installing cellulose builder on linux

[pedd...@student.liu.se]

Hi. Im trying to install CB on linux. Ive successfully installed vmd and i downloaded psfgen and extracted its contents in my "downloads" directory, since i could not do it anywhere else. The way i understood it you should be able to run psfgen if it is in your PATH, so i added "Downloads" to my PATH but it still not working. I get the following message:
 Please, make sure psfgen is installed and in your PATH.
 See http://www.ks.uiuc.edu/Research/namd/

 That is necessary in order to run this script.
 Make sure the above program(s) are installed and that they are in your PATH.

i dont know if i was suppose to compile the plugin or configure it as a third-party plug in for VMD. Can you help me please?

[Thiago Gomes]

Dear Cyrus Djahedi,

we are glad to help. You don't need to compile the plug-in or configure it as third-party plug-in for VMD.

You just need the standalone executable to be in your PATH, in your case in the Downloads directory.

Just download the appropriate NAMD tarball for your computer architecture (the already compiled executables, not source code)
at http://www.ks.uiuc.edu/Development/Download/download.cgi?PackageName=NAMD, then copy the executable file 'psfgen' to

your Downloads directory, or else add the extracted ~/Downloads/NAMD_xxxxx directory to your PATH.

Please note that if the psfgen executable file is in a subdirectory under the Downloads directory (e.g. ~/Downloads/NAMD_xxxxx) , you must add that subdirectory to your PATH. If you add just the upper directory "~/Downloads" to your PATH it will not work.

Please, also note that if you add some directory to your PATH by editing files like .bashrc, you have to 'source' them to your working

terminal by using the command:

source ~/.bashrc

to make it aware of the new PATH. Or you could simply close the terminal and open it again, since every time you open a terminal it
sources those files automatically. You could check whether the terminal is aware of the new PATH by issuing the command

echo $PATH

and checking if the directory you wished to add to PATH is actually there.

Please, feel free to contact us if you need further help and let us know if you have any other issues.

Best Regards,

Thiago C. F. Gomes

2013/4/4 <pedd...@student.liu.se>

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