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|
#!/bin/bash
set -efu
PYS=${PYS:-"$(py3versions -s 2>/dev/null)"}
TESTMODE=${TESTMODE:-full}
TESTPKG=${TESTPKG:-}
export HOME=$AUTOPKGTEST_TMP
export TMPDIR=$AUTOPKGTEST_TMP
SUBMODULE=scipy
if [ "x${TESTPKG}" != "x" ]; then
SUBMODULE="scipy.${TESTPKG}";
fi
MODE=
#if [ "x${TESTMODE}" != "xfull" ]; then
# MODE="-m full";
#fi
# By default use summary report of tests.
# Set to "-v" for verbose reporting
VERBOSE_TESTS=""
# some tests are expected to fail
# so list tests to skip in array variable SKIP_TEST_LIST
declare -a SKIP_TEST_LIST
# multi-Ellipsis indexing in sparse will be dropped in scipy 1.13
# see https://github.com/scipy/scipy/pull/18541
# it fails tests now so skip and reinstate later for scipy 1.13
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_multiple_ellipsis_slicing)
# some arches fail some tests with specific BLAS implementations
# Bug#1003880: skip test_hermitian_modes with blis on i386 (sparse.linalg._eigen.arpack)
arch=$(dpkg-architecture -qDEB_HOST_ARCH)
ma=$(dpkg-architecture -qDEB_HOST_MULTIARCH)
DEB_HOST_ARCH_BITS=$(dpkg-architecture -q DEB_HOST_ARCH_BITS)
if [ "$arch" = "arm64" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q blis ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_atol[cgs])
fi
if [ "$arch" = "i386" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q atlas ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_propack)
fi
if [ "$arch" = "i386" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q blis ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_hermitian_modes test_svd_linop \
test_complex_nonsymmetric_modes test_standard_nonsymmetric_starting_vector test_general_nonsymmetric_starting_vector \
test_complex test_simple_overdet_complex test_random_complex_exact test_random_complex_overdet \
test_value_subsets test_bug_6139 test_atol[cgs] test_propack test_various_drivers_standard \
test_trsyl test_gelsy test_hetrd test_hegst test_pftri \
test_pptrs_pptri_pptrf_ppsv_ppcon[complex test_gees_trsen[complex64] test_gges_tgsen[complex64] \
test_dtypes test_trcon test_size_0 test_splu test_matmat test_eigh test_two_generic_matrix_inputs \
test_sylvester test_cython test_sy_he_tri test_gbcon test_gh23278)
fi
if [ "$arch" = "armhf" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q openblas ; then
# test_large_rank_deficient in scipy/optimize/tests/test_lsq_linear.py times out or segfaults with openblas on armhf
# and other TestTRF tests time out
# test_disp in optimize/tests/test_linprog.py times out with openblas on armhf
#
# armhf with openblas is generally flakey. Use atlas or blis instead.
#
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_large_rank_deficient TestTRF test_disp test_m_eq_n_sparse test_magic_square2 \
test_numerical_jac test_with_bounds test_bvp test_solver_selection \
test_pdist_calling_conventions test_pdist_dtype_equivalence test_striding \
test_array_smoothing test_cholesky test_Small test_failure_to_run_iterations \
test_cdist_dtype_equivalence test_cdist_out test_cdist_calling_conventions \
test_MikotaPair test_diagonal[100-4-3] test_maxit test_precond_inverse[case1] test_svds_parameter_k_which[LM-5] \
test_svd_random_state_2[random_state test_svd_random_state_3 test_svd_return_singular_vectors[shape1-True] \
test_random_exact test_random_complex_exact test_random_tall_left test_random_tall_right \
test_L1 test_L3 test_L4 test_L7 test_svd_linop test_ElasticRod \
test_examples test_orcsd_uncsd[float64] test_small_sigma_sparse[float32-shape1] test_small_sigma2[float] \
test_interpolation_misfit_1d test_cossin_separate test_orcsd_uncsd \
test_eigs_consistency[20-0.001] test_random_initial_float32 test_tpqrt_tpmqrt \
test_pdist_out test_lsqr_basic test_pascal test_atol_rtol test_sygst \
test_various_drivers_standard test_various_drivers_generalized test_broyden1 test_broyden2 \
test_gejsv_general test_BFGS_skip_update test_tolerance_float32 \
test_m_gt_n test_pteqr test_SR1_skip_update test_symmetric_starting_vector)
fi
if [ "$arch" = "armhf" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q atlas ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_aligned_mem)
fi
# segfaults in test_lsq_linear.py::TestBVLS
# see https://ci.debian.net/data/autopkgtest/testing/armhf/s/scipy/25114019/log.gz
if [ "$arch" = "armhf" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q blis ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_large_rank_deficient)
fi
if [ "$arch" = "armel" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_aligned_mem test_decomp test_brunnermunzel_normal_dist test_sparse_dense_divide)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_some_code_paths test_gh12218)
fi
# https://github.com/scipy/scipy/issues/17839#issuecomment-1399492309
if [ "$arch" = "armhf" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_woodbury test_complex_data test_scale_invariance \
test_extreme_domains test_polynomial_reproduction test_vector_data \
test_interpolation_misfit_2d test_smoothing_limit test_pickleable \
test_equivalent_to_rbf_interpolator test_rosenbrock_with_no_exception \
test_gh12218 test_random_state \
test_against_anderson_gumbel_r test_bootstrap_against_R test_bootstrap_against_itself_1samp)
fi
# some tests broken on i386, see https://github.com/scipy/scipy/issues/17839
if [ "$arch" = "i386" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_find_peaks_exact test_find_peaks_withnoise \
test_x0_equals_Mb[bicgstab] test_rv_sample test_location_scale[pdf \
test_examples[True-float64] test_pdf_nolan_samples test_cdf_nolan_samples \
