itk + simple itk

recipes/recipes/cross-python_emscripten-wasm32/activate.sh

@@ -93,6 +93,8 @@ export CMAKE_ARGS="${CMAKE_ARGS} \
   # in ctypes/__init_.py there is 
   #  if _os.name == "posix" and _sys.platform == "darwin":
 
+  CTYPES_INIT_FILE="$BUILD_PREFIX/lib/python$PY_VER/ctypes/__init__.py"
+
   # we need to replace this with if False: because otherwise we run into issues:
   # * just replacing _sys.platform  with a smth else fails at other places...
   sed 's/_sys.platform == "darwin"/False/g' "$CTYPES_INIT_FILE" > "$CTYPES_INIT_FILE.tmp" && mv "$CTYPES_INIT_FILE.tmp" "$CTYPES_INIT_FILE"

recipes/recipes/cross-python_emscripten-wasm32/recipe.yaml

@@ -7,7 +7,7 @@ package:
   version: ${{ version }}
 
 build:
-  number: 19
+  number: 22
 
 requirements:
   run:

recipes/recipes_emscripten/hdf5/build.sh

@@ -12,6 +12,7 @@ emcmake cmake .. \
     -DCMAKE_BUILD_TYPE=Release \
     -DBUILD_SHARED_LIBS=ON \
     -DBUILD_STATIC_LIBS=OFF \
+    -DHDF5_BUILD_CPP_LIB=ON \
     -DCMAKE_PROJECT_INCLUDE=${RECIPE_DIR}/overwriteProp.cmake \
     -DONLY_SHARED_LIBS=ON \
     -DBUILD_TESTING=OFF \

recipes/recipes_emscripten/hdf5/recipe.yaml

@@ -11,7 +11,7 @@ source:
   sha256: c15adf34647918dd48150ea1bd9dffd3b32a3aec5298991d56048cc3d39b4f6f
 
 build:
-  number: 0
+  number: 1
 
 requirements:
   build:
@@ -21,6 +21,11 @@ requirements:
   host:
   - zlib
 
+tests:
+- package_contents:
+    files:
+    - include/H5Cpp.h
+
 about:
   homepage: https://www.hdfgroup.org/solutions/hdf5/
   license: BSD-3-Clause

recipes/recipes_emscripten/libitk/build.sh

@@ -0,0 +1,81 @@
+#!/bin/bash
+set -e
+
+mkdir -p build
+cd build
+
+
+
+
+# add to cmake global include path
+export CXXFLAGS="$CXXFLAGS -I${HDF5_INC_DIR}"
+export CFLAGS="$CFLAGS -I${HDF5_INC_DIR}"
+export LDFLAGS="$LDFLAGS -L${PREFIX}/lib"
+
+
+# delete shared libz
+rm -f ${PREFIX}/lib/libz.so*
+
+emcmake cmake ${CMAKE_ARGS} \
+    -GNinja \
+    -DBUILD_SHARED_LIBS=ON \
+    -DBUILD_STATIC_LIBS=OFF \
+    -DCMAKE_PROJECT_INCLUDE=${RECIPE_DIR}/overwriteProp.cmake \
+    -DCMAKE_BUILD_TYPE=Release \
+    -DCMAKE_INSTALL_PREFIX=$PREFIX \
+    -DCMAKE_INSTALL_LIBDIR=lib \
+    -DCMAKE_FIND_ROOT_PATH=$PREFIX \
+    -DBUILD_TESTING=OFF \
+    -DModule_ITKTestKernel=OFF \
+    -DBUILD_EXAMPLES=OFF \
+    -DITK_USE_GPU=OFF \
+    -DITK_DEFAULT_THREADER=Platform \
+    -DITK_USE_PTHREADS=OFF \
+    -DITK_USE_OPENMP=OFF \
+    -DModule_ITKTBBImageToImageFilter=OFF \
+    -DITK_USE_FFTWD=OFF \
+    -DITK_USE_FFTWF=OFF \
+    -DITK_USE_SYSTEM_FFTW=OFF \
+    -DITK_DYNAMIC_LOADING=OFF \
+    -DITK_USE_SYSTEM_EXPAT=ON \
+    -DITK_USE_SYSTEM_JPEG=ON \
+    -D "CMAKE_BUILD_TYPE:STRING=RELEASE" \
+    -D "CMAKE_FIND_ROOT_PATH:PATH=${PREFIX}" \
+    -D "CMAKE_FIND_ROOT_PATH_MODE_INCLUDE:STRING=ONLY" \
+    -D "CMAKE_FIND_ROOT_PATH_MODE_LIBRARY:STRING=ONLY" \
+    -D "CMAKE_FIND_ROOT_PATH_MODE_PROGRAM:STRING=NEVER" \
+    -D "CMAKE_FIND_ROOT_PATH_MODE_PACKAGE:STRING=ONLY" \
+    -D "CMAKE_FIND_FRAMEWORK:STRING=NEVER" \
+    -D "CMAKE_FIND_APPBUNDLE:STRING=NEVER" \
+    -D "CMAKE_INSTALL_PREFIX=${PREFIX}" \
+    -D "CMAKE_PROGRAM_PATH=${BUILD_PREFIX}" \
+    -DITK_USE_SYSTEM_PNG=ON \
+    -DITK_USE_SYSTEM_TIFF=ON \
+    -DITK_USE_SYSTEM_ZLIB=ON \
+    -DITK_USE_SYSTEM_EIGEN=ON \
+    -DITK_USE_SYSTEM_HDF5=ON \
+    -DITK_BUILD_DEFAULT_MODULES=ON \
+    -DModule_ITKReview=OFF \
+    -DModule_ITKTBB=OFF \
+    -DModule_ITKIOTransformHDF5=ON \
+    -DModule_ITKDisplacementFields=ON \
+    -DModule_ITKCommon=ON \
+    -DModule_ITKDisplacementField=ON \
+    -DModule_ITKIOGDCM=ON \
+    -DModule_ITKIOImageBase=ON \
+    -DModule_ITKIOTransformBase=ON \
+    -DModule_ITKImageCompose=ON \
+    -DModule_ITKImageIntensity=ON \
+    -DModule_ITKLabelMap=ON \
+    -DModule_ITKMetricsv4=ON \
+    -DModule_ITKOptimizersv4=ON \
+    -DModule_ITKRegistrationMethodsv4=ON \
+    -DModule_ITKTransform=ON \
+    -DModule_ITKHDF5=ON \
+    -DModule_ITKIOTransformFactory=ON \
+    -DITK_FORBID_DOWNLOADS=ON \
+    -DDO_NOT_BUILD_ITK_TEST_DRIVER=ON \
+    "${SRC_DIR}"
+
+ninja -j${CPU_COUNT}
+ninja install

