npm - larvitar - Versions diffs - 0.18.2 → 1.2.0 - Mend

larvitar 0.18.2 → 1.2.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (229) hide show

package/.github/workflows/deploy.yml +3 -12
package/MIGRATION.md +25 -0
package/README.md +28 -27
package/docs/documentation/Mixins.polygonSegmentationMixin%20-%20segmentation%20operations%20for%20polyline.html +171 -0
package/docs/documentation/Tools.Annotation.ContoursTool.html +218 -0
package/docs/documentation/Tools.Annotation.DiameterTool.html +219 -0
package/docs/documentation/Tools.Annotation.SeedsTool.html +214 -0
package/docs/documentation/Tools.Brush.BrushTool.html +218 -0
package/docs/documentation/Tools.Brush.ThresholdsBrushTool.html +218 -0
package/docs/documentation/Tools.PolylineScissorsTool.html +218 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Bold.eot +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Bold.ttf +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Bold.woff +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Bold.woff2 +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Regular.eot +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Regular.ttf +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Regular.woff +0 -0
package/docs/documentation/fonts/Montserrat/Montserrat-Regular.woff2 +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-light-webfont.eot +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-light-webfont.svg +978 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-light-webfont.ttf +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-light-webfont.woff +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-light-webfont.woff2 +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-regular-webfont.eot +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-regular-webfont.svg +1049 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-regular-webfont.ttf +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-regular-webfont.woff +0 -0
package/docs/documentation/fonts/Source-Sans-Pro/sourcesanspro-regular-webfont.woff2 +0 -0
package/docs/documentation/global.html +1303 -0
package/docs/documentation/imageAnonymization.js.html +245 -0
package/docs/documentation/imageColormaps.js.html +283 -0
package/docs/documentation/imageContours.js.html +278 -0
package/docs/documentation/imageIo.js.html +291 -0
package/docs/documentation/imageLayers.js.html +188 -0
package/docs/documentation/imageLoading.js.html +297 -0
package/docs/documentation/imageParsing.js.html +385 -0
package/docs/documentation/imagePresets.js.html +207 -0
package/docs/documentation/imageRendering.js.html +849 -0
package/docs/documentation/imageReslice.js.html +162 -0
package/docs/documentation/imageStore.js.html +360 -0
package/docs/documentation/imageTools.js.html +784 -0
package/docs/documentation/imageUtils.js.html +1609 -0
package/docs/documentation/image_colormaps.js.html +283 -0
package/docs/documentation/image_contours.js.html +279 -0
package/docs/documentation/image_io.js.html +288 -0
package/docs/documentation/image_layers.js.html +188 -0
package/docs/documentation/image_loading.js.html +294 -0
package/docs/documentation/image_parsing.js.html +391 -0
package/docs/documentation/image_presets.js.html +207 -0
package/docs/documentation/image_rendering.js.html +845 -0
package/docs/documentation/image_reslice.js.html +164 -0
package/docs/documentation/image_store.js.html +359 -0
package/docs/documentation/image_tools.js.html +792 -0
package/docs/documentation/image_utils.js.html +1609 -0
package/docs/documentation/index.html +175 -0
package/docs/documentation/loaders_commonLoader.js.html +306 -0
package/docs/documentation/loaders_dicomLoader.js.html +130 -0
package/docs/documentation/loaders_fileLoader.js.html +155 -0
package/docs/documentation/loaders_multiframeLoader.js.html +443 -0
package/docs/documentation/loaders_niftiLoader.js.html +150 -0
package/docs/documentation/loaders_nrrdLoader.js.html +545 -0
package/docs/documentation/loaders_resliceLoader.js.html +258 -0
package/docs/documentation/module-imaging_contours.html +954 -0
package/docs/documentation/module-imaging_imageAnonymization.html +544 -0
package/docs/documentation/module-imaging_imageColormaps.html +1012 -0
package/docs/documentation/module-imaging_imageContours.html +954 -0
package/docs/documentation/module-imaging_imageIo.html +1057 -0
package/docs/documentation/module-imaging_imageLayers.html +904 -0
package/docs/documentation/module-imaging_imageLoading.html +1301 -0
package/docs/documentation/module-imaging_imageParsing.html +1356 -0
package/docs/documentation/module-imaging_imagePresets.html +679 -0
package/docs/documentation/module-imaging_imageRendering.html +3223 -0
package/docs/documentation/module-imaging_imageReslice.html +413 -0
package/docs/documentation/module-imaging_imageStore-Larvitar_Store.html +284 -0
package/docs/documentation/module-imaging_imageStore.html +1560 -0
package/docs/documentation/module-imaging_imageTools.html +3617 -0
package/docs/documentation/module-imaging_imageUtils.html +7253 -0
package/docs/documentation/module-imaging_io.html +1057 -0
package/docs/documentation/module-imaging_layers.html +904 -0
package/docs/documentation/module-imaging_loading.html +1301 -0
package/docs/documentation/module-imaging_parsing.html +1375 -0
package/docs/documentation/module-imaging_presets.html +679 -0
package/docs/documentation/module-imaging_rendering.html +8094 -0
package/docs/documentation/module-imaging_reslice.html +411 -0
package/docs/documentation/module-imaging_store-Larvitar_Store.html +284 -0
package/docs/documentation/module-imaging_store.html +1537 -0
package/docs/documentation/module-imaging_strategies_eraseFreehand.html +708 -0
package/docs/documentation/module-imaging_strategies_fillFreehand.html +708 -0
package/docs/documentation/module-imaging_tools.html +3617 -0
package/docs/documentation/module-imaging_tools_custom_contourTool.html +207 -0
package/docs/documentation/module-imaging_tools_custom_diameterTool.html +205 -0
package/docs/documentation/module-imaging_tools_custom_editMaskTool.html +205 -0
package/docs/documentation/module-imaging_tools_custom_polygonScissorsTool.html +203 -0
package/docs/documentation/module-imaging_tools_custom_thresholdBrushTool.html +684 -0
package/docs/documentation/module-imaging_tools_default.html +205 -0
package/docs/documentation/module-imaging_tools_interaction.html +530 -0
package/docs/documentation/module-imaging_tools_io.html +832 -0
package/docs/documentation/module-imaging_tools_main.html +2028 -0
package/docs/documentation/module-imaging_tools_polygonSegmentationMixin.html +567 -0
package/docs/documentation/module-imaging_tools_segmentation.html +3586 -0
package/docs/documentation/module-imaging_tools_state.html +494 -0
package/docs/documentation/module-imaging_utils.html +7253 -0
package/docs/documentation/module-loaders_commonLoader.html +1313 -0
package/docs/documentation/module-loaders_dicomLoader.html +522 -0
package/docs/documentation/module-loaders_fileLoader.html +593 -0
package/docs/documentation/module-loaders_multiframeLoader.html +1169 -0
package/docs/documentation/module-loaders_niftiLoader.html +565 -0
package/docs/documentation/module-loaders_nrrdLoader.html +1459 -0
package/docs/documentation/module-loaders_resliceLoader.html +590 -0
package/docs/documentation/module-monitors_memory.html +980 -0
package/docs/documentation/module-tools_default.html +740 -0
package/docs/documentation/module.exports_module.exports.html +203 -0
package/docs/documentation/monitors_memory.js.html +189 -0
package/docs/documentation/parsers_nrrd.js.html +569 -0
package/docs/documentation/scripts/collapse.js +20 -0
package/docs/documentation/scripts/linenumber.js +25 -0
package/docs/documentation/scripts/nav.js +12 -0
package/docs/documentation/scripts/polyfill.js +4 -0
package/docs/documentation/scripts/prettify/Apache-License-2.0.txt +202 -0
