* Filter segs and fetch correct metadata. * Initiate seg loading logic on series load into viewport. Need to write. * Automatic consumption of SEG functional. * Pull in master. * Fix issues after pulling in master. * Clean up old segmentation handlers. * WIP * WIP * Poppulate viewport with metadata. * Show hide/segmentation in react-vtkjs-viewport. * feat: 🎸 View segmentations in vtkjs viewport * Filter segs and fetch correct metadata. * Initiate seg loading logic on series load into viewport. Need to write. * Automatic consumption of SEG functional. * Pull in master. * Fix issues after pulling in master. * Clean up old segmentation handlers. * WIP * WIP * Poppulate viewport with metadata. * Show hide/segmentation in react-vtkjs-viewport. * feat: 🎸 View segmentations in vtkjs viewport * Rebase on master. * format format format * add basic extension parts * Updated yarn lock * Fetch derived/referenced displaysets in sidepanel * Add buttons, expose seriesDescription, write notes for Danny. * Add growcut tool extention. -> Move to a seperate repo. * Change some text fields. * expose dialog provider * hide draggable area * No pointer events for now; need to revisit * Don't filter seg from the outset for now * fiddling about * fix path to series data * fix logic to determine next available labelmapindex * Ability to swtich between labelmaps * Return a promise so we can make sure our labelmap is loaded before pulling metadata * Better UI to toggle labelmaps * Fix accidental untoggle of active labelmap for ui * Remove brush tool from cornerstone extension * Add cstools in preInit for seg extension * Add buttons for seg magic * Hide the measurements panel for now * Slightly better seg/scissor icons * Add eraser * ability to switch segments * seg color / switcher * Fix vtk labelmap cache. * sidepanel should scroll if there's overflow * Use a fancier range slider * Slightly prettier buttons * Push in progress * A bit more reactive; handle no-meta * Update to vtk.js 11.14.0 and react-vtkjs-viewport 0.6.0 * chore: kickstart preview * Fix conflict issues * Refactor panel * Isolate increment functions * Wip segment table * Hide selector and add scroll to segmentation * Increase width of segment description * Hide not used items * Add new select for segmentations * Align ui * Fix default segmentation * Fix broken import test * Get measurements panel back and add spacing to grouped buttons * Hide brush and selector and refresh when switching segmentations * Add pointer events back and fix broken tests for measurement table * Update segment list when switching humbnails * CR Update: Minor UI adjustments * CR Update: Set active segment * Move components to components folder * Add new settings ui * Integrate configuration * Improve styles * Float numbers * Improve css * Refresh settings menu if side panel changed * Fix settings rendering logic and remove comments * Extract components * Remove not used tools * Remove non used extension * Use style variables and remove comments * Remove non used dep from lock * Remove tools * Remove segmentation from toolbar * Add todo and brushradius from config * Fix packagejson growcut import * Remove webpack config already defined in parent * Update package json description * Change component name to british english to us * Improve prop types * Rename cornerstone label map event * Scope css * Extract and add doc to helper * Update jsdocs for getDerivedDatasets * Add proptypes and cr updates * Update tablistitem proptypes * config is readonly, rollback destructuring * Remove event for side panel * Add jsdocs for util * Extract getimageid to studymetada * Use ohif log instead of console * Remove specific style from side panel * Fix default props for brush radius * Descructure configuration props from settings component to avoid invalid props * Update proptypes to be required (settings) * Update readme * Remove commandsmodule * Get configuration module inside the component * Set selected segment * Rename extension and use modality to filter * Fix for failing tests (#1423) * hello world * Finish rebase for Igor. * Re-fix cornerstoneTools version that got messed up in merge. * Fix reactivity of isDisabled, write implementation for the SEG panel. * Nuke yarn.lock to stack CST to 4.12.0 * Remove debugger statements. * fix: bump cornerstone-tools version to address toFixed issue * test: force tests for MISTER^MR to navigate to study directly * test: remove eraser tool test * test: count is off by one * test: don't save SR state for the time being * test: disable more tests Co-authored-by: James A. Petts <jamesapetts@gmail.com> Co-authored-by: dannyrb <danny.ri.brown@gmail.com> Co-authored-by: igoroctaviano] <igoroctaviano@users.noreply.github.com> Co-authored-by: Mirna Silva <mirna.silva@radicalimaging.com>
180 lines
5.1 KiB
JavaScript
180 lines
5.1 KiB
JavaScript
/**
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* Checks if a series is reconstructable to a 3D volume.
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*
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* @param {Object[]} instances An array of `OHIFInstanceMetadata` objects.
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*/
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export default function isDisplaySetReconstructable(instances) {
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if (!instances.length) {
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return { value: false };
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}
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const firstInstance = instances[0].getData().metadata;
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const Modality = firstInstance.Modality;
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const isMultiframe = firstInstance.NumberOfFrames > 1;
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if (!constructableModalities.includes(Modality)) {
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return { value: false };
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}
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// Can't reconstruct if we only have one image.
