@morscherlab/mint-sdk 1.0.0-rc.2 → 1.0.0-rc.5

package/dist/templates/types.d.ts

@@ -1,11 +1,9 @@
-import { DataFrameColumn, PlateCondition, PlateMap, PlateMapEditorState, ProtocolStep, Reagent, ScheduleEvent, SampleType, SelectOption, Well, WellPlateFormat } from '../types';
+import { PlateMap, ProtocolStep, Reagent, SampleType, Well } from '../types';
+import { QpcrPlateTemplate } from './templateQpcrTypes';
 export type TemplateKind = 'experiment-design';
 export type TemplateId = 'plate-map' | 'sample-sheet' | 'sample-prep' | 'dose-response' | 'calibration-curve' | 'time-course' | 'protocol-steps' | 'assay-matrix' | 'reagent-list' | 'flow-cytometry-panel' | 'instrument-run' | 'qpcr-plate';
 export type TemplatePresetId = 'wellplate-screen' | 'qpcr-expression' | 'lcms-batch' | 'targeted-metabolomics' | 'elisa-assay' | 'flow-cytometry-assay' | 'western-blot-assay';
 export type TemplatePackId = 'cell-culture-screen' | 'omics-assay' | 'longitudinal-study' | 'molecular-assay';
-export interface CreateBioTemplatePackCollectionOptions {
-    metadata?: Record<string, unknown>;
-}
 export interface BioTemplateEnvelope<TData = Record<string, unknown>> {
     template_id: TemplateId | string;
     template_version: string;
@@ -300,250 +298,7 @@ export type InstrumentRunItemInput = Partial<InstrumentRunItem> & {
     name?: string;
     sampleId?: string;
 };
-export type QpcrChemistry = 'sybr' | 'taqman' | 'probe' | 'evagreen' | 'other';
-export type QpcrControlKind = 'sample' | 'no-template' | 'no-rt' | 'positive' | 'standard' | 'calibrator';
-export interface QpcrSample {
-    sampleId: string;
-    name?: string;
-    group?: string;
-    metadata?: Record<string, unknown>;
-}
-export interface QpcrTarget {
-    id: string;
-    name: string;
-    assayId?: string;
-    reporter?: string;
-    quencher?: string;
-    ampliconBp?: number;
-    metadata?: Record<string, unknown>;
-}
-export interface QpcrReaction {
-    id: string;
-    wellId: string;
-    sampleId?: string;
-    targetId: string;
-    replicate: number;
-    controlKind: QpcrControlKind;
-    cq?: number | null;
-    quantity?: number | null;
-    flags: string[];
-    metadata?: Record<string, unknown>;
-}
-export interface QpcrPlateTemplateData {
-    plateId: string;
-    format: WellPlateFormat;
-    samples: QpcrSample[];
-    targets: QpcrTarget[];
-    reactions: QpcrReaction[];
-    instrument?: string;
-    chemistry: QpcrChemistry;
-    metadata: Record<string, unknown>;
-}
-export type QpcrPlateTemplate = BioTemplateEnvelope<QpcrPlateTemplateData>;
 export type DataFrameTemplate = SampleSheetTemplate | SamplePrepTemplate | CalibrationCurveTemplate | TimeCourseTemplate | ProtocolStepsTemplate | AssayMatrixTemplate | ReagentListTemplate | FlowCytometryPanelTemplate | InstrumentRunTemplate | QpcrPlateTemplate;
-export interface CreatePlateMapTemplateOptions {
-    name?: string;
-    id?: string;
-    format?: WellPlateFormat;
-    samples?: Array<string | TemplateSample>;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateSampleSheetTemplateOptions {
-    samples: SampleRecord[];
-    columns?: SampleColumn[];
-    groups?: SampleGroupDefinition[];
-    metadata?: Record<string, unknown>;
-}
-export interface CreateSamplePrepTemplateOptions {
-    samples: Array<string | SamplePrepStepInput>;
-    prepType?: SamplePrepStepType;
-    protocolName?: string;
-    volumeUnit?: string;
-    inputVolume?: number;
-    outputVolume?: number;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateDoseResponseTemplateOptions {
-    compounds: Record<string, number[]> | CompoundDoseSeries[];
-    unit: string;
-    replicates?: number;
-    controls?: ControlDefinition[];
-    layout?: PlateMapTemplate | PlateMapTemplateData;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateCalibrationCurveTemplateOptions {
-    concentrations: Array<number | CalibrationPointInput>;
-    analyte?: string;
-    unit?: string;
-    responseUnit?: string;
-    model?: CalibrationModel;
-    includeBlank?: boolean;
-    includeQc?: boolean;
-    acceptance?: CalibrationAcceptanceInput;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateTimeCourseTemplateOptions {
-    timepoints: Array<number | TimePoint>;
-    unit: TimeUnit;
-    conditions: Array<string | TimeCourseCondition>;
-    replicates?: number;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateAssayMatrixTemplateOptions {
-    samples: Array<string | AssaySample>;
-    features: Array<string | AssayFeature>;
-    values?: Record<string, Record<string, number | null | undefined>>;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateProtocolStepsTemplateOptions {
-    steps: Array<string | (Partial<ProtocolStepRecord> & {