package/docs/documentation/scripts/prettify/lang-css.js +2 -0
package/docs/documentation/scripts/prettify/prettify.js +28 -0
package/docs/documentation/scripts/search.js +83 -0
package/docs/documentation/styles/jsdoc.css +765 -0
package/docs/documentation/styles/prettify.css +80 -0
package/docs/documentation/tools_contourTool.js.html +1963 -0
package/docs/documentation/tools_custom_contourTool.js.html +1968 -0
package/docs/documentation/tools_custom_diameterTool.js.html +225 -0
package/docs/documentation/tools_custom_editMaskTool.js.html +225 -0
package/docs/documentation/tools_custom_polylineScissorsTool.js.html +143 -0
package/docs/documentation/tools_custom_thresholdsBrushTool.js.html +245 -0
package/docs/documentation/tools_default.js.html +576 -0
package/docs/documentation/tools_diameterTool.js.html +219 -0
package/docs/documentation/tools_editMaskTool.js.html +219 -0
package/docs/documentation/tools_interaction.js.html +258 -0
package/docs/documentation/tools_io.js.html +297 -0
package/docs/documentation/tools_main.js.html +443 -0
package/docs/documentation/tools_polygonSegmentationMixin.js.html +329 -0
package/docs/documentation/tools_polylineScissorsTool.js.html +136 -0
package/docs/documentation/tools_seedTool.js.html +423 -0
package/docs/documentation/tools_segmentation.js.html +558 -0
package/docs/documentation/tools_state.js.html +163 -0
package/docs/documentation/tools_strategies_eraseFreehand.js.html +160 -0
package/docs/documentation/tools_strategies_fillFreehand.js.html +163 -0
package/docs/documentation/tools_thresholdsBrushTool.js.html +239 -0
package/docs/documentation/tools_tools.default.js.html +569 -0
package/docs/documentation/tools_tools.interaction.js.html +251 -0
package/docs/documentation/tools_tools.io.js.html +288 -0
package/docs/documentation/tools_tools.main.js.html +442 -0
package/docs/documentation/tools_tools.segmentation.js.html +445 -0
package/docs/documentation/tools_tools.state.js.html +157 -0
package/docs/examples/base.html +170 -0
package/docs/examples/colorMaps.html +181 -0
package/docs/examples/defaultTools.html +246 -0
package/docs/examples/demo/anon1 +0 -0
package/docs/examples/demo/anon10 +0 -0
package/docs/examples/demo/anon11 +0 -0
package/docs/examples/demo/anon12 +0 -0
package/docs/examples/demo/anon13 +0 -0
package/docs/examples/demo/anon14 +0 -0
package/docs/examples/demo/anon15 +0 -0
package/docs/examples/demo/anon16 +0 -0
package/docs/examples/demo/anon17 +0 -0
package/docs/examples/demo/anon18 +0 -0
package/docs/examples/demo/anon19 +0 -0
package/docs/examples/demo/anon2 +0 -0
package/docs/examples/demo/anon20 +0 -0
package/docs/examples/demo/anon21 +0 -0
package/docs/examples/demo/anon22 +0 -0
package/docs/examples/demo/anon23 +0 -0
package/docs/examples/demo/anon24 +0 -0
package/docs/examples/demo/anon3 +0 -0
package/docs/examples/demo/anon4 +0 -0
package/docs/examples/demo/anon5 +0 -0
package/docs/examples/demo/anon6 +0 -0
package/docs/examples/demo/anon7 +0 -0
package/docs/examples/demo/anon8 +0 -0
package/docs/examples/demo/anon9 +0 -0
package/docs/examples/demo/example.nrrd +0 -0
package/docs/examples/demo/segmentation.nrrd +0 -0
package/docs/examples/demo/xa_integris.dcm +0 -0
package/docs/examples/index.html +129 -0
package/docs/examples/larvitar.js +108623 -0
package/docs/examples/layers.html +250 -0
package/docs/examples/masks.html +273 -0
package/docs/examples/multiframe.html +200 -0
package/docs/examples/nrrd.html +96 -0
package/docs/examples/reslice.html +174 -0
package/docs/index.html +92 -0
package/imaging/dataDictionary.json +21865 -21865
package/imaging/imageAnonymization.js +161 -0
package/imaging/{image_colormaps.js → imageColormaps.js} +2 -2
package/imaging/{image_contours.js → imageContours.js} +1 -2
package/imaging/{image_io.js → imageIo.js} +18 -15
package/imaging/{image_layers.js → imageLayers.js} +2 -2
package/imaging/{image_loading.js → imageLoading.js} +9 -6
package/imaging/imageParsing.js +301 -0
package/imaging/{image_presets.js → imagePresets.js} +2 -2
package/imaging/{image_rendering.js → imageRendering.js} +36 -32
package/imaging/imageReslice.js +78 -0
package/imaging/{image_store.js → imageStore.js} +8 -7
package/imaging/{image_tools.js → imageTools.js} +15 -23
package/imaging/{image_utils.js → imageUtils.js} +1 -1
package/imaging/loaders/commonLoader.js +1 -1
package/imaging/loaders/dicomLoader.js +1 -1
package/imaging/loaders/fileLoader.js +2 -2
package/imaging/loaders/multiframeLoader.js +6 -2
package/imaging/loaders/nrrdLoader.js +11 -7
package/imaging/tools/{contourTool.js → custom/contourTool.js} +25 -20
package/imaging/tools/{diameterTool.js → custom/diameterTool.js} +9 -3
package/imaging/tools/{editMaskTool.js → custom/editMaskTool.js} +7 -1
package/imaging/tools/{polylineScissorsTool.js → custom/polylineScissorsTool.js} +12 -5
package/imaging/tools/{seedTool.js → custom/seedTool.js} +3 -3
package/imaging/tools/{thresholdsBrushTool.js → custom/thresholdsBrushTool.js} +7 -1
package/imaging/tools/{tools.default.js → default.js} +10 -3
package/imaging/tools/{tools.interaction.js → interaction.js} +13 -6
package/imaging/tools/{tools.io.js → io.js} +15 -6
package/imaging/tools/{tools.main.js → main.js} +16 -14
package/imaging/tools/polygonSegmentationMixin.js +8 -4
package/imaging/tools/{tools.segmentation.js → segmentation.js} +171 -58
package/imaging/tools/segmentations.md +38 -0
package/imaging/tools/setLabelMap3D.js +248 -0
package/imaging/tools/{tools.state.js → state.js} +7 -1
package/imaging/tools/strategies/eraseFreehand.js +8 -9
package/imaging/tools/strategies/fillFreehand.js +8 -9
package/index.js +44 -39
package/modules/vuex/larvitar.js +13 -3
package/package.json +13 -10
package/imaging/image_parsing.js +0 -307
package/imaging/image_reslice.js +0 -80

package/docs/documentation/image_tools.js.html ADDED Viewed

@@ -0,0 +1,792 @@
+<!DOCTYPE html>
+<html lang="en">
+<head>
+    <meta charset="utf-8">
+    <title>image_tools.js - Larvitar</title>
+    <meta name="description" content="Dicom Image Toolkit for CornestoneJS" />
+        <meta name="keywords" content="imaging, dataviz, medical, cornerstone" />
+        <meta name="keyword" content="imaging, dataviz, medical, cornerstone" />
+    <script src="scripts/prettify/prettify.js"></script>
+    <script src="scripts/prettify/lang-css.js"></script>
+    <!--[if lt IE 9]>
+      <script src="//html5shiv.googlecode.com/svn/trunk/html5.js"></script>
+    <![endif]-->
+    <link type="text/css" rel="stylesheet" href="styles/prettify.css">
+    <link type="text/css" rel="stylesheet" href="styles/jsdoc.css">
+    <script src="scripts/nav.js" defer></script>
+    <meta name="viewport" content="width=device-width, initial-scale=1.0">
+</head>
+<body>
+<input type="checkbox" id="nav-trigger" class="nav-trigger" />
+<label for="nav-trigger" class="navicon-button x">
+  <div class="navicon"></div>
+</label>
+<label for="nav-trigger" class="overlay"></label>
+<nav >
+    <input type="text" id="nav-search" placeholder="Search" />
