Wasm

itkcuberille/CMakeLists.txt

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+cmake_minimum_required(VERSION 3.16)
+project(itkwasm-cuberille LANGUAGES CXX)
+
+set(CMAKE_CXX_STANDARD 20)
+
+find_package(ITK REQUIRED COMPONENTS
+  WebAssemblyInterface
+)
+include(${ITK_USE_FILE})
+
+enable_testing()
+
+# Begin create-itk-wasm added pipelines.
+add_subdirectory(cuberille)
+# End create-itk-wasm added pipelines.

itkcuberille/README.md

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+# itkwasm-cuberille
+
+Cuberille implicit surface polygonization

itkcuberille/cuberille/CMakeLists.txt

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+add_executable(cuberille cuberille.cxx)
+target_link_libraries(cuberille PUBLIC ${ITK_LIBRARIES})
+
+add_test(NAME cuberille-help COMMAND cuberille --help)

itkcuberille/cuberille/cuberille.cxx

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+/*=========================================================================
+
+ *  Copyright NumFOCUS
+ *
+ *  Licensed under the Apache License, Version 2.0 (the "License");
+ *  you may not use this file except in compliance with the License.
+ *  You may obtain a copy of the License at
+ *
+ *         https://www.apache.org/licenses/LICENSE-2.0.txt
+ *
+ *  Unless required by applicable law or agreed to in writing, software
+ *  distributed under the License is distributed on an "AS IS" BASIS,
+ *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ *  See the License for the specific language governing permissions and
+ *  limitations under the License.
+ *
+ *=========================================================================*/
+
+#include "itkPipeline.h"
+#include "itkInputImage.h"
+#include "itkOutputMesh.h"
+#include "itkSupportInputImageTypes.h"
+
+template <typename TImage>
+int cuberille(itk::wasm::Pipeline &pipeline, const TImage * image)
+{
+  using ImageType = TImage;
+  constexpr unsigned int Dimension = ImageType::ImageDimension;
+  using PixelType = typename ImageType::PixelType;  using MeshType = itk::Mesh<PixelType, Dimension>;
+
+
+  pipeline.get_option("image")->required()->type_name("INPUT_IMAGE");
+
+  bool quadrilateralFaces = false;
+  pipeline.add_flag("--quadrilateral-faces", quadrilateralFaces, "Generate quadrilateral faces instead of triangle faces.");
+
+  bool verticesNotProjectedToIsoSurface = false;
+  pipeline.add_flag("--vertices-not-projected-to-iso-surface", verticesNotProjectedToIsoSurface, "Do not project the vertices to the iso-surface.");
+
+  bool imagePixelToCellData = false;
+  pipeline.add_flag("--image-pixel-to-cell-data", imagePixelToCellData, "Whether the adjacent input pixel value should be saved as cell data in the output mesh.");
+
+  double projectVertexSurfaceDistanceThreshold = 0.5;
+  pipeline.add_option("--project-vertex-surface-distance-threshold", projectVertexSurfaceDistanceThreshold, "Threshold for the distance from the iso-surface during vertex projection in pixel units. Smaller is smoother but takes longer.");
+
+  double projectVertexStepLength = -1.0;
+  pipeline.add_option("--project-vertex-step-length", projectVertexStepLength, "Initial step length for vertex projection in physical units. Default is max spacing * 0.25.");
+
+  double projectVertexStepLengthRelaxationFactor = 0.95;
+  pipeline.add_option("--project-vertex-step-length-relaxation-factor", projectVertexStepLengthRelaxationFactor, "The step length relaxation factor during vertex projection. The step length is multiplied by this factor each iteration to allow convergence, [0.0, 1.0].");
+
+  uint32_t projectVertexMaximumNumberOfSteps = 50;
+  pipeline.add_option("--project-vertex-maximum-number-of-steps", projectVertexMaximumNumberOfSteps, "The maximum number of steps used during vertex projection.");
+
+  bool generateQuadrilateralFaces = false;
+  pipeline.add_flag("--generate-quadrilateral-faces", generateQuadrilateralFaces, "Generate quadrilateral faces instead of triangle faces.");
+
+  itk::wasm::OutputMesh<MeshType> mesh;
+  pipeline.add_option("mesh", mesh, "Output mesh.")->required()->type_name("OUTPUT_MESH");
+
+  ITK_WASM_PARSE(pipeline);
+
+  // Pipeline code goes here
+
+  return EXIT_SUCCESS;
+}
+
+template <typename TImage>
+class PipelineFunctor
+{
+public:
+  int operator()(itk::wasm::Pipeline &pipeline)
+  {
+    using ImageType = TImage;
+
+    itk::wasm::InputImage<ImageType> image;
+    pipeline.add_option("image", image, "Input image")->type_name("INPUT_IMAGE");
+
+    ITK_WASM_PRE_PARSE(pipeline);
+
+    typename ImageType::ConstPointer imageRef = image.Get();
+    return cuberille<ImageType>(pipeline, imageRef);
+  }
+};
+
+int main(int argc, char * argv[])
+{
+  itk::wasm::Pipeline pipeline("cuberille", "Create a mesh from an image via cuberille implicit surface polygonization.", argc, argv);
+
+  return itk::wasm::SupportInputImageTypes<PipelineFunctor,
+    uint8_t, int8_t, uint16_t, int16_t, uint32_t, int32_t, float, double>
+    ::Dimensions<2U, 3U>("image", pipeline);
+}

