Define separate applications for plotter, ud editor, periodic table

Relocated several packages

MDANSE/Framework/Handlers/ConsoleHandler.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Apr 14, 2015
+
+:author: Eric C. Pellegrini
+'''
+
+import logging
+
+import wx
+
+from MDANSE.Framework.Handlers.IHandler import IHandler
+from MDANSE.Logging.Formatters import Formatter
+  
+class ConsoleHandler(IHandler, logging.Handler):
+    """Sets up a GUI handler for the MDANSE logger.
+    
+    Emits the logging message to the MDANSE GUI console.
+
+    @note: inherits from logging.Handler class that sets a generic handler.
+    """
+    
+    type = "console"
+    
+    COLORS = {'DEBUG'    : wx.GREEN,
+              'INFO'     : wx.BLACK,
+              'WARNING'  : wx.BLUE,
+              'ERROR'    : wx.RED,
+              'CRITICAL' : wx.RED,
+              'FATAL'    : wx.RED}
+    
+    def __init__(self, window):
+        '''
+        The constructor.
+        
+        @param console: the parent widget for the textctrl.
+        @type console: wx widget
+        '''
+
+        logging.Handler.__init__(self)
+        
+        self.setFormatter(Formatter())
+         
+        self._window = window
+
+        # Creates a wx text attribute.        
+        self.style = wx.TextAttr()
+
+        # Set its font to a non proporiotnal font.
+        self.style.SetFont(wx.Font(10, wx.FONTFAMILY_MODERN, wx.NORMAL, wx.NORMAL))
+        
+            
+    def emit(self, record):
+        """
+        Send the log message to a wx.TextCtrl widget.
+        
+        @param record: the log message.
+        @type record: logging.LogRecord        
+        """
+        
+        self.style.SetTextColour(ConsoleHandler.COLORS.get(record.levelname,wx.BLACK))
+                                    
+        # Set the the created text attribute as the default style for the text ctrl.                            
+        self._window.SetDefaultStyle(self.style)        
+        
+        # Append the log message to the text ctrl.
+        self._window.AppendText(self.format(record))
+
+        self._window.AppendText("\n")

MDANSE/Framework/Handlers/DialogHandler.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Apr 14, 2015
+
+:author: Eric C. Pellegrini
+'''
+
+import logging
+
+import wx
+
+from MDANSE.Framework.Handlers.IHandler import IHandler
+
+class DialogHandler(IHandler, logging.Handler):
+    
+    type = "dialog"
+    
+    ICONS = {"DEBUG"    : wx.ICON_INFORMATION,
+             "CRITICAL" : wx.ICON_ERROR,
+             "ERROR"    : wx.ICON_ERROR,
+             "INFO"     : wx.ICON_INFORMATION,
+             "WARNING"  : wx.ICON_WARNING,
+             }
+    
+    def emit(self, record):
+
+        icon = DialogHandler.ICONS[record.levelname]
+            
+        d = wx.MessageDialog(None, message=self.format(record), style=wx.OK|wx.STAY_ON_TOP|icon)
+
+        d.ShowModal()
+                
\ No newline at end of file

