Merge branch 'develop' into filterOptions

QtPyLoT.py

@@ -41,6 +41,8 @@ from PySide.QtGui import QMainWindow, QInputDialog, QIcon, QFileDialog, \
     QTreeView, QComboBox, QTabWidget, QPushButton, QGridLayout
 import numpy as np
 from obspy import UTCDateTime
+from obspy.core.event import Magnitude
+from obspy.core.util import AttribDict
 
 try:
     import pyqtgraph as pg
@@ -70,6 +72,7 @@ from pylot.core.util.connection import checkurl
 from pylot.core.util.dataprocessing import read_metadata, restitute_data
 from pylot.core.util.utils import fnConstructor, getLogin, \
     full_range
+from pylot.core.util.event import Event
 from pylot.core.io.location import create_creation_info, create_event
 from pylot.core.util.widgets import FilterOptionsDialog, NewEventDlg, \
     WaveformWidget, WaveformWidgetPG, PropertiesDlg, HelpForm, createAction, PickDlg, \
@@ -143,6 +146,7 @@ class MainWindow(QMainWindow):
             self.data = Data(self, lastEvent)
         else:
             self.data = Data(self)
+            self.data._new = False
         self.autodata = Data(self)
 
         if settings.value("user/FullName", None) is None:
@@ -166,14 +170,19 @@ class MainWindow(QMainWindow):
             settings.setValue("data/dataRoot", dirname)
         if settings.value('compclass', None) is None:
             settings.setValue('compclass', SetChannelComponents())
+        if settings.value('output/Format', None) is None:
+            outformat = QInputDialog.getText(self,
+                                             "Enter output format (*.xml, *.cnv, *.obs):",
+                                             "Format")
+            settings.setValue("output/Format", outformat)
         settings.sync()
 
         # setup UI
         self.setupUi()
 
         self.filteroptions = {}
-        self.picks = {}
-        self.autopicks = {}
+        self.pylot_picks = {}
+        self.pylot_autopicks = {}
         self.loc = False
 
     def setupUi(self):
@@ -243,25 +252,42 @@ class MainWindow(QMainWindow):
         self.tabs.setCurrentIndex(0)
         
         quitIcon = self.style().standardIcon(QStyle.SP_MediaStop)
-        saveIcon = self.style().standardIcon(QStyle.SP_DriveHDIcon)
-        openIcon = self.style().standardIcon(QStyle.SP_DirOpenIcon)
         helpIcon = self.style().standardIcon(QStyle.SP_DialogHelpButton)
-        newIcon = self.style().standardIcon(QStyle.SP_FileIcon)
         newFolderIcon = self.style().standardIcon(QStyle.SP_FileDialogNewFolder)
         
         # create resource icons
-        locactionicon = QIcon()
-        locactionicon.addPixmap(QPixmap(':/icons/locactionicon.png'))
-        manupicksicon = QIcon()
-        manupicksicon.addPixmap(QPixmap(':/icons/manupicsicon.png'))
-        autopicksicon = QIcon()
-        autopicksicon.addPixmap(QPixmap(':/icons/autopicsicon.png'))
+        newIcon = QIcon()
+        newIcon.addPixmap(QPixmap(':/icons/newfile.png'))
+        addIcon = QIcon()
+        addIcon.addPixmap(QPixmap(':/icons/add.png'))
+        saveIcon = QIcon()
+        saveIcon.addPixmap(QPixmap(':/icons/save.png'))
+        saveasIcon = QIcon()
+        saveasIcon.addPixmap(QPixmap(':/icons/saveas.png'))
+        saveProjectIcon = QIcon()
+        saveProjectIcon.addPixmap(QPixmap(':/icons/saveproject.png'))
+        saveProjectAsIcon = QIcon()
+        saveProjectAsIcon.addPixmap(QPixmap(':/icons/saveprojectas.png'))
+        openIcon = QIcon()
+        openIcon.addPixmap(QPixmap(':/icons/openfile.png'))
+        openProjectIcon = QIcon()
+        openProjectIcon.addPixmap(QPixmap(':/icons/openproject.png'))
+        openLocIcon = QIcon()
+        openLocIcon.addPixmap(QPixmap(':/icons/openloc.png'))
+        openEventIcon = QIcon()
+        openEventIcon.addPixmap(QPixmap(':/icons/openpick.png'))
+        openEventsIcon = QIcon()
+        openEventsIcon.addPixmap(QPixmap(':/icons/openpicks.png'))
+        saveEventsIcon = QIcon()
+        saveEventsIcon.addPixmap(QPixmap(':/icons/savepicks.png'))
+        prefIcon = QIcon()
+        prefIcon.addPixmap(QPixmap(':/icons/preferences.png'))
+        paraIcon = QIcon()
+        paraIcon.addPixmap(QPixmap(':/icons/parameter.png'))
         self.autopicksicon_small = QIcon()
         self.autopicksicon_small.addPixmap(QPixmap(':/icons/autopicksicon_small.png'))
         self.manupicksicon_small = QIcon()
         self.manupicksicon_small.addPixmap(QPixmap(':/icons/manupicksicon_small.png'))            
-        saveProjectIcon = QIcon()
-        saveProjectIcon.addPixmap(QPixmap(':/icons/Library-icon.png'))
         loadpiloticon = QIcon()
         loadpiloticon.addPixmap(QPixmap(':/icons/Matlab_PILOT_icon.png'))
         p_icon = QIcon()
@@ -279,7 +305,7 @@ class MainWindow(QMainWindow):
         e_icon = QIcon()
         e_icon.addPixmap(QPixmap(':/icons/key_E.png'))
         autotune_icon = QIcon()
-        autotune_icon.addPixmap(QPixmap(':/icons/autopick_button.png'))
+        autotune_icon.addPixmap(QPixmap(':/icons/tune.png'))
         autopylot_icon = QIcon()
         autopylot_icon.addPixmap(QPixmap(':/icons/autopylot_button'))
         locate_icon = QIcon()
@