+    <h2><a href="index.html">Home</a></h2><h2><a href="https://github.com/dvisionlab/Larvitar" target="_blank" class="menu-item" id="repository" >Github repo</a></h2><h3>Classes</h3><ul><li><a href="module.exports_module.exports.html">module.exports#module.exports</a></li><li><a href="module-imaging_store-Larvitar_Store.html">imaging/store~Larvitar_Store</a></li><li><a href="Tools.Annotation.ContoursTool.html">Tools.Annotation.ContoursTool</a></li><li><a href="Tools.Annotation.DiameterTool.html">Tools.Annotation.DiameterTool</a></li><li><a href="Tools.Brush.BrushTool.html">Tools.Brush.BrushTool</a></li><li><a href="Tools.Brush.ThresholdsBrushTool.html">Tools.Brush.ThresholdsBrushTool</a></li><li><a href="Tools.PolylineScissorsTool.html">Tools.PolylineScissorsTool</a></li></ul><h3>Modules</h3><ul><li><a href="module-imaging_anonymization.html">imaging/anonymization</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_anonymization.html#anonymize#~anonymize">anonymize</a></li><li data-type='method' style='display: none;'><a href="module-imaging_anonymization.html#encrypt#~encrypt">encrypt</a></li></ul></li><li><a href="module-imaging_contours.html">imaging/contours</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_contours.html#extractSlicePoints#extractSlicePoints">extractSlicePoints</a></li><li data-type='method' style='display: none;'><a href="module-imaging_contours.html#populateContoursObject#populateContoursObject">populateContoursObject</a></li><li data-type='method' style='display: none;'><a href="module-imaging_contours.html#parseContours#~parseContours">parseContours</a></li></ul></li><li><a href="module-imaging_io.html">imaging/io</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_io.html#buildData#~buildData">buildData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_io.html#buildDataAsync#~buildDataAsync">buildDataAsync</a></li><li data-type='method' style='display: none;'><a href="module-imaging_io.html#buildHeader#~buildHeader">buildHeader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_io.html#getCachedPixelData#~getCachedPixelData">getCachedPixelData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_io.html#importNRRDImage#~importNRRDImage">importNRRDImage</a></li></ul></li><li><a href="module-imaging_layers.html">imaging/layers</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_layers.html#getActiveLayer#getActiveLayer">getActiveLayer</a></li><li data-type='method' style='display: none;'><a href="module-imaging_layers.html#setActiveLayer#setActiveLayer">setActiveLayer</a></li><li data-type='method' style='display: none;'><a href="module-imaging_layers.html#updateLayer#updateLayer">updateLayer</a></li><li data-type='method' style='display: none;'><a href="module-imaging_layers.html#buildLayers#~buildLayers">buildLayers</a></li></ul></li><li><a href="module-imaging_loading.html">imaging/loading</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#initializeFileImageLoader#initializeFileImageLoader">initializeFileImageLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#initializeImageLoader#initializeImageLoader">initializeImageLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#initializeWebImageLoader#initializeWebImageLoader">initializeWebImageLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#registerMultiFrameImageLoader#registerMultiFrameImageLoader">registerMultiFrameImageLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#registerNRRDImageLoader#registerNRRDImageLoader">registerNRRDImageLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#registerResliceLoader#registerResliceLoader">registerResliceLoader</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#updateLoadedStack#updateLoadedStack">updateLoadedStack</a></li><li data-type='method' style='display: none;'><a href="module-imaging_loading.html#isNewInstance#~isNewInstance">isNewInstance</a></li></ul></li><li><a href="module-imaging_parsing.html">imaging/parsing</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#clearImageParsing#clearImageParsing">clearImageParsing</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#dumpDataSet#dumpDataSet">dumpDataSet</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#readFile#readFile">readFile</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#readFiles#readFiles">readFiles</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#dumpFile#~dumpFile">dumpFile</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#dumpFiles#~dumpFiles">dumpFiles</a></li><li data-type='method' style='display: none;'><a href="module-imaging_parsing.html#parseNextFile#~parseNextFile">parseNextFile</a></li></ul></li><li><a href="module-imaging_presets.html">imaging/presets</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_presets.html#getImagePresets#getImagePresets">getImagePresets</a></li><li data-type='method' style='display: none;'><a href="module-imaging_presets.html#setImageCustomPreset#setImageCustomPreset">setImageCustomPreset</a></li><li data-type='method' style='display: none;'><a href="module-imaging_presets.html#setImagePreset#setImagePreset">setImagePreset</a></li></ul></li><li><a href="module-imaging_rendering.html">imaging/rendering</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#HSVToRGB#.HSVToRGB">HSVToRGB</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#addColorMap#addColorMap">addColorMap</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#applyColorMap#applyColorMap">applyColorMap</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#clearImageCache#clearImageCache">clearImageCache</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#disableViewport#disableViewport">disableViewport</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#fillPixelData#fillPixelData">fillPixelData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#flipImageHorizontal#flipImageHorizontal">flipImageHorizontal</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#flipImageVertical#flipImageVertical">flipImageVertical</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#getColormapsList#getColormapsList">getColormapsList</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#getSeriesData#getSeriesData">getSeriesData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#invertImage#invertImage">invertImage</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#loadAndCacheImages#loadAndCacheImages">loadAndCacheImages</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#renderImage#renderImage">renderImage</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#renderWebImage#renderWebImage">renderWebImage</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#renderWebImage#renderWebImage">renderWebImage</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#resetViewports#resetViewports">resetViewports</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#resizeViewport#resizeViewport">resizeViewport</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#rotateImageLeft#rotateImageLeft">rotateImageLeft</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#rotateImageRight#rotateImageRight">rotateImageRight</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#storeViewportData#storeViewportData">storeViewportData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#unloadViewport#unloadViewport">unloadViewport</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#updateImage#updateImage">updateImage</a></li><li data-type='method' style='display: none;'><a href="module-imaging_rendering.html#updateViewportData#updateViewportData">updateViewportData</a></li></ul></li><li></li><li><a href="module-imaging_reslice.html">imaging/reslice</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_reslice.html#resliceSeries#resliceSeries">resliceSeries</a></li></ul></li><li><a href="module-imaging_store.html">imaging/store</a><ul class='members'><li data-type='member' style='display: none;'><a href="module-imaging_store.html#.larvitar_store">larvitar_store</a></li></ul><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_store.html#initLarvitarStore#.initLarvitarStore">initLarvitarStore</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#addSeriesIds#~addSeriesIds">addSeriesIds</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#addViewport#~addViewport">addViewport</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#deleteViewport#~deleteViewport">deleteViewport</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#disableVuex#~disableVuex">disableVuex</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#enableVuex#~enableVuex">enableVuex</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#get#~get">get</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#removeSeriesIds#~removeSeriesIds">removeSeriesIds</a></li><li data-type='method' style='display: none;'><a href="module-imaging_store.html#set#~set">set</a></li></ul></li><li><a