--debug
Output debug information (default: false)
--target <target>
- Distribution to build packages for (default: debian8)
+ Distribution to build packages for (default: debian9)
--only-build <package>
Build only a specific package (or $ONLY_BUILD from environment)
--command
EOF
-EXITCODE=0
+# Begin of user configuration
+
+# set to --no-cache-dir to disable pip caching
+CACHE_FLAG=
+
+MAINTAINER="Ward Vandewege <wvandewege@veritasgenetics.com>"
+VENDOR="Veritas Genetics, Inc."
+
+# End of user configuration
+
DEBUG=${ARVADOS_DEBUG:-0}
-TARGET=debian8
+EXITCODE=0
+TARGET=debian9
COMMAND=
PARSEDOPTS=$(getopt --name "$0" --longoptions \
PYTHON2_INSTALL_LIB=lib/python$PYTHON2_VERSION/site-packages
PYTHON3_PACKAGE=$(rpm -qf "$(which python$PYTHON3_VERSION)" --queryformat '%{NAME}\n')
PYTHON3_PKG_PREFIX=$PYTHON3_PACKAGE
- PYTHON3_PREFIX=/opt/rh/python33/root/usr
+ PYTHON3_PREFIX=/opt/rh/rh-python35/root/usr
PYTHON3_INSTALL_LIB=lib/python$PYTHON3_VERSION/site-packages
export PYCURL_SSL_LIBRARY=nss
;;
perl Makefile.PL INSTALL_BASE=install >"$STDOUT_IF_DEBUG" && \
make install INSTALLDIRS=perl >"$STDOUT_IF_DEBUG" && \
fpm_build install/lib/=/usr/share libarvados-perl \
- "Curoverse, Inc." dir "$(version_from_git)" install/man/=/usr/share/man \
+ dir "$(version_from_git)" install/man/=/usr/share/man \
"$WORKSPACE/apache-2.0.txt=/usr/share/doc/libarvados-perl/apache-2.0.txt" && \
mv --no-clobber libarvados-perl*.$FORMAT "$WORKSPACE/packages/$TARGET/"
fi
# Python packages
debug_echo -e "\nPython packages\n"
-cd "$WORKSPACE/sdk/pam"
-handle_python_package
-
-cd "$WORKSPACE/sdk/python"
-handle_python_package
-
-cd "$WORKSPACE/sdk/cwl"
-handle_python_package
-
-cd "$WORKSPACE/services/fuse"
-handle_python_package
-
-cd "$WORKSPACE/services/nodemanager"
-handle_python_package
-
# arvados-src
(
cd "$WORKSPACE"
cd "$SRC_BUILD_DIR"
PKG_VERSION=$(version_from_git)
cd $WORKSPACE/packages/$TARGET
- fpm_build $SRC_BUILD_DIR/=/usr/local/arvados/src arvados-src 'Curoverse, Inc.' 'dir' "$PKG_VERSION" "--exclude=usr/local/arvados/src/.git" "--url=https://arvados.org" "--license=GNU Affero General Public License, version 3.0" "--description=The Arvados source code" "--architecture=all"
+ fpm_build $SRC_BUILD_DIR/=/usr/local/arvados/src arvados-src 'dir' "$PKG_VERSION" "--exclude=usr/local/arvados/src/.git" "--url=https://arvados.org" "--license=GNU Affero General Public License, version 3.0" "--description=The Arvados source code" "--architecture=all"
rm -rf "$SRC_BUILD_DIR"
-
fi
)
"Arvados server daemons"
package_go_binary cmd/arvados-server arvados-controller \
"Arvados cluster controller daemon"
-package_go_binary sdk/go/crunchrunner crunchrunner \
- "Crunchrunner executes a command inside a container and uploads the output"
+package_go_binary cmd/arvados-server arvados-dispatch-cloud \
+ "Arvados cluster cloud dispatch"
package_go_binary services/arv-git-httpd arvados-git-httpd \
"Provide authenticated http access to Arvados-hosted git repositories"
package_go_binary services/crunch-dispatch-local crunch-dispatch-local \
