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Re: [Opal] mpirun and anaconda

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  • From: Nicole R Neveu <nneveu AT>
  • To: "Kim, Seongyeol" < AT>, "Adelmann Andreas (PSI)" <andreas.adelmann AT>
  • Cc: "opal AT" <opal AT>
  • Subject: Re: [Opal] mpirun and anaconda
  • Date: Wed, 26 Jan 2022 21:48:38 +0000
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Hi Seongyeol,


Maybe you have accidentally installed another mpi in your conda environment.

This happened to me recently. You can check with mpi you are using by calling:

>which mpirun


See if you get the same results w/ and w/o your conda env loaded.






From: opal-request AT <opal-request AT> on behalf of Kim, Seongyeol < AT>
Date: Wednesday, January 26, 2022 at 12:55 PM
To: Adelmann Andreas (PSI) <andreas.adelmann AT>
Cc: opal AT <opal AT>
Subject: Re: [Opal] mpirun and anaconda

Dear Andreas,


Please find the attached pdf file for more details.


When calling the OPAL, I simply used: opal where indicates the name of the input file.

For the parallel running, I used: mpirun -np number opal Here I put the number to 4 just in case for checking.


Indeed, when I activate the Anaconda through .bashrc, you can see that there are 4 same messages when I try to do parallel run.

On the other hand, when I deactivate the Anaconda, then it works fine. This also happens when using miniconda.


Thank you for your help!

Best regards,


From: Adelmann Andreas (PSI) <andreas.adelmann AT>
Sent: Wednesday, January 26, 2022 14:20
To: Kim, Seongyeol < AT>
Cc: opal AT <opal AT>
Subject: Re: [Opal] mpirun and anaconda


Dear Seongyeol to me this is an incompatibility with the MPI library

OPAL is build with and, your Anaconda/Python installation.  


Can you elaborate a bit more how you call OPAL for the notebook?


Cheers A

Dr. sc. math. Andreas (Andy) Adelmann
Head a.i. Labor for Scientific Computing and Modelling 
Paul Scherrer Institut OHSA/ CH-5232 Villigen PSI
Phone Office: xx41 56 310 42 33 Fax: xx41 56 310 31 91
Zoom ID: 470-582-4086 Password: AdA

Zoom Link:

Friday: ETH HPK G 28   +41 44 633 3076
The more exotic, the more abstract the knowledge, 
the more profound will be its consequences.
Leon Lederman 

On 26 Jan 2022, at 19:13, Kim, Seongyeol < AT> wrote:




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