Golang Indexer Examples

Example #1

File: nodeController.go Project: wilke/Shock

// PUT: /node/{id} -> multipart-form
func (cr *NodeController) Update(id string, cx *goweb.Context) {
	// Log Request and check for Auth
	LogRequest(cx.Request)
	u, err := AuthenticateRequest(cx.Request)
	if err != nil && err.Error() != e.NoAuth {
		handleAuthError(err, cx)
		return
	}

	// Gather query params
	query := &Query{list: cx.Request.URL.Query()}

	// Fake public user
	if u == nil {
		u = &user.User{Uuid: ""}
	}

	node, err := store.LoadNode(id, u.Uuid)
	if err != nil {
		if err.Error() == e.UnAuth {
			cx.RespondWithError(http.StatusUnauthorized)
			return
		} else if err.Error() == e.MongoDocNotFound {
			cx.RespondWithNotFound()
			return
		} else {
			// In theory the db connection could be lost between
			// checking user and load but seems unlikely.
			log.Error("Err@node_Update:LoadNode: " + err.Error())
			cx.RespondWithError(http.StatusInternalServerError)
			return
		}
	}

	if query.Has("index") {
		if !node.HasFile() {
			cx.RespondWithErrorMessage("node file empty", http.StatusBadRequest)
			return
		}

		if query.Value("index") == "bai" {

			//bam index is created by the command-line tool samtools
			if ext := node.FileExt(); ext == ".bam" {
				if err := CreateBamIndex(node.FilePath()); err != nil {
					cx.RespondWithErrorMessage("Error while creating bam index", http.StatusBadRequest)
					return
				}
				return
			} else {
				cx.RespondWithErrorMessage("Index type bai requires .bam file", http.StatusBadRequest)
				return
			}
		}

		newIndexer := indexer.Indexer(query.Value("index"))
		f, _ := os.Open(node.FilePath())
		defer f.Close()
		idxer := newIndexer(f)
		err := idxer.Create()
		if err != nil {
			log.Error("err " + err.Error())
		}
		err = idxer.Dump(node.IndexPath() + "/record")
		if err != nil {
			cx.RespondWithErrorMessage(err.Error(), http.StatusBadRequest)
			return
		} else {
			cx.RespondWithOK()
			return
		}
	} else {
		params, files, err := ParseMultipartForm(cx.Request)
		if err != nil {
			log.Error("err " + err.Error())
			cx.RespondWithError(http.StatusBadRequest)
			return
		}

		err = node.Update(params, files)
		if err != nil {
			errors := []string{e.FileImut, e.AttrImut, "parts cannot be less than 1"}
			for e := range errors {
				if err.Error() == errors[e] {
					cx.RespondWithErrorMessage(err.Error(), http.StatusBadRequest)
					return
				}
			}
			log.Error("err " + err.Error())
			cx.RespondWithErrorMessage(err.Error(), http.StatusBadRequest)
			return
		}
		cx.RespondWithData(node)
	}
	return
}

Example #2

File: nodeController.go Project: gingi/Shock

// PUT: /node/{id} -> multipart-form
func (cr *NodeController) Update(id string, cx *goweb.Context) {
	// Log Request and check for Auth
	LogRequest(cx.Request)
	u, err := AuthenticateRequest(cx.Request)
	if err != nil {
		// No Auth is not damning. Other errors are probably a dead db connection
		if err.Error() != e.NoAuth {
			if err.Error() == e.MongoDocNotFound {
				cx.RespondWithErrorMessage("Invalid username or password", http.StatusBadRequest)
				return
			} else {
				fmt.Println("Error at Auth:", err.Error())
				cx.RespondWithError(http.StatusInternalServerError)
				return
			}
		}
	}

	// Gather query params
	query := &Query{list: cx.Request.URL.Query()}

	// Fake public user
	if u == nil {
		u = &user.User{Uuid: ""}
	}

	node, err := store.LoadNode(id, u.Uuid)
	if err != nil {
		if err.Error() == e.UnAuth {
			fmt.Println("Unauthorized")
			cx.RespondWithError(http.StatusUnauthorized)
			return
		} else if err.Error() == e.MongoDocNotFound {
			cx.RespondWithNotFound()
			return
		} else {
			// In theory the db connection could be lost between
			// checking user and load but seems unlikely.
			fmt.Println("Err@node_Update:LoadNode:", err.Error())
			cx.RespondWithError(http.StatusInternalServerError)
			return
		}
	}

	if query.Has("index") {
		if !node.HasFile() {
			cx.RespondWithErrorMessage("node file empty", http.StatusBadRequest)
			return
		}
		newIndexer := indexer.Indexer(query.Value("index"))
		f, _ := os.Open(node.DataPath())
		defer f.Close()
		idxer := newIndexer(f)
		err := idxer.Create()
		if err != nil {
			fmt.Println(err.Error())
		}
		err = idxer.Dump(node.IndexPath() + "/record")
		if err != nil {
			cx.RespondWithErrorMessage(err.Error(), http.StatusBadRequest)
			return
		} else {
			cx.RespondWithOK()
			return
		}
	} else {
		params, files, err := ParseMultipartForm(cx.Request)
		if err != nil {
			fmt.Println("err", err.Error())
			cx.RespondWithError(http.StatusBadRequest)
			return
		}

		err = node.Update(params, files)
		if err != nil {
			errors := []string{"node file already set and is immutable", "node file immutable", "node attributes immutable", "node part already exists and is immutable"}
			for e := range errors {
				if err.Error() == errors[e] {
					cx.RespondWithErrorMessage(err.Error(), http.StatusBadRequest)
					return
				}
			}
			fmt.Println("err", err.Error())
			cx.RespondWithError(http.StatusBadRequest)
			return
		}
		cx.RespondWithData(node)
	}
	return
}