feat(shared-data): labware schema v3

shared-data/js/__tests__/labwareDefSchemaV3.test.ts

@@ -0,0 +1,70 @@
+import path from 'path'
+import glob from 'glob'
+import { describe, expect, it, beforeAll, test } from 'vitest'
+
+import type { LabwareDefinition3 } from '../types'
+import Ajv from 'ajv'
+import schema from '../../labware/schemas/3.json'
+
+const fixturesDir = path.join(__dirname, '../../labware/fixtures/3')
+const globPattern = '**/*.json'
+
+const ajv = new Ajv({ allErrors: true, jsonPointers: true })
+const validate = ajv.compile(schema)
+
+const checkGeometryDefinitions = (
+  labwareDef: LabwareDefinition3,
+  filename: string
+): void => {
+  test(`all geometryDefinitionIds specified in {filename} should have an accompanying valid entry in innerLabwareGeometry`, () => {
+    for (const wellName in labwareDef.wells) {
+      const wellGeometryId = labwareDef.wells[wellName].geometryDefinitionId
+
+      if (wellGeometryId === undefined) {
+        return
+      }
+      if (
+        labwareDef.innerLabwareGeometry === null ||
+        labwareDef.innerLabwareGeometry === undefined
+      ) {
+        return
+      }
+
+      expect(wellGeometryId in labwareDef.innerLabwareGeometry).toBe(true)
+
+      const wellDepth = labwareDef.wells[wellName].depth
+      const wellShape = labwareDef.wells[wellName].shape
+      const topFrustumHeight =
+        labwareDef.innerLabwareGeometry[wellGeometryId].frusta[0].topHeight
+      const topFrustumShape =
+        labwareDef.innerLabwareGeometry[wellGeometryId].frusta[0].geometry.shape
+
+      expect(wellDepth).toEqual(topFrustumHeight)
+      expect(wellShape).toEqual(topFrustumShape)
+    }
+  })
+}
+
+describe(`test additions to labware schema in v3`, () => {
+  const labwarePaths = glob.sync(globPattern, { cwd: fixturesDir })
+
+  beforeAll(() => {
+    // Make sure definitions path didn't break, which would give you false positives
+    expect(labwarePaths.length).toBeGreaterThan(0)
+  })
+
+  labwarePaths.forEach(labwarePath => {
+    const filename = path.parse(labwarePath).base
+    const fullLabwarePath = path.join(fixturesDir, labwarePath)
+    const labwareDef = require(fullLabwarePath) as LabwareDefinition3
+
+    checkGeometryDefinitions(labwareDef, labwarePath)
+
+    it(`${filename} validates against schema`, () => {
+      const valid = validate(labwareDef)
+      const validationErrors = validate.errors
+      expect(validationErrors).toBe(null)
+      expect(valid).toBe(true)
+    })
+  })
+})

shared-data/js/types.ts

@@ -53,6 +53,7 @@ export interface WellDefinition {
   y: number
   z: number
   'total-liquid-volume': number
+  geometryDefinitionId?: string | null
 }
 
 // typedef for labware definitions under v1 labware schema
@@ -131,19 +132,19 @@ export interface LabwareBrand {
   links?: string[]
 }
 
-export interface CircularWellShapeProperties {
+export interface CircularWellShape {
   shape: 'circular'
   diameter: number
 }
-export interface RectangularWellShapeProperties {
+export interface RectangularWellShape {
   shape: 'rectangular'
   xDimension: number
   yDimension: number
 }
 
 export type LabwareWellShapeProperties =
-  | CircularWellShapeProperties
-  | RectangularWellShapeProperties
+  | CircularWellShape
+  | RectangularWellShape
 
 // well without x,y,z
 export type LabwareWellProperties = LabwareWellShapeProperties & {
@@ -155,6 +156,41 @@ export type LabwareWell = LabwareWellProperties & {
   x: number
   y: number
   z: number
+  geometryDefinitionId?: string
+}
+
+export interface CircularCrossSection {
+  shape: 'circular'
+  diameter: number
+}
+
+export interface RectangularCrossSection {
+  shape: 'rectangular'
+  xDimension: number
+  yDimension: number
+}
+
+export interface SphericalSegment {
+  shape: 'spherical'
+  radiusOfCurvature: number
+  depth: number
+}
+
+export type TopCrossSection = CircularCrossSection | RectangularCrossSection
+
+export type BottomShape =
+  | CircularCrossSection
+  | RectangularCrossSection
+  | SphericalSegment
+
+export interface BoundedSection {
+  geometry: TopCrossSection
+  topHeight: number
+}
+
+export interface InnerWellGeometry {
+  frusta: BoundedSection[]
+  bottomShape: BottomShape
 }
 
