First make sure you have the following tools installed. They may come standard on your system:
Then install the following tools which are built with Python. Use
the standard installation, don't supply any flags::
Run 'svn co https://protomol.svn.sourceforge.net/svnroot/protomol protomol'. cd to protomol/mdl.
Run 'scons gui=1' if you would like to use the Java GUI, otherwise omit the gui flag.
Assuming you have an NVIDIA graphics card
and have installed OpenMM and Cuda, pass "openmm=cuda" for GPU compatibility.
Now MDL is ready to go. Type './RunMDL' followed by a script name to run it, or just
'./RunMDL' for interactive execution of MDL commands.
Make sure you have Python 2.5 installed, and that it is in your system PATH.
Download the self-installing executable here. Or if you prefer, you can work with a ZIP file.
Go to Start Menu, click "Run Program" and type 'cmd'.
Change to the directory where you installed MDL.
Now MDL is ready to go. Type 'RunMDL.bat' followed by a script name to run it, or just
'RunMDL.bat' for interactive execution of MDL commands.