-        name: string;
-    })>;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateReagentListTemplateOptions {
-    reagents: Array<string | ReagentTemplateInput>;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateFlowCytometryPanelTemplateOptions {
-    markers: Array<string | (Partial<FlowPanelMarker> & {
-        marker: string;
-    })>;
-    controls?: Array<string | (Partial<FlowPanelControl> & {
-        name: string;
-    })>;
-    instrument?: string;
-    includeDefaultControls?: boolean;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateInstrumentRunTemplateOptions {
-    items: Array<string | InstrumentRunItemInput>;
-    method?: string | InstrumentMethodInput;
-    instrument?: string;
-    includeBlanks?: boolean;
-    includeQc?: boolean;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateQpcrPlateTemplateOptions {
-    samples: Array<string | QpcrSample>;
-    targets: Array<string | QpcrTarget>;
-    format?: WellPlateFormat;
-    replicates?: number;
-    includeNoTemplateControls?: boolean;
-    instrument?: string;
-    chemistry?: QpcrChemistry;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateWellPlateScreenCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    compounds?: Record<string, number[]> | CompoundDoseSeries[];
-    unit?: string;
-    replicates?: number;
-    plateName?: string;
-    plateFormat?: WellPlateFormat;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateQpcrExpressionCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    targets?: Array<string | QpcrTarget>;
-    chemistry?: QpcrChemistry;
-    includeNoTemplateControls?: boolean;
-    format?: WellPlateFormat;
-    replicates?: number;
-    instrument?: string;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateLcmsBatchCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    features?: Array<string | AssayFeature>;
-    instrument?: string;
-    method?: string | InstrumentMethodInput;
-    includeQc?: boolean;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateTargetedMetabolomicsCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    metabolites?: Array<string | AssayFeature>;
-    internalStandards?: Array<string | ReagentTemplateInput>;
-    standardConcentrations?: number[];
-    concentrationUnit?: string;
-    responseUnit?: string;
-    calibrationAnalyte?: string;
-    instrument?: string;
-    method?: string | InstrumentMethodInput;
-    prepType?: SamplePrepStepType;
-    outputVolume?: number;
-    includeQc?: boolean;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateElisaAssayCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    analyte?: string;
-    standardConcentrations?: number[];
-    unit?: string;
-    responseUnit?: string;
-    plateName?: string;
-    plateFormat?: WellPlateFormat;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateFlowCytometryAssayCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    markers?: CreateFlowCytometryPanelTemplateOptions['markers'];
-    features?: Array<string | AssayFeature>;
-    instrument?: string;
-    includeDefaultControls?: boolean;
-    metadata?: Record<string, unknown>;
-}
-export interface CreateWesternBlotAssayCollectionOptions {
-    samples?: Array<string | SampleRecord>;
-    targets?: Array<string | AssayFeature>;
-    loadingControl?: string;
-    metadata?: Record<string, unknown>;
-}
-export type PlateMapEditorAdapterResult = PlateMapEditorState;
-export type WellMapAdapterResult = Record<string, Well>;
-export type SampleRowsAdapterResult = Array<Record<string, unknown>>;
-export type SampleColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export interface DataFrameAdapterResult {
-    data: Array<Record<string, unknown>>;
-    columns: DataFrameColumn<Record<string, unknown>>[];
-    rowKey?: string;
-}
-export type SampleDataFrameAdapterResult = DataFrameAdapterResult;
-export type SampleOptionsAdapterResult = SelectOption<string>[];
-export type SamplePrepRowsAdapterResult = Array<Record<string, unknown>>;
-export type SamplePrepColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type SamplePrepDataFrameAdapterResult = DataFrameAdapterResult;
-export type DoseConditionsAdapterResult = PlateCondition[];
-export type CalibrationCurveRowsAdapterResult = Array<Record<string, unknown>>;
-export type CalibrationCurveColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type CalibrationCurveDataFrameAdapterResult = DataFrameAdapterResult;
-export type TimeCourseRowsAdapterResult = Array<Record<string, unknown>>;
-export type TimeCourseColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type TimeCourseDataFrameAdapterResult = DataFrameAdapterResult;
-export type TimeCourseStepsAdapterResult = ProtocolStep[];