recipes/recipes_emscripten/libitk/overwriteProp.cmake

@@ -0,0 +1,4 @@
+set_property(GLOBAL PROPERTY TARGET_SUPPORTS_SHARED_LIBS TRUE)
+set(CMAKE_SHARED_LIBRARY_CREATE_C_FLAGS "-s SIDE_MODULE=1")
+set(CMAKE_SHARED_LIBRARY_CREATE_CXX_FLAGS "-s SIDE_MODULE=1")
+set(CMAKE_STRIP FALSE)  # used by default in pybind11 on .so modules

recipes/recipes_emscripten/libitk/recipe.yaml

@@ -0,0 +1,51 @@
+context:
+  name: libitk
+  version: "5.4.6"
+
+package:
+  name: ${{ name }}
+  version: ${{ version }}
+
+source:
+- url: https://github.com/InsightSoftwareConsortium/ITK/archive/v${{ version }}.tar.gz
+  sha256: cf28bc7220c57c24ebcbabbd3b2544ea7ab65f0aad430a99f8e157738ed812b7
+
+build:
+  number: 0
+
+requirements:
+  build:
+  - ${{ compiler('c') }}
+  - ${{ compiler('cxx') }}
+  - cmake
+  - ninja
+  host:
+  - expat
+  - libjpeg-turbo
+  - libpng
+  - libtiff
+  - eigen
+  - zlib
+  - hdf5
+
+tests:
+- package_contents:
+    files:
+    - include/ITK-5.4/itkImage.h
+    - lib/libITKCommon-5.4.so
+
+about:
+  homepage: https://www.itk.org/
+  license: Apache-2.0
+  license_file: LICENSE
+  summary: ITK is an open-source toolkit for multidimensional image analysis
+  description: |
+    The Insight Toolkit (ITK) is an open-source, cross-platform system that
+    provides developers with an extensive suite of software tools for image
+    analysis. Developed through extreme programming methodologies, ITK employs
+    leading-edge algorithms for registering and segmenting multidimensional data.
+  repository: https://github.com/InsightSoftwareConsortium/ITK
+
+extra:
+  recipe-maintainers:
+  - Copilot

recipes/recipes_emscripten/simpleitk/build.sh

@@ -0,0 +1,50 @@
+#!/bin/bash
+set -e
+
+# Step 1: Build SimpleITK C++ library (without Python wrapping)
+# Use CMAKE_ARGS from emscripten environment (set up by emscripten_emscripten-wasm32)
+# but strip the Python flags that cross-python adds, as they are not needed here
+mkdir -p build_cpp
+cd build_cpp
+
+
+
+cmake ${CMAKE_ARGS} \
+    -GNinja \
+    -DITK_DIR="${PREFIX}/lib/cmake/ITK-5.4" \
+    -DCMAKE_PROJECT_INCLUDE="${RECIPE_DIR}/overwriteProp.cmake" \
+    -DCMAKE_BUILD_TYPE=Release \
+    -DCMAKE_INSTALL_PREFIX="${PREFIX}" \
+    -DCMAKE_FIND_ROOT_PATH_MODE_INCLUDE=ONLY \
+    -DCMAKE_FIND_ROOT_PATH_MODE_LIBRARY=ONLY \
+    -DCMAKE_FIND_ROOT_PATH_MODE_PACKAGE=ONLY \
+    -DCMAKE_FIND_ROOT_PATH_MODE_PROGRAM=NEVER \
+    -DBUILD_SHARED_LIBS=OFF \
+    -DBUILD_TESTING=OFF \
+    -DBUILD_EXAMPLES=OFF \
+    -DSimpleITK_BUILD_DISTRIBUTE=ON \
+    -DWRAP_DEFAULT=OFF \
+    "${SRC_DIR}"
+
+ninja -j${CPU_COUNT}
+ninja install
+
+cd ..
+
+# Step 2: Build the Python wrapper
+# CMAKE_ARGS now also contains Python-related flags added by cross-python
+mkdir -p build_python
+cd build_python
+
+emcmake cmake ${CMAKE_ARGS} \
+    -G Ninja \
+    -D CMAKE_BUILD_TYPE:STRING=Release \
+    -D SimpleITK_BUILD_DISTRIBUTE:BOOL=ON \
+    -D SimpleITK_BUILD_STRIP:BOOL=ON \
+    -D BUILD_SHARED_LIBS:BOOL=OFF \
+    -D BUILD_TESTING:BOOL=OFF \
+    -D SimpleITK_PYTHON_USE_VIRTUALENV:BOOL=OFF \
+    "${SRC_DIR}"/Wrapping/Python
+
+emmake cmake --build . --config Release
+"${PYTHON}" -m pip install .

recipes/recipes_emscripten/simpleitk/overwriteProp.cmake

@@ -0,0 +1,4 @@
+set_property(GLOBAL PROPERTY TARGET_SUPPORTS_SHARED_LIBS TRUE)
+set(CMAKE_SHARED_LIBRARY_CREATE_C_FLAGS "-s WASM_BIGINT -s SIDE_MODULE=1")
+set(CMAKE_SHARED_LIBRARY_CREATE_CXX_FLAGS "-s WASM_BIGINT -s SIDE_MODULE=1 -fwasm-exceptions")
+set(CMAKE_STRIP FALSE)

recipes/recipes_emscripten/simpleitk/recipe.yaml

@@ -0,0 +1,66 @@
+context:
+  name: SimpleITK
+  version: "2.5.5"
+
+package:
+  name: simpleitk
+  version: ${{ version }}
+
+source:
+  url: https://github.com/SimpleITK/SimpleITK/archive/refs/tags/v${{ version }}.tar.gz
+  sha256: d216d687c7d0d1aebcbc43a0c3367e1172c8446301accd7acad796dd18430bc3
+
+build:
+  number: 0
+  files:
+    exclude:
+    - '**/__pycache__/**'
+    - '**/*.pyc'
+  python:
+    skip_pyc_compilation:
+    - '**/*.py'
+
+requirements:
+  build:
+  - ${{ compiler('c') }}
+  - ${{ compiler('cxx') }}
+  - cmake
+  - ninja
+  - swig >=4.0.0
+  - cross-python_${{ target_platform }}
+  - python
+  - lua <5.5
+  host:
+  - python
+  - pip
+  - libitk
+  - hdf5
+  - eigen
+  run:
+  - python
+
+tests:
+- script: pytester
+  files:
+    recipe:
+    - test_import_simpleitk.py
+  requirements:
+    build:
+    - pytester
+    run:
+    - pytester-run
+
+about:
+  homepage: http://www.simpleitk.org
+  license: Apache-2.0
+  license_file: LICENSE
+  summary: Simplified interface to the Insight Toolkit for image registration and segmentation
+  description: |
+    SimpleITK is a simplified layer built on top of ITK (Insight Segmentation and
+    Registration Toolkit). It provides bindings for multiple programming languages
+    including Python, Java, C#, R, Lua, Tcl, and Ruby.
+  repository: https://github.com/SimpleITK/SimpleITK
+
+extra:
+  recipe-maintainers:
+  - Copilot

recipes/recipes_emscripten/simpleitk/test_import_simpleitk.py

@@ -0,0 +1,6 @@
+def test_import_simpleitk():
+    import SimpleITK as sitk
+    # Basic sanity check
+    img = sitk.Image(10, 10, sitk.sitkUInt8)
+    assert img.GetWidth() == 10
+    assert img.GetHeight() == 10