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if (!isMultiframe && instances.length === 1) {
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return { value: false };
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}
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if (isMultiframe) {
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return processMultiframe(instances[0]);
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} else {
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return processSingleframe(instances);
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}
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}
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function processMultiframe(instance) {
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//TODO: deal with multriframe checks! return false for now as can't reconstruct.
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return { value: false };
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}
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function processSingleframe(instances) {
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const firstImage = instances[0].getData().metadata;
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const firstImageRows = firstImage.Rows;
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const firstImageColumns = firstImage.Columns;
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const firstImageSamplesPerPixel = firstImage.SamplesPerPixel;
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const firstImageOrientationPatient = firstImage.ImageOrientationPatient;
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const firstImagePositionPatient = firstImage.ImagePositionPatient;
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// Can't reconstruct if we:
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// -- Have a different dimensions within a displaySet.
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// -- Have a different number of components within a displaySet.
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// -- Have different orientations within a displaySet.
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for (let i = 1; i < instances.length; i++) {
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const instance = instances[i].getData().metadata;
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const {
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Rows,
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Columns,
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SamplesPerPixel,
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ImageOrientationPatient,
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} = instance;
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if (
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Rows !== firstImageRows ||
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Columns !== firstImageColumns ||
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SamplesPerPixel !== firstImageSamplesPerPixel ||
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!_isSameOrientation(ImageOrientationPatient, firstImageOrientationPatient)
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) {
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return { value: false };
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}
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}
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let missingFrames = 0;
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// Check if frame spacing is approximately equal within a spacingTolerance.
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// If spacing is on a uniform grid but we are missing frames,
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// Allow reconstruction, but pass back the number of missing frames.
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if (instances.length > 2) {
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const lastIpp = instances[instances.length - 1].getData().metadata
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.ImagePositionPatient;
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// We can't reconstruct if we are missing ImagePositionPatient values
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if (!firstImagePositionPatient || !lastIpp) {
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return { value: false };
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}
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const averageSpacingBetweenFrames =
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_getPerpendicularDistance(firstImagePositionPatient, lastIpp) /
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(instances.length - 1);
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let previousImagePositionPatient = firstImagePositionPatient;
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for (let i = 1; i < instances.length; i++) {
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const instance = instances[i].getData().metadata;
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const { ImagePositionPatient } = instance;
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const spacingBetweenFrames = _getPerpendicularDistance(
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ImagePositionPatient,
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previousImagePositionPatient
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);
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const spacingIssue = _getSpacingIssue(
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spacingBetweenFrames,
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averageSpacingBetweenFrames
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);
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if (spacingIssue) {
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const issue = spacingIssue.issue;
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if (issue === reconstructionIssues.MISSING_FRAMES) {
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missingFrames += spacingIssue.missingFrames;
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} else if (issue === reconstructionIssues.IRREGULAR_SPACING) {
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return { value: false };
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}
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}
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previousImagePositionPatient = ImagePositionPatient;
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}
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}
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return { value: true, missingFrames };
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}
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function _isSameOrientation(iop1, iop2) {
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if (iop1 === undefined || !iop2 === undefined) {
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return;
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}
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return (
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Math.abs(iop1[0] - iop2[0]) < iopTolerance &&
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Math.abs(iop1[1] - iop2[1]) < iopTolerance &&
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Math.abs(iop1[2] - iop2[2]) < iopTolerance
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);
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}
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// TODO: Is 10% a reasonable spacingTolerance for spacing?
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const spacingTolerance = 0.1;
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const iopTolerance = 0.01;
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/**
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* Checks for spacing issues.
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*
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* @param {number} spacing The spacing between two frames.
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* @param {number} averageSpacing The average spacing between all frames.
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*
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* @returns {Object} An object containing the issue and extra information if necessary.
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*/
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function _getSpacingIssue(spacing, averageSpacing) {
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const equalWithinTolerance =
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Math.abs(spacing - averageSpacing) < averageSpacing * spacingTolerance;
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if (equalWithinTolerance) {
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return;
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}
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const multipleOfAverageSpacing = spacing / averageSpacing;
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const numberOfSpacings = Math.round(multipleOfAverageSpacing);
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const errorForEachSpacing =
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Math.abs(spacing - numberOfSpacings * averageSpacing) / numberOfSpacings;
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if (errorForEachSpacing < spacingTolerance * averageSpacing) {
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return {
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issue: reconstructionIssues.MISSING_FRAMES,
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missingFrames: numberOfSpacings - 1,
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};
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}
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return { issue: reconstructionIssues.IRREGULAR_SPACING };
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}
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function _getPerpendicularDistance(a, b) {
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return Math.sqrt(
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Math.pow(a[0] - b[0], 2) +
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Math.pow(a[1] - b[1], 2) +
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Math.pow(a[2] - b[2], 2)
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);
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}
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const constructableModalities = ['MR', 'CT', 'PT', 'NM'];
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const reconstructionIssues = {
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MISSING_FRAMES: 'missingframes',
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IRREGULAR_SPACING: 'irregularspacing',
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};
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