func repoNewDataHandler(c web.C, w http.ResponseWriter, r *http.Request) {
uuid := c.Env["uuid"].(dvid.UUID)
config := dvid.NewConfig()
if err := config.SetByJSON(r.Body); err != nil {
BadRequest(w, r, fmt.Sprintf("Error decoding POSTed JSON config for 'new': %v", err))
return
}
// Make sure that the passed configuration has data type and instance name.
typename, found, err := config.GetString("typename")
if !found || err != nil {
BadRequest(w, r, "POST on repo endpoint requires specification of valid 'typename'")
return
}
dataname, found, err := config.GetString("dataname")
if !found || err != nil {
BadRequest(w, r, "POST on repo endpoint requires specification of valid 'dataname'")
return
}
typeservice, err := datastore.TypeServiceByName(dvid.TypeString(typename))
if err != nil {
BadRequest(w, r, err)
return
}
_, err = datastore.NewData(uuid, typeservice, dvid.InstanceName(dataname), config)
if err != nil {
BadRequest(w, r, err)
return
}
w.Header().Set("Content-Type", "application/json")
fmt.Fprintf(w, "{%q: 'Added %s [%s] to node %s'}", "result", dataname, typename, uuid)
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
testMu.Lock()
defer testMu.Unlock()
if mstype == nil {
var err error
mstype, err = datastore.TypeServiceByName(TypeName)
if err != nil {
log.Fatalf("Can't get imagetile type: %s\n", err)
}
grayscaleT, err = datastore.TypeServiceByName("uint8blk")
if err != nil {
log.Fatalf("Can't get grayscale type: %s\n", err)
}
}
return datastore.NewTestRepo()
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
testMu.Lock()
defer testMu.Unlock()
if labelsT == nil {
var err error
labelsT, err = datastore.TypeServiceByName("labelblk")
if err != nil {
log.Fatalf("Can't get labelblk type: %s\n", err)
}
rgbaT, err = datastore.TypeServiceByName("rgba8blk")
if err != nil {
log.Fatalf("Can't get rgba8blk type: %s\n", err)
}
}
return tests.NewRepo()
}
func typehelpHandler(c web.C, w http.ResponseWriter, r *http.Request) {
w.Header().Set("Content-Type", "text/plain")
typename := dvid.TypeString(c.URLParams["typename"])
typeservice, err := datastore.TypeServiceByName(typename)
if err != nil {
BadRequest(w, r, err)
return
}
fmt.Fprintf(w, typeservice.Help())
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
if dtype == nil {
var err error
dtype, err = datastore.TypeServiceByName(TypeName)
if err != nil {
log.Fatalf("Can't get labelgraph type: %v\n", err)
}
}
return datastore.NewTestRepo()
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
testMu.Lock()
defer testMu.Unlock()
if grayscaleT == nil {
var err error
grayscaleT, err = datastore.TypeServiceByName("uint8blk")
if err != nil {
log.Fatalf("Can't get uint8blk type: %s\n", err)
}
rgbaT, err = datastore.TypeServiceByName("rgba8blk")
if err != nil {
log.Fatalf("Can't get rgba8blk type: %s\n", err)
}
roiT, err = datastore.TypeServiceByName("roi")
if err != nil {
log.Fatalf("Can't get ROI type: %s\n", err)
}
}
return datastore.NewTestRepo()
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
testMu.Lock()
defer testMu.Unlock()
if roitype == nil {
var err error
roitype, err = datastore.TypeServiceByName(TypeName)
if err != nil {
log.Fatalf("Can't get ROI type: %v\n", err)
}
}
return datastore.NewTestRepo()
}
// Sets package-level testRepo and TestVersionID
func initTestRepo() (dvid.UUID, dvid.VersionID) {
testMu.Lock()
defer testMu.Unlock()
if dtype == nil {
var err error
dtype, err = datastore.TypeServiceByName(TypeName)
if err != nil {
log.Fatalf("Can't get multichan16 type: %v\n", err)
}
}
return tests.NewRepo()
}
// ForegroundROI creates a new ROI by determining all non-background blocks.
func (d *Data) ForegroundROI(req datastore.Request, reply *datastore.Response) error {
if d.Values.BytesPerElement() != 1 {
return fmt.Errorf("Foreground ROI command only implemented for 1 byte/voxel data!")
