import { RUN_PROCESS_BASIC_FORM, RunProcessBasicFormData } from "views/run-process-panel/run-process-basic-form";
import { RunProcessAdvancedFormData, RUN_PROCESS_ADVANCED_FORM } from "views/run-process-panel/run-process-advanced-form";
import { MOUNT_PATH_CWL_WORKFLOW, MOUNT_PATH_CWL_INPUT } from 'models/process';
-import { getWorkflow, getWorkflowInputs } from "models/workflow";
+import { CommandInputParameter, getWorkflow, getWorkflowInputs, getWorkflowOutputs, WorkflowInputsData } from "models/workflow";
import { ProjectResource } from "models/project";
import { UserResource } from "models/user";
+import { CommandOutputParameter } from "cwlts/mappings/v1.0/CommandOutputParameter";
+import { ContainerResource } from "models/container";
+import { ContainerRequestResource, ContainerRequestState } from "models/container-request";
+import { FilterBuilder } from "services/api/filter-builder";
export const loadProcess = (containerRequestUuid: string) =>
- async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository): Promise<Process> => {
- const containerRequest = await services.containerRequestService.get(containerRequestUuid);
- dispatch<any>(updateResources([containerRequest]));
+ async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository): Promise<Process | undefined> => {
+ let containerRequest: ContainerRequestResource | undefined = undefined;
+ try {
+ containerRequest = await services.containerRequestService.get(containerRequestUuid);
+ dispatch<any>(updateResources([containerRequest]));
+ } catch {
+ return undefined;
+ }
+
+ if (containerRequest.outputUuid) {
+ try {
+ const collection = await services.collectionService.get(containerRequest.outputUuid, false);
+ dispatch<any>(updateResources([collection]));
+ } catch {}
+ }
if (containerRequest.containerUuid) {
- const container = await services.containerService.get(containerRequest.containerUuid);
- dispatch<any>(updateResources([container]));
+ let container: ContainerResource | undefined = undefined;
+ try {
+ container = await services.containerService.get(containerRequest.containerUuid, false);
+ dispatch<any>(updateResources([container]));
+ } catch {}
+
+ try{
+ if (container && container.runtimeUserUuid) {
+ const runtimeUser = await services.userService.get(container.runtimeUserUuid, false);
+ dispatch<any>(updateResources([runtimeUser]));
+ }
+ } catch {}
+
return { containerRequest, container };
}
return { containerRequest };
};
-export const loadContainers = (filters: string, loadMounts: boolean = true) =>
+export const loadContainers = (containerUuids: string[], loadMounts: boolean = true) =>
async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository) => {
- let args: any = { filters };
+ let args: any = {
+ filters: new FilterBuilder().addIn('uuid', containerUuids).getFilters(),
+ limit: containerUuids.length,
+ };
if (!loadMounts) {
args.select = containerFieldsNoMounts;
}
"auth_uuid",
"command",
"container_image",
+ "cost",
"created_at",
"cwd",
"environment",
async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository) => {
try {
const process = await services.containerRequestService.update(uuid, { priority: 0 });
+ dispatch<any>(updateResources([process]));
+ if (process.containerUuid) {
+ const container = await services.containerService.get(process.containerUuid, false);
+ dispatch<any>(updateResources([container]));
+ }
return process;
} catch (e) {
throw new Error('Could not cancel the process.');
}
};
+export const resumeOnHoldWorkflow = (uuid: string) =>
+ async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository) => {
+ try {
+ const process = await services.containerRequestService.update(uuid, { priority: 500 });
+ dispatch<any>(updateResources([process]));