ellint_rg_xy0_ipp-ellint_rg_xy0 test_hermitian test_random_state \
test_against_anderson_gumbel_r test_bootstrap_against_R test_bootstrap_against_itself_1samp \
test_svd_gesdd_nofegfault)
fi
# Bug#1017864 test_kolmogorov.py segfaults on i386 (including hurd)
if [ "$arch" = "i386" ] || [ "$arch" = "hurd-i386" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} TestSmirnovp)
fi
# integrate/_ivp/tests/test_ivp.py fail on mips64el
# see https://github.com/scipy/scipy/issues/16883
# https://github.com/scipy/scipy/issues/17839#issuecomment-1400636840
if [ "$arch" = "mips64el" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_first_step test_classes test_integrator test_double_integrator)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_nanminmax TestExpmFrechet)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_2x2_input test_nx2x2_input test_random_matrices_and_powers)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_nan_inputs[airye] test_nan_inputs[sph_harm])
# mips64el fails test_cython (special test_extending) with numpy 1.26
# but will pass with numpy 2 due to complex type changes
# see https://github.com/scipy/scipy/issues/21393
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_cython)
fi
if [ "$arch" = "ppc64el" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_cossin test_cossin_separate testInitialization)
fi
if [ "$arch" = "ppc64el" ] || [ "$arch" = "arm64" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_svds_parameter_tol)
fi
if [ "$arch" = "ppc64el" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q atlas ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_bug_6139 test_svd_v0 test_svd_random_state test_svd_random_state_2)
fi
# avoid segfaults and other failures on riscv64
# run for default python only to avoid global timeout
if [ "$arch" = "riscv64" ]; then
PYS=`py3versions -d 2>/dev/null`
VERBOSE_TESTS="-v"
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_kmeans2_high_dim test_krandinit test_kmeans2_kpp_high_dim)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_banded_ode_solvers test_singular_term test_vode test_zvode test_odeint_banded_jacobian test_odeint_banded_jac)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_vector test_iterative_refinements_dense)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_sine_weighted_finite test_sine_weighted_infinite test_cosine_weighted_infinite)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_scalar test_integrate_ppoly test_compare_dense_and_sparse)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_maxiter_worsening[lgmres] test_milp_timeout_16545)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} TestLogM TestExp test_expm)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_random_matrices_and_powers test_2x2_input test_nx2x2_input)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_zoh test_foh test_transferfunction)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_zerospolesgain test_discrete_approx test_simo_tf test_multioutput)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_simo_tf test_multioutput TestC2dLti TestC2dInvariants)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_second_order test_integrator test_double_integrator)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_jordan_block test_array_like TestStep test_operators)
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_nan_inputs[airye] test_nan_inputs[sph_harm])
fi
if [ "$arch" = "riscv64" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q atlas ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_bug_6139 test_aligned_mem)
fi
if [ "$arch" = "s390x" ]; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_maxiter_worsening test_atol[bicg] test_distance_transform_cdt05)
fi
if [ "$arch" = "s390x" ] && update-alternatives --query libblas.so.3-$ma | sed -n "/^Value:/p" | grep -q atlas ; then
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_bug_6139 test_solver_select test_aligned_mem)
fi
# stats/tests/test_continuous_basic.py::test_cont_basic[500-200-ncf-arg74] test fails with IntegrationWarning
# https://github.com/scipy/scipy/issues/14519
SKIP_TEST_LIST=(${SKIP_TEST_LIST[@]} test_cont_basic[500-200-ncf-arg74])
SKIP_TESTS=""
list_initialised=0
for t in ${SKIP_TEST_LIST[@]}; do
if [ ${list_initialised} = 0 ]; then
SKIP_TESTS=$t
list_initialised=1
else
SKIP_TESTS="${SKIP_TESTS} or $t"
fi
done
if [ "x${SKIP_TESTS}" != "x" ]; then
SKIP_TESTS="not ( ${SKIP_TESTS} )"
fi
echo "skipping tests with SKIP_TEST_LIST=${SKIP_TEST_LIST[@]}"
# some datasets tests use network access
declare -a NET_TEST_LIST
NET_TEST_LIST=(${NET_TEST_LIST[@]} test_existence_all test_ascent test_face test_electrocardiogram)
NET_TESTS=""
list_initialised=0
for t in ${NET_TEST_LIST[@]}; do
if [ ${list_initialised} = 0 ]; then
NET_TESTS=$t
list_initialised=1
else
NET_TESTS="${NET_TESTS} or $t"
fi
done
NETMODE=${NETMODE:-OFF}
if [ "x${NETMODE}" = "xOFF" ]; then
NET_TESTS="not ( ${NET_TESTS} )"
fi
echo "Controlling tests with \"${NET_TESTS} and ${SKIP_TESTS}\""
cd $TMPDIR
for py in $PYS; do
echo "=== Testing: $py $TESTPKG ==="
# if we need to report a bug upstream, they will ask for this information
echo "\$ $py -c \"import sys, scipy, numpy; print(scipy.__version__, numpy.__version__, sys.version_info); scipy.show_config()\""
# (must be run away from source)
(cd /; $py -c "import sys, scipy, numpy; print(scipy.__version__, numpy.__version__, sys.version_info); scipy.show_config()")
$py -c "import ${SUBMODULE}; ${SUBMODULE}.test(extra_argv=['-k', '${NET_TESTS} and ${SKIP_TESTS}', '--durations=20', '${VERBOSE_TESTS}'])" 2>&1
echo "=== Done: $py $TESTPKG ==="
done
|
