%global pypi_name monai_physio

# ============================================================================
# THIS PACKAGE IS DELIBERATELY INCOMPLETE. Five of upstream's 27 hard
# dependencies are not in Fedora or this COPR and are stripped in %%prep; two
# more (usd-core, pyvista[all]) are satisfied but invisible to rpm. The goal is
# the COMPLETE package, so each stripped item is listed here with what it takes
# to put back. Un-stripping one means: delete its sed line AND its guard in
# %%prep, add its Requires/BuildRequires, and delete its entry from the
# %%pyproject_check_import exclusion list.
#
#  STRIPPED -- feature lost until restored
#  ---------------------------------------
#  antspyx          -> monai_physio.register_images_ants (the ANTs registration
#                      backend; RegisterImagesANTS raises a clear ImportError when
#                      used). Patch0 is what lets the rest of the package import
#                      without it -- upstream imports it eagerly in __init__.
#                      PyPI ships WHEELS ONLY of prebuilt binaries, and
#                      upstream's own pyproject sets no-build-package = ["antspyx"]
#                      because building ANTs+ITK from source "fails". Restoring it
#                      means either an unbundled build against our ANTs/ITK
#                      (a project in itself) or a decision to repackage the wheel.
#  picsl-greedy     -> monai_physio.register_images_greedy (the Greedy backend;
#                      the import is lazy, so the module itself imports fine).
#                      Our `greedy` package is the C++ program, 1.3.0~alpha; the
#                      Python wrapper picsl_greedy is a separate PyPI project that
#                      ships wheels only. Likely path: a python3-picsl-greedy
#                      subpackage of greedy.spec, if upstream's tree builds it.
#  nvidia-physicsnemo -> the four physicsnemo modules and the
#                      monai-physio-{train,infer}-physicsnemo commands. Upstream
#                      caps it at Python <3.15, so it can NEVER build on f45 or
#                      rawhide until upstream lifts the cap; on f44 it needs 26
#                      core dependencies of which warp-lang is the hard one.
#  torch-scatter    -> process_physicsnemo only. Needed ONLY together with
#                      physicsnemo. Upstream git master supports torch 2.12
#                      (PR #510) but PyPI's 2.1.2 is from 2023, so a git snapshot.
#
#  PERMANENTLY NOT IMPORTABLE -- not a dependency we can ever package
#  ------------------------------------------------------------------
#  simpleware       -> monai_physio.simpleware_medical.SimplewareScript_heart_
#                      segmentation does `import simpleware.scripting`. That module
#                      is the scripting interface of Synopsys Simpleware, a
#                      commercial application, and the script is written to run
#                      INSIDE its embedded interpreter, so it is not an importable
#                      library at all. The file ships as data for that workflow
#                      and is excluded from the import check. Nothing to restore.
#
#  SATISFIED BUT INVISIBLE TO RPM -- replaced by a hand-written Requires
#  ---------------------------------------------------------------------
#  (itk used to be here; see below)
#  itk              -> RESOLVED. python3-itk 5.4.7-23 ships itk-5.4.7.dist-info and
#                      provides python3dist(itk), so upstream's
#                      "itk>=5.3.0,<6.0.0" is a generated requirement again and is
#                      no longer stripped. (Before -23 it provided none, and this
#                      package stripped the line and wrote Requires: python3-itk.)
#  usd-core         -> python3-usd (Fedora's OpenUSD, which provides the `pxr`
#                      module but not python3dist(usd-core)).
#  pyvista[all]     -> python3-pyvista. The [all] extra has no provide here.
# ============================================================================

Name:           python-monai-physio
Version:        2026.9.1
Release:        2%{?dist}
Summary:        Personalized physiological digital twins from 3D/4D medical images

# LICENSE in the sdist is the full Apache License 2.0 text and PyPI agrees.
License:        Apache-2.0
URL:            https://github.com/Project-MONAI/monai-physio
Source0:        %{pypi_source %{pypi_name}}
# Makes the bare `import ants` in register_images_ants.py optional. Upstream's
# __init__.py imports every module eagerly, so without this the WHOLE package fails
# to import when antspyx is absent, not just RegisterImagesANTS. Every other
# optional backend (picsl_greedy, physicsnemo) is already lazy. Report upstream;
# DELETE WHEN antspyx IS PACKAGED (roadmap above).
Patch0:         python-monai-physio-optional-antspyx.patch

BuildArch:      noarch
BuildRequires:  python3-devel
BuildRequires:  pyproject-rpm-macros
# Needed by %%check, and absent from the generated set because they are stripped
# from the metadata below (see the Requires block).
BuildRequires:  python3-usd
BuildRequires:  python3-pyvista

%global _description %{expand:
MONAI Physio is a collection of methods, workflows, tutorials and command-line
tools for creating personalized physiological digital twins. It typically starts
from a 3D medical image of a subject, extracts anatomic models from it, and uses
statistical shape models and AI surrogates to estimate the subject's physiology.

MONAI Physio is a research and visualization toolkit. Upstream states that it is
NOT validated for clinical use, is not a medical device, and must not be used
for diagnosis, treatment planning or clinical decision-making.