href="module-imaging_tools.html">imaging/tools</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addContoursTool#~addContoursTool">addContoursTool</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addDefaultTools#~addDefaultTools">addDefaultTools</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addDiameterTool#~addDiameterTool">addDiameterTool</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addMaskEditingTool#~addMaskEditingTool">addMaskEditingTool</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addSeedsTool#~addSeedsTool">addSeedsTool</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addStackStateToElement#~addStackStateToElement">addStackStateToElement</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#addToolStateSingleSlice#~addToolStateSingleSlice">addToolStateSingleSlice</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#clearCornerstoneElements#~clearCornerstoneElements">clearCornerstoneElements</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#clearMeasurements#~clearMeasurements">clearMeasurements</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#clearToolStateByName#~clearToolStateByName">clearToolStateByName</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#getCurrentMaskData#~getCurrentMaskData">getCurrentMaskData</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#getToolState#~getToolState">getToolState</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#isToolMissing#~isToolMissing">isToolMissing</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#setSegmentationConfig#~setSegmentationConfig">setSegmentationConfig</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#setToolActive#~setToolActive">setToolActive</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#setToolActive#~setToolActive">setToolActive</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#setToolEnabled#~setToolEnabled">setToolEnabled</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#setToolPassive#~setToolPassive">setToolPassive</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#syncToolStack#~syncToolStack">syncToolStack</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#updateDiameterTool#~updateDiameterTool">updateDiameterTool</a></li><li data-type='method' style='display: none;'><a href="module-imaging_tools.html#updateStackToolState#~updateStackToolState">updateStackToolState</a></li></ul></li><li><a href="module-imaging_utils.html">imaging/utils</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#formatDate#formatDate">formatDate</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#formatDateTime#formatDateTime">formatDateTime</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getCmprMetadata#getCmprMetadata">getCmprMetadata</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getDICOMTag#getDICOMTag">getDICOMTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getDICOMTagCode#getDICOMTagCode">getDICOMTagCode</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getDistanceBetweenSlices#getDistanceBetweenSlices">getDistanceBetweenSlices</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getMaxPixelValue#getMaxPixelValue">getMaxPixelValue</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getMeanValue#getMeanValue">getMeanValue</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getMinPixelValue#getMinPixelValue">getMinPixelValue</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getNormalOrientation#getNormalOrientation">getNormalOrientation</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getPixelRepresentation#getPixelRepresentation">getPixelRepresentation</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getPixelTypedArray#getPixelTypedArray">getPixelTypedArray</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getReslicedIOP#getReslicedIOP">getReslicedIOP</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getReslicedIPP#getReslicedIPP">getReslicedIPP</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getReslicedMetadata#getReslicedMetadata">getReslicedMetadata</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getReslicedPixeldata#getReslicedPixeldata">getReslicedPixeldata</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getReslicedSliceLocation#getReslicedSliceLocation">getReslicedSliceLocation</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getSortedStack#getSortedStack">getSortedStack</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getSortedUIDs#getSortedUIDs">getSortedUIDs</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getTagValue#getTagValue">getTagValue</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getTypedArray#getTypedArray">getTypedArray</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#getTypedArrayFromDataType#getTypedArrayFromDataType">getTypedArrayFromDataType</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#isElement#isElement">isElement</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#isNegativeSign#isNegativeSign">isNegativeSign</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#isStringVr#isStringVr">isStringVr</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#isValidDate#isValidDate">isValidDate</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseAgeTag#parseAgeTag">parseAgeTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseDateTag#parseDateTag">parseDateTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseDateTimeTag#parseDateTimeTag">parseDateTimeTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseDICOMFileIDTag#parseDICOMFileIDTag">parseDICOMFileIDTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parsePatientNameTag#parsePatientNameTag">parsePatientNameTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseTag#parseTag">parseTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#parseTimeTag#parseTimeTag">parseTimeTag</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#permuteSignedArrays#permuteSignedArrays">permuteSignedArrays</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#permuteValues#permuteValues">permuteValues</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#rand#rand">rand</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#randomId#randomId">randomId</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#sortStackCallback#sortStackCallback">sortStackCallback</a></li><li data-type='method' style='display: none;'><a href="module-imaging_utils.html#spacingArray#spacingArray">spacingArray</a></li></ul></li><li><a href="module-loaders_commonLoader.html">loaders/commonLoader</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#getImageFrame#getImageFrame">getImageFrame</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#getLarvitarImageTracker#getLarvitarImageTracker">getLarvitarImageTracker</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#getLarvitarManager#getLarvitarManager">getLarvitarManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#getSeriesDataFromLarvitarManager#getSeriesDataFromLarvitarManager">getSeriesDataFromLarvitarManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#populateLarvitarManager#populateLarvitarManager">populateLarvitarManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#removeSeriesFromLarvitarManager#removeSeriesFromLarvitarManager">removeSeriesFromLarvitarManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#resetLarvitarManager#resetLarvitarManager">resetLarvitarManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_commonLoader.html#updateLarvitarManager#updateLarvitarManager">updateLarvitarManager</a></li></ul></li><li><a href="module-loaders_dicomLoader.html">loaders/dicomLoader</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-loaders_dicomLoader.html#cacheImages#cacheImages">cacheImages</a></li><li data-type='method' style='display: none;'><a href="module-loaders_dicomLoader.html#getDicomImageId#getDicomImageId">getDicomImageId</a></li></ul></li><li><a