Symlink Elmer mpirun to orterun

[luzpaz]

Fixes #100

[luzpaz]

According to https://snapcraft.io/docs/snap-layouts

Some applications, however, might treat symlinks differently than regular files or directories so you may need to use a bind mount in those cases.

Elmer might not like a symlink and if that's the case we'd need to change symlink: to bind: or bind-file: even though:

Layouts using bind* and tmpfs significantly increase the startup time of your snap. We recommend using symlink instead, because it has the least amount of overhead.

[luzpaz]

CC @tecodrive

[tecodrive]

in snap package mpirun.openmpi is a symlink to orterun*
lrwxrwxrwx 1 root root 7 Apr 15 2020 mpirun.openmpi -> orterun*

no need to use bind

[luzpaz]

hmm.. then we should link directly to orterun* or else we have a double symlink? (btw, why is there a * at the end of orterun) ?

[tecodrive]

marked "*" as executable under Linux (ext4) orterun*

additional symlink from mpirun to orterun should be ok

[luzpaz]

Per snap documentation:

Incompatible existing file, directory or symbolic link

Layouts cannot replace an existing but incompatible filesystem object. This means, for example, that files cannot replace directories or symbolic links, files cannot replace a directory, and existing symbolic links cannot be redirected to a new target. You can, however, replace a directory with another directory.

[luzpaz]

@tecodrive please test on Snap edge when build completes (https://github.com/FreeCAD/FreeCAD-snap/actions/runs/5872799602/job/15924976406) ? TIA

[luzpaz]

@tecodrive please run snap edge to test and report back. TIA!

[tecodrive]

Problem with Multi-CPU core support in FreeCAD snap package solved!
@luzpaz Many thanks, for your quick help!

Installation:

sudo snap info freecad
latest/edge: 0.22-ga49e1049 2023-08-16
sudo snap install freecad --edge

Instructions to run Multi-CPU core support in FreeCAD:

First open FEM Workbench (Mod) to get access to FEM settings in preferences
Open: Edit -> Preferences -> FEM -> Elmer
Uncheck: Search in known binary directories
Set: Elmer Solver binary path: /snap/freecad/current/usr/bin/ElmerSolver_mpi

[tecodrive]

problem is solved, but it's crazy, there are no file mpirun in snap/freecad/current/usr/bin/

i see only

/snap/freecad/current/usr/bin/mpirun.mpich
/snap/freecad/current/usr/bin/mpirun.openmpi

how can /snap/freecad/current/usr/Mod/Fem/femsolver/elmer/task.py find mpirun?

                if system() != "Windows":
                    args.extend(["mpirun"])
                else:
                    args.extend(["mpiexec"])

[luzpaz]

@chennes sorry, tried to solve this without you but no joy. Can you weigh-in ?

[chennes]

I'm having a hard time following the above discussion: what is the problem we are trying to solve?

[luzpaz]

@chennes see #100

Essentially the snap is looking for a missing Elmer file (which is actually a symlink which adds to further confusion). I edited the snapcraft.yml in d783438 but the issue isn't solved.

[luzpaz]

I'm going to change the symlink to see what happens

usr/bin/mpirun.openmpi: # ElmerSolver_mpi
     symlink: $SNAP/usr/bin/mpirun

Edit: Done in 6eb4d24

Triggered a new Snap edge build https://github.com/FreeCAD/FreeCAD-snap/actions/runs/5879743555/job/15944502206
Should be ready in 1.5hrs

[tecodrive]

sorry, but this was a step backwards. The bug is back, too bad.

[luzpaz]

Reverted in 18bb662

[luzpaz]

problem is solved, but it's crazy, there are no file mpirun in snap/freecad/current/usr/bin/

i see only

/snap/freecad/current/usr/bin/mpirun.mpich
/snap/freecad/current/usr/bin/mpirun.openmpi

how can /snap/freecad/current/usr/Mod/Fem/femsolver/elmer/task.py find mpirun?

                if system() != "Windows":
                    args.extend(["mpirun"])
                else:
                    args.extend(["mpiexec"])

@berndhahnebach any idea ?

See #100 (comment)

Why doesn't the FEM code reference the file extension?

[tecodrive]

@berndhahnebach.

There are two MPI variants from different developers. Both are included in the SNAP package.

/snap/freecad/current/usr/bin$
lrwxrwxrwx 1 root root     13 Feb 22  2022 mpirun.mpich -> mpiexec.hydra*
lrwxrwxrwx 1 root root      7 Mär  4  2022 mpirun.openmpi -> orterun*

MPICH is developed and maintained by a consortium of researchers from several universities and research centers around the world. It is considered to be one of the most widely used MPI implementations, and is known for its robustness and portability.

OpenMPI, on the other hand, is developed and maintained by a group of researchers from several organizations, including the Argonne National Laboratory, the University of Tennessee, and the Indiana University. It is considered to be one of the most flexible and configurable MPI implementations available, and is known for its support for a wide variety of interconnects and architectures.

Users who use other packages like apt, appimage etc., calling 'mpirun' in task.py is correct because these packages do not include gmesh and elmer and must be installed separately.

[tecodrive]

@luzpaz Reverted thanks, now problem is solved again.