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add test for setup command line (#1302)
* fix pip * test * add nose * not install pytraj from begining if testing setup * try amberhome * fix install * test * update MANIFEST.in * git pull cpptraj * Update test_setup_command.py * clone cpptraj * try more
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,7 +1,5 @@ | ||
| graft scripts | ||
| graft pytraj | ||
| graft devtools | ||
| graft tests | ||
| graft examples | ||
| graft contributors | ||
| graft licenses | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,42 +1,47 @@ | ||
| #!/bin/sh | ||
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| sh devtools/travis-ci/pyflakes_check.sh || exit 1 | ||
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| PLATFORM=`python -c 'import sys; print(sys.platform)'` | ||
| echo "PLATFORM =" $PLATFORM | ||
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| # set env | ||
| PYTRAJ_HOME=`pwd` | ||
| export CPPTRAJHOME=`pwd`"/cpptraj/" | ||
| cd tests/energies/fake_amberhome/ | ||
| export AMBERHOME=`pwd` | ||
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| # go back to tests folder | ||
| cd ../../ | ||
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| # print info | ||
| python run_simple_test.py || exit 1 | ||
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| # run tests | ||
| if [ "$PLATFORM" = "linux" ]; then | ||
| nosetests --with-coverage --cover-package pytraj -vs test_*.py */test_*.py || exit 1 | ||
| unset CPPTRAJHOME # for pytraj.tools coverage | ||
| nosetests --with-coverage --cover-package pytraj -vs test_docs.py || exit 1 | ||
| if [ "$TEST_SETUP" == 'true' ]; then | ||
| echo "Test setup command line" | ||
| nosetests -vs devtools/travis-ci/test_setup_command.py | ||
| else | ||
| # osx (window too?), minimal tests | ||
| nosetests -vs test_*.py */test_*.py || exit 1 | ||
| sh devtools/travis-ci/pyflakes_check.sh || exit 1 | ||
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| PLATFORM=`python -c 'import sys; print(sys.platform)'` | ||
| echo "PLATFORM =" $PLATFORM | ||
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| # set env | ||
| PYTRAJ_HOME=`pwd` | ||
| export CPPTRAJHOME=`pwd`"/cpptraj/" | ||
| cd tests/energies/fake_amberhome/ | ||
| export AMBERHOME=`pwd` | ||
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| # go back to tests folder | ||
| cd ../../ | ||
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| # print info | ||
| python run_simple_test.py || exit 1 | ||
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| # run tests | ||
| if [ "$PLATFORM" = "linux" ]; then | ||
| nosetests --with-coverage --cover-package pytraj -vs test_*.py */test_*.py || exit 1 | ||
| unset CPPTRAJHOME # for pytraj.tools coverage | ||
| nosetests --with-coverage --cover-package pytraj -vs test_docs.py || exit 1 | ||
| else | ||
| # osx (window too?), minimal tests | ||
| nosetests -vs test_*.py */test_*.py || exit 1 | ||
| fi | ||
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| # run examples | ||
| cd ../examples | ||
| python ./run_examples.py || exit 1 | ||
| cd mpi_examples | ||
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| # only do mpi test for linux | ||
| if [ "$PLATFORM" = "linux" ]; then | ||
| sh run_mpi_examples.sh 4 || exit 1 | ||
| fi | ||
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| # go back to pytraj home | ||
| cd $PYTRAJ_HOME | ||
| fi | ||
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| # run examples | ||
| cd ../examples | ||
| python ./run_examples.py || exit 1 | ||
| cd mpi_examples | ||
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| # only do mpi test for linux | ||
| if [ "$PLATFORM" = "linux" ]; then | ||
| sh run_mpi_examples.sh 4 || exit 1 | ||
| fi | ||
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| # go back to pytraj home | ||
| cd $PYTRAJ_HOME |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,107 @@ | ||
| #!/usr/bin/env python | ||
| import os | ||
| from contextlib import contextmanager | ||
| import subprocess | ||
| from nose import tools | ||
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| # tested with py3.5 | ||
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| # utils | ||
| def clone_cpptraj(): | ||
| os.system('git clone https://github.com/amber-md/cpptraj') | ||
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| @contextmanager | ||
| def temporarily_rename_cpptraj_folder(): | ||
