%global with_check 1
%global pypi_name biopython
%global module %{pypi_name}

Name:             python-%{pypi_name}
Version:          1.83
Release:          %autorelease
Summary:          Python tools for computational molecular biology
Source0:          %{pypi_source}

# Starting from biopython-1.69, BioPython is released under the
# "Biopython License Agreement"; it looks like a MIT variant
# rhbz #1440337
License:          MIT AND BSD-3-Clause
URL:              https://biopython.org/
BuildRequires:    gcc
BuildRequires:    pyproject-rpm-macros

# Double the SeqXML parser block size for libexpat 2.6.0
# https://github.com/biopython/biopython/pull/4683
#   Fixes:
# two test failures affecting Bio.SeqIO.SeqXmlIO in Debian sid
# https://github.com/biopython/biopython/issues/4640
Patch1:           https://github.com/biopython/biopython/pull/4683.patch
# Relax BGZF block test (failed with zlib-ng)
# https://github.com/biopython/biopython/pull/4696
#   Fixes:
# BGZF compression test failures
# https://github.com/biopython/biopython/issues/4553
Patch2:           https://github.com/biopython/biopython/pull/4696.patch
# Python 3.13: Replace deprecated PyEval_CallObject()
Patch3:           https://github.com/biopython/biopython/pull/4706.patch

%description
A set of freely available Python tools for computational molecular
biology.


%package -n python3-%{module}
Summary: Python3 tools for computational molecular biology

%py_provides      python3-%{module}
BuildRequires:    python3-devel
BuildRequires:    python3dist(reportlab)
Requires:         flex%{?_isa}

%description -n python3-%{module}
A set of freely available Python3 tools for computational molecular
biology.


%prep
%autosetup -n %{pypi_name}-%{version} -p1

%generate_buildrequires
%pyproject_buildrequires -x tests

%build
%pyproject_wheel

%install
%pyproject_install
%pyproject_save_files Bio BioSQL

%if 0%{?with_check}
%check
pushd Tests
for test in `ls test_*.py | grep -v test_Align_bigbed.py | grep -v test_Tutorial.py`; do
%{py3_test_envvars} %{python3} run_tests.py --offline --verbose -v ${test}
done
%endif


%files -n python3-%{pypi_name} -f %{pyproject_files}
%doc Doc
%doc Scripts


%changelog
%autochangelog