import { WellPlateFormat } from '../types';
import { AssayFeature, AssaySample, CalibrationAcceptanceInput, CalibrationModel, CalibrationPointInput, CompoundDoseSeries, ControlDefinition, FlowPanelControl, FlowPanelMarker, InstrumentMethodInput, InstrumentRunItemInput, PlateMapTemplate, PlateMapTemplateData, ProtocolStepRecord, ReagentTemplateInput, SampleColumn, SampleGroupDefinition, SamplePrepStepInput, SamplePrepStepType, SampleRecord, TemplateSample, TimeCourseCondition, TimePoint, TimeUnit } from './types';
import { QpcrChemistry, QpcrSample, QpcrTarget } from './templateQpcrTypes';
export interface CreateBioTemplatePackCollectionOptions {
    metadata?: Record<string, unknown>;
}
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>;
}