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Installing Modeller (version 8.2 ... 9.3)

Find up-to-date instructions on !

  1. Get a license key from

  2. Download the appropriate package from

  3. Example (see Modeller site for up-to-date instructions): if you don't have sudo rights:

    in this case you need to download the tar.gz 'generic linux' version and install it as described:

    tar xvfz modeller-9v8.tar.gz
    cd modeller-9v8

    Add your license key to the file /usr/lib/modeller9v8/modlib/modeller/

  4. Link the generic name 'modeller' to the binary into your $PATH, for example (Note the back-quotes):

    cd /usr/local/bin
    sudo ln -s `which mod9v8` ./modeller
  5. Adapt biskit settings:

    In the latest version of biskit, has been refactored to adhere to the general Executor interface. The default binary name is now 'modeller'. Before it was 'mod8v2'. A different binary name (e.g. 'mod9v2') can be set up by copying biskit/external/defaults/exe_modeller.dat to ~/.biskit/ and changing the bin= parameter.

  6. Test your installation:

    cd biskit/Biskit/Mod

    Should yield:

    Creating /tmp/tmpUe9IOr_test_Modeller/modeller
    Running Modeller ..
    cd /tmp/tmpUe9IOr_test_Modeller/modeller ; /hal/home/grunberg/local/bin/mod8v2
    The modelling result can be found in /tmp/tmpUe9IOr_test_Modeller/modeller

    Note: A warning like this:

    'import site' failed; use -v for traceback

    indicates that modeller didn't find matching python libraries for its built-in python interpreter. This doesn't matter for the Biskit.Mod functions.

see Biskit.Mod.Modeller
see biskit/external/defaults/exe_modeller.dat