[FLASH-USERS] Library conflict at the end of make and segmentation fault

Wed Feb 7 05:45:50 EST 2024

Hi Adam,

thank you for the reply.
I was aware that this might be the problem, but I don’t know how to check it.
How can I know which is the version of the compiler used for building the mpi library?

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Il giorno 7 feb 2024, alle ore 11:30, Reyes, Adam <adam.reyes at rochester.edu> ha scritto:

Hi Mattia,

The warning suggests that compiler that you’re using for FLASH is different from the one used to compile the openmpi library. You could check that “mpif90 --version” returns the same GCC 7.3.0 version your warning says that openmpi was built with.

It’s difficult to say if this is related to your seg fault or not without more context about where the error is occurring, either from the stdout or the log file.
*********************************************
Adam Reyes

<FLASH.jpg>
Code Group Leader, Flash Center for Computational Science
Research Scientist, Dept. of Physics and Astronomy
University of Rochester
River Campus: Bausch and Lomb Hall, 369
500 Wilson Blvd. PO Box 270171, Rochester, NY 14627
Email adam.reyes at rochester.edu
Web https://flash.rochester.edu
 (he / him / his)
<FLASH-pride-sml.png>

*********************************************

On Feb 7, 2024, at 11:06 AM, Mattia Cipriani <mattia.cipriani at enea.it> wrote:

Hi,

I am recently experiencing some issues with FLASH 4.7.1 simulations, after updating from FLASH 4.5.
I am using the same site-specific Makefile.h which was working before, since the configuration of the cluster did not change from the past.
Also the compilers are the same as before.
I use the setup script to collect all the needed files and objects for compiling the simulation and then I use make to compile it.
At the end of the execution of make, I get the following warning

/bin/ld: warning: libgfortran.so.4, needed by /usr/mpi/gcc730/openmpi-3.1.2/lib/libmpi_usempif08.so, may conflict with libgfortran.so.3

If I run the flash4 executables with mpirun it starts to run ok, but at some apparently random point of the simulation I get a segmentation fault error.

I am wondering if the warning from make could be the reason for the segmentation fault error.
How can I solve the warning?
I know it is a linux-related question rather than a FLASH problem, but I would be glad if you can help or at least give me a feedback if the segmentation fault error might be due to the warning from make.

Best regards,
Mattia

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