This package is built WITHOUT the ANTs and Greedy registration backends and
without the PhysicsNeMo AI-surrogate workflows, whose dependencies are not
packaged. The rest of the toolkit is complete.}

%description %{_description}

%package -n python3-monai-physio
Summary:        %{summary}

# See the roadmap at the top of this file for why these two are written by hand.
# (python3-itk is NOT here: itk is generated from the metadata since ITK -23.)
Requires:       python3-usd
Requires:       python3-pyvista

%description -n python3-monai-physio %{_description}

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

# Remove the hard dependencies that cannot be satisfied as written. Each line
# matches exactly one line of the sdist's pyproject.toml (counted before this was
# written), and each removal is checked afterwards, so an upstream reformat fails
# the build here instead of silently leaving an unsatisfiable requirement behind.
# NOTE grep -P throughout: see python-icon-registration.spec for why plain grep
# lies about \s.
for dep in 'nvidia-physicsnemo>=2.0.0' \
           'torch-scatter>=2.1.0' \
           'antspyx>=0.6.1' \
           'picsl-greedy>=0.0.12' \
           'usd-core>=23.11' \
           'pyvista\[all\]>=0.47.0'; do
  # Present exactly once before the edit...
  # grep -c exits 1 on a zero count, and %%prep runs under set -e: without || true
  # the build would die here silently, before the message below can print.
  n=$(grep -cP "^\s+\"${dep//./\\.}\",\s*$" pyproject.toml || true)
  [ "$n" = 1 ] || { echo "ERROR: expected exactly one pyproject line for $dep, found $n" >&2; exit 1; }
  sed -i -E "/^\s+\"${dep//./\\.}\",\s*$/d" pyproject.toml
  # ...and gone afterwards.
  grep -qP "^\s+\"${dep//./\\.}\",\s*$" pyproject.toml && { echo "ERROR: $dep still in pyproject.toml" >&2; exit 1; }
done
# pyvista was stripped only for its [all] extra; the plain requirement is wanted.
sed -i -E '0,/^(\s+)"torch-geometric>=2\.5\.0",\s*$/s//&\n\1"pyvista>=0.47.0",/' pyproject.toml
grep -qP '^\s+"pyvista>=0\.47\.0",\s*$' pyproject.toml || { echo "ERROR: plain pyvista requirement was not restored" >&2; exit 1; }
# itk is no longer stripped; it must still be there for the generator to see it.
grep -qP '^\s+"itk>=5\.3\.0,<6\.0\.0",\s*$' pyproject.toml || { echo "ERROR: itk requirement is gone from pyproject.toml" >&2; exit 1; }
# And confirm the ones we DO keep are still there, so the loop cannot quietly have
# eaten the whole block.
grep -qP '^\s+"icon-registration>=1\.0\.0",\s*$' pyproject.toml || { echo "ERROR: dependency block looks wrong after edit" >&2; exit 1; }
grep -qP '^\s+"unigradicon>=1\.0\.0",\s*$' pyproject.toml || { echo "ERROR: dependency block looks wrong after edit" >&2; exit 1; }
# The sdist ships a stale egg-info/requires.txt listing the stripped names.
# setuptools regenerates it, but remove it so it cannot leak into the metadata.
rm -rf src/%{pypi_name}.egg-info

%generate_buildrequires
%pyproject_buildrequires

%build
%pyproject_wheel

%install
%pyproject_install
%pyproject_save_files %{pypi_name}

%check
# Import only. Upstream's tests need datasets and, for several, a GPU.
#
# ONE module is excluded, identified from a failing check rather than guessed:
# the Simpleware script, which only runs inside a commercial application's own
# interpreter (roadmap above). Everything else imports -- 78 of 79 modules --
# INCLUDING the four physicsnemo modules and register_images_ants/greedy, because
# their optional imports are lazy or, for ants, made so by Patch0.
# All ONE physical line: rpm parses a macro's arguments from a single line.
%pyproject_check_import -e monai_physio.simpleware_medical.SimplewareScript_heart_segmentation

%files -n python3-monai-physio -f %{pyproject_files}
%license LICENSE
%doc README.md
%{_bindir}/monai-physio-*

%changelog
* Mon Oct 05 2026 Morgan Hough <morgan.hough@gmail.com> - 2026.9.1-2
- Stop stripping itk. python3-itk 5.4.7-23 ships itk-5.4.7.dist-info and provides
  python3dist(itk) = 5.4.7, so "itk>=5.3.0,<6.0.0" is generated and satisfiable. Removed the
  itk entry from the %%prep strip loop, the hand-written Requires: python3-itk and the matching
  BuildRequires, and added a guard that asserts the itk line is still PRESENT. The other
  stripped dependencies (antspyx, picsl-greedy, nvidia-physicsnemo, torch-scatter) and the
  hand-written python3-usd and python3-pyvista are unchanged.
- DO NOT BUILD against python3-itk older than -23: the generated requirement would be
  unsatisfiable.

* Mon Oct 05 2026 Morgan Hough <morgan.hough@gmail.com> - 2026.9.1-1
- Initial package: monai-physio 2026.9.1 (Project-MONAI), the original target of
  the dependency work that produced python-torch-geometric, -transformers,
  -footsteps, -icon-registration, -unigradicon and -totalsegmentator.
- %%check excludes exactly one module, monai_physio.simpleware_medical.
  SimplewareScript_heart_segmentation, which imports the scripting interface of
  the commercial Synopsys Simpleware application and is meant to run inside that
  application. 78 of 79 modules import, including the four physicsnemo modules.
- Patch0 makes antspyx optional. A first local build showed 46 modules failing
  with "No module named 'ants'": upstream's __init__.py imports every module
  eagerly and register_images_ants.py opens with a bare `import ants`, so without
  antspyx the whole package, not just the ANTs backend, fails to import. It was
  the ONLY hard top-level import of a missing package; picsl_greedy and
  physicsnemo are already imported lazily inside functions.
- INCOMPLETE ON PURPOSE, with the roadmap to the complete package at the top of
  the spec. Stripped from the metadata: antspyx, picsl-greedy,
  nvidia-physicsnemo, torch-scatter. Replaced by hand-written Requires because
  they are present but invisible to rpm: itk, usd-core (python3-usd),
  pyvista[all] (python3-pyvista).