Feature/health check

api/openapi.yaml

@@ -159,6 +159,7 @@ paths:
       tags:
         - other
       summary: Get the health status.
+      security: []
       description: Retrieve information about the status of openEm components.
       operationId: OtherController_getHealth
       responses:
@@ -467,15 +468,17 @@ components:
     OtherHealthResponse:
       type: object
       properties:
-        ingestorStatus:
+        status:
           type: string
           description: Status of the ingestor.
-        scicatStatus:
-          type: string
-          description: Status of SciCat.
-        globusStatus:
-          type: string
-          description: Status of Globus.
+        errors:
+          type: object
+          additionalProperties:
+            type: string
+      required:
+        - status
+        - scicatStatus
+        - globusStatus
     GetExtractorResponse:
       type: object
       properties:

cmd/openem-ingestor-service/main.go

@@ -30,6 +30,11 @@ func main() {
 
 	ctx := context.Background()
 
+	// setup globus if we have a refresh token
+	if config.Transfer.Globus.RefreshToken != "" {
+		core.GlobusLoginWithRefreshToken(config.Transfer.Globus)
+	}
+
 	tq := core.TaskQueue{
 		Config:     config,
 		AppContext: ctx,

internal/core/globus.go

@@ -67,6 +67,12 @@ func GlobusIsClientReady() bool {
 	return globusClient.IsClientSet()
 }
 
+/*func GlobusHealthCheck() error {
+	// NOTE: this is not a proper health check and takes a long time to finish (~900ms)
+	_, err := globusClient.TransferGetTaskList(0, 1)
+	return err
+}*/
+
 func GlobusSetHttpClient(client *http.Client) {
 	globusClient = globus.HttpClientToGlobusClient(client)
 }
@@ -99,14 +105,6 @@ func globusCheckTransfer(globusTaskId string) (bytesTransferred int, filesTransf
 }
 
 func GlobusTransfer(globusConf task.GlobusTransferConfig, task task.IngestionTask, taskCtx context.Context, localTaskId uuid.UUID, datasetFolder string, fileList []datasetIngestor.Datafile, notifier ProgressNotifier) error {
-	// check if globus client is properly set up, use refresh token if available
-	if !globusClient.IsClientSet() {
-		if globusConf.RefreshToken == "" {
-			return fmt.Errorf("globus: not logged into globus")
-		}
-		GlobusLoginWithRefreshToken(globusConf)
-	}
-
 	// transfer given filelist
 	var filePathList []string
 	var fileIsSymlinkList []bool

internal/core/scicathealth.go

@@ -0,0 +1,26 @@
+package core
+
+import (
+	"errors"
+	"fmt"
+	"net/http"
+)
+
+func ScicatHealthTest(APIServer string) error {
+	// note: there's no function to use the /health endpoint in scicat-cli
+	//   so here's a function that uses it.
+	resp, err := http.DefaultClient.Get(APIServer + "/health")
+	if err != nil {
+		return err
+	}
+	defer resp.Body.Close()
+
+	if resp.StatusCode == 503 {
+		return errors.New("health check failed")
+	}
+	if resp.StatusCode != http.StatusOK {
+		return fmt.Errorf("unexpected status code: %d %s", resp.StatusCode, resp.Status)
+	}
+
+	return nil
+}

internal/webserver/other.go

@@ -1,6 +1,10 @@
 package webserver
 
-import "context"
+import (
+	"context"
+
+	"github.com/SwissOpenEM/Ingestor/internal/core"
+)
 
 func (i *IngestorWebServerImplemenation) OtherControllerGetVersion(ctx context.Context, request OtherControllerGetVersionRequestObject) (OtherControllerGetVersionResponseObject, error) {
 	return OtherControllerGetVersion200JSONResponse{
@@ -9,5 +13,26 @@ func (i *IngestorWebServerImplemenation) OtherControllerGetVersion(ctx context.C
 }
 
 func (i *IngestorWebServerImplemenation) OtherControllerGetHealth(ctx context.Context, request OtherControllerGetHealthRequestObject) (OtherControllerGetHealthResponseObject, error) {
-	return nil, nil
+	errors := map[string]string{}
+
+	err := core.ScicatHealthTest(i.taskQueue.Config.Scicat.Host)
+	if err != nil {
+		errors["scicat"] = err.Error()
+	}
+
+	/*err = core.GlobusHealthCheck()
+	if err != nil {
+		errors["globus"] = err.Error()
+	}*/
+
+	if len(errors) > 0 {
+		return OtherControllerGetHealth200JSONResponse{
+			Status: "error",
+			Errors: &errors,
+		}, nil
+	} else {
+		return OtherControllerGetHealth200JSONResponse{
+			Status: "ok",
+		}, nil
+	}
 }