# SlicerDentalSegmentator: fully automatic segmentation of dental CBCT and CT
# (maxilla, mandible, teeth, mandibular canal, ...) with a pretrained nnU-Net
# model, run through the SlicerNNUNet module.
#
# PURE-SCRIPTED: nothing to compile. nnU-Net and PyTorch come through
# 3dslicer-nnunet (python3-nnunetv2, python3-torch). The pretrained weights
# (Zenodo 10.5281/zenodo.10829675, CC-BY-4.0, about 220 MB) are not packaged: the
# module downloads them from the project's GitHub release on first use, into
# $XDG_DATA_HOME/DentalSegmentator/ML (Patch0).

%global commit      05f2d57820a2eac0f2f021c408dccf51b545834d
%global shortcommit %(c=%{commit}; echo ${c:0:8})
%global snapdate    20260522

%global slicer_inst   %{_prefix}/lib/slicer
%global slicer_subdir Slicer-5.12
%global qtsm          %{slicer_inst}/lib/%{slicer_subdir}/qt-scripted-modules

Name:           3dslicer-dentalsegmentator
Version:        1.0.0
Release:        0.1.%{snapdate}git%{shortcommit}%{?dist}
Summary:        Automatic dental CBCT/CT segmentation for 3D Slicer (nnU-Net)

License:        Apache-2.0
URL:            https://github.com/gaudot/SlicerDentalSegmentator
# main as indexed by the Slicer ExtensionsIndex (after v1.0.0-alpha).
Source0:        %{url}/archive/%{commit}/SlicerDentalSegmentator-%{shortcommit}.tar.gz
# - nnUnetFolder(): weights in $XDG_DATA_HOME/DentalSegmentator/ML, not the module's
#   Resources/ML. That is in the read-only, shared qt-scripted-modules tree, and
#   downloadWeights() rmtree()s and recreates the folder.
# - _installOpenAnatomyExtension(): no Extensions Manager download (its catalog would
#   serve upstream binaries); the glTF-export error names 3dslicer-openanatomy instead.
Patch0:         3dslicer-dentalsegmentator-fedora.patch

BuildArch:      noarch

Requires:       3dslicer
# EXTENSION_DEPENDS NNUNet: SegmentationLogic/InstallLogic, nnunetv2, torch.
Requires:       3dslicer-nnunet
# Weights lookup on the project's GitHub releases.
Requires:       python3-pygithub
Requires:       python3-requests
Requires:       python3-numpy
# glTF export of the segmentation.
Recommends:     3dslicer-openanatomy

%description
SlicerDentalSegmentator segments dental CBCT and CT images automatically
(maxilla and upper skull, mandible, upper and lower teeth, mandibular canal)
with a pretrained nnU-Net model, through the SlicerNNUNet module. The model
weights (CC-BY-4.0) are downloaded on first use into
$XDG_DATA_HOME/DentalSegmentator/ML.

nnU-Net and PyTorch come from Fedora packages. Fedora's PyTorch has no CUDA
support, so segmentation runs on the CPU (slow), or on AMD GPUs through ROCm.

%prep
%autosetup -n SlicerDentalSegmentator-%{commit} -p1

%build
# Pure-scripted: nothing to compile.

%install
# Install what DentalSegmentator/CMakeLists.txt lists, at the paths
# slicerMacroBuildScriptedModule uses, except:
# - Testing/*: the self tests need SlicerPythonTestRunner (not packaged), and a
#   top-level "Testing" package in the shared qt-scripted-modules would collide.
# - Resources/Icons/start_icon.png: byte-identical to, and owned by, 3dslicer-nnunet
#   (required above); both upstreams install it into the same shared Resources/Icons.
_dir=DentalSegmentator; _mod=DentalSegmentator; _n=0
for _f in $(sed -n '/^set(MODULE_PYTHON_\(SCRIPTS\|RESOURCES\)$/,/^  )$/p' $_dir/CMakeLists.txt \
            | grep -vE '^set\(|^  \)$' | sed -e 's/^ *//' -e "s/\${MODULE_NAME}/$_mod/g" \
            | grep -v -e '^Testing/' -e '^Resources/Icons/start_icon.png$'); do
    test -f "$_dir/$_f" || { echo "ERROR: $_mod lists $_f, which is missing" >&2; exit 1; }
    install -Dpm0644 "$_dir/$_f" "%{buildroot}%{qtsm}/$_f"
    _n=$((_n + 1))
done
test "$_n" -eq 11 || { echo "ERROR: installed $_n $_mod files, expected 11" >&2; exit 1; }

( cd %{buildroot} && find . \( -type f -o -type l \) | sed 's|^\.||' ) > %{_builddir}/dentalseg.files

%files -f %{_builddir}/dentalseg.files
%license LICENSE.txt
%doc README.md

%changelog
* Sat Oct 10 2026 Morgan Hough <morgan.hough@gmail.com> - 1.0.0-0.1.20260522git05f2d578
- Initial package. SlicerDentalSegmentator on 3dslicer-nnunet; weights per user,
  no Extensions Manager download (Patch0).