| old_name = 'cpptraj' | ||
| new_name = 't_cpptraj' | ||
| if os.path.exists(old_name): | ||
| print(os.path.abspath(old_name)) | ||
| subprocess.check_call('mv {} {}'.format(old_name, new_name).split()) | ||
| yield | ||
| subprocess.check_call('mv {} {}'.format(new_name, old_name).split()) | ||
| else: | ||
| print("does not have cpptraj, nothing done") | ||
| yield | ||
| print("nothing done") | ||
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| def capture_stderr(command): | ||
| """capture_stderr""" | ||
| try: | ||
| subprocess.check_output(command.split(), stderr=subprocess.STDOUT) | ||
| return None | ||
| except subprocess.CalledProcessError as e: | ||
| return e.output.decode() | ||
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| def git_clean_folder(name): | ||
| """git_clean_folder""" | ||
| command = 'git clean -fdx {}'.format(name) | ||
| print('clean: ', command) | ||
| subprocess.check_call(command.split()) | ||
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| def get_output(command): | ||
| return subprocess.check_output(command.split()).decode() | ||
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| # do not need cpptraj folder | ||
| def test_setup_clean(): | ||
| """ python setup.py clean """ | ||
| command = 'python setup.py clean' | ||
| output = subprocess.check_output(command.split()).decode() | ||
| tools.assert_in('must_compile_c_extension = False', output) | ||
| tools.assert_in('use_pip = False', output) | ||
| tools.assert_in('running clean', output) | ||
| tools.assert_not_in('libcpptraj', output) | ||
| tools.assert_not_in('github', output) | ||
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| def test_setup_help(): | ||
| """ python setup.py --help """ | ||
| for command in ['python setup.py --help', 'python setup.py -h']: | ||
| output = subprocess.check_output(command.split()).decode() | ||
| tools.assert_in('setup.py install will install the package', output) | ||
| tools.assert_not_in('libcpptraj', output) | ||
| tools.assert_not_in('github', output) | ||
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| def test_pip_help(): | ||
| """ pip install --help """ | ||
| command = 'pip install --help' | ||
| output = subprocess.check_output(command.split()).decode() | ||
| tools.assert_in('Install Options', output) | ||
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| def test_raise_if_using_pip_but_does_not_have_cpptraj_home(): | ||
| """ test_raise_if_using_pip_but_does_not_have_cpptraj_home_or_not_cpptraj_in_this_folder | ||
| pip install -e . | ||
| pip install . | ||
| pip wheel . | ||
| """ | ||
| os.environ['CPPTRAJHOME'] = '' | ||
| with temporarily_rename_cpptraj_folder(): | ||
| for command in ['pip install -e .', 'pip install .', 'pip wheel .']: | ||
| print(command) | ||
| output = capture_stderr(command) | ||
| tools.assert_in('using pip, must set CPPTRAJHOME', output) | ||
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| def test_install_libcpptraj_if_having_cpptraj_folder_here(): | ||
| clone_cpptraj() | ||
| git_clean_folder('./cpptraj/lib/libcpptraj*') | ||
| command = 'python setup.py build' | ||
| output = get_output(command) | ||
| tools.assert_in('cpptraj/lib/libcpptraj', output) | ||
| tools.assert_in('install libcpptraj from current', output) | ||
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| def test_install_to_amberhome(): | ||
| fn = './fake_amberhome' | ||
| subprocess.check_call('mkdir -p {}/lib/python3.5/site-packages/'.format(fn).split()) | ||
| full_name = os.path.abspath(fn) | ||
| command = 'python setup.py install --prefix={} --no-setuptools'.format(full_name) | ||
| output = subprocess.check_output(command.split()).decode() | ||
| tools.assert_in('running install_egg_info', output) | ||
| tools.assert_in('running install_lib', output) | ||
| tools.assert_in('Writing', output) | ||
| git_clean_folder(full_name) | ||
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| def test_default_raise_if_install_cpptraj_without_openmp(): | ||
| """ test_default_raise_if_install_cpptraj_without_openmp """ | ||
| subprocess.check_output('python ./scripts/install_libcpptraj.py'.split()) | ||
| command = 'python setup.py install' | ||
| output = capture_stderr(command) | ||
| tools.assert_in('libcpptraj was NOT installed with openmp', output) | ||
| tools.assert_in('Turn off openmp in pytraj: python setup.py install --disable-openmp', output) |
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