href="module-loaders_fileLoader.html">loaders/fileLoader</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-loaders_fileLoader.html#getFileImageId#getFileImageId">getFileImageId</a></li><li data-type='method' style='display: none;'><a href="module-loaders_fileLoader.html#populateFileManager#populateFileManager">populateFileManager</a></li><li data-type='method' style='display: none;'><a href="module-loaders_fileLoader.html#resetFileLoader#resetFileLoader">resetFileLoader</a></li><li data-type='method' style='display: none;'><a href="module-loaders_fileLoader.html#resetFileManager#resetFileManager">resetFileManager</a></li></ul></li><li><a href="module-loaders_nrrdLoader.html">loaders/nrrdLoader</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#buildNrrdImage#buildNrrdImage">buildNrrdImage</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#createCustomImage#createCustomImage">createCustomImage</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#getImageIdFromSlice#getImageIdFromSlice">getImageIdFromSlice</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#getNrrdImageId#getNrrdImageId">getNrrdImageId</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#getNrrdSerieDimensions#getNrrdSerieDimensions">getNrrdSerieDimensions</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#getSliceNumberFromImageId#getSliceNumberFromImageId">getSliceNumberFromImageId</a></li><li data-type='method' style='display: none;'><a href="module-loaders_nrrdLoader.html#loadNrrdImage#loadNrrdImage">loadNrrdImage</a></li></ul></li><li><a href="module-loaders_resliceLoader.html">loaders/resliceLoader</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-loaders_resliceLoader.html#createCustomImage#createCustomImage">createCustomImage</a></li><li data-type='method' style='display: none;'><a href="module-loaders_resliceLoader.html#loadReslicedImage#loadReslicedImage">loadReslicedImage</a></li></ul></li><li><a href="module-monitors_memory.html">monitors/memory</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#checkMemoryAllocation#checkMemoryAllocation">checkMemoryAllocation</a></li><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#checkMemorySupport#checkMemorySupport">checkMemorySupport</a></li><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#getAvailableMemory#getAvailableMemory">getAvailableMemory</a></li><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#getMB#getMB">getMB</a></li><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#getUsedMemory#getUsedMemory">getUsedMemory</a></li><li data-type='method' style='display: none;'><a href="module-monitors_memory.html#setAvailableMemory#setAvailableMemory">setAvailableMemory</a></li></ul></li><li><a href="module-tools_default.html">tools/default</a><ul class='methods'><li data-type='method' style='display: none;'><a href="module-tools_default.html#getDefaultToolsByType#~getDefaultToolsByType">getDefaultToolsByType</a></li><li data-type='method' style='display: none;'><a href="module-tools_default.html#setDefaultToolsProps#~setDefaultToolsProps">setDefaultToolsProps</a></li></ul></li></ul><h3>Events</h3><ul><li><a href="ContoursTool.html#event:_drawingDoubleTapClickCallback">ContoursTool#_drawingDoubleTapClickCallback</a></li><li><a href="ContoursTool.html#event:_drawingMouseDoubleClickCallback">ContoursTool#_drawingMouseDoubleClickCallback</a></li><li><a href="ContoursTool.html#event:_drawingMouseDownCallback">ContoursTool#_drawingMouseDownCallback</a></li><li><a href="ContoursTool.html#event:_drawingMouseDragCallback">ContoursTool#_drawingMouseDragCallback</a></li><li><a href="ContoursTool.html#event:_drawingMouseMoveCallback">ContoursTool#_drawingMouseMoveCallback</a></li><li><a href="ContoursTool.html#event:_drawingMouseUpCallback">ContoursTool#_drawingMouseUpCallback</a></li><li><a href="ContoursTool.html#event:_drawingTouchDragCallback">ContoursTool#_drawingTouchDragCallback</a></li><li><a href="ContoursTool.html#event:_drawingTouchStartCallback">ContoursTool#_drawingTouchStartCallback</a></li><li><a href="ContoursTool.html#event:_editMouseDragCallback">ContoursTool#_editMouseDragCallback</a></li><li><a href="ContoursTool.html#event:_editTouchDragCallback">ContoursTool#_editTouchDragCallback</a></li></ul><h3>Mixins</h3><ul><li><a href="Mixins.polygonSegmentationMixin%2520-%2520segmentation%2520operations%2520for%2520polyline.html">Mixins.polygonSegmentationMixin - segmentation operations for polyline</a></li></ul><h3>Global</h3><ul><li><a href="global.html#_checkIfDrawing">_checkIfDrawing</a></li><li><a href="global.html#_paint">_paint</a></li><li><a href="global.html#addDefaultTools">addDefaultTools</a></li><li><a href="global.html#addMouseKeyHandlers">addMouseKeyHandlers</a></li><li><a href="global.html#addSegmentationMask">addSegmentationMask</a></li><li><a href="global.html#addTool">addTool</a></li><li><a href="global.html#buildMultiFrameImage">buildMultiFrameImage</a></li><li><a href="global.html">clearMultiFrameCache</a></li><li><a href="global.html#clearSegmentationState">clearSegmentationState</a></li><li><a href="global.html#config">config</a></li><li><a href="global.html">createCustomImage</a></li><li><a href="global.html#csToolsCreateStack">csToolsCreateStack</a></li><li><a href="global.html#csToolsUpdateImageIndex">csToolsUpdateImageIndex</a></li><li><a href="global.html#deleteMask">deleteMask</a></li><li><a href="global.html#disableBrushTool">disableBrushTool</a></li><li><a href="global.html#download">download</a></li><li><a href="global.html#enableBrushTool">enableBrushTool</a></li><li><a href="global.html#eraseFreehand">eraseFreehand</a></li><li><a href="global.html#eraseInsideFreehand">eraseInsideFreehand</a></li><li><a href="global.html#eraseOutsideFreehand">eraseOutsideFreehand</a></li><li><a href="global.html#exportAnnotations">exportAnnotations</a></li><li><a href="global.html#extractToolInfo">extractToolInfo</a></li><li><a href="global.html#fillFreehand">fillFreehand</a></li><li><a href="global.html#fillInsideFreehand">fillInsideFreehand</a></li><li><a href="global.html#fillOutsideFreehand">fillOutsideFreehand</a></li><li><a href="global.html#forceRender">forceRender</a></li><li><a href="global.html#generateCSV">generateCSV</a></li><li><a href="global.html#generateLUT">generateLUT</a></li><li><a href="global.html#generateUniformLUT">generateUniformLUT</a></li><li><a href="global.html#getActiveLabelmapBuffer">getActiveLabelmapBuffer</a></li><li><a href="global.html#getCircleWithThreshold">getCircleWithThreshold</a></li><li><a href="global.html">getMultiFrameImageId</a></li><li><a href="global.html#HSVtoRGB">HSVtoRGB</a></li><li><a href="global.html#initializeCSTools">initializeCSTools</a></li><li><a href="global.html#initSegmentationModule">initSegmentationModule</a></li><li><a href="global.html#isDrawing">isDrawing</a></li><li><a href="global.html#isToolMissing">isToolMissing</a></li><li><a href="global.html#loadAnnotations">loadAnnotations</a></li><li><a href="global.html#loadMultiFrameImage">loadMultiFrameImage</a></li><li><a href="global.html#NRRD_TYPES_TO_TYPEDARRAY">NRRD_TYPES_TO_TYPEDARRAY</a></li><li><a href="global.html">parse</a></li><li><a href="global.html#redoLastStroke">redoLastStroke</a></li><li><a href="global.html#renderToolData">renderToolData</a></li><li><a href="global.html#restoreToolState">restoreToolState</a></li><li><a href="global.html#saveAnnotations">saveAnnotations</a></li><li><a href="global.html#saveToolState">saveToolState</a></li><li><a href="global.html#setActiveLabelmap">setActiveLabelmap</a></li><li><a href="global.html#setActiveLabelOpacity">setActiveLabelOpacity</a></li><li><a href="global.html#setActiveSegment">setActiveSegment</a></li><li><a href="global.html#setBrushProps">setBrushProps</a></li><li><a href="global.html#setInactiveLabelOpacity">setInactiveLabelOpacity</a></li><li><a href="global.html#setMaskProps">setMaskProps</a></li><li><a href="global.html">setPixelDataType</a></li><li><a href="global.html#setToolActive">setToolActive</a></li><li><a href="global.html#setToolDisabled">setToolDisabled</a></li><li><a href="global.html#setToolEnabled">setToolEnabled</a></li><li><a href="global.html#setToolPassive">setToolPassive</a></li><li><a href="global.html#setToolsStyle">setToolsStyle</a></li><li><a href="global.html#toggleContourMode">toggleContourMode</a></li><li><a href="global.html">toggleMouseHandlers</a></li><li><a href="global.html#tryUpdateImage">tryUpdateImage</a></li><li><a href="global.html#undoLastStroke">undoLastStroke</a></li></ul>