package_go_binary tools/keep-exercise keep-exercise \
"Performance testing tool for Arvados Keep"
-# The Python SDK
-# Please resist the temptation to add --no-python-fix-name to the fpm call here
-# (which would remove the python- prefix from the package name), because this
-# package is a dependency of arvados-fuse, and fpm can not omit the python-
-# prefix from only one of the dependencies of a package... Maybe I could
-# whip up a patch and send it upstream, but that will be for another day. Ward,
-# 2014-05-15
-cd $WORKSPACE/packages/$TARGET
-rm -rf "$WORKSPACE/sdk/python/build"
-arvados_python_client_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/sdk/python/arvados_python_client.egg-info/PKG-INFO)}
-test_package_presence ${PYTHON2_PKG_PREFIX}-arvados-python-client "$arvados_python_client_version" python
-if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/sdk/python "${PYTHON2_PKG_PREFIX}-arvados-python-client" 'Curoverse, Inc.' 'python' "$arvados_python_client_version" "--url=https://arvados.org" "--description=The Arvados Python SDK" --depends "${PYTHON2_PKG_PREFIX}-setuptools" --deb-recommends=git
-fi
+# The Python SDK - Should be built first because it's needed by others
+fpm_build_virtualenv "arvados-python-client" "sdk/python"
-# cwl-runner
-cd $WORKSPACE/packages/$TARGET
-rm -rf "$WORKSPACE/sdk/cwl/build"
-arvados_cwl_runner_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/sdk/cwl/arvados_cwl_runner.egg-info/PKG-INFO)}
-declare -a iterargs=()
-if [[ -z "$ARVADOS_BUILDING_VERSION" ]]; then
- arvados_cwl_runner_iteration=4
- iterargs+=(--iteration $arvados_cwl_runner_iteration)
-else
- arvados_cwl_runner_iteration=
-fi
-test_package_presence ${PYTHON2_PKG_PREFIX}-arvados-cwl-runner "$arvados_cwl_runner_version" python "$arvados_cwl_runner_iteration"
-if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/sdk/cwl "${PYTHON2_PKG_PREFIX}-arvados-cwl-runner" 'Curoverse, Inc.' 'python' "$arvados_cwl_runner_version" "--url=https://arvados.org" "--description=The Arvados CWL runner" --depends "${PYTHON2_PKG_PREFIX}-setuptools" --depends "${PYTHON2_PKG_PREFIX}-subprocess32 >= 3.5.0" --depends "${PYTHON2_PKG_PREFIX}-pathlib2" --depends "${PYTHON2_PKG_PREFIX}-scandir" "${iterargs[@]}"
-fi
-
-# schema_salad. This is a python dependency of arvados-cwl-runner,
-# but we can't use the usual PYTHONPACKAGES way to build this package due to the
-# intricacies of how version numbers get generated in setup.py: we need a specific version,
-# e.g. 1.7.20160316203940. If we don't explicitly list that version with the -v
-# argument to fpm, and instead specify it as schema_salad==1.7.20160316203940, we get
-# a package with version 1.7. That's because our gittagger hack is not being
-# picked up by self.distribution.get_version(), which is called from
-# https://github.com/jordansissel/fpm/blob/master/lib/fpm/package/pyfpm/get_metadata.py
-# by means of this command:
-#
-# python2.7 setup.py --command-packages=pyfpm get_metadata --output=metadata.json
-#
-# So we build this thing separately.
