The OPAL Discussion Forum

["Gsell Achim (PSI)" <achim.gsell AT psi.ch>]

Dear Simon,

the errors below shouldn’t happen and I don’t think they are due to some compilation error. For some reason OPAL tries to override already existing attribute, but since the file is opened in append mode, this is not allowed. Actually OPAL should throw an exception instead of writing a message and continue.

Would it be possible to send us your input files?

Best

Achim

On 5 Oct 2020, at 12:08, Dr. Simon Friederich <s.friederich AT uni-mainz.de> wrote:

Dear OPAL-Team,

I wanted to simulate using
    mpirun -np 2 opal input.in

The simulation "opal input.in" runs perfectly fine without errors, but using mpirun shows multiple error messages over and over again and the results look 'strangely merged'(?; don't know how to call it; I've put two pictures in the attachement).

Here are some main error messages (the step number changes)

    [proc 0] E: H5WriteStepAttribString: Cannot overwrite attribute /Step#0/OPAL_flavour
    Error> H5 rc= -2 in /home/frieders/opal/opal_source/git-OPAL-src/src/Structure/H5PartWrapperForPT.cpp @ line 326
    [proc 0] E: H5WriteStepAttribFloat64: Cannot overwrite attribute /Step#0/SPOS
    ...

    [proc 0] E: H5SetStep: Cannot query link //Step#346.
    ...

    [proc 0] E: H5WriteStepAttribFloat64: Iteration is invalid! Have you set the time step?
    Error> H5 rc= -2 in /home/frieders/opal/opal_source/git-OPAL-src/src/Structure/H5PartWrapperForPT.cpp @ line 375

I've saved the complete terminal output here:
https://seafile.rlp.net/f/f810b1f514da4a6bb446/

I guess the error occurs because I've done something wrong when compiling OPAL
(either within needed toolchain or within the making of OPAL; I have used the "OPAL-2.4" branch with commit ffded40c6dd317d).

I guess it has something to do with h5hut. Do you have any hint for me, where to look for? Can I test h5hut by itself?

(Until now I've only used a virtual machine using Debian 10, but now I've a desktop-pc with Ubuntu 20.04.1 LTS at hand, where the error occurs too.)

Best regards and thank you very much in advance

Simon

-- 
Dr. Simon Friederich
Helmholtz-Institut Mainz
Kollaboration B/ACID
Johannes Gutenberg-Universität Mainz
Staudingerweg 18
55128 Mainz, Deutschland

Tel.: +49 (0)6131 39-23160
E-Mail: s.friederich AT uni-mainz.de

<mpirun_result.png.png><opal_result.png>

Senior Scientist
Paul Scherrer Institut
Laboratory for Scientific Computing and Modeling
OHSA/D04
5232 Villigen PSI