+</nav>
+<div id="main">
+    <h1 class="page-title">image_tools.js</h1>
+    <section>
+        <article>
+            <pre class="prettyprint source linenums"><code>/** @module imaging/tools
+ *  @desc This file provides functionalities for
+ *        interacting with cornerstone tools
+ */
+// external libraries
+import cornerstone from "cornerstone-core";
+import cornerstoneTools from "cornerstone-tools";
+import { each, extend, filter, remove, cloneDeep } from "lodash";
+// internal libraries
+import { DEFAULT_TOOLS } from "./tools/tools.default";
+// import { SeedsTool } from "./tools/seedTool";
+import { ContoursTool } from "./tools/contourTool";
+import { EditMaskTool } from "./tools/editMaskTool";
+import { DiameterTool } from "./tools/diameterTool";
+import { getImageIdFromSlice } from "./loaders/nrrdLoader";
+import { getSeriesDataFromLarvitarManager } from "./loaders/commonLoader";
+import { parseContours } from "./image_contours";
+import { isElement } from "./image_utils";
+/*
+ * This module provides the following functions to be exported:
+ * csToolsCreateStack(element)
+ * addDefaultTools()
+ * clearMeasurements()
+ * addContoursTool(rawContours, maskName)
+ * addMaskEditingTool(seriesId,mask,setConfig,callback, targetViewport)
+ * getCurrentMaskData(viewportId)
+ * addStackStateToElement(seriesId, element)
+ * addSeedsTool(preLoadSeeds, initViewport)
+ * addDiameterTool(targetElementId, diameters, seriesId)
+ * setToolActive(toolName, options, activeViewport, viewports)
+ * setToolDisabled(toolName, options, activeViewport, viewports)
+ * setToolEnabled(toolName, options, activeViewport, viewports)
+ * setToolPassive(toolName, options, activeViewport, viewports)
+ * getToolState(toolName)
+ * updateDiameterTool(diameterId, value, seriesId)
+ * addToolStateSingleSlice(element, toolType, data, slice, seriesId)
+ * clearToolStateByName(toolName, options)
+ * clearCornerstoneElements()
+ * syncToolStack(srcSliceNumber, toolName, viewport, seriesId)
+ * updateStackToolState(element, imageIndex)
+ */
+/**
+ * Add all default tools, as listed in tools.default.js
+ * @function addDefaultTools
+ * @deprecated (OBSOLETE)
+ */
+export const addDefaultTools = function (toolToActivate, cb) {
+  // for each default tool
+  each(DEFAULT_TOOLS, tool => {
+    // check if already added
+    if (!isToolMissing(tool.name)) {
+      return;
+    }
+    let configuration = tool.configuration;
+    let toolClass = cornerstoneTools[tool.class];
+    // check target viewports and call add tool with options
+    if (tool.viewports == "all") {
+      cornerstoneTools.addTool(toolClass, { configuration });
+    } else {
+      // call add tool for element for each element
+      each(tool.viewports, targetElement => {
+        cornerstoneTools.addToolForElement(
+          targetElement,
+          toolClass,
+          configuration
+        );
+      });
+    }
+    let elements = cornerstone.getEnabledElements();
+    // if sync tool, enable
+    if (tool.sync) {
+      const synchronizer = new cornerstoneTools.Synchronizer(
+        "cornerstoneimagerendered",
+        cornerstoneTools[tool.sync]
+      );
+      elements.forEach(element => {
+        synchronizer.add(element.element);
+      });
+      synchronizer.enabled = true;
+    }
+    if (tool.defaultActive || tool.name == toolToActivate) {
+      setToolActive(tool.name, tool.options);
+    }
+  });
+  // set wheel scroll active
+  setToolActive("StackScrollMouseWheel", {
+    loop: false, // default false
+    allowSkipping: false, // default true
+    invert: false
+  });
+  if (cb) {
+    cb();
+  }
+};
+/**
+ * Add Diameter tool
+ * @function addDiameterTool
+ * @param {String} elementId - The target hmtl element id or its DOM HTMLElement
+ * @param {Array} diameters - The array of diameter objects.
+ * @param {String} seriesId - The id of the target serie.
+ */
+export const addDiameterTool = function (elementId, diameters, seriesId) {
+  if (isToolMissing("Diameter")) {
+    let element = isElement(elementId)
+      ? elementId
+      : document.getElementById(elementId);
+    cornerstoneTools.addToolForElement(element, DiameterTool, {
+      dataArray: diameters,
+      seriesId: seriesId
+    });
+    setToolPassive("Diameter");
+  }
+};
+/**
+ * Add Contour tool
+ * @function addContoursTool
+ * @param {Object} rawContours - The contours object (generated from a segmentation mask).
+ * @param {String} maskName - The name tag that identify the mask
+ */
+export const addContoursTool = function (rawContours, maskName) {
+  var pointBatchSize = 2;
+  console.time("...parsing contours");
+  var contoursParsedData = parseContours(rawContours, pointBatchSize, maskName);
+  console.timeEnd("...parsing contours");
+  cornerstoneTools.addTool(ContoursTool, {
+    contoursParsedData,
+    maskName
+  });
+};
+/**
+ * Add mask editing tool
+ * @function addMaskEditingTool
+ * @param {Array} mask - The mask data.
+ * @param {String} targetViewport - The target hmtl element id.
+ * @param {Function} callback - The tool initialization callback
+ */
+export const addMaskEditingTool = function (mask, callback, targetViewport) {
+  let enabledElements = cornerstone.getEnabledElements();
+  each(enabledElements, el => {
+    if (el.element.id == targetViewport) {
+      cornerstoneTools.addToolForElement(el.element, EditMaskTool, {
+        mask: mask,
+        initCallback: callback,
+        configuration: { alwaysEraseOnClick: false }
+      });
+      cornerstoneTools.setToolEnabledForElement(el.element, "EditMask", {
+        mouseButtonMask: 1
+      });
+    }
+  });
+  let defaultConfig = {
+    radius: 5,
+    fillAlpha: 0.5
+  };
+  setSegmentationConfig(defaultConfig);
+};
+/**
+ * Modify configuration for cornerstone tools segmentation module
+ * @function setSegmentationConfig
+ * @param {Object} config - The custom configuration.
+ * @example
+ * Example of custom configuration
+ * config = {
+      renderOutline: true,
+      renderFill: true,
+      shouldRenderInactiveLabelmaps: true,
+      radius: 10,
+      minRadius: 1,
+      maxRadius: 50,
+      segmentsPerLabelmap: 65535,
+      fillAlpha: 0.7,
+      fillAlphaInactive: 0.1,
+      outlineAlpha: 0.7,
+      outlineAlphaInactive: 0.35,
+      outlineWidth: 3,
+      storeHistory: true
+    };
+ */
+export const setSegmentationConfig = function (config) {
+  let { configuration } = cornerstoneTools.getModule("segmentation");
+  extend(configuration, config);
+  let enabledElements = cornerstone.getEnabledElements();
+  each(enabledElements, el => {
+    cornerstone.updateImage(el.element);
+  });
+};
+/**
+ * Get mask editing tool current data from state
+ * @function getCurrentMaskData
+ * @param {String} viewportId - The target hmtl element id.
+ * @return {Array} labelmap3D - The mask array
+ */
+export const getCurrentMaskData = function (viewportId) {
+  const { getters } = cornerstoneTools.getModule("segmentation");
+  let enabledElement = cornerstone
+    .getEnabledElements()
+    .filter(e => e.element.id == viewportId)
+    .pop();
+  const { labelmap3D } = getters.labelmap2D(enabledElement.element);
+  return labelmap3D;
+};
+/**
+ * Add Stack State to a single hmtl element
+ * @function addStackStateToElement
+ * @param {String} seriesId - The id of the target serie.
+ * @param {HTMLElement} element - The target hmtl element.