MDANSE/Framework/Plugins/AnimationPlugin.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Apr 14, 2015
+
+:author: Eric C. Pellegrini
+'''
+
+import wx
+import wx.aui as wxaui
+
+from MDANSE.Externals.pubsub import pub as Publisher
+
+from MDANSE.GUI.Icons import ICONS
+from MDANSE.Framework.Plugins.ComponentPlugin import ComponentPlugin
+
+class AnimationPlugin(ComponentPlugin):
+    
+    type = "animation"
+    
+    label = "Animation"
+    
+    ancestor = "molecular_viewer"
+        
+    def __init__(self, parent, *args, **kwargs):
+        
+        ComponentPlugin.__init__(self, parent, size=(-1,50), *args, **kwargs)
+                    
+    def build_panel(self):   
+ 
+        panel = wx.Panel(self, wx.ID_ANY, size=self.GetSize())
+ 
+        controlSizer = wx.BoxSizer(wx.HORIZONTAL)
+
+        firstButton = wx.BitmapButton(panel, wx.ID_ANY, ICONS["first",32,32])
+        self.playPause = wx.BitmapButton(panel, wx.ID_ANY, ICONS["play",32,32])
+        lastButton = wx.BitmapButton(panel, wx.ID_ANY, ICONS["last",32,32])
+        self.frameSlider = wx.Slider(panel,id=wx.ID_ANY, value=0, minValue=0, maxValue=1, style=wx.SL_HORIZONTAL)
+        self.frameEntry = wx.TextCtrl(panel,id=wx.ID_ANY,value="0", size=(60,20), style= wx.SL_HORIZONTAL|wx.TE_PROCESS_ENTER)        
+        speedBitmap = wx.StaticBitmap(panel,-1, ICONS["clock",42,42])
+        self.speedSlider = wx.Slider(panel,id=wx.ID_ANY,value=0,minValue=0,maxValue=1,style=wx.SL_HORIZONTAL)
+        self.speedSlider.SetRange(0,self._parent.max_laps)
+        speed = self._parent.max_laps - self._parent.timer_interval
+        self.speedSlider.SetValue(speed)
+        self.speedEntry = wx.TextCtrl(panel,id=wx.ID_ANY,value=str(speed), size=(60,20), style= wx.SL_HORIZONTAL|wx.TE_PROCESS_ENTER)
+
+        controlSizer.Add(firstButton, 0, wx.LEFT|wx.ALIGN_CENTER_VERTICAL,5)
+        controlSizer.Add(self.playPause, 0,  wx.ALIGN_CENTER_VERTICAL)
+        controlSizer.Add(lastButton, 0, wx.ALIGN_CENTER_VERTICAL)
+        controlSizer.Add((5, -1), 0, wx.ALIGN_RIGHT)
+
+        controlSizer.Add(self.frameSlider, 3, wx.ALIGN_CENTER_VERTICAL)
+        controlSizer.Add(self.frameEntry, 0, wx.ALIGN_CENTER_VERTICAL)
+        controlSizer.Add((5, -1), 0, wx.ALIGN_RIGHT)
+
+        controlSizer.Add(speedBitmap, 0 , wx.ALIGN_CENTER_VERTICAL) 
+        controlSizer.Add((5, -1), 0, wx.ALIGN_RIGHT)
+
+        controlSizer.Add(self.speedSlider, 1, wx.ALL|wx.ALIGN_CENTER_VERTICAL) 
+        controlSizer.Add(self.speedEntry, 0, wx.ALL|wx.ALIGN_CENTER_VERTICAL,5) 
+                
+        panel.SetSizer(controlSizer)
+        controlSizer.Fit(panel)        
+        panel.Layout()
+                
+        self._mgr.AddPane(panel, wxaui.AuiPaneInfo().Center().Dock().CaptionVisible(False).CloseButton(False).MinSize(self.GetSize()))
+
+        self._mgr.Update()
+
+        self.Bind(wx.EVT_SCROLL, self.on_frame_sliding, self.frameSlider)
+        self.Bind(wx.EVT_TEXT_ENTER, self.on_set_frame, self.frameEntry)
+        
+        self.Bind(wx.EVT_SLIDER, self.on_change_frame_rate, self.speedSlider)
+        self.Bind(wx.EVT_TEXT_ENTER, self.on_set_speed, self.speedEntry)
+        
+        self.Bind(wx.EVT_BUTTON, self.on_start_stop_animation, self.playPause)
+        self.Bind(wx.EVT_BUTTON, self.on_goto_first_frame, firstButton)
+        self.Bind(wx.EVT_BUTTON, self.on_goto_last_frame, lastButton)
+                
+        Publisher.subscribe(self.on_update_animation_icon, ('msg_animate_trajectory'))       
+        Publisher.subscribe(self.on_set_up_frame_slider, ('msg_load_trajectory'))       
+        Publisher.subscribe(self.on_timer, ('msg_timer'))       
+                
+    def plug(self):
+        self._parent._mgr.GetPane(self).LeftDockable(False).RightDockable(False).Dock().Bottom().CloseButton(True)
+        
+        self._parent._mgr.Update()        
+
+    def on_change_frame_rate(self, event=None):
+
+        laps = self.speedSlider.GetValue()
+        
+        self._parent.change_frame_rate(laps)
+        
+        self.speedEntry.SetValue(str(self.speedSlider.GetValue()))        
+
+    def on_frame_sliding(self, event=None):
+        
+        frame = self.frameSlider.GetValue()
+        
+        self._parent.set_frame(frame)
+        
+        frame = self._parent.current_frame
+        
+        self.frameEntry.SetValue(str(frame))
+        self.frameSlider.SetValue(frame)
+        
+    def on_goto_first_frame(self, event=None):
+        
+        self._parent.goto_first_frame()
+
+        self.frameEntry.SetValue(str(0))
+        self.frameSlider.SetValue(0)
+
+    def on_goto_last_frame(self, event=None):
+
+        self._parent.goto_last_frame()
+
+        self.frameEntry.SetValue(str(self._parent.n_frames-1))
+        self.frameSlider.SetValue(self._parent.n_frames-1)
+
+    def on_set_speed(self, event=None):
+
+        self.speedSlider.SetValue(int(self.speedEntry.GetValue()))        
+        self._parent.change_frame_rate()
+                
+    def on_timer(self, plugin):
+        
+        if not plugin.is_parent(self):
+            return
+        
+        frame = plugin.current_frame
+        
+        self.frameEntry.SetValue(str(frame))
+        self.frameSlider.SetValue(int(frame))
+        
+    def on_set_frame(self, event=None):
+        
+        frame = int(self.frameEntry.GetValue())
+        
+        self._parent.set_configuration(frame)
+        
+        self.frameSlider.SetValue(frame)
+        
+    def on_start_stop_animation(self, event=None):
+        
+        self._parent.start_stop_animation()
+
+
+    def on_update_animation_icon(self, plugin):
+
+        if not plugin.is_parent(self):
+            return
+                
+        if plugin.animation_loop:
+            self.playPause.SetBitmapLabel(ICONS["pause",32,32])
+        else:
+            self.playPause.SetBitmapLabel(ICONS["play",32,32])
+
+    def on_set_up_frame_slider(self, plugin):
+        
+        if not plugin.is_parent(self):
+            return
+
+        self.frameSlider.SetRange(0,self._parent.n_frames-1)    
\ No newline at end of file

