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Patch U26 OpenMPI #41

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Merged
AlexlHer merged 2 commits into from
Jun 17, 2026
Merged

Patch U26 OpenMPI #41

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c612b36
[Minimal] Patch OpenMPI -- Add Pythonnet
AlexlHer Jun 15, 2026
78e1411
[Minimal] Add env var for login bash
AlexlHer Jun 16, 2026
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31 changes: 31 additions & 0 deletions dockerfiles/minimal/build_scripts/minimal_apt.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -9,22 +9,31 @@ set -e
#---------------------------------------------------------------------------

apt-get update

# https://github.com/open-mpi/ompi/issues/13886
echo "path-include=/usr/share/doc/libprrte-dev/help-*" >> /etc/dpkg/dpkg.cfg.d/excludes
# libprrte-dev gzip

apt-get install -y --no-install-recommends \
apt-utils \
gnupg \
wget \
curl \
rsync \
build-essential \
\
gcc-15 g++-15 \
gcc g++ \
\
clang-22 \
clang-20 \
\
make \
cmake \
ccache \
ninja-build \
mold \
\
iputils-ping \
python3-dev \
python3-pip \
Expand All @@ -35,9 +44,14 @@ apt-get install -y --no-install-recommends \
libboost-program-options-dev \
libopenblas-dev \
libxml2-dev \
\
libhdf5-dev \
libhdf5-openmpi-dev \
\
libopenmpi-dev \
gzip \
libprrte-dev \
\
libmetis-dev \
libtbb-dev \
libunwind-dev \
Expand All @@ -61,6 +75,23 @@ update-alternatives --install /usr/bin/clang++ clang++ /usr/bin/clang++-20 90
#---------------------------------------------------------------------------
#---------------------------------------------------------------------------

# https://github.com/open-mpi/ompi/issues/13886
ARCH=`uname -m`
if [ ! -f /usr/lib/${ARCH}-linux-gnu/prrte3/share/prte/help-prun.txt ]; then
# fix a packaging issue: https://bugs.launchpad.net/ubuntu/+source/openmpi/+bug/2155666
mkdir -p /usr/lib/${ARCH}-linux-gnu/prrte3/share/prte
cp /usr/share/doc/libprrte-dev/help-schizo-ompi.txt /usr/lib/${ARCH}-linux-gnu/prrte3/share/prte/
cp /usr/share/doc/libprrte-dev/help-prun.txt.gz /usr/lib/${ARCH}-linux-gnu/prrte3/share/prte/
gzip -d /usr/lib/${ARCH}-linux-gnu/prrte3/share/prte/help-prun.txt.gz ;
fi

# https://github.com/open-mpi/ompi/issues/12517
echo "export OMPI_MCA_osc=sm" >> /etc/bash.bashrc
echo "export OMPI_MCA_osc=sm" > /etc/profile.d/patch_mpi.sh

#---------------------------------------------------------------------------
#---------------------------------------------------------------------------

# Cleanup
rm -rf /var/lib/apt/lists/*
rm -rf /var/cache/*
Expand Down
4 changes: 1 addition & 3 deletions dockerfiles/minimal/build_scripts/pip.sh
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Expand Up @@ -7,10 +7,8 @@ set -e
#---------------------------------------------------------------------------

# Installation de PythonNet et de NumPy.
# pip install --break-system-packages \
# pythonnet \
# numpy
pip install --break-system-packages \
pythonnet \
numpy

# Cleanup
Expand Down
18 changes: 18 additions & 0 deletions dockerfiles/minimal/scripts/config_env.sh
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Original file line number Diff line number Diff line change
@@ -0,0 +1,18 @@
#!/bin/sh

# Script permettant de configurer l'environnement initial.
# Nécessaire uniquement si /etc/profile et/ou /etc/bash.bashrc ne sont sourcés
# (par exemple avec les options --norc --noprofile).

#---------------------------------------------------------------------------
#---------------------------------------------------------------------------

export OMPI_MCA_osc=sm
echo "OMPI_MCA_osc=${OMPI_MCA_osc}"

#---------------------------------------------------------------------------
#---------------------------------------------------------------------------

if [ -f "/root/scripts/config_env_full.sh" ]; then
. /root/scripts/config_env_full.sh
fi
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