}
// Parse the request
var uuidStr, dataName, cmdStr, destName, backgroundStr string
req.CommandArgs(1, &uuidStr, &dataName, &cmdStr, &destName, &backgroundStr)
// Get the version and repo
uuid, versionID, err := datastore.MatchingUUID(uuidStr)
if err != nil {
return err
}
if err = datastore.AddToNodeLog(uuid, []string{req.Command.String()}); err != nil {
return err
}
// Use existing destination data or a new ROI data.
var dest *roi.Data
dest, err = roi.GetByUUID(uuid, dvid.InstanceName(destName))
if err != nil {
config := dvid.NewConfig()
typeservice, err := datastore.TypeServiceByName("roi")
if err != nil {
return err
}
dataservice, err := datastore.NewData(uuid, typeservice, dvid.InstanceName(destName), config)
if err != nil {
return err
}
var ok bool
dest, ok = dataservice.(*roi.Data)
if !ok {
return fmt.Errorf("Could not create ROI data instance")
}
}
// Asynchronously process the voxels.
background, err := dvid.StringToPointNd(backgroundStr, ",")
if err != nil {
return err
}
go d.foregroundROI(versionID, dest, background)
return nil
}
// CreateComposite creates a new rgba8 image by combining hash of labels + the grayscale
func (d *Data) CreateComposite(request datastore.Request, reply *datastore.Response) error {
timedLog := dvid.NewTimeLog()
// Parse the request
var uuidStr, dataName, cmdStr, grayscaleName, destName string
request.CommandArgs(1, &uuidStr, &dataName, &cmdStr, &grayscaleName, &destName)
// Get the version
uuid, v, err := datastore.MatchingUUID(uuidStr)
if err != nil {
return err
}
// Log request
if err = datastore.AddToNodeLog(uuid, []string{request.Command.String()}); err != nil {
return err
}
// Get the grayscale data.
dataservice, err := datastore.GetDataByUUIDName(uuid, dvid.InstanceName(grayscaleName))
if err != nil {
return err
}
grayscale, ok := dataservice.(*imageblk.Data)
if !ok {
return fmt.Errorf("%s is not the name of uint8 data", grayscaleName)
}
// Create a new rgba8blk data.
var compservice datastore.DataService
compservice, err = datastore.GetDataByUUIDName(uuid, dvid.InstanceName(destName))
if err == nil {
return fmt.Errorf("Data instance with name %q already exists", destName)
}
typeService, err := datastore.TypeServiceByName("rgba8blk")
if err != nil {
return fmt.Errorf("Could not get rgba8 type service from DVID")
}
config := dvid.NewConfig()
compservice, err = datastore.NewData(uuid, typeService, dvid.InstanceName(destName), config)
if err != nil {
return err
}
composite, ok := compservice.(*imageblk.Data)
if !ok {
return fmt.Errorf("Error: %s was unable to be set to rgba8 data", destName)
}
// Iterate through all labels and grayscale chunks incrementally in Z, a layer at a time.
wg := new(sync.WaitGroup)
op := &compositeOp{grayscale, composite, v}
chunkOp := &storage.ChunkOp{op, wg}
store, err := d.GetOrderedKeyValueDB()
if err != nil {
return err
}
ctx := datastore.NewVersionedCtx(d, v)
extents := d.Extents()
blockBeg := imageblk.NewTKey(extents.MinIndex)
blockEnd := imageblk.NewTKey(extents.MaxIndex)
err = store.ProcessRange(ctx, blockBeg, blockEnd, chunkOp, storage.ChunkFunc(d.CreateCompositeChunk))
wg.Wait()
// Set new mapped data to same extents.
composite.Properties.Extents = grayscale.Properties.Extents
if err := datastore.SaveDataByUUID(uuid, composite); err != nil {
dvid.Infof("Could not save new data '%s': %v\n", destName, err)
}
timedLog.Infof("Created composite of %s and %s", grayscaleName, destName)
return nil
}
// Do acts as a switchboard for remote command execution
func (c *RPCConnection) Do(cmd datastore.Request, reply *datastore.Response) error {
if reply == nil {
dvid.Debugf("reply is nil coming in!\n")
return nil
}
if cmd.Name() == "" {
return fmt.Errorf("Server error: got empty command!")
}
switch cmd.Name() {
case "help":
reply.Text = fmt.Sprintf(RPCHelpMessage, config.RPCAddress(), config.HTTPAddress())
case "shutdown":
Shutdown()
// Make this process shutdown in a second to allow time for RPC to finish.
