Minor fixes

numass-core/src/main/java/inr/numass/data/api/NumassPoint.java

@@ -15,20 +15,31 @@ public interface NumassPoint extends Metoid, NumassBlock {
     String START_TIME_KEY = "start";
     String LENGTH_KEY = "length";
     String HV_KEY = "voltage";
+    String INDEX_KEY = "index";
 
 
     Stream<NumassBlock> getBlocks();
 
     /**
      * Get the voltage setting for the point
+     *
      * @return
      */
     default double getVoltage() {
         return getMeta().getDouble(HV_KEY, 0);
     }
 
+    /**
+     * Get the index for this point in the set
+     * @return
+     */
+    default int getIndex() {
+        return getMeta().getInt(INDEX_KEY, -1);
+    }
+
     /**
      * Get the first block if it exists. Throw runtime exception otherwise.
+     *
      * @return
      */
     default NumassBlock getFirstBlock() {
@@ -37,6 +48,7 @@ public interface NumassPoint extends Metoid, NumassBlock {
 
     /**
      * Get the starting time from meta or from first block
+     *
      * @return
      */
     @Override

numass-core/src/main/java/inr/numass/data/storage/ClassicNumassPoint.java

@@ -55,6 +55,11 @@ public class ClassicNumassPoint implements NumassPoint {
         return getMeta().getDouble("external_meta.HV1_value", 0);
     }
 
+    @Override
+    public int getIndex() {
+        return getMeta().getInt("external_meta.point_index", -1);
+    }
+
     @Override
     public Meta getMeta() {
         return envelope.getMeta();

numass-main/src/main/kotlin/inr/numass/tasks/NumassTasks.kt

@@ -50,7 +50,7 @@ val selectTask = task("select") {
     }
 }
 
-@ValueDef(name = "showPlot", type = arrayOf(ValueType.BOOLEAN), info = "Show plot after complete")
+@ValueDef(name = "showPlot", type = [ValueType.BOOLEAN], info = "Show plot after complete")
 val monitorTableTask = task("monitor") {
     model { meta ->
         dependsOn(selectTask, meta)
@@ -84,7 +84,7 @@ val monitorTableTask = task("monitor") {
                         //add set markers
                         addSetMarkers(frame, data.values)
                     }
-                    context.getIo().out("numass.monitor", name, "dfp").use {
+                    context.io.out("numass.monitor", name, "dfp").use {
                         NumassUtils.writeEnvelope(it, PlotFrame.Wrapper().wrap(frame))
                     }
                 }

numass-viewer/build.gradle

@@ -1,7 +1,4 @@
-plugins{
+apply plugin: 'application'
-    id "application"
-}
-
 apply plugin: 'kotlin'
 
 repositories {
@@ -19,15 +16,10 @@ version = "0.5.0"
 
 description = "The viewer for numass data"
 
-compileKotlin.kotlinOptions.jvmTarget = "1.8"
 
 dependencies {
     compile project(':numass-core')
     compile "hep.dataforge:plots-jfc" //project(':dataforge-plots:plots-jfc')
     compile "hep.dataforge:dataforge-gui"
-    compile 'com.jcraft:jsch:0.1.54'
 }
 
-apply plugin: 'kotlin'
-
-

numass-viewer/src/main/kotlin/inr/numass/viewer/AmplitudeView.kt

@@ -90,10 +90,10 @@ class AmplitudeView(
         }
 
         binningProperty.onChange {
-            reset()
+            clear()
         }
         normalizeProperty.onChange {
-            reset()
+            clear()
         }
 
         container.progressProperty.bind(progress)
@@ -151,7 +151,7 @@ class AmplitudeView(
         }
     }
 
-    private fun reset() {
+    fun clear() {
         frame.plots.clear()
         plots.clear()
         invalidate()

numass-viewer/src/main/kotlin/inr/numass/viewer/HVView.kt

@@ -77,5 +77,9 @@ class HVView : View(title = "High voltage time plot", icon = ImageView(dfIcon))
         data.remove(id);
     }
 
+    fun clear(){
+        data.clear()
+    }
+
 
 }

numass-viewer/src/main/kotlin/inr/numass/viewer/SlowControlView.kt

@@ -91,4 +91,8 @@ class SlowControlView : View(title = "Numass slow control view", icon = ImageVie
         this.data.remove(id)
     }
 
