Files
ohif-viewer/platform/core/src/utils/isDisplaySetReconstructable.js
T
e8842cf8ae feat: Segmentations Settings UI - Phase 1 #1391 (#1392)
* 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>
2020-03-13 15:45:26 -04:00

180 lines
5.1 KiB
JavaScript

/**
* Checks if a series is reconstructable to a 3D volume.
*
* @param {Object[]} instances An array of `OHIFInstanceMetadata` objects.
*/
export default function isDisplaySetReconstructable(instances) {
if (!instances.length) {
return { value: false };
}
const firstInstance = instances[0].getData().metadata;
const Modality = firstInstance.Modality;
const isMultiframe = firstInstance.NumberOfFrames > 1;
if (!constructableModalities.includes(Modality)) {
return { value: false };
}
// Can't reconstruct if we only have one image.
if (!isMultiframe && instances.length === 1) {
return { value: false };
}
if (isMultiframe) {
return processMultiframe(instances[0]);
} else {
return processSingleframe(instances);
}
}
function processMultiframe(instance) {
//TODO: deal with multriframe checks! return false for now as can't reconstruct.
return { value: false };
}
function processSingleframe(instances) {
const firstImage = instances[0].getData().metadata;
const firstImageRows = firstImage.Rows;
const firstImageColumns = firstImage.Columns;
const firstImageSamplesPerPixel = firstImage.SamplesPerPixel;
const firstImageOrientationPatient = firstImage.ImageOrientationPatient;
const firstImagePositionPatient = firstImage.ImagePositionPatient;
// Can't reconstruct if we:
// -- Have a different dimensions within a displaySet.
// -- Have a different number of components within a displaySet.
// -- Have different orientations within a displaySet.
for (let i = 1; i < instances.length; i++) {
const instance = instances[i].getData().metadata;
const {
Rows,
Columns,
SamplesPerPixel,
ImageOrientationPatient,
} = instance;
if (
Rows !== firstImageRows ||
Columns !== firstImageColumns ||
SamplesPerPixel !== firstImageSamplesPerPixel ||
!_isSameOrientation(ImageOrientationPatient, firstImageOrientationPatient)
) {
return { value: false };
}
}
let missingFrames = 0;
// Check if frame spacing is approximately equal within a spacingTolerance.
// If spacing is on a uniform grid but we are missing frames,
// Allow reconstruction, but pass back the number of missing frames.
if (instances.length > 2) {
const lastIpp = instances[instances.length - 1].getData().metadata
.ImagePositionPatient;
// We can't reconstruct if we are missing ImagePositionPatient values
if (!firstImagePositionPatient || !lastIpp) {
return { value: false };
}
const averageSpacingBetweenFrames =
_getPerpendicularDistance(firstImagePositionPatient, lastIpp) /
(instances.length - 1);
let previousImagePositionPatient = firstImagePositionPatient;
for (let i = 1; i < instances.length; i++) {
const instance = instances[i].getData().metadata;
const { ImagePositionPatient } = instance;
const spacingBetweenFrames = _getPerpendicularDistance(
ImagePositionPatient,
previousImagePositionPatient
);
const spacingIssue = _getSpacingIssue(
spacingBetweenFrames,
averageSpacingBetweenFrames
);
if (spacingIssue) {
const issue = spacingIssue.issue;
if (issue === reconstructionIssues.MISSING_FRAMES) {
missingFrames += spacingIssue.missingFrames;
} else if (issue === reconstructionIssues.IRREGULAR_SPACING) {
return { value: false };
}
}
previousImagePositionPatient = ImagePositionPatient;
}
}
return { value: true, missingFrames };
}
function _isSameOrientation(iop1, iop2) {
if (iop1 === undefined || !iop2 === undefined) {
return;
}
return (
Math.abs(iop1[0] - iop2[0]) < iopTolerance &&
Math.abs(iop1[1] - iop2[1]) < iopTolerance &&
Math.abs(iop1[2] - iop2[2]) < iopTolerance
);
}
// TODO: Is 10% a reasonable spacingTolerance for spacing?
const spacingTolerance = 0.1;
const iopTolerance = 0.01;
/**
* Checks for spacing issues.
*
* @param {number} spacing The spacing between two frames.
* @param {number} averageSpacing The average spacing between all frames.
*
* @returns {Object} An object containing the issue and extra information if necessary.
*/
function _getSpacingIssue(spacing, averageSpacing) {
const equalWithinTolerance =
Math.abs(spacing - averageSpacing) < averageSpacing * spacingTolerance;
if (equalWithinTolerance) {
return;
}
const multipleOfAverageSpacing = spacing / averageSpacing;
const numberOfSpacings = Math.round(multipleOfAverageSpacing);
const errorForEachSpacing =
Math.abs(spacing - numberOfSpacings * averageSpacing) / numberOfSpacings;
if (errorForEachSpacing < spacingTolerance * averageSpacing) {
return {
issue: reconstructionIssues.MISSING_FRAMES,
missingFrames: numberOfSpacings - 1,
};
}
return { issue: reconstructionIssues.IRREGULAR_SPACING };
}
function _getPerpendicularDistance(a, b) {
return Math.sqrt(
Math.pow(a[0] - b[0], 2) +
Math.pow(a[1] - b[1], 2) +
Math.pow(a[2] - b[2], 2)
);
}
const constructableModalities = ['MR', 'CT', 'PT', 'NM'];
const reconstructionIssues = {
MISSING_FRAMES: 'missingframes',
IRREGULAR_SPACING: 'irregularspacing',
};