// TODO -- Better way to do this?
log.Printf("DVID server halted due to 'shutdown' command.")
reply.Text = fmt.Sprintf("DVID server at %s has been halted.\n", config.RPCAddress())
go func() {
time.Sleep(1 * time.Second)
os.Exit(0)
}()
case "types":
if len(cmd.Command) == 1 {
text := "\nData Types within this DVID Server\n"
text += "----------------------------------\n"
mapTypes, err := datastore.Types()
if err != nil {
return fmt.Errorf("Error trying to retrieve data types within this DVID server!")
}
for url, typeservice := range mapTypes {
text += fmt.Sprintf("%-20s %s\n", typeservice.GetTypeName(), url)
}
reply.Text = text
} else {
if len(cmd.Command) != 3 || cmd.Command[2] != "help" {
return fmt.Errorf("Unknown types command: %q", cmd.Command)
}
var typename string
cmd.CommandArgs(1, &typename)
typeservice, err := datastore.TypeServiceByName(dvid.TypeString(typename))
if err != nil {
return err
}
reply.Text = typeservice.Help()
}
case "repos":
var subcommand, alias, description, uuidStr string
cmd.CommandArgs(1, &subcommand, &alias, &description, &uuidStr)
switch subcommand {
case "new":
var assign *dvid.UUID
if uuidStr == "" {
assign = nil
} else {
u := dvid.UUID(uuidStr)
assign = &u
}
root, err := datastore.NewRepo(alias, description, assign)
if err != nil {
return err
}
if err := datastore.SetRepoAlias(root, alias); err != nil {
return err
}
if err := datastore.SetRepoDescription(root, description); err != nil {
return err
}
reply.Text = fmt.Sprintf("New repo %q created with head node %s\n", alias, root)
default:
return fmt.Errorf("Unknown repos command: %q", subcommand)
}
case "repo":
var uuidStr, subcommand string
cmd.CommandArgs(1, &uuidStr, &subcommand)
uuid, _, err := datastore.MatchingUUID(uuidStr)
if err != nil {
return err
}
switch subcommand {
case "new":
var typename, dataname string
cmd.CommandArgs(3, &typename, &dataname)
// Get TypeService
typeservice, err := datastore.TypeServiceByName(dvid.TypeString(typename))
if err != nil {
return err
}
// Create new data
config := cmd.Settings()
_, err = datastore.NewData(uuid, typeservice, dvid.InstanceName(dataname), config)
if err != nil {
return err
}
reply.Text = fmt.Sprintf("Data %q [%s] added to node %s\n", dataname, typename, uuid)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "branch":
cmd.CommandArgs(3, &uuidStr)
var assign *dvid.UUID
if uuidStr == "" {
assign = nil
} else {
u := dvid.UUID(uuidStr)
assign = &u
}
child, err := datastore.NewVersion(uuid, fmt.Sprintf("branch of %s", uuid), assign)
if err != nil {
return err
}
reply.Text = fmt.Sprintf("Branch %s added to node %s\n", child, uuid)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "merge":
uuids := cmd.CommandArgs(2)
parents := make([]dvid.UUID, len(uuids)+1)
parents[0] = dvid.UUID(uuid)
i := 1
for uuid := range uuids {
parents[i] = dvid.UUID(uuid)
i++
}
child, err := datastore.Merge(parents, fmt.Sprintf("merge of parents %v", parents), datastore.MergeConflictFree)
if err != nil {
return err
}
reply.Text = fmt.Sprintf("Parents %v merged into node %s\n", parents, child)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "push":
/*
var target string
cmd.CommandArgs(3, &target)
config := cmd.Settings()
if err = datastore.Push(repo, target, config); err != nil {
return err
}
reply.Text = fmt.Sprintf("Repo %q pushed to %q\n", repo.RootUUID(), target)
*/
return fmt.Errorf("push command has been temporarily suspended")
default:
return fmt.Errorf("Unknown command: %q", cmd)
}
case "node":
var uuidStr, descriptor string
cmd.CommandArgs(1, &uuidStr, &descriptor)
uuid, _, err := datastore.MatchingUUID(uuidStr)
if err != nil {
return err
}
// Get the DataService
dataname := dvid.InstanceName(descriptor)
var subcommand string
cmd.CommandArgs(3, &subcommand)
dataservice, err := datastore.GetDataByUUID(uuid, dataname)
if err != nil {
return err
}
if subcommand == "help" {
reply.Text = dataservice.Help()
return nil
}
return dataservice.DoRPC(cmd, reply)
default:
return fmt.Errorf("Unknown command: '%s'", cmd)
}
return nil
}
// switchboard for remote command execution
func handleCommand(cmd *datastore.Request) (reply *datastore.Response, err error) {
if cmd.Name() == "" {
err = fmt.Errorf("Server error: got empty command!")
