Name:		minimap2
Version:	2.27
Release:	1%{?dist}
Summary:	A versatile pairwise aligner for genomic and spliced nucleotide sequences

License:	MIT
URL:		https://lh3.github.io/minimap2/
Source0:	https://github.com/lh3/%{name}/archive/refs/tags/v%{version}.tar.gz
Patch0:         reenable-simde.patch
BuildRequires:	make
BuildRequires:	gcc
BuildRequires:	zlib-devel
# BuildRequires:	simde-devel


%description
Minimap2 is a versatile sequence alignment program that aligns DNA or
mRNA sequences against a large reference database. Typical use cases
include: (1) mapping PacBio or Oxford Nanopore genomic reads to the
human genome; (2) finding overlaps between long reads with error rate
up to ~15%; (3) splice-aware alignment of PacBio Iso-Seq or Nanopore
cDNA or Direct RNA reads against a reference genome; (4) aligning
Illumina single- or paired-end reads; (5) assembly-to-assembly
alignment; (6) full-genome alignment between two closely related
species with divergence below ~15%.


%prep
%autosetup
%patch -P0 -p1 -R


%build
# sed -i 's|-msse4.1||g; s|-msse2||g' Makefile.simde
# sed -i 's|-msse4.1||g' Makefile.simde
%ifarch x86_64
    %make_build
%elifarch aarch64
    %make_build arm_neon=1 aarch64=1
%else
    %make_build -f Makefile.simde
    # CFLAGS="%{optflags} -U__SSE2__ -U__SSE4_1__" %make_build
%endif

# cd python
# pwd
# ls -l
# python3 setup.py install


%install
rm -rf $RPM_BUILD_ROOT
mkdir -p %{buildroot}%{_bindir}
install -m 0755 minimap2 %{buildroot}%{_bindir}

mkdir -p %{buildroot}%{_mandir}/man1
install -m 0644 minimap2.1 %{buildroot}%{_mandir}/man1/


%files
%license LICENSE.txt
%doc cookbook.md FAQ.md NEWS.md README.md
%{_bindir}/minimap2
%{_mandir}/man1/minimap2.1.gz


%changelog
* Sun Feb  8 2026 Rasmus Ory Nielsen <ron@ron.dk> - 2.30-1
- Initial build