+ */
+export const addStackStateToElement = function (seriesId, element) {
+  // Define the Stack object
+  const stack = getSeriesDataFromLarvitarManager(seriesId)[element.id];
+  // Add the stack tool state to the enabled element
+  cornerstoneTools.addStackStateManager(element, ["stack"]);
+  cornerstoneTools.addToolState(element, "stack", stack);
+};
+/**
+ * Add seeds tool
+ * @function addSeedsTool
+ * @param {Array} preLoadSeeds - The array of seeds to load as initialization.
+ * @param {String} initViewport - The hmtl element id to be used for tool initialization.
+ */
+export const addSeedsTool = function (preLoadSeeds, initViewport) {
+  if (isToolMissing("Seeds")) {
+    let enabledElements = cornerstone.getEnabledElements();
+    each(enabledElements, el => {
+      let initialize = el.element.id == initViewport;
+      cornerstoneTools.addToolForElement(el.element, SeedsTool, {
+        preLoadSeeds,
+        initialize,
+        initViewport
+      });
+    });
+    setToolEnabled("Seeds");
+  }
+};
+/**
+ * Delete all measurements from tools state, for tools that have the "cleaneable" prop set to true in tools.default.js
+ * @function clearMeasurements
+ */
+export const clearMeasurements = function (cb) {
+  let enabledElements = cornerstone.getEnabledElements();
+  let clenableTools = filter(DEFAULT_TOOLS, "cleanable");
+  each(enabledElements, el => {
+    each(clenableTools, function (tool) {
+      cornerstoneTools.clearToolState(el.element, tool.name);
+    });
+  });
+  each(enabledElements, el => {
+    cornerstone.updateImage(el.element);
+  });
+  if (cb) {
+    cb();
+  }
+};
+/**
+ * Set Tool "active" on all elements (ie, rendered and manipulable) &amp; refresh cornerstone elements
+ * @function setToolActive
+ * @param {String} toolName - The tool name.
+ * @param {Object} options - The custom options. @default from tools.default.js
+ * @param {String} activeViewport - The active viewport (if "all", viewports array will be used)
+ * @param {Array} viewports - The hmtl element id to be used for tool initialization.
+ */
+export const setToolActive = function (
+  toolName,
+  options,
+  activeViewport,
+  viewports
+) {
+  let defaultOpt = DEFAULT_TOOLS[toolName].options;
+  extend(defaultOpt, options);
+  cornerstoneTools.setToolActive(toolName, defaultOpt);
+  if (activeViewport == "all") {
+    each(viewports, function (elementId) {
+      let el = document.getElementById(elementId);
+      if (el) {
+        cornerstone.updateImage(el);
+      }
+    });
+  } else {
+    let el = document.getElementById(activeViewport);
+    if (el) {
+      cornerstone.updateImage(el);
+    }
+  }
+};
+/**
+ * Set Tool "disabled" on all elements (ie, not rendered) &amp; refresh cornerstone elements
+ * @function setToolActive
+ * @param {String} toolName - The tool name.
+ * @param {String} activeViewport - The active viewport (if "all", viewports array will be used)
+ * @param {Array} viewports - The hmtl element id to be used for tool initialization.
+ */
+export const setToolDisabled = function (toolName, activeViewport, viewports) {
+  cornerstoneTools.setToolDisabled(toolName);
+  if (activeViewport == "all") {
+    each(viewports, function (elementId) {
+      let el = document.getElementById(elementId);
+      if (el) {
+        cornerstone.updateImage(el);
+      }
+    });
+  } else {
+    let el = document.getElementById(activeViewport);
+    if (el) {
+      cornerstone.updateImage(el);
+    }
+  }
+};
+/**
+ * Set Tool "enabled" on all elements (ie, rendered but not manipulable) &amp; refresh cornerstone elements
+ * @function setToolEnabled
+ * @param {String} toolName - The tool name.
+ * @param {String} activeViewport - The active viewport (if "all", viewports array will be used)
+ * @param {Array} viewports - The hmtl element id to be used for tool initialization.
+ */
+export const setToolEnabled = function (toolName, activeViewport, viewports) {
+  cornerstoneTools.setToolEnabled(toolName);
+  if (activeViewport == "all") {
+    each(viewports, function (elementId) {
+      let el = document.getElementById(elementId);
+      if (el) {
+        cornerstone.updateImage(el);
+      }
+    });
+  } else {
+    let el = document.getElementById(activeViewport);
+    if (el) {
+      cornerstone.updateImage(el);
+    }
+  }
+};
+/**
+ * Set Tool "enabled" on all elements (ie, rendered and manipulable passively) &amp; refresh cornerstone elements
+ * @function setToolPassive
+ * @param {String} toolName - The tool name.
+ * @param {String} activeViewport - The active viewport (if "all", viewports array will be used)
+ * @param {Array} viewports - The hmtl element id to be used for tool initialization.
+ */
+export const setToolPassive = function (toolName, activeViewport, viewports) {
+  cornerstoneTools.setToolPassive(toolName);
+  if (activeViewport == "all") {
+    each(viewports, function (elementId) {
+      let el = document.getElementById(elementId);
+      if (el) {
+        cornerstone.updateImage(el);
+      }
+    });
+  } else {
+    let el = document.getElementById(activeViewport);
+    if (el) {
+      cornerstone.updateImage(el);
+    }
+  }
+};
+/**
+ * Get tool data for all enabled elements
+ * @function getToolState
+ * @param {String} toolName - The tool name.
+ * @return {Object} - Tool data grouped by element id
+ */
+export const getToolState = function (toolName) {
+  let enabledElements = cornerstone.getEnabledElements();
+  let toolData = {};
+  each(enabledElements, el => {
+    toolData[el.element.id] = cornerstoneTools.getToolState(
+      el.element,
+      toolName
+    );
+  });
+  return toolData;
+};
+/**
+ * Clear tool data for a subset of seeds
+ * @function clearToolStateByName
+ * @param {String} toolName - The tool name.
+ * @param {Object} options - Props used to select the data to delete (at the moment only {name : "targetName"} is implemented)
+ */
+export const clearToolStateByName = function (toolName, options) {
+  let enabledElements = cornerstone.getEnabledElements();
+  each(enabledElements, el => {
+    const toolStateManager = el.toolStateManager;
+    let imageIds = Object.keys(toolStateManager.toolState);
+    each(imageIds, imageId => {
+      let toolData = toolStateManager.toolState[imageId];
+      if (toolData[toolName]) {
+        remove(toolData[toolName].data, singleData => {
+          return singleData.name == options.name;
+        });
+      }
+    });
+  });
+  each(enabledElements, el => {
+    cornerstone.updateImage(el.element);
+  });
+};
+/**
+ * Update diameter tool with new value (removing old one)
+ * @function updateDiameterTool
+ * @param {String | Number} diameterId - The id that identify the diameter data.
+ * @param {Object} value - The object representing the new diameter data.
+ * @param {String} seriesId - The target serie id.
+ * @param {String} viewportId - The viewport id.
