%global srcname myokit

Name:           python-%{srcname}
Version:        1.39.2
Release:        1%{?dist}
Summary:        Modelling and simulation of cardiac cellular electrophysiology

# LICENSE.txt is the three-clause BSD text. The bundled Windows sundials
# directory carried its own LICENSE (sundials is BSD-3-Clause too); it is
# removed in %%prep, see there.
License:        BSD-3-Clause
URL:            https://myokit.org
# The GitHub tag, not the PyPI sdist: the sdist's MANIFEST.in globs
# myokit/tests/*.py only, so it leaves out the two C files
# (ansic_event_based_pacing.c, ansic_time_series_pacing.c) that eight pacing
# tests read.
Source:         https://github.com/myokit/myokit/archive/v%{version}/%{srcname}-%{version}.tar.gz

BuildArch:      noarch
BuildRequires:  python3-devel
BuildRequires:  pyproject-rpm-macros
# %%check compiles and runs the C simulations Myokit generates, as users do.
BuildRequires:  gcc
BuildRequires:  sundials-devel
BuildRequires:  python3-pytest
BuildRequires:  python3-scipy
BuildRequires:  python3-sympy

%global _description %{expand:
Myokit is a toolkit for modelling and simulating cardiac cellular
electrophysiology. Models, pacing protocols and simulation scripts are
written in a small declarative language (.mmt) with units, and Myokit checks
them, runs them with CVODES (generating and compiling C on the fly), and
exports them to many formats: CellML 1.0, 1.1 and 2.0, SBML, Matlab, Python,
C, C++, CUDA, Stan, DiffSL and others. It reads patch-clamp data from Axon
and HEKA files, and analyses action potentials and Markov models.

Simulating needs a C compiler and the sundials development files at run time,
as Brian2 does, so those are Requires. The graphical editor and data viewers
need PyQt6 or PySide6.}

%description %_description

%package -n     python3-%{srcname}
Summary:        %{summary}
# Myokit writes C source and builds it with the system compiler against
# CVODES when a simulation is first run.
Requires:       gcc
Requires:       sundials-devel
Recommends:     python3-scipy
Recommends:     python3-sympy
Recommends:     python3-pyqt6

%description -n python3-%{srcname} %_description

%prep
%autosetup -p1 -n %{srcname}-%{version}
# Prebuilt Windows sundials (sundials_cvodes.dll, sundials_nvecserial.dll, their
# import libraries and headers), used only when running on Windows, see
# _dynamically_add_embedded_sundials_win() in myokit/_config.py. Binaries that
# are not built here must not ship; Fedora uses the system sundials-devel.
test -d myokit/_bin/sundials-win-vs
rm -r myokit/_bin/sundials-win-vs
# 'configparser' is the Python 2 backport name; the standard library has the
# module, and Fedora does not provide the PyPI distribution.
grep -q "^        'configparser',$" setup.py || { echo "configparser requirement not found" >&2; exit 1; }
sed -i "/^        'configparser',$/d" setup.py
# myokit/gui/__init__.py imports matplotlib.backends.back_qtagg, which does not
# exist (the module is backend_qtagg), then falls back to backend_qt5agg, which
# matplotlib 3.10 no longer has: the whole GUI raises ModuleNotFoundError on
# import. One-word fix; still present on upstream main.
grep -q 'matplotlib\.backends\.back_qtagg as' myokit/gui/__init__.py || { echo "back_qtagg not found" >&2; exit 1; }
sed -i 's/matplotlib\.backends\.back_qtagg as/matplotlib.backends.backend_qtagg as/' myokit/gui/__init__.py

%generate_buildrequires
%pyproject_buildrequires

%build
%pyproject_wheel

%install
%pyproject_install
%pyproject_save_files -l %{srcname}

%check
# Upstream's suite, run from the source tree: 1328 passed, 67 skipped (58 need
# OpenCL, 9 need its double-precision extension; neither is available in a
# build root), 0 failed. Simulations are compiled with gcc against Fedora's
# sundials 7.6.
#
# test_case_pk_model in test_simulation_cvodes.py is a helper that pytest
# collects because of its name; it takes arguments and errors with "fixture
# 'parameters' not found". Upstream runs the suite with unittest, which does
# not see it.
%pytest -q myokit/tests \
    --deselect myokit/tests/test_simulation_cvodes.py::test_case_pk_model

%files -n python3-%{srcname} -f %{pyproject_files}
%doc README.md CHANGELOG.md
%{_bindir}/myokit

%changelog
* Fri Oct 23 2026 Morgan Hough <morgan.hough@gmail.com> - 1.39.2-1
- Initial package: Myokit 1.39.2 (BSD-3-Clause, read from LICENSE.txt).
  Net-new to Fedora. Pure Python that compiles C at run time, so noarch with
  gcc and sundials-devel as Requires.
- Source is the GitHub tag: the PyPI sdist omits two C files eight tests need.
- Removed myokit/_bin/sundials-win-vs, prebuilt Windows DLLs and import
  libraries bundled for Windows users.
- Three %%prep edits for upstream defects: drop the 'configparser' PyPI
  backport requirement; fix matplotlib.backends.back_qtagg ->
  backend_qtagg so myokit.gui imports (verified: PyQt6 offscreen imports
  the IDE and both data viewers; the suite has no GUI tests); the GUI is
  otherwise untested.
- Offline on f44, sundials 7.6.0, gcc 16: 1328 passed, 67 skipped (OpenCL),
  1 deselected, 0 failed. CellML 1.0/1.1/2.0 parser and writer tests included.
- Not done: the desktop entries, MIME types and syntax file under
  myokit/_bin/install-lin are not installed, and the OpenCL simulations are
  untested.