Multiselection included. (Without input validation).

system/navigator.py

@@ -15,22 +15,30 @@ class NavigatorView (gtk.TreeView):
         
         gtk.TreeView.__init__(self) 
 
+        # various properties
         self.set_headers_visible(False)
+
+        # Selection Mode
+        self.get_selection().set_mode(gtk.SELECTION_MULTIPLE)
+        self.get_selection().set_select_function(self.is_selectable)
+
+        # Setting up TextRenderers etc
         self.connect('cursor_changed', self.cursor_changed_handler)
         self.connect('row_activated', self.row_activated_handler)
 
-        #pixrenderer  = gtk.CellRendererPixbuf()
         textrenderer = gtk.CellRendererText()
 
         self.object_col = gtk.TreeViewColumn('Object')
-        #self.object_col.pack_start(pixrenderer)
         self.object_col.pack_start(textrenderer)
-
         self.object_col.set_attributes(textrenderer, cell_background=3, foreground = 4, text=0)
         self.append_column(self.object_col)
 
-        # drag'n'drop
+        # send events to plots / itself
-        self.enable_model_drag_source(gtk.gdk.BUTTON1_MASK,[("GTK_TREE_MODEL_ROW",gtk.TARGET_SAME_APP,7)], gtk.gdk.ACTION_LINK)
+        self.enable_model_drag_source(gtk.gdk.BUTTON1_MASK,[("GTK_TREE_MODEL_ROW",gtk.TARGET_SAME_APP,7)], gtk.gdk.ACTION_LINK | gtk.gdk.ACTION_MOVE)
+    
+        # receive MOVE drag'n'drops from itself
+        self.enable_model_drag_dest([("GTK_TREE_MODEL_ROW",gtk.TARGET_SAME_WIDGET,138)],gtk.gdk.ACTION_MOVE)
+
         self.connect("drag-data-get",self.slot_drag_data)
 
         logger.log('debug', 'Initializing navigator window.')
@@ -39,10 +47,9 @@ class NavigatorView (gtk.TreeView):
     # sets data for drag event.
     def slot_drag_data(self,treeview,context,selection,target_id,etime):
         treeselection   = treeview.get_selection()
-        model, iter     = treeselection.get_selected()
+        model, paths     = treeselection.get_selected_rows()
-        path            = model.get_path(iter)
+        if paths:    
-    
+            self.data_tree.drag_data_get(paths[0], selection)
-        self.data_tree.drag_data_get(path, selection)
 
 
     def add_project(self, project):
@@ -51,17 +58,43 @@ class NavigatorView (gtk.TreeView):
         self.set_model(project.data_tree)
         self.data_tree.connect('row-changed',self.row_changed_handler)
     
-    def cursor_changed_handler(self, widget):
+    def is_selectable(self,path):
-        selection = widget.get_selection()
+        if self.data_tree:
-        model, tree_iter = selection.get_selected()
+            obj = self.data_tree.get_value(self.data_tree.get_iter(path),2)
-        obj = self.data_tree.get_value(tree_iter, 2)
+            if not obj:
+                return False
+            if not isinstance(obj, dataset.Dataset):
+                return False
+        return True
 
-        if isinstance(obj, dataset.Dataset):
+    # selection changed, setting current_data ojbects
+    def cursor_changed_handler(self, widget):
+        
+        
+
+        selection = widget.get_selection()
+        model, paths = selection.get_selected_rows()
+        
+        objs = [self.data_tree.get_value(self.data_tree.get_iter(path),2) for path in paths]
+        
+        if objs and isinstance(objs[0], dataset.Dataset):
             logger.log('debug', 'Selecting dataset')
-            self.project.set_current_data(obj)
+            self.project.set_current_data(objs)
-        else: 
+
-            t = type(obj)
+
-            logger.log('debug', 'Selected datatype was %s. Don\'t know what to do.' % t)
+        # current object hasn't been added to selection yet, so we're adding it in
+        cur_path, column = widget.get_cursor()
+
+        obj  = model.get_value(model.get_iter(cur_path),2)
+        objs = [model.get_value(model.get_iter(path), 2) for path in paths]
+
+        if (not obj in objs) and isinstance(obj, dataset.Dataset):
+            objs += obj
+
+        if objs: 
+            if isinstance(objs[0], dataset.Dataset):
+                logger.log('debug', 'Selecting dataset')
+                self.project.set_current_data(objs)
 
     # TreeView changed. Set correct focus and colours
     def row_changed_handler(self, treestore, pos, iter):
@@ -75,7 +108,7 @@ class NavigatorView (gtk.TreeView):
 
         if isinstance(obj,dataset.Dataset):
             self.set_cursor(pos)
-  
+            self.grab_focus()
         
     def display_data_info(self, data):
         dims = zip(data.get_dim_names(), data.shape)

system/workflow.py

@@ -102,6 +102,7 @@ class Stage:
         self.functions.append(fun)
         self.functions_by_id[fun.id] = fun
 
