mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-10-25 00:12:08 +08:00
John Davis
7084957ef0
Otherwise alembic/env.py gets executed out of context at test collection
stage (via tox -e unit >> run_tests.sh), which raises an AttributeError
(alembic.context is not set in this case).
Same solution as in 3be1f6fef3
Also minor reformat.
46 lines
1.5 KiB
Bash
Executable File
46 lines
1.5 KiB
Bash
Executable File
#!/bin/bash
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set -ex
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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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pip install -r../lib/galaxy/dependencies/pinned-typecheck-requirements.txt
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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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# 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/
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--ignore=tool_shed/test/ --ignore=tool_shed/webapp/model/migrations/alembic/'
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# Ignore exit code 5 (no tests ran)
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pytest $unit_extra -m 'not external_dependency_management' . || test $? -eq 5
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make mypy
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cd ..
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done < packages_by_dep_dag.txt
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