-#
-# Ward, 2016-03-17
-saladversion=$(cat "$WORKSPACE/sdk/cwl/setup.py" | grep schema-salad== | sed "s/.*==\(.*\)'.*/\1/")
-test_package_presence python-schema-salad "$saladversion" python 2
-if [[ "$?" == "0" ]]; then
- fpm_build schema_salad "" "" python $saladversion --depends "${PYTHON2_PKG_PREFIX}-lockfile >= 1:0.12.2-2" --depends "${PYTHON2_PKG_PREFIX}-avro = 1.8.1-2" --iteration 2
-fi
-
-# And for cwltool we have the same problem as for schema_salad. Ward, 2016-03-17
-cwltoolversion=$(cat "$WORKSPACE/sdk/cwl/setup.py" | grep cwltool== | sed "s/.*==\(.*\)'.*/\1/")
-test_package_presence python-cwltool "$cwltoolversion" python 2
-if [[ "$?" == "0" ]]; then
- fpm_build cwltool "" "" python $cwltoolversion --iteration 2
-fi
+# Arvados cwl runner
+fpm_build_virtualenv "arvados-cwl-runner" "sdk/cwl"
# The PAM module
-if [[ $TARGET =~ debian|ubuntu ]]; then
- cd $WORKSPACE/packages/$TARGET
- rm -rf "$WORKSPACE/sdk/pam/build"
- libpam_arvados_version=$(awk '($1 == "Version:"){print $2}' $WORKSPACE/sdk/pam/arvados_pam.egg-info/PKG-INFO)
- test_package_presence libpam-arvados "$libpam_arvados_version" python
- if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/sdk/pam libpam-arvados 'Curoverse, Inc.' 'python' "$libpam_arvados_version" "--url=https://arvados.org" "--description=PAM module for authenticating shell logins using Arvados API tokens" --depends libpam-python
- fi
-fi
+fpm_build_virtualenv "libpam-arvados" "sdk/pam"
# The FUSE driver
-# Please see comment about --no-python-fix-name above; we stay consistent and do
-# not omit the python- prefix first.
-cd $WORKSPACE/packages/$TARGET
-rm -rf "$WORKSPACE/services/fuse/build"
-arvados_fuse_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/services/fuse/arvados_fuse.egg-info/PKG-INFO)}
-test_package_presence "${PYTHON2_PKG_PREFIX}-arvados-fuse" "$arvados_fuse_version" python
-if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/services/fuse "${PYTHON2_PKG_PREFIX}-arvados-fuse" 'Curoverse, Inc.' 'python' "$arvados_fuse_version" "--url=https://arvados.org" "--description=The Keep FUSE driver" --depends "${PYTHON2_PKG_PREFIX}-setuptools"
-fi
+fpm_build_virtualenv "arvados-fuse" "services/fuse"
# The node manager
-cd $WORKSPACE/packages/$TARGET
-rm -rf "$WORKSPACE/services/nodemanager/build"
-nodemanager_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/services/nodemanager/arvados_node_manager.egg-info/PKG-INFO)}
-test_package_presence arvados-node-manager "$nodemanager_version" python
-if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/services/nodemanager arvados-node-manager 'Curoverse, Inc.' 'python' "$nodemanager_version" "--url=https://arvados.org" "--description=The Arvados node manager" --depends "${PYTHON2_PKG_PREFIX}-setuptools"