+ if (process.containerUuid) {
+ const container = await services.containerService.get(process.containerUuid, false);
+ dispatch<any>(updateResources([container]));
+ }
+ return process;
+ } catch (e) {
+ throw new Error('Could not resume the process.');
+ }
+ };
+
+export const startWorkflow = (uuid: string) =>
+ async (dispatch: Dispatch, getState: () => RootState, services: ServiceRepository) => {
+ try {
+ const process = await services.containerRequestService.update(uuid, { state: ContainerRequestState.COMMITTED });
+ if (process) {
+ dispatch<any>(updateResources([process]));
+ dispatch(snackbarActions.OPEN_SNACKBAR({ message: 'Process started', hideDuration: 2000, kind: SnackbarKind.SUCCESS }));
+ } else {
+ dispatch<any>(snackbarActions.OPEN_SNACKBAR({ message: `Failed to start process`, kind: SnackbarKind.ERROR }));
+ }
+ } catch (e) {
+ dispatch<any>(snackbarActions.OPEN_SNACKBAR({ message: `Failed to start process`, kind: SnackbarKind.ERROR }));
+ }
+ };
+
export const reRunProcess = (processUuid: string, workflowUuid: string) =>
(dispatch: Dispatch, getState: () => RootState, services: ServiceRepository) => {
const process = getResource<any>(processUuid)(getState().resources);
}
};
-const getInputs = (data: any) => {
+/*
+ * Fetches raw inputs from containerRequest mounts with fallback to properties
+ * Returns undefined if containerRequest not loaded
+ * Returns {} if inputs not found in mounts or props
+ */
+export const getRawInputs = (data: any): WorkflowInputsData | undefined => {
+ if (!data) { return undefined; }
+ const mountInput = data.mounts?.[MOUNT_PATH_CWL_INPUT]?.content;
+ const propsInput = data.properties?.cwl_input;
+ if (!mountInput && !propsInput) { return {}; }
+ return (mountInput || propsInput);
+}
+
+export const getInputs = (data: any): CommandInputParameter[] => {
+ // Definitions from mounts are needed so we return early if missing
if (!data || !data.mounts || !data.mounts[MOUNT_PATH_CWL_WORKFLOW]) { return []; }
+ const content = getRawInputs(data) as any;
+ // Only escape if content is falsy to allow displaying definitions if no inputs are present
+ // (Don't check raw content length)
+ if (!content) { return []; }
+
const inputs = getWorkflowInputs(data.mounts[MOUNT_PATH_CWL_WORKFLOW].content);
return inputs ? inputs.map(
(it: any) => (
type: it.type,
id: it.id,
label: it.label,
- default: data.mounts[MOUNT_PATH_CWL_INPUT].content[it.id],
+ default: content[it.id],
+ value: content[it.id.split('/').pop()] || [],
+ doc: it.doc
+ }
+ )
+ ) : [];
+};
+
+/*
+ * Fetches raw outputs from containerRequest properties
+ * Assumes containerRequest is loaded
+ */
+export const getRawOutputs = (data: any): CommandInputParameter[] | undefined => {
+ if (!data || !data.properties || !data.properties.cwl_output) { return undefined; }
+ return (data.properties.cwl_output);
+}
+
+export type InputCollectionMount = {
+ path: string;
+ pdh: string;
+}
+
+export const getInputCollectionMounts = (data: any): InputCollectionMount[] => {
+ if (!data || !data.mounts) { return []; }
+ return Object.keys(data.mounts)
+ .map(key => ({
+ ...data.mounts[key],
+ path: key,
+ }))
+ .filter(mount => mount.kind === 'collection' &&
+ mount.portable_data_hash &&
+ mount.path)
+ .map(mount => ({
+ path: mount.path,
+ pdh: mount.portable_data_hash,
+ }));
+};
+
+export const getOutputParameters = (data: any): CommandOutputParameter[] => {
+ if (!data || !data.mounts || !data.mounts[MOUNT_PATH_CWL_WORKFLOW]) { return []; }
+ const outputs = getWorkflowOutputs(data.mounts[MOUNT_PATH_CWL_WORKFLOW].content);
+ return outputs ? outputs.map(
+ (it: any) => (
+ {
+ type: it.type,
+ id: it.id,
+ label: it.label,
doc: it.doc
}
)
projects / arvados-workbench2.git / blobdiff