mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Nicola Soranzo
23185e7039
so we will be able to drop Python 3.7 support for the rest of the code base. Add a new `test_galaxy_packages_for_pulsar` tox environment and modify the `test.sh` script so that when the `--for-pulsar` argument is passed: - only the 4 packages used by Pulsar are tested - mypy checks are skipped - unit tests don't skip the tests marked with `external_dependency_management` (i.e. those conda/container-related). Also: - Add missing pydantic requirement to the galaxy-objectstore package
64 lines
1.9 KiB
Bash
Executable File
64 lines
1.9 KiB
Bash
Executable File
#!/bin/bash
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set -ex
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PACKAGE_LIST_FILE=packages_by_dep_dag.txt
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FOR_PULSAR=0
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for arg in "$@"; do
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if [ "$arg" = "--for-pulsar" ]; then
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PACKAGE_LIST_FILE=packages_for_pulsar_by_dep_dag.txt
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FOR_PULSAR=1
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fi
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done
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# Don't display the pip progress bar when running under CI
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[ "$CI" = 'true' ] && export PIP_PROGRESS_BAR=off
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# Change to packages directory.
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cd "$(dirname "$0")"
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# Use a throw-away virtualenv
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TEST_PYTHON=${TEST_PYTHON:-"python"}
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TEST_ENV_DIR=${TEST_ENV_DIR:-$(mktemp -d -t gxpkgtestenvXXXXXX)}
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virtualenv -p "$TEST_PYTHON" "$TEST_ENV_DIR"
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. "${TEST_ENV_DIR}/bin/activate"
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pip install --upgrade pip setuptools wheel
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if [ $FOR_PULSAR -eq 0 ]; then
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pip install -r../lib/galaxy/dependencies/pinned-typecheck-requirements.txt
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fi
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# ensure ordered by dependency DAG
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while read -r package_dir; do
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printf "\n========= TESTING PACKAGE ${package_dir} =========\n\n"
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cd "$package_dir"
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# Install extras (if needed)
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if [ "$package_dir" = "util" ]; then
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pip install -e '.[template,jstree]'
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elif [ "$package_dir" = "tool_util" ]; then
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pip install -e '.[cwl,mulled,edam]'
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else
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pip install -e '.'
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fi
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pip install -r test-requirements.txt
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if [ $FOR_PULSAR -eq 0 ]; then
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marker_args=(-m 'not external_dependency_management')
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else
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marker_args=()
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fi
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# Prevent execution of alembic/env.py at test collection stage (alembic.context not set)
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# Also ignore functional tests (galaxy_test/ and tool_shed/test/).
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unit_extra=(--doctest-modules --ignore=galaxy/model/migrations/alembic/ --ignore=galaxy_test/ --ignore=tool_shed/test/ --ignore=tool_shed/webapp/model/migrations/alembic/ "${marker_args[@]}")
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# Ignore exit code 5 (no tests ran)
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pytest "${unit_extra[@]}" . || test $? -eq 5
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if [ $FOR_PULSAR -eq 0 ]; then
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make mypy
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fi
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cd ..
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done < $PACKAGE_LIST_FILE
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