return
}
reply = new(datastore.Response)
switch cmd.Name() {
case "help":
reply.Text = fmt.Sprintf(RPCHelpMessage, config.RPCAddress(), config.HTTPAddress())
case "shutdown":
dvid.Infof("DVID server halting due to 'shutdown' command.")
reply.Text = fmt.Sprintf("DVID server at %s is being shutdown...\n", config.RPCAddress())
// launch goroutine shutdown so we can concurrently return shutdown message to client.
go Shutdown()
case "types":
if len(cmd.Command) == 1 {
text := "\nData Types within this DVID Server\n"
text += "----------------------------------\n"
var mapTypes map[dvid.URLString]datastore.TypeService
if mapTypes, err = datastore.Types(); err != nil {
err = fmt.Errorf("Error trying to retrieve data types within this DVID server!")
return
}
for url, typeservice := range mapTypes {
text += fmt.Sprintf("%-20s %s\n", typeservice.GetTypeName(), url)
}
reply.Text = text
} else {
if len(cmd.Command) != 3 || cmd.Command[2] != "help" {
err = fmt.Errorf("Unknown types command: %q", cmd.Command)
return
}
var typename string
var typeservice datastore.TypeService
cmd.CommandArgs(1, &typename)
if typeservice, err = datastore.TypeServiceByName(dvid.TypeString(typename)); err != nil {
return
}
reply.Text = typeservice.Help()
}
case "repos":
var subcommand string
cmd.CommandArgs(1, &subcommand)
switch subcommand {
case "new":
var alias, description string
cmd.CommandArgs(2, &alias, &description)
config := cmd.Settings()
var uuidStr, passcode string
var found bool
if uuidStr, found, err = config.GetString("uuid"); err != nil {
return
}
var assign *dvid.UUID
if !found {
assign = nil
} else {
uuid := dvid.UUID(uuidStr)
assign = &uuid
}
if passcode, found, err = config.GetString("passcode"); err != nil {
return
}
var root dvid.UUID
root, err = datastore.NewRepo(alias, description, assign, passcode)
if err != nil {
return
}
if err = datastore.SetRepoAlias(root, alias); err != nil {
return
}
if err = datastore.SetRepoDescription(root, description); err != nil {
return
}
reply.Text = fmt.Sprintf("New repo %q created with head node %s\n", alias, root)
case "delete":
var uuidStr, passcode string
cmd.CommandArgs(2, &uuidStr, &passcode)
var uuid dvid.UUID
if uuid, _, err = datastore.MatchingUUID(uuidStr); err != nil {
return
}
if err = datastore.DeleteRepo(uuid, passcode); err != nil {
return
}
reply.Text = fmt.Sprintf("Started deletion of repo %s.\n", uuid)
default:
err = fmt.Errorf("Unknown repos command: %q", subcommand)
return
}
case "repo":
var uuidStr, subcommand string
cmd.CommandArgs(1, &uuidStr, &subcommand)
var uuid dvid.UUID
if uuid, _, err = datastore.MatchingUUID(uuidStr); err != nil {
return
}
switch subcommand {
case "new":
var typename, dataname string
cmd.CommandArgs(3, &typename, &dataname)
// Get TypeService
var typeservice datastore.TypeService
if typeservice, err = datastore.TypeServiceByName(dvid.TypeString(typename)); err != nil {
return
}
// Create new data
config := cmd.Settings()
if _, err = datastore.NewData(uuid, typeservice, dvid.InstanceName(dataname), config); err != nil {
return
}
reply.Text = fmt.Sprintf("Data %q [%s] added to node %s\n", dataname, typename, uuid)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "rename":
var name1, name2, passcode string
cmd.CommandArgs(3, &name1, &name2, &passcode)
oldname := dvid.InstanceName(name1)
newname := dvid.InstanceName(name2)
// Make sure this instance exists.
if _, err = datastore.GetDataByUUIDName(uuid, oldname); err != nil {
err = fmt.Errorf("Error trying to rename %q for UUID %s: %v", oldname, uuid, err)
return
}
// Do the rename.
