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#! /bin/sh -e
# genenetwork-machines --- Guix configuration for genenetwork machines
# Copyright © 2025 Munyoki Kilyungi <me@bonfacemunyoki.com>
#
# This file is part of genenetwork-machines.
#
# genenetwork-machines is free software: you can redistribute it
# and/or modify it under the terms of the GNU General Public License
# as published by the Free Software Foundation, either version 3 of
# the License, or (at your option) any later version.
#
# genenetwork-machines is distributed in the hope that it will be
# useful, but WITHOUT ANY WARRANTY; without even the implied warranty
# of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
# General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with genenetwork-machines. If not, see
# <https://www.gnu.org/licenses/>.
# Build and install genenetwork production container on tux02.
system_directories=("$HOME"/genenetwork/var/log
"$HOME"/genenetwork/var/genenetwork
"$HOME"/genenetwork/etc/genenetwork/conf
"$HOME"/genenetwork/etc/genenetwork
"$HOME"/genenetwork/var/lib/redis
"$HOME"/genenetwork/var/lib/virtuoso
"$HOME"/genenetwork/var/lib/xapian
"$HOME"/genenetwork/var/lib/genenetwork-sqlite
"$HOME"/genenetwork/var/lib/genenetwork-gnqa
/tmp/local-container)
for dir in "${system_directories[@]}"; do
if [[ ! -d $dir ]]; then
mkdir -p $dir
fi
done
gn_projects=(genenetwork2 genenetwork3)
for project in "${gn_projects[@]}"; do
dir="${HOME}/genenetwork/${project}"
if [[ ! -d $dir ]]; then
git clone "git@github.com:genenetwork/${project}" $dir
fi
done
if [[ ! -d "${HOME}/genenetwork/gn-auth" ]]; then
git clone "https://git.genenetwork.org/gn-auth" "${HOME}/genenetwork/gn-auth"
fi
if [[ ! -d "${HOME}/genenetwork/gn-docs" ]]; then
git clone --bare "https://git.genenetwork.org/gn-docs" "${HOME}/genenetwork/gn-docs"
fi
container_script=$(guix system container \
--network \
--load-path=. \
--verbosity=3 \
--share="$HOME"/genenetwork/var/log=/var/log \
--share="$HOME"/genenetwork/var/genenetwork=/var/genenetwork \
--share="$HOME"/genenetwork/etc/genenetwork/conf=/etc/genenetwork/conf \
--share="$HOME"/genenetwork/etc/genenetwork=/etc/genenetwork \
--share="$HOME"/genenetwork/var/lib/redis=/var/lib/redis \
--share="$HOME"/genenetwork/var/lib/virtuoso/=/var/lib/virtuoso \
--share="$HOME"/genenetwork/genenetwork2=/genenetwork2 \
--share="$HOME"/genenetwork/genenetwork3=/genenetwork3 \
--share="$HOME"/genenetwork/gn-auth=/gn-auth \
--share="$HOME"/genenetwork/var/lib/xapian=/var/lib/xapian \
--share="$HOME"/genenetwork/var/lib/genenetwork-sqlite=/var/lib/genenetwork-sqlite \
--share="$HOME"/genenetwork/var/lib/genenetwork-gnqa=/var/lib/genenetwork-gnqa \
--share=/tmp/local-container=/tmp \
--share="$HOME"/genenetwork/gn-docs=/var/lib/gn-docs \
--share=/run/mysqld=/run/mysqld \
genenetwork-local-container.scm)
echo $container_script
sudo ln --force --symbolic $container_script /usr/local/bin/genenetwork-local-container
sudo ln --force --symbolic /usr/local/bin/genenetwork-local-container /var/guix/gcroots
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