and put up the old and new input files side by side. It will show you where the changes are and you can choose lines from each side to save as your final input file.

    How come the generate script provided doesn't work?

    It assumes each pdb file read in has an end statement. Add this to each pdb and you'll be OK.