-fi
-
-# The Docker image cleaner
-cd $WORKSPACE/packages/$TARGET
-rm -rf "$WORKSPACE/services/dockercleaner/build"
-dockercleaner_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/services/dockercleaner/arvados_docker_cleaner.egg-info/PKG-INFO)}
-iteration="${ARVADOS_BUILDING_ITERATION:-4}"
-test_package_presence arvados-docker-cleaner "$dockercleaner_version" python "$iteration"
-if [[ "$?" == "0" ]]; then
- fpm_build $WORKSPACE/services/dockercleaner arvados-docker-cleaner 'Curoverse, Inc.' 'python3' "$dockercleaner_version" "--url=https://arvados.org" "--description=The Arvados Docker image cleaner" --depends "${PYTHON3_PKG_PREFIX}-websocket-client = 0.37.0" --iteration "$iteration"
-fi
+fpm_build_virtualenv "arvados-node-manager" "services/nodemanager"
# The Arvados crunchstat-summary tool
-cd $WORKSPACE/packages/$TARGET
-crunchstat_summary_version=${ARVADOS_BUILDING_VERSION:-$(awk '($1 == "Version:"){print $2}' $WORKSPACE/tools/crunchstat-summary/crunchstat_summary.egg-info/PKG-INFO)}
-iteration="${ARVADOS_BUILDING_ITERATION:-2}"
-test_package_presence "$PYTHON2_PKG_PREFIX"-crunchstat-summary "$crunchstat_summary_version" python "$iteration"
-if [[ "$?" == "0" ]]; then
- rm -rf "$WORKSPACE/tools/crunchstat-summary/build"
- fpm_build $WORKSPACE/tools/crunchstat-summary ${PYTHON2_PKG_PREFIX}-crunchstat-summary 'Curoverse, Inc.' 'python' "$crunchstat_summary_version" "--url=https://arvados.org" "--description=Crunchstat-summary reads Arvados Crunch log files and summarize resource usage" --iteration "$iteration"
-fi
-
-# Forked libcloud
-if test_package_presence "$PYTHON2_PKG_PREFIX"-apache-libcloud "$LIBCLOUD_PIN" python 2
-then
- LIBCLOUD_DIR=$(mktemp -d)
- (
- cd $LIBCLOUD_DIR
- git clone $DASHQ_UNLESS_DEBUG https://github.com/curoverse/libcloud.git .
- git checkout $DASHQ_UNLESS_DEBUG apache-libcloud-$LIBCLOUD_PIN
- # libcloud is absurdly noisy without -q, so force -q here
- OLD_DASHQ_UNLESS_DEBUG=$DASHQ_UNLESS_DEBUG
- DASHQ_UNLESS_DEBUG=-q
- handle_python_package
- DASHQ_UNLESS_DEBUG=$OLD_DASHQ_UNLESS_DEBUG
- )
-
- # libcloud >= 2.3.0 now requires python-requests 2.4.3 or higher, otherwise
- # it throws
- # ImportError: No module named packages.urllib3.poolmanager
- # when loaded. We only see this problem on ubuntu1404, because that is our
- # only supported distribution that ships with a python-requests older than
- # 2.4.3.
- fpm_build $LIBCLOUD_DIR "$PYTHON2_PKG_PREFIX"-apache-libcloud "" python "" --iteration 2 --depends 'python-requests >= 2.4.3'
- rm -rf $LIBCLOUD_DIR
-fi
-
-# Python 2 dependencies
-declare -a PIP_DOWNLOAD_SWITCHES=(--no-deps)
-# Add --no-use-wheel if this pip knows it.