if err = datastore.RenameData(uuid, oldname, newname, passcode); err != nil {
err = fmt.Errorf("Error renaming data instance %q to %q: %v", oldname, newname, err)
return
}
reply.Text = fmt.Sprintf("Renamed data instance %q to %q from DAG subgraph @ root %s\n", oldname, newname, uuid)
case "branch":
cmd.CommandArgs(3, &uuidStr)
var assign *dvid.UUID
if uuidStr == "" {
assign = nil
} else {
u := dvid.UUID(uuidStr)
assign = &u
}
var child dvid.UUID
if child, err = datastore.NewVersion(uuid, fmt.Sprintf("branch of %s", uuid), assign); err != nil {
return
}
reply.Text = fmt.Sprintf("Branch %s added to node %s\n", child, uuid)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "merge":
uuids := cmd.CommandArgs(2)
parents := make([]dvid.UUID, len(uuids)+1)
parents[0] = dvid.UUID(uuid)
i := 1
for uuid := range uuids {
parents[i] = dvid.UUID(uuid)
i++
}
var child dvid.UUID
child, err = datastore.Merge(parents, fmt.Sprintf("merge of parents %v", parents), datastore.MergeConflictFree)
if err != nil {
return
}
reply.Text = fmt.Sprintf("Parents %v merged into node %s\n", parents, child)
datastore.AddToRepoLog(uuid, []string{cmd.String()})
case "migrate":
var source, oldStoreName string
cmd.CommandArgs(3, &source, &oldStoreName)
var store dvid.Store
store, err = storage.GetStoreByAlias(storage.Alias(oldStoreName))
if err != nil {
return
}
config := cmd.Settings()
go func() {
if err = datastore.MigrateInstance(uuid, dvid.InstanceName(source), store, config); err != nil {
dvid.Errorf("migrate error: %v\n", err)
}
}()
reply.Text = fmt.Sprintf("Started migration of uuid %s data instance %q from old store %q...\n", uuid, source, oldStoreName)
case "copy":
var source, target string
cmd.CommandArgs(3, &source, &target)
config := cmd.Settings()
go func() {
if err = datastore.CopyInstance(uuid, dvid.InstanceName(source), dvid.InstanceName(target), config); err != nil {
dvid.Errorf("copy error: %v\n", err)
}
}()
reply.Text = fmt.Sprintf("Started copy of uuid %s data instance %q to %q...\n", uuid, source, target)
case "push":
var target string
cmd.CommandArgs(3, &target)
config := cmd.Settings()
go func() {
if err = datastore.PushRepo(uuid, target, config); err != nil {
dvid.Errorf("push error: %v\n", err)
}
}()
reply.Text = fmt.Sprintf("Started push of repo %s to %q...\n", uuid, target)
/*
case "pull":
var target string
cmd.CommandArgs(3, &target)
config := cmd.Settings()
if err = datastore.Pull(uuid, target, config); err != nil {
return
}
reply.Text = fmt.Sprintf("Repo %s pulled from %q\n", uuid, target)
*/
case "delete":
var dataname, passcode string
cmd.CommandArgs(3, &dataname, &passcode)
// Make sure this instance exists.
if _, err = datastore.GetDataByUUIDName(uuid, dvid.InstanceName(dataname)); err != nil {
err = fmt.Errorf("Error trying to delete %q for UUID %s: %v", dataname, uuid, err)
return
}
// Do the deletion. Under hood, modifies metadata immediately and launches async k/v deletion.
if err = datastore.DeleteDataByName(uuid, dvid.InstanceName(dataname), passcode); err != nil {
err = fmt.Errorf("Error deleting data instance %q: %v", dataname, err)
return
}
reply.Text = fmt.Sprintf("Started deletion of data instance %q from repo with root %s\n", dataname, uuid)
default:
err = fmt.Errorf("Unknown command: %q", cmd)
return
}
case "node":
var uuidStr, descriptor string
cmd.CommandArgs(1, &uuidStr, &descriptor)
var uuid dvid.UUID
if uuid, _, err = datastore.MatchingUUID(uuidStr); err != nil {
return
}
// Get the DataService
dataname := dvid.InstanceName(descriptor)
var subcommand string
cmd.CommandArgs(3, &subcommand)
var dataservice datastore.DataService
if dataservice, err = datastore.GetDataByUUIDName(uuid, dataname); err != nil {
return
}
if subcommand == "help" {
reply.Text = dataservice.Help()
return
}
err = dataservice.DoRPC(*cmd, reply)
return
default:
// Check to see if it's a name of a compiled data type, in which case we refer it to the data type.
types := datastore.CompiledTypes()
for name, typeservice := range types {
if name == dvid.TypeString(cmd.Argument(0)) {
err = typeservice.Do(*cmd, reply)
return
}
}
err = fmt.Errorf("Unknown command: '%s'", *cmd)
}
return
}