import {z} from 'zod' export type GetApiGa4ghWesV1RunsRunIdArgs = {run_id: string}; export type GetApiGa4ghWesV1RunsRunIdOptions = {baseUrl: string, BearerAuth?: string | undefined, fetch?: typeof fetch | undefined}; export const runRequest = z.object({tags: z.record(z.string(), z.string()).optional(), workflow_engine_parameters: z.record(z.string(), z.string()).optional(), workflow_params: z.string().optional(), workflow_type: z.string().optional(), workflow_type_version: z.string().optional(), workflow_url: z.string().optional()}); export const log = z.object({cmd: z.array(z.string()).optional(), end_time: z.string().optional(), exit_code: z.number().int().optional(), name: z.string().optional(), start_time: z.string().optional(), stderr: z.string().optional(), stdout: z.string().optional()}); export const state = z.enum(["UNKNOWN", "QUEUED", "INITIALIZING", "RUNNING", "PAUSED", "COMPLETE", "EXECUTOR_ERROR", "SYSTEM_ERROR", "CANCELED", "CANCELING"]); export const runLog = z.object({outputs: z.object({}).optional(), request: runRequest.optional(), run_id: z.string().optional(), run_log: log.optional(), state: state.optional(), task_logs: z.array(log).optional()}); export const validateResponse = async ( schema: { readonly '~standard': { readonly validate: (value: unknown) => ({ readonly value: Output; readonly issues?: undefined } | { readonly issues: ReadonlyArray<{ readonly message: string; readonly path?: ReadonlyArray | undefined }> }) | Promise<{ readonly value: Output; readonly issues?: undefined } | { readonly issues: ReadonlyArray<{ readonly message: string; readonly path?: ReadonlyArray | undefined }> }> } }, value: unknown ): Promise => { const result = await schema['~standard'].validate(value) if (result.issues !== undefined) { const detail = result.issues .map(({ message, path }) => path?.length ? `${path.map((segment) => String(typeof segment === 'object' ? segment.key : segment)).join('.')}: ${message}` : message ) .join('; ') throw new Error(`Response does not match the schema: ${detail}`, { cause: { issues: result.issues } }) } return result.value }; /** * GA4GH: Describe run * * GET /ga4gh/wes/v1/runs/{run_id} */ export const getApiGa4ghWesV1RunsRunId = async (args: GetApiGa4ghWesV1RunsRunIdArgs, options: GetApiGa4ghWesV1RunsRunIdOptions) => { const {baseUrl, fetch: fetchFn = fetch, BearerAuth} = options ?? {} const query = new URLSearchParams() const headers = new Headers() headers.set('accept', "application/json") if (BearerAuth !== undefined) headers.set('authorization', `Bearer ${BearerAuth}`) const url = `${baseUrl.replace(/\/+$/, '')}/ga4gh/wes/v1/runs/${encodeURIComponent(String(args.run_id))}${query.size > 0 ? `?${query}` : ''}` const res = await fetchFn(url, {method: "GET", headers}) if (!res.ok) throw new Error(`Request failed with status ${res.status}`, {cause: {status: res.status, body: await res.text()}}) return validateResponse(runLog, await res.json()) };