-pip install --no-use-wheel >/dev/null 2>&1
-case "$?" in
- 0) PIP_DOWNLOAD_SWITCHES+=(--no-use-wheel) ;;
- 1) ;;
- 2) ;;
- *) echo "WARNING: 'pip install --no-use-wheel' test returned unknown exit code $?" ;;
-esac
-
-while read -r line || [[ -n "$line" ]]; do
-# echo "Text read from file: $line"
- if [[ "$line" =~ ^# ]]; then
- continue
- fi
- IFS='|'; arr=($line); unset IFS
+fpm_build_virtualenv "crunchstat-summary" "tools/crunchstat-summary"
- dist=${arr[0]}
+# The Python SDK - Python3 package
+fpm_build_virtualenv "arvados-python-client" "sdk/python" "python3"
- IFS=',';dists=($dist); unset IFS
-
- MATCH=0
- for d in "${dists[@]}"; do
- if [[ "$d" == "$TARGET" ]] || [[ "$d" == "all" ]]; then
- MATCH=1
- fi
- done
-
- if [[ "$MATCH" != "1" ]]; then
- continue
- fi
- name=${arr[1]}
- version=${arr[2]}
- iteration=${arr[3]}
- pkgtype=${arr[4]}
- arch=${arr[5]}
- extra=${arr[6]}
- declare -a 'extra_arr=('"$extra"')'
-
- if [[ "$FORMAT" == "rpm" ]]; then
- if [[ "$arch" == "all" ]]; then
- arch="noarch"
- fi
- if [[ "$arch" == "amd64" ]]; then
- arch="x86_64"
- fi
- fi
-
- if [[ "$pkgtype" == "python" ]]; then
- outname=$(echo "$name" | sed -e 's/^python-//' -e 's/_/-/g' -e "s/^/${PYTHON2_PKG_PREFIX}-/")
- else
- outname=$(echo "$name" | sed -e 's/^python-//' -e 's/_/-/g' -e "s/^/${PYTHON3_PKG_PREFIX}-/")
- fi
+# The Docker image cleaner
+fpm_build_virtualenv "arvados-docker-cleaner" "services/dockercleaner" "python3"
- if [[ -n "$ONLY_BUILD" ]] && [[ "$outname" != "$ONLY_BUILD" ]] ; then
- continue
- fi
+# The cwltest package, which lives out of tree
+cd "$WORKSPACE"
+if [[ -e "$WORKSPACE/cwltest" ]]; then
+ rm -rf "$WORKSPACE/cwltest"
+fi
+git clone https://github.com/common-workflow-language/cwltest.git
+# signal to our build script that we want a cwltest executable installed in /usr/bin/
+mkdir cwltest/bin && touch cwltest/bin/cwltest
+fpm_build_virtualenv "cwltest" "cwltest"
+rm -rf "$WORKSPACE/cwltest"
- case "$name" in
- httplib2|google-api-python-client)
- test_package_presence $outname $version $pkgtype $iteration $arch
- if [[ "$?" == "0" ]]; then
- # Work around 0640 permissions on some package files.
- # See #7591 and #7991.
- pyfpm_workdir=$(mktemp --tmpdir -d pyfpm-XXXXXX) && (
- set -e
- cd "$pyfpm_workdir"
- PIP_VERSION=`python$PYTHON2_VERSION -c "import pip; print(pip.__version__)" |cut -f1 -d.`
- if (( $PIP_VERSION < 8 )); then
- pip install "${PIP_DOWNLOAD_SWITCHES[@]}" --download . "$name==$version"
- else
- pip download --no-deps --no-binary :all: "$name==$version"
- fi
- # Sometimes pip gives us a tarball, sometimes a zip file...
- DOWNLOADED=`ls $name-*`
- [[ "$DOWNLOADED" =~ ".tar" ]] && tar -xf $DOWNLOADED
- [[ "$DOWNLOADED" =~ ".zip" ]] && unzip $DOWNLOADED
- cd "$name"-*/
- "python$PYTHON2_VERSION" setup.py $DASHQ_UNLESS_DEBUG egg_info build
- chmod -R go+rX .
- set +e
- fpm_build . "$outname" "" "$pkgtype" "$version" --iteration "$iteration" "${extra_arr[@]}"
- # The upload step uses the package timestamp to determine
- # if it is new. --no-clobber plays nice with that.