+
 class Function:
     """A Function object encapsulates a function on a data set.
 

workflows/affy_workflow.py

@@ -73,6 +73,8 @@ class DatasetSaveFunction(workflow.Function):
         if not data:
             logger.log("notice", "No data to save.")
             return
+        else:
+            data = data[0]
 
         chooser = gtk.FileChooserDialog(title="Save pickled data...", parent=None,
                                         action=gtk.FILE_CHOOSER_ACTION_SAVE,
@@ -101,7 +103,7 @@ class CelFileImportFunction(workflow.Function):
     def __init__(self):
         workflow.Function.__init__(self, 'cel_import', 'Import Affy')
 
-    def run(self, data):
+    def run(self, (data,)):
         import rpy
         chooser = gtk.FileChooserDialog(title="Select cel files...", parent=None,
                                         action=gtk.FILE_CHOOSER_ACTION_OPEN,
@@ -150,7 +152,7 @@ class PCAFunction(workflow.Function):
         workflow.Function.__init__(self, 'pca', 'PCA')
         self._workflow = wf
 
-    def run(self, data):
+    def run(self, (data,)):
         import rpy
         
         dim_2, dim_1 = data.get_dim_names()

workflows/go_workflow.py

@@ -81,7 +81,7 @@ class GODistanceFunction(workflow.Function):
         workflow.Function.__init__(self, 'go_diatance', 'GO Distances')
         self.output = None
 
-    def run(self, data):
+    def run(self, (data,)):
         logger.log('debug', 'datatype: %s' % type(data))
         if not type(data) == Annotations:
             return None
@@ -108,7 +108,7 @@ class DatasetLog(workflow.Function):
     def __init__(self):
         workflow.Function.__init__(self, 'log', 'Log')
 
-    def run(self, data):
+    def run(self, (data,)):
         logger.log('notice', 'Taking the log of dataset %s' % data.get_name())
         d = data.asarray()
         d = log(d)
@@ -151,7 +151,8 @@ class DatasetSaveFunction(workflow.Function):
         if not data:
             logger.log("notice", "No data to save.")
             return
-
+        else:
+            data = data[0]
         chooser = gtk.FileChooserDialog(title="Save pickled data...", parent=None,
                                         action=gtk.FILE_CHOOSER_ACTION_SAVE,
                                         buttons=(gtk.STOCK_CANCEL, gtk.RESPONSE_CANCEL,
@@ -179,7 +180,7 @@ class CelFileImportFunction(workflow.Function):
     def __init__(self):
         workflow.Function.__init__(self, 'cel_import', 'Import Affy')
 
-    def run(self, data):
+    def run(self, (data,)):
         import rpy
         chooser = gtk.FileChooserDialog(title="Select cel files...", parent=None,
                                         action=gtk.FILE_CHOOSER_ACTION_OPEN,
@@ -228,7 +229,7 @@ class PCAFunction(workflow.Function):
         workflow.Function.__init__(self, 'pca', 'PCA')
         self._workflow = wf
 
-    def run(self, data):
+    def run(self, (data,)):
         import rpy
         
         dim_2, dim_1 = data.get_dim_names()

workflows/pca_workflow.py

@@ -49,7 +49,7 @@ class LoadAnnotationsFunction(Function):
             logger.log('notice', 'Reading file: %s' % dialog.get_filename())
             self.load_affy_file(dialog.get_filename())
 
-    def run(self, data):
+    def run(self, (data,)):
         btns = ('Open', gtk.RESPONSE_OK, \
                 'Cancel', gtk.RESPONSE_CANCEL)
         dialog = gtk.FileChooserDialog('Open Affy Annotation File',
@@ -81,7 +81,7 @@ class PCAFunction(Function):
         self.output = None
         self.workflow = workflow
         
-    def run(self, data):
+    def run(self, (data,)):
         logger.log('debug', 'datatype: %s' % type(data))
         if not isinstance(data,dataset.Dataset):
             return None
@@ -226,7 +226,7 @@ class LoadMoothaData(Function):
     def __init__(self):
         Function.__init__(self, 'load', 'Load diabetes data')
 
-    def run(self,data):
+    def run(self,(data,)):
         data_file = open('full_data.pickle','r')
         data = pickle.load(data_file)
         data_file.close()
@@ -250,7 +250,7 @@ class Log2Function(Function):
     def __init__(self):
         Function.__init__(self, 'log', 'Log2')
 
-    def run(self,data):
+    def run(self,(data,)):
         x = log2(data._array)
         #pull out identifiers
         ids = []