mpicc command not found with openmpi

Aqua_Regia · 10-26-2011, 06:28 PM

I installed openmpi.i686 using yum, but I can't use the 'mpicc' complier/wrapper.

Code:

[wcucluster.master@wcucluster ~]$ mpicc
bash: mpicc: command not found...

I've looked on their website but haven't found any useful information. Does this require some special configuration that yum doesn't do. What am I missing?

knudfl · 10-26-2011, 06:44 PM

'mpicc' is in the package 'openmpi-devel'.

You can list the installed files from a package with :
rpm -ql openmpi

'openmpi-devel' will provide /usr/lib/openmpi/1.4-gcc/bin/mpicc
... and 250 other files.

.

Aqua_Regia · 10-26-2011, 06:57 PM

Should I uninstall the openmpi package I installed with yum to avoid problems with the two packages or do I need both?

Aqua_Regia · 10-26-2011, 07:14 PM

Thanks for the help! I installed it using yum

Code:

yum install openmpi-devel.i686

had to search to find it.

Aqua_Regia · 10-26-2011, 07:29 PM

Ok I installed the package and found the directory but I can't get mpicc to run.

Code:

[wcucluster.master@wcucluster ~]$ cd /usr/lib/openmpi/bin
[wcucluster.master@wcucluster bin]$ ls
mpic++    mpiCC-vt   mpiexec    mpif90-vt   ompi-iof       ompi-server   orte-bootproxy.sh  orte-clean  orterun              otfconfig  otfprofile  vtCC   vtfilter
mpicc     mpic++-vt  mpif77     mpirun      ompi-probe     ompi-top      ortec++            orted       orte-top             otfdump    otfshrink   vtcxx  vtunify
mpiCC     mpicxx     mpif77-vt  ompi-clean  ompi-profiler  opal_wrapper  ortecc             orte-iof    orte_wrapper_script  otfinfo    vtc++       vtf77  vtunify-mpi
mpicc-vt  mpicxx-vt  mpif90     ompi_info   ompi-ps        opari         orteCC             orte-ps     otfaux               otfmerge   vtcc        vtf90  vtwrapper
[wcucluster.master@wcucluster bin]$ mpicc
mpicc: Command not found.
[wcucluster.master@wcucluster bin]$ mpicc -pc
mpicc: Command not found.
[wcucluster.master@wcucluster bin]$

knudfl · 10-26-2011, 07:40 PM

Both packages are required.

Using mpicc: export PATH=/usr/lib/openmpi/bin/ && mpicc <etc. etc.>

EDIT : Should be : export PATH=$PATH:/usr/lib/openmpi/bin
See post # 9.

.

Aqua_Regia · 10-26-2011, 07:52 PM

Thanks for the help! I found it on yum

Code:

 yum install openmpi-devel.i686

Aqua_Regia · 10-26-2011, 10:10 PM

I tried issuing the command you posted to run mpicc and I recieved this error.

Code:

[wcucluster.master@wcucluster ~]$ bash
[wcucluster.master@wcucluster ~]$ export PATH=/usr/lib/openmpi/bin/ && mpicc
--------------------------------------------------------------------------
The Open MPI wrapper compiler was unable to find the specified compiler
gcc in your PATH.

Note that this compiler was either specified at configure time or in
one of several possible environment variables.
--------------------------------------------------------------------------

Nylex · 10-27-2011, 01:02 AM

That export statement wipes out your previous value of PATH. What you want is to add the OpenMPI directory to the list of directories that's already there. So, it should be

Code:

export PATH=$PATH:/usr/lib/openmpi/bin

Aqua_Regia · 10-27-2011, 08:23 AM

The command worked as far as I can tell, but when I went to run mpicc I received an error about gcc input files.

Code:

[wcucluster.master@wcucluster bin]$ bash
[wcucluster.master@wcucluster bin]$ export PATH=$PATH:/usr/lib/openmpi/bin
[wcucluster.master@wcucluster bin]$ mpicc
gcc: fatal error: no input files
compilation terminated.

Nylex · 10-27-2011, 08:25 AM

Of course, you need to tell the compiler which files it should compile! Edit: Obviously, if you have a makefile for the software, you'll want to change the relevant line so that it calls mpicc (rather than gcc). Then, you can just run make as usual.

Aqua_Regia · 10-27-2011, 10:39 AM

Ok. Now I feel like a noob and I believe I screwed something up with mpicc which was working before because I could run

Code:

[wcucluster.master@wcucluster ~]$  mpicc --help
/home/wcucluster.master/override/mpicc: line 2: /lib/openmpi/bin/mpicc: No such file or directory
[wcucluster.master@wcucluster ~]$

and info about mpicc would be displayed. I was trying to implement this guys work around on the nwchem forum so I could compile nwchem-6.0 with mpicc instead of gcc. Here is the thread.

http://www.nwchem-sw.org/index.php/S..._compi....html

I added this: PATH=/home/wcucluster.master/override:$PATH to the .bashrc file which linked to a script in that directory called mpicc with the commands.

Code:

[wcucluster.master@wcucluster override]$ cat mpicc
#!/bin/bash
/lib/openmpi/bin/mpicc -pc $@

Any Idea what I did wrong? (I'm a windows junkie I need undo buttons!)

Nylex · 10-28-2011, 09:27 AM

Aren't you missing "/usr" at the beginning of the line?