 // TODO(mc, 2019-03-21): exact object is tough to use with the initial value in
@@ -193,6 +229,24 @@ export interface LabwareDefinition2 {
   stackingOffsetWithModule?: Record<string, LabwareOffset>
 }
 
+export interface LabwareDefinition3 {
+  version: number
+  schemaVersion: 3
+  namespace: string
+  metadata: LabwareMetadata
+  dimensions: LabwareDimensions
+  cornerOffsetFromSlot: LabwareOffset
+  parameters: LabwareParameters
+  brand: LabwareBrand
+  ordering: string[][]
+  wells: LabwareWellMap
+  groups: LabwareWellGroup[]
+  allowedRoles?: LabwareRoles[]
+  stackingOffsetWithLabware?: Record<string, LabwareOffset>
+  stackingOffsetWithModule?: Record<string, LabwareOffset>
+  innerLabwareGeometry?: Record<string, InnerWellGeometry> | null
+}
+
 export interface LabwareDefByDefURI {
   [defUri: string]: LabwareDefinition2
 }

shared-data/labware/fixtures/3/fixture_2_plate.json

@@ -0,0 +1,113 @@
+{
+  "ordering": [["A1"], ["A2"]],
+  "schemaVersion": 3,
+  "version": 3,
+  "namespace": "fixture",
+  "metadata": {
+    "displayName": "12 Channel Trough",
+    "displayVolumeUnits": "mL",
+    "displayCategory": "reservoir"
+  },
+  "dimensions": {
+    "xDimension": 127.76,
+    "yDimension": 85.8,
+    "zDimension": 44.45
+  },
+  "parameters": {
+    "format": "trough",
+    "isTiprack": false,
+    "isMagneticModuleCompatible": false,
+    "loadName": "fixture_12_trough",
+    "quirks": ["centerMultichannelOnWells", "touchTipDisabled"]
+  },
+  "wells": {
+    "A1": {
+      "shape": "circular",
+      "depth": 42.16,
+      "diameter": 35.0,
+      "totalLiquidVolume": 22000,
+      "x": 13.94,
+      "y": 42.9,
+      "z": 2.29,
+      "geometryDefinitionId": "iuweofiuwhfn"
+    },
+    "A2": {
+      "shape": "rectangular",
+      "depth": 42.16,
+      "xDimension": 8.33,
+      "yDimension": 71.88,
+      "totalLiquidVolume": 22000,
+      "x": 23.03,
+      "y": 42.9,
+      "z": 2.29,
+      "geometryDefinitionId": "daiwudhadfhiew"
+    }
+  },
+  "brand": {
+    "brand": "USA Scientific",
+    "brandId": ["1061-8150"]
+  },
+  "groups": [
+    {
+      "wells": ["A1", "A2"],
+      "metadata": {
+        "wellBottomShape": "v"
+      }
+    }
+  ],
+  "cornerOffsetFromSlot": {
+    "x": 0,
+    "y": 0,
+    "z": 0
+  },
+  "innerLabwareGeometry": {
+    "daiwudhadfhiew": {
+      "frusta": [
+        {
+          "geometry": {
+            "shape": "rectangular",
+            "xDimension": 127.76,
+            "yDimension": 85.8
+          },
+          "topHeight": 42.16
+        },
+        {
+          "geometry": {
+            "shape": "rectangular",
+            "xDimension": 70.0,
+            "yDimension": 50.0
+          },
+          "topHeight": 20.0
+        }
+      ],
+      "bottomShape": {
+        "shape": "rectangular",
+        "xDimension": 2.0,
+        "yDimension": 3.0
+      }
+    },
+    "iuweofiuwhfn": {
+      "frusta": [
+        {
+          "geometry": {
+            "shape": "circular",
+            "diameter": 35.0
+          },
+          "topHeight": 42.16
+        },
+        {
+          "geometry": {
+            "shape": "circular",
+            "diameter": 22.0
+          },
+          "topHeight": 20.0
+        }
+      ],
+      "bottomShape": {
+        "shape": "spherical",
+        "radiusOfCurvature": 20.0,
+        "depth": 6.0
+      }
+    }
+  }
+}