+ */
+export const updateDiameterTool = function (
+  diameterId,
+  value,
+  seriesId,
+  viewportId
+) {
+  // clear target diameter
+  if (!diameterId) {
+    console.warn("no diameterId, return");
+    return;
+  }
+  clearToolStateByName("Diameter", {
+    name: diameterId
+  });
+  // insert new one
+  let data = {
+    toolType: "Diameter",
+    name: diameterId,
+    isCreating: true,
+    visible: true,
+    active: false,
+    invalidated: false,
+    handles: {
+      start: {
+        x: value.tool.x1,
+        y: value.tool.y1,
+        index: 0,
+        drawnIndependently: false,
+        allowedOutsideImage: false,
+        highlight: true,
+        active: false
+      },
+      end: {
+        x: value.tool.x2,
+        y: value.tool.y2,
+        index: 1,
+        drawnIndependently: false,
+        allowedOutsideImage: false,
+        highlight: true,
+        active: false
+      },
+      perpendicularStart: {
+        x: value.tool.x3,
+        y: value.tool.y3,
+        index: 2,
+        drawnIndependently: false,
+        allowedOutsideImage: false,
+        highlight: true,
+        active: false,
+        locked: false
+      },
+      perpendicularEnd: {
+        x: value.tool.x4,
+        y: value.tool.y4,
+        index: 3,
+        drawnIndependently: false,
+        allowedOutsideImage: false,
+        highlight: true,
+        active: false
+      },
+      textBox: {
+        x: value.tool.value_max,
+        y: value.tool.value_min,
+        index: null,
+        drawnIndependently: true,
+        allowedOutsideImage: true,
+        highlight: false,
+        active: false,
+        hasMoved: true,
+        movesIndependently: false,
+        hasBoundingBox: true,
+        boundingBox: {
+          width: 59.6484375,
+          height: 47,
+          left: 165.02487562189057,
+          top: 240.53482587064684
+        }
+      }
+    },
+    longestDiameter: value.tool.value_max.toString(),
+    shortestDiameter: value.tool.value_min.toString()
+  };
+  let sliceNumber = value.tool.slice;
+  let enabledElement = cornerstone
+    .getEnabledElements()
+    .filter(el => el.element.id == viewportId)
+    .pop();
+  // add to master viewport
+  addToolStateSingleSlice(
+    enabledElement.element,
+    "Diameter",
+    data,
+    sliceNumber,
+    seriesId
+  );
+};
+/**
+ * Add tool data for a single target slice
+ * @function addToolStateSingleSlice
+ * @param {HTMLElement} element - The target hmtl element.
+ * @param {String} toolName - The tool name.
+ * @param {Object | Array} data - The tool data to add (tool-specific)
+ * @param {Number} slice - The target slice to put the data in.
+ * @param {String} seriesId - The target serie id.
+ */
+export const addToolStateSingleSlice = function (
+  element,
+  toolName,
+  data,
+  slice,
+  seriesId
+) {
+  const enabledElement = cornerstone.getEnabledElement(element);
+  if (!enabledElement.image) {
+    console.warn("no image");
+    return;
+  }
+  let targetImageId = getImageIdFromSlice(slice, element.id, seriesId);
+  if (enabledElement.toolStateManager === undefined) {
+    console.warn("State Manager undefined");
+    return;
+  }
+  let toolState = enabledElement.toolStateManager.toolState;
+  if (toolState.hasOwnProperty(targetImageId) === false) {
+    toolState[targetImageId] = {};
+  }
+  const imageIdToolState = toolState[targetImageId];
+  // If we don't have tool state for this type of tool, add an empty object
+  if (imageIdToolState.hasOwnProperty(toolName) === false) {
+    imageIdToolState[toolName] = {
+      data: []
+    };
+  }
+  const toolData = imageIdToolState[toolName];
+  // if an array is provided, override data
+  // if (Array.isArray(data)) {
+  //   toolData.data = data;
+  // } else {
+  //   toolData.data.push(data);
+  // }
+  // This implementation works better
+  let singledata = typeof data.pop == "function" ? data.pop() : data;
+  // remove old data for this id (avoid doubling contours) // TODO generalize
+  if (toolName == "ContoursTool") {
+    remove(toolData.data, entry => entry &amp;&amp; entry.id == singledata.id);
+  }
+  toolData.data.push(singledata);
+};
+/**
+ * Clear tool state and disable all cornerstone elements
+ * @function clearCornerstoneElements
+ */
+export const clearCornerstoneElements = function () {
+  var enabledElements = cornerstone.getEnabledElements();
+  var inMemElements = cloneDeep(enabledElements); // copy before modifying
+  each(inMemElements, el => {
+    each(DEFAULT_TOOLS, function (tool) {
+      if (tool.cleanable) {
+        cornerstoneTools.clearToolState(el.element, tool.name);
+      }
+    });
+    cornerstone.disable(el.element);
+  });
+};
+/**
+ * Sync the cornerstone tools stack given a slice as data source
+ * @function syncToolStack
+ * @param {Number} srcSliceNumber - The slice to be used as data source.
+ * @param {String} toolName - The name of the tool to sync.
+ * @param {String} viewport - The target viewport id.
+ * @param {String} seriesId - The target serie id.
+ */
+export const syncToolStack = function (
+  srcSliceNumber,
+  toolName,
+  viewport,
+  seriesId
+) {
+  // get the imageIds array
+  let seriesData = getSeriesDataFromLarvitarManager(seriesId);
+  let imageIds = seriesData[viewport].imageIds;
+  // get the tool state of source imageId
+  let element = document.getElementById(viewport);
+  let enabledElement = cornerstone.getEnabledElement(element);
+  let srcImageId = getImageIdFromSlice(srcSliceNumber, viewport, seriesId);
+  let srcImageToolState =
+    enabledElement.toolStateManager.toolState[srcImageId][toolName];
+  each(Object.keys(imageIds), sliceNumber => {
+    if (sliceNumber == srcSliceNumber) {
+      return;
+    }
+    each(srcImageToolState, data => {
+      addToolStateSingleSlice(element, toolName, data, sliceNumber, seriesId);
+    });
+  });
+};
+/**
+ * Update slice index in cornerstone tools stack state
+ * @function updateStackToolState
+ * @param {String} elementId - The html div id used for rendering or its DOM HTMLElement
+ * @param {Number} imageIndex - The new imageIndex value.
+ */
+export const updateStackToolState = function (elementId, imageIndex) {
+  let element = isElement(elementId)
+    ? elementId
+    : document.getElementById(elementId);
+  if (!element) {
+    console.error("invalid html element: " + elementId);
+    return;
+  }
+  let enabledElement = cornerstone.getEnabledElement(element);
+  if (!enabledElement.toolStateManager) {
+    return;
+  }
+  let stackState = enabledElement.toolStateManager.toolState["stack"];
+  if (!stackState) {
+    return;
+  }
+  // READY for different segmentations data (data[segmentation_label_id])
+  stackState.data[0].currentImageIdIndex = imageIndex;
+};
+/** @inner Internal module functions */
+/**
+ * Check if a tool has already been added
+ * @function isToolMissing
+ * @param {String} toolName - The tool name.
+ * @param {Array} _viewports - The viewports to check.
+ */
+const isToolMissing = function (toolName, _viewports) {
+  let isToolMissing = false;
+  if (_viewports) {
+    each(_viewports, function (viewport) {
+      let element = cornerstone.getEnabledElement(
+        document.getElementById(viewport)
+      );
+      let added = cornerstoneTools.getToolForElement(element, toolName);
+      if (added === undefined) {
+        isToolMissing = true;
+      }
+    });
+  } else {
+    let elements = cornerstone.getEnabledElements();
+    each(elements, function (element) {
+      let added = cornerstoneTools.getToolForElement(element, toolName);
+      if (added === undefined) {
+        isToolMissing = true;
+      }
+    });
+  }
+  return isToolMissing;
+};
+</code></pre>
+        </article>
+    </section>
+</div>
+<br class="clear">
+<footer>
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