+    fun clear(){
+        data.clear()
+    }
+
 }

numass-viewer/src/main/kotlin/inr/numass/viewer/SpectrumView.kt

@@ -198,4 +198,8 @@ class SpectrumView(
     fun remove(key: String) {
         data.remove(key)
     }
+
+    fun clear(){
+        data.clear()
+    }
 }

numass-viewer/src/main/kotlin/inr/numass/viewer/StorageView.kt

@@ -152,29 +152,40 @@ class StorageView(private val context: Context = Global.instance()) : View(title
                     cellFormat { value ->
                         when (value.content) {
                             is Storage -> {
-                                text = value.id
+                                text = value.content.name
                                 graphic = null
                             }
                             is NumassSet -> {
                                 text = null
-                                graphic = checkbox(value.id, value.checkedProperty)
+                                graphic = checkbox(value.content.name).apply {
+                                    selectedProperty().bindBidirectional(value.checkedProperty)
+                                }
                             }
                             is NumassPoint -> {
                                 text = null
-                                graphic = checkbox(value.id, value.checkedProperty)
+                                graphic = checkbox("${value.content.voltage}[${value.content.index}]").apply {
+                                    selectedProperty().bindBidirectional(value.checkedProperty)
+                                }
                             }
                             is TableLoader -> {
                                 text = null
-                                graphic = checkbox(value.id, value.checkedProperty)
+                                graphic = checkbox(value.content.name).apply {
+                                    selectedProperty().bindBidirectional(value.checkedProperty)
+                                }
                             }
                             else -> {
                                 text = value.id
                                 graphic = null
                             }
                         }
+                        contextMenu = ContextMenu()
+                        contextMenu.item("Clear"){
+                            action {
+                                this@cellFormat.treeItem.uncheckAll()
+                            }
+                        }
                         if (value.content is Metoid) {
-                            contextMenu = ContextMenu().apply {
+                            contextMenu.item("Meta") {
-                                item("Meta") {
                                 action {
                                     openInternalBuilderWindow(title = "Info: ${value.id}", escapeClosesWindow = true) {
                                         scrollpane {
@@ -187,9 +198,7 @@ class StorageView(private val context: Context = Global.instance()) : View(title
                                     }
                                 }
                             }
-                            }
+
-                        } else {
-                            contextMenu = null
                         }
                     }
                 }
@@ -225,6 +234,12 @@ class StorageView(private val context: Context = Global.instance()) : View(title
 
     }
 
+    private fun TreeItem<Container>.uncheckAll(){
+        this.value.checked = false
+        this.children.forEach{it.uncheckAll()}
+    }
+
+
     private fun buildContainer(content: Any, parent: Container): Container =
             when (content) {
                 is Storage -> {
@@ -236,10 +251,10 @@ class StorageView(private val context: Context = Global.instance()) : View(title
                     } else {
                         content.name
                     }
-                    Container(id.toString(), content)
+                    Container(id, content)
                 }
                 is NumassPoint -> {
-                    Container("${parent.id}/${content.voltage}".replace(".", "_"), content)
+                    Container("${parent.id}/${content.voltage}[${content.index}]", content)
                 }
                 is Loader -> {
                     Container(content.path.toString(), content);
@@ -261,7 +276,7 @@ class StorageView(private val context: Context = Global.instance()) : View(title
             title = "Load storage ($path)"
             progress = -1.0
             message = "Building numass storage tree..."
-            (StorageManager.buildStorage(context,NumassStorageFactory.buildStorageMeta(path, true, true))as NumassStorage).also {
+            (StorageManager.buildStorage(context, NumassStorageFactory.buildStorageMeta(path, true, true)) as NumassStorage).also {
                 progress = 1.0
             }
         } ui {

numass-viewer/src/main/kotlin/inr/numass/viewer/Viewer.kt

@@ -3,6 +3,8 @@ package inr.numass.viewer
 import ch.qos.logback.classic.Level
 import ch.qos.logback.classic.Logger
 import hep.dataforge.context.Global
+import hep.dataforge.fx.dfIcon
+import javafx.stage.Stage
 import org.slf4j.LoggerFactory
 import tornadofx.*
 
@@ -14,11 +16,10 @@ class Viewer : App(StorageView::class) {
         (LoggerFactory.getLogger(Logger.ROOT_LOGGER_NAME) as Logger).level = Level.INFO
     }
 
-//    override fun start(stage: Stage) {
+    override fun start(stage: Stage) {
-//        stage.icons += dfIcon
+        stage.icons += dfIcon
-////        (LoggerFactory.getLogger(Logger.ROOT_LOGGER_NAME) as Logger).level = Level.INFO
+        super.start(stage)
-//        super.start(stage)
+    }
-//    }
 
     override fun stop() {
         super.stop()