- mv --no-clobber "$outname"*.$FORMAT "$WORKSPACE/packages/$TARGET"
- )
- if [ 0 != "$?" ]; then
- echo "ERROR: $name build process failed"
- EXITCODE=1
- fi
- if [ -n "$pyfpm_workdir" ]; then
- rm -rf "$pyfpm_workdir"
- fi
- fi
- ;;
- *)
- test_package_presence $outname $version $pkgtype $iteration $arch
- if [[ "$?" == "0" ]]; then
- fpm_build "$name" "$outname" "" "$pkgtype" "$version" --iteration "$iteration" "${extra_arr[@]}"
- fi
- ;;
- esac
-
-done <`dirname "$(readlink -f "$0")"`"/build.list"
+calculate_go_package_version arvados_server_version cmd/arvados-server
+arvados_server_iteration=$(default_iteration "arvados-server" "$arvados_server_version" "go")
# Build the API server package
test_rails_package_presence arvados-api-server "$WORKSPACE/services/api"
handle_rails_package arvados-api-server "$WORKSPACE/services/api" \
"$WORKSPACE/agpl-3.0.txt" --url="https://arvados.org" \
--description="Arvados API server - Arvados is a free and open source platform for big data science." \
- --license="GNU Affero General Public License, version 3.0"
+ --license="GNU Affero General Public License, version 3.0" --depends "arvados-server = ${arvados_server_version}-${arvados_server_iteration}"
fi
# Build the workbench server package
if [[ "$?" == "0" ]] ; then
(
set -e
+
+ # The workbench package has a build-time dependency on the arvados-server
+ # package for config manipulation, so install it first.
+ cd $WORKSPACE/cmd/arvados-server
+ get_complete_package_name arvados_server_pkgname arvados-server ${arvados_server_version} go
+
+ arvados_server_pkg_path="$WORKSPACE/packages/$TARGET/${arvados_server_pkgname}"
+ if [[ ! -e ${arvados_server_pkg_path} ]]; then
+ arvados_server_pkg_path="$WORKSPACE/packages/$TARGET/processed/${arvados_server_pkgname}"
+ fi
+ if [[ "$FORMAT" == "deb" ]]; then
+ dpkg -i ${arvados_server_pkg_path}
+ else
+ rpm -i ${arvados_server_pkg_path}
+ fi
+
cd "$WORKSPACE/apps/workbench"
# We need to bundle to be ready even when we build a package without vendor directory
rm -rf tmp
mkdir tmp
- # Set up application.yml and production.rb so that asset precompilation works
- \cp config/application.yml.example config/application.yml -f
- \cp config/environments/production.rb.example config/environments/production.rb -f
- sed -i 's/secret_token: ~/secret_token: xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx/' config/application.yml
- sed -i 's/keep_web_url: false/keep_web_url: exampledotcom/' config/application.yml
+ # Set up an appropriate config.yml
+ arvados-server config-dump -config <(cat /etc/arvados/config.yml 2>/dev/null || echo "Clusters: {zzzzz: {}}") > /tmp/x
+ mkdir -p /etc/arvados/
+ mv /tmp/x /etc/arvados/config.yml
+ perl -p -i -e 'BEGIN{undef $/;} s/WebDAV(.*?):\n( *)ExternalURL: ""/WebDAV$1:\n$2ExternalURL: "example.com"/g' /etc/arvados/config.yml
- RAILS_ENV=production RAILS_GROUPS=assets bundle exec rake npm:install >/dev/null
- RAILS_ENV=production RAILS_GROUPS=assets bundle exec rake assets:precompile >/dev/null
+ RAILS_ENV=production RAILS_GROUPS=assets bundle exec rake npm:install >"$STDOUT_IF_DEBUG"
+ RAILS_ENV=production RAILS_GROUPS=assets bundle exec rake assets:precompile >"$STDOUT_IF_DEBUG"
# Remove generated configuration files so they don't go in the package.
- rm config/application.yml config/environments/production.rb
+ rm -rf /etc/arvados/
)
if [[ "$?" != "0" ]]; then
handle_rails_package arvados-workbench "$WORKSPACE/apps/workbench" \
"$WORKSPACE/agpl-3.0.txt" --url="https://arvados.org" \
--description="Arvados Workbench - Arvados is a free and open source platform for big data science." \
- --license="GNU Affero General Public License, version 3.0"
+ --license="GNU Affero General Public License, version 3.0" --depends "arvados-server = ${arvados_server_version}-${arvados_server_iteration}"
fi
fi
projects / arvados.git / blobdiff