MDANSE/Framework/Plugins/ComponentPlugin.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Mar 30, 2015
+
+:author: Gael Goret, Eric C. Pellegrini
+'''
+
+from MDANSE.Framework.Plugins.IPlugin import IPlugin 
+             
+class ComponentPlugin(IPlugin):
+    
+    type = None
+
+    @property
+    def datakey(self):
+        return self.parent.datakey
+
+    @property
+    def dataproxy(self):
+        return self.parent.dataproxy
+    
+    @property
+    def dataplugin(self):
+        return self.parent.dataplugin
+

MDANSE/Framework/Plugins/DataInfoPlugin.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Apr 14, 2015
+
+:author: Eric C. Pellegrini
+'''
+
+import wx
+import wx.aui as aui
+
+from MDANSE.Framework.Plugins.ComponentPlugin import ComponentPlugin
+
+class DataInfoPlugin(ComponentPlugin):
+    
+    type = "data_info"
+    
+    label = "Data info"
+    
+    ancestor = "data"
+    
+    def __init__(self, parent, *args, **kwargs):
+        
+        ComponentPlugin.__init__(self, parent, size=(-1,50), *args, **kwargs)
+                           
+                                                  
+    def build_panel(self):
+        
+        panel = wx.Panel(self, wx.ID_ANY, size=self.GetSize())
+ 
+        sizer = wx.BoxSizer(wx.HORIZONTAL)
+
+        self._info = wx.TextCtrl(panel, wx.ID_ANY, style=wx.TE_MULTILINE|wx.TE_READONLY)
+
+        sizer.Add(self._info, 1, wx.ALL|wx.EXPAND, 5)
+                
+        panel.SetSizer(sizer)
+        sizer.Fit(panel)        
+        panel.Layout()
+                
+        self._mgr.AddPane(panel, aui.AuiPaneInfo().Center().Dock().CaptionVisible(False).CloseButton(False).MinSize(self.GetSize()))
+
+        self._mgr.Update()
+
+
+    def on_close(self, event):
+        
+        self.parent.mgr.ClosePane(self.parent.mgr.GetPane(self))
+
+
+    def plug(self):
+        
+        self._info.SetValue(self.dataproxy.info())
+        
+        self._parent._mgr.GetPane(self).Float().CloseButton(True).BestSize((600,600))            
+        self._parent._mgr.Update()
+

