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Subject: Re: [OMPI users] Open MPI and env. variables (LD_LIBRARY_PATH and PATH) - complete and utter Open MPI / Linux noob
From: Dominik Táborský (bremby_at_[hidden])
Date: 2009-08-02 14:05:45


Okay, now it's getting more confusing since I just found out that it
somehow stopped working for me!

Anyway, let's find a solution.
I found out that there is difference between
ssh node1 echo $PATH
and
ssh node1 'echo $PATH'
These command give you different output. 'man ssh' states that it sets
its own PATH variable right before the user logs in but after the
connection is established. This variable is set during compilation.

I am using dropbear as SSH2 server so I won't be able to guide you if
you're using OpenSSH as a server, but the manpages should be sufficient.
Look into man ssh and man ssh_config. You should create files ~/.ssh/rc
OR ~/.ssh/config OR ~/.ssh/environment. Setting it up in one of these
files should be enough.

I will probably recompile dropbear with new default PATH.

Anyway, I am sure it used to work for me and I have no idea why it
stopped.

If you'd need more help, just ask :-)

Dr. Eddy

Tomislav Maric píše v Ne 02. 08. 2009 v 18:45 +0200:
> Dominik Táborský wrote:
> > The .bashrc on your master is not run, therefore there are no echos.
> > Let's revise once more so that we're sure we understand each other :-)
> >
> > On your master - on the computer you run "mpirun" - you put these 2
> > lines into your own .bashrc:
> >
> > export PATH=$PATH:/openMPI/bin
> > export LD_RUN_FLAG=$LD_LIBRARY_PATH:/openMPI/lib
> >
> > These 2 lines are in /home/tomislav/.bashrc (supposing your user is
> > tomislav).
> >
> > On each of your node you can leave .bashrc files. Try putting this line
> > in them:
> > echo $PATH
> >
> > Again, this file is /home/tomislav/.bashrc. It must be the same file. Or
> > if you don't have that file on your nodes, the system-wide bashrc file
> > should be run, which is - I think - /etc/bash.bashrc.
> >
> > Now, when you run the command:
> > ssh node1 echo $PATH
> >
> > It should print two lines:
> > 1st should be the executed command which should print out new PATH,
> > 2nd should be the command in the node's .bashrc file, which should be
> > the reduced PATH.
> >
> > Anyway, let's try something:
> > $ echo $PATH
> > $ ssh node1 echo $PATH
> > node1$ echo $PATH
> >
> > This should print out 3 lines, your master PATH twice and then the
> > reduced PATH once.
> >
> > Let me know how that went.
> >
> > Dr. Eddy
>
> are you sure this is the right syntax:
>
> ssh node1 echo $PATH
>
> ?
>
> ssh node1 echo $PATH gives me only the full PATH and doesn't log me on
> to node1.
>
> OK, here's what I've tried:
>
> ssh node1 && echo $PATH
>
> gives me first the $PATH on the master, and then the reduced one, as you
> said.
>
>
> echo $PATH
> ssh node1 && echo $PATH
>
> gives me the master $PATH twice, and then the reduced one.
>
> At least now I know that ~/.bashrc is not being called at all. You see,
> I've also tried
>
> ssh node1
>
> and if ssh is using non-interactive login bash, it should start a
> .bashrc. If it started .bashrc on the master, it would, because of the
>
> echo $PATH
>
> , echo the master $PATH, and if it starts the .bashrc on the slave node,
> it would echo the reduced path. Something is not right. I've even
> written echo master node and echo slave node in both .bashrc and nothing
> echoed.
>
> if i try
>
> ssh mario 'echo $PATH' i get the reduced $PATH still.
>
> One more thing to know, I set ALL environmental variables using
> OpenFOAM's bashrc script, both for OpenFOAM and OMPI, but this shouldn't
> make any difference because
>
> . $FOAM_INST_DIR/OpenFOAM-1.5-dev/etc/bashrc
>
> script sets all the variables the right way on the master AND slave node
> , meaning that I run successful serial simulations on both computers. :)
>
> Any suggestions?
>
>
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