-export type ProtocolStepsAdapterResult = ProtocolStep[];
-export type ProtocolRowsAdapterResult = Array<Record<string, unknown>>;
-export type ProtocolColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type ProtocolDataFrameAdapterResult = DataFrameAdapterResult;
-export type AssayMatrixRowsAdapterResult = Array<Record<string, unknown>>;
-export type AssayMatrixColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type AssayMatrixDataFrameAdapterResult = DataFrameAdapterResult;
-export type AssayMatrixSampleOptionsAdapterResult = SelectOption<string>[];
-export type ReagentListItemsAdapterResult = Reagent[];
-export type ReagentRowsAdapterResult = Array<Record<string, unknown>>;
-export type ReagentColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type ReagentDataFrameAdapterResult = DataFrameAdapterResult;
-export type FlowPanelRowsAdapterResult = Array<Record<string, unknown>>;
-export type FlowPanelColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type FlowPanelDataFrameAdapterResult = DataFrameAdapterResult;
-export type InstrumentRunRowsAdapterResult = Array<Record<string, unknown>>;
-export type InstrumentRunColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type InstrumentRunDataFrameAdapterResult = DataFrameAdapterResult;
-export type InstrumentRunStepsAdapterResult = ProtocolStep[];
-export type InstrumentRunScheduleEventsAdapterResult = ScheduleEvent[];
-export type QpcrRowsAdapterResult = Array<Record<string, unknown>>;
-export type QpcrColumnsAdapterResult = DataFrameColumn<Record<string, unknown>>[];
-export type QpcrDataFrameAdapterResult = DataFrameAdapterResult;
-export type QpcrWellMapAdapterResult = Record<string, Well>;
-export type TemplateDataFrameAdapterResult = DataFrameAdapterResult;
+export type { QpcrChemistry, QpcrControlKind, QpcrPlateTemplate, QpcrPlateTemplateData, QpcrReaction, QpcrSample, QpcrTarget, } from './templateQpcrTypes';
+export type { CreateAssayMatrixTemplateOptions, CreateBioTemplatePackCollectionOptions, CreateCalibrationCurveTemplateOptions, CreateDoseResponseTemplateOptions, CreateElisaAssayCollectionOptions, CreateFlowCytometryAssayCollectionOptions, CreateFlowCytometryPanelTemplateOptions, CreateInstrumentRunTemplateOptions, CreateLcmsBatchCollectionOptions, CreatePlateMapTemplateOptions, CreateProtocolStepsTemplateOptions, CreateQpcrExpressionCollectionOptions, CreateQpcrPlateTemplateOptions, CreateReagentListTemplateOptions, CreateSamplePrepTemplateOptions, CreateSampleSheetTemplateOptions, CreateTargetedMetabolomicsCollectionOptions, CreateTimeCourseTemplateOptions, CreateWellPlateScreenCollectionOptions, CreateWesternBlotAssayCollectionOptions, } from './templateCreateOptions';
+export type { AssayMatrixColumnsAdapterResult, AssayMatrixDataFrameAdapterResult, AssayMatrixRowsAdapterResult, AssayMatrixSampleOptionsAdapterResult, CalibrationCurveColumnsAdapterResult, CalibrationCurveDataFrameAdapterResult, CalibrationCurveRowsAdapterResult, DataFrameAdapterResult, DoseConditionsAdapterResult, FlowPanelColumnsAdapterResult, FlowPanelDataFrameAdapterResult, FlowPanelRowsAdapterResult, InstrumentRunColumnsAdapterResult, InstrumentRunDataFrameAdapterResult, InstrumentRunRowsAdapterResult, InstrumentRunScheduleEventsAdapterResult, InstrumentRunStepsAdapterResult, PlateMapEditorAdapterResult, ProtocolColumnsAdapterResult, ProtocolDataFrameAdapterResult, ProtocolRowsAdapterResult, ProtocolStepsAdapterResult, QpcrColumnsAdapterResult, QpcrDataFrameAdapterResult, QpcrRowsAdapterResult, QpcrWellMapAdapterResult, ReagentColumnsAdapterResult, ReagentDataFrameAdapterResult, ReagentListItemsAdapterResult, ReagentRowsAdapterResult, SampleColumnsAdapterResult, SampleDataFrameAdapterResult, SampleOptionsAdapterResult, SamplePrepColumnsAdapterResult, SamplePrepDataFrameAdapterResult, SamplePrepRowsAdapterResult, SampleRowsAdapterResult, TemplateDataFrameAdapterResult, TimeCourseColumnsAdapterResult, TimeCourseDataFrameAdapterResult, TimeCourseRowsAdapterResult, TimeCourseStepsAdapterResult, WellMapAdapterResult, } from './templateAdapterTypes';

package/dist/templates/wellPlateScreenCollectionBuilder.d.ts

@@ -0,0 +1,2 @@
+import { CreateWellPlateScreenCollectionOptions, TemplateCollectionEnvelope } from './types';
+export declare function createWellPlateScreenCollection(options?: CreateWellPlateScreenCollectionOptions): TemplateCollectionEnvelope;

package/dist/templates/westernBlotAssayCollectionBuilder.d.ts

@@ -0,0 +1,2 @@
+import { CreateWesternBlotAssayCollectionOptions, TemplateCollectionEnvelope } from './types';
+export declare function createWesternBlotAssayCollection(options?: CreateWesternBlotAssayCollectionOptions): TemplateCollectionEnvelope;