MDANSE/Framework/Plugins/DataPlugin.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Mar 30, 2015
+
+:author: Gael Goret, Eric C. Pellegrini
+'''
+
+import wx
+import wx.aui as wxaui
+
+from MDANSE import REGISTRY
+from MDANSE.Externals.pubsub import pub
+
+from MDANSE.GUI import DATA_CONTROLLER
+from MDANSE.Framework.Plugins.IPlugin import IPlugin, plugin_parent 
+
+def get_data_plugin(window):
+                               
+    if isinstance(window,DataPlugin):
+        return window
+     
+    else:
+        
+        try:                
+            return get_data_plugin(window.Parent)
+        except AttributeError:
+            return None
+                    
+class DataPlugin(IPlugin):
+    
+    type = 'data'
+        
+    ancestor = None
+    
+    def __init__(self, parent, datakey, **kwargs):
+        
+        IPlugin.__init__(self, parent, wx.ID_ANY, **kwargs)
+
+        self._datakey = datakey
+        
+        self._dataProxy = DATA_CONTROLLER[self._datakey]
+                                                
+        self._mgr.Bind(wx.EVT_CHILD_FOCUS, self.on_changing_pane)
+        
+        self._currentWindow = self
+         
+    def build_panel(self):
+        pass
+
+    def plug(self, standalone=False):
+        pass
+
+    @property
+    def currentWindow(self):
+        return self._currentWindow
+
+    @property
+    def datakey(self):
+        return self._datakey
+
+    @datakey.setter
+    def datakey(self, key):
+        self._datakey = key
+
+    @property
+    def dataproxy(self):
+        
+        return self._dataProxy
+    
+    @property
+    def dataplugin(self):
+        return self
+    
+    def drop(self, pluginName):
+                                        
+        # If no plugin match the name of the dropped plugin, do nothing.
+        plugin = REGISTRY["plugin"].get(pluginName,None)        
+        if plugin is None:
+            return
+        
+        if not issubclass(self.__class__,REGISTRY['plugin'][plugin.ancestor]):
+            return
+                                                    
+        plugin = plugin(self)
+
+        self._mgr.AddPane(plugin, wxaui.AuiPaneInfo().Caption(getattr(plugin, "label", pluginName)))
+
+        self._mgr.Update()
+        
+        plugin.plug()
+        
+        plugin.SetFocus()
+        
+        self._currentWindow = plugin
+    
+    def on_changing_pane(self, event):
+        
+        window = plugin_parent(event.GetWindow())
+                
+        if window is None:
+            return
+        
+        self._currentWindow = window
+                                    
+        pub.sendMessage(('msg_set_plugins_tree'), message=window)

MDANSE/Framework/Plugins/IPlugin.py

+#MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+#------------------------------------------------------------------------------------------
+#Copyright (C)
+#2015- Eric C. Pellegrini Institut Laue-Langevin
+#BP 156
+#6, rue Jules Horowitz
+#38042 Grenoble Cedex 9
+#France
+#pellegrini[at]ill.fr
+#goret[at]ill.fr
+#aoun[at]ill.fr
+#
+#This library is free software; you can redistribute it and/or
+#modify it under the terms of the GNU Lesser General Public
+#License as published by the Free Software Foundation; either
+#version 2.1 of the License, or (at your option) any later version.
+#
+#This library is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#Lesser General Public License for more details.
+#
+#You should have received a copy of the GNU Lesser General Public
+#License along with this library; if not, write to the Free Software
+#Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+
+''' 
+Created on Mar 30, 2015
+
+:author: Gael Goret, Eric C. Pellegrini
+'''
+
+import abc
+import cPickle
+
+import wx
+import wx.aui as aui
+
+from MDANSE import REGISTRY
+
+def plugin_parent(window):
+                          
+    if window == window.TopLevelParent:
+        return None
+     
+    if isinstance(window,IPlugin):
+        return window
+