itkcuberille/itk_wasm_env.bash

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+#!/usr/bin/env bash
+
+function die() {
+    echo "$1"
+    exit 1
+}
+
+export ITK_WASM_TEST_DATA_HASH=${ITK_WASM_TEST_DATA_HASH:-$(cat package.json | jq -e -r '."itk-wasm"."test-data-hash"')}
+export ITK_WASM_TEST_DATA_URLS=${ITK_WASM_TEST_DATA_URLS:-$(cat package.json | jq -e -r '."itk-wasm"."test-data-urls" | join(" ")')}
+
+export ITK_WASM_ITK_REPOSITORY=${ITK_WASM_ITK_REPOSITORY:-"https://github.com/thewtex/ITK"}
+export ITK_WASM_ITK_BRANCH=${ITK_WASM_ITK_BRANCH:-"itkwasm-2024-05-20-5db055d7ad3b-4"}
+
+export ITK_WASM_NATIVE_WORKSPACE=${ITK_WASM_NATIVE_WORKSPACE:-$(pwd)/native}
+
+export ITK_WASM_ITK_SOURCE_DIR=${ITK_WASM_ITK_SOURCE_DIR:-${ITK_WASM_NATIVE_WORKSPACE}/ITK}
+export ITK_WASM_ITK_BUILD_DIR=${ITK_WASM_ITK_BUILD_DIR:-${ITK_WASM_NATIVE_WORKSPACE}/ITK-build}
+mkdir -p ${ITK_WASM_ITK_BUILD_DIR} || die "Could not create ITK build directory"
+
+export ITK_WASM_WEBASSEMBLY_INTERFACE_REPOSITORY=${ITK_WASM_WEBASSEMBLY_INTERFACE_REPOSITORY:-"https://github.com/InsightSoftwareConsortium/ITK-Wasm"}
+export ITK_WASM_WEBASSEMBLY_INTERFACE_BRANCH=${ITK_WASM_WEBASSEMBLY_INTERFACE_BRANCH:-"main"}
+
+export ITK_WASM_WEBASSEMBLY_INTERFACE_SOURCE_DIR=${ITK_WASM_WEBASSEMBLY_INTERFACE_SOURCE_DIR:-${ITK_WASM_NATIVE_WORKSPACE}/ITK-Wasm}
+export ITK_WASM_WEBASSEMBLY_INTERFACE_BUILD_DIR=${ITK_WASM_WEBASSEMBLY_INTERFACE_BUILD_DIR:-${ITK_WASM_NATIVE_WORKSPACE}/ITK-Wasm-build}
+mkdir -p ${ITK_WASM_WEBASSEMBLY_INTERFACE_BUILD_DIR} || die "Could not create ITK-Wasm build directory"

itkcuberille/package.json

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+{
+  "name": "itkwasm-cuberille-build",
+  "version": "0.1.0",
+  "private": true,
+  "description": "Scripts to generate itkwasm-cuberille ITK-Wasm artifacts.",
+  "type": "module",
+  "itk-wasm": {
+    "test-data-hash": "bafkreidnoz54py66bn56uq6itwkfgngflaqilflfvwkxlps4ycmygstzja",
+    "test-data-urls": [
+      "https://github.com/InsightSoftwareConsortium/ITK-Wasm/releases/download/itk-wasm-v1.0.0-b.179/sample-data.tar.gz",
+      "https://bafybeidxatrsrrphfmntdyze6ec3jbiak527wj3kalwjptv4bimpcnzxdq.ipfs.w3s.link/ipfs/bafybeidxatrsrrphfmntdyze6ec3jbiak527wj3kalwjptv4bimpcnzxdq/sample-data.tar.gz"
+    ],
+    "package-description": "Cuberille implicit surface polygonization",
+    "typescript-package-name": "@itk-wasm/cuberille",
+    "python-package-name": "itkwasm-cuberille",
+    "repository": "https://github.com/InsightSoftwareConsortium/ITKCuberille"
+  },
+  "license": "Apache-2.0",
+  "scripts": {
+    "build": "pnpm build:gen:typescript && pnpm build:gen:python",
+    "build:emscripten": "itk-wasm pnpm-script build:emscripten",
+    "build:emscripten:debug": "itk-wasm pnpm-script build:emscripten:debug",
+    "build:wasi": "itk-wasm pnpm-script build:wasi",
+    "build:wasi:debug": "itk-wasm pnpm-script build:wasi:debug",
+    "build:python:wasi": "echo 'No build:python:wasi script required with pixi'",
+    "bindgen:typescript": "itk-wasm pnpm-script bindgen:typescript",
+    "bindgen:python": "itk-wasm pnpm-script bindgen:python",
+    "build:gen:typescript": "itk-wasm pnpm-script build:gen:typescript",
+    "build:gen:python": "itk-wasm pnpm-script build:gen:python",
+    "test": "pixi run download-test-data && pnpm build:gen:python",
+    "test:wasi": "itk-wasm pnpm-script test:wasi"
+  },
+  "devDependencies": {
+    "@itk-wasm/dam": "^1.1.1",
+    "itk-wasm": "1.0.0-b.182"
+  },
+  "author": "Matt McCormick <[email protected]>",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/InsightSoftwareConsortium/ITKCuberille"
+  }
+}