%global srcname genedom

Name:           python-%{srcname}
Version:        0.2.2
Release:        1%{?dist}
Summary:        Domesticate genetic parts to an assembly standard

License:        MIT
URL:            https://github.com/Edinburgh-Genome-Foundry/%{srcname}
# GitHub tag archive rather than the PyPI sdist: the sdist ships tests/ without
# tests/data/, so the suite has no parts to domesticate.
Source0:        %{url}/archive/refs/tags/v%{version}/%{srcname}-%{version}.tar.gz

BuildArch:      noarch
BuildRequires:  python3-devel
BuildRequires:  pyproject-rpm-macros
# %%check
BuildRequires:  python3-pytest
# One case renders its report figures.
BuildRequires:  python3-matplotlib

%global _description %{expand:
Domestication is the step between a sequence you want and a part you can
assemble: removing the restriction sites the assembly method uses, adding the
flanks and overhangs the standard defines, and keeping the coding sequence
intact while doing it.

GeneDom takes a batch of records and an assembly standard -- EMMA, Golden Braid
and CIDAR are built in, or a spreadsheet defines your own -- and returns the
domesticated parts with a report on every change it made and why. It also mints
barcode collections for labelling the results.}

%description %_description

%package -n     python3-%{srcname}
Summary:        %{summary}

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

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

%generate_buildrequires
%pyproject_buildrequires

%build
%pyproject_wheel

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

%check
# Upstream's suite, all of it, and worth noting that it runs at all: genedom
# needs the longest dependency chain in this repository. It depends on
# dnachisel[reports], which is why python-dnachisel gained an extras subpackage
# at 3.2.16-2, and that extra pulls pdf_reports and sequenticon, which pull
# pypugjs, pydenticon and snapgene-reader. Nine packages were added here before
# this one could build.
%pytest -q tests

%files -n python3-%{srcname} -f %{pyproject_files}
%doc README.rst

%changelog
* Sun Sep 27 2026 Morgan Hough <morgan.hough@gmail.com> - 0.2.2-1
- Initial package: GeneDom 0.2.2. Net-new to Fedora, and the end of the popcorn
  toolchain's dependency chain.
- Depends on dnachisel[reports] by name, which nothing provided until
  python-dnachisel 3.2.16-2 added the extras subpackage. That in turn was only
  possible once pdf_reports and sequenticon existed, three of the extra's five
  members having been unpackaged before this run.
- The packages added to get here, in order: dna-features-viewer, bcbio-gff,
  geneblocks, dnaweaver, fuzzywuzzy, snapgene-reader, dnacauldron, pypugjs,
  pydenticon, pdf-reports, sequenticon, python-box.
- Sourced from the GitHub tag; the sdist omits tests/data/.
- Notable for needing no external program: no blastn, no primer3. The
  domestication itself is DnaChisel's constraint solver, which is pure Python.