Jan-Philip, hello!
I have the same problem
But there are four different .bashrc
own.owntest:~/Desktop$ locate .bashrc
/etc/bash.bashrc
/etc/skel/.bashrc
/home/own/.bashrc
/usr/share/base-files/dot.bashrc
/usr/share/doc/adduser/examples/adduser.local.conf.examples/bash.bashrc
/usr/share/doc/adduser/examples/adduser.local.conf.examples/skel/dot.bashrc
which exactly .barhrs I should to modify?
JAmes
2011/11/4 Jan-Philip Gehrcke <jgehrcke.googlemail.com>
> Hey Andrew!
>
> For AmberTools 1.5 the directory you have to add to your PATH is
> $AMBERHOME/bin and not $AMBERHOME/exe. I assume the bash is your shell.
> The only thing required for you to do now is to set the AMBERHOME and
> PATH environment variables properly. In your current shell, just type:
>
> $ export AMBERHOME=/home/voronkov/amber11
> $ export PATH=${AMBERHOME}/bin\:${PATH}
>
> This defines AMBERHOME as you already had done, but then properly
> prepends $AMBERHOME/bin to your PATH. You can make sure that this has
> worked as expected by typing
>
> $ which tleap
>
> In your case this has to output `/home/voronkov/amber11/bin/tleap`. If
> it prints nothing, your PATH is still not set correctly.
>
> To make the environment changes permanent, add the export lines from
> above to e.g. your ~/.bashrc file. If you would like to understand how
> this mechanism works, you should read the "INVOCATION" part of the bash
> manpage: http://linuxmanpages.com/man1/bash.1.php
>
> Best regards,
>
> Jan-Philip
>
>
>
> On 11/04/2011 12:08 PM, Andrew Voronkov wrote:
> > Dear Amber users, I have installed AmberTools version 1.5, but there
> are some problems with setup of the environment in basrc file because bash
> can't find the tleap. What might be the problem?
> > The path is /home/voronkov/amber11/AmberTools
> >
> >
> > Best regards,
> > Andrew
> >
> > Installation of AmberTools, version 1.5 serial is complete at Fri Nov 4
> 13:55:15 MSK 2011.
> >
> > [voronkov.t60-2 src]$ tleap
> > -bash: tleap: command not found
> >
> >
> >
> > AMBERHOME=/home/voronkov/amber11
> > MPI_HOME=/opt/mpich-intel
> >
> > export AMBERHOME=/home/voronkov/amber11 # (for bash, zsh, ksh...)
> > setenv AMBERHOME home/voronkov/amber11 # (for csh, tcsh)
> > set path = ( $path $AMBERHOME/exe )
> > PATH=$PATH:$AMBERHOME/exe
> > export PATH
> >
> > # Source global definitions
> > if [ -r /etc/bashrc ]; then
> > . /etc/bashrc
> > fi
> >
> >
> > Best regards,
> > Andrew
> >
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
>
>
> --
> Jan-Philip Gehrcke
> PhD student
> Structural Bioinformatics Group
>
> Technische Universität Dresden
> Biotechnology Center
> Tatzberg 47/49
> 01307 Dresden, Germany
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
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Received on Fri Nov 04 2011 - 06:00:06 PDT
