Name:           jemris
Version:        2.9.2
Release:        1%{?dist}
Summary:        MRI Physics Simulator

License:        GPLv3
URL:            https://www.jemris.org/
Source0:        https://github.com/jemris/%{name}/archive/v%{version}.tar.gz
# Patch0:         jemris-missing-inc.patch
# Patch1:         jemris-nddata-fix.patch

BuildRequires:  cmake
BuildRequires:  gcc-c++
BuildRequires:  make
BuildRequires:  ismrmrd-devel
BuildRequires:  hdf5-devel
BuildRequires:  xerces-c-devel
BuildRequires:  sundials-devel
BuildRequires:  cln-devel
BuildRequires:  ginac-devel
BuildRequires:  boost-devel
BuildRequires:  openmpi-devel
BuildRequires:  git

Requires:       ismrmrd
Requires:       hdf5
Requires:       xerces-c

%description
JEMRIS is an extensible MRI physics simulator framework.
It provides a high-performance Bloch equation solver and currently supports
many features such as parallel transmit/receive, non-linear gradients,
and arbitrary pulse sequences.

%prep
%autosetup -n %{name}-%{version}

# Patch for missing includes
sed -i '/#include <string>/a #include <iostream>\n#include <cmath>\n#include <cstdlib>\n#include <algorithm>\nusing namespace std;' src/Declarations.h
sed -i '/#include <algorithm>/a #include <type_traits>' src/NDData.h

# Fix NDData constructor ambiguity (hsize_t vs size_t)
sed -i 's/NDData (const std::vector<hsize_t>& dims) {/template <typename H = hsize_t, typename std::enable_if<!std::is_same<H, size_t>::value, int>::type = 0>\n\tNDData (const std::vector<H>\& dims) {/' src/NDData.h

# Relax compiler flags
sed -i 's/-Wno-psabi/-Wno-psabi -std=c++14 -Wno-error -Wno-template-body -fpermissive/' CMakeLists.txt

%build
%{?_openmpi_load}
%cmake \
    -DCMAKE_INSTALL_PREFIX=%{_prefix} \
    -DUSE_ISMRMRD=ON \
    -DUSE_HDF5=ON \
    -DCMAKE_CXX_COMPILER=$MPI_CXX

%cmake_build
%{?_openmpi_unload}

%install
%cmake_install
install -D -m 755 share/python/jemris.py %{buildroot}%{_bindir}/jemris_python

%files
%license COPYING
%doc README.md
%{_bindir}/jemris
%{_bindir}/pjemris
%{_bindir}/jemris_python
# Adjust these paths based on actual install locations
%{_datadir}/%{name}

%changelog
* Sun Jan 18 2026 Developer <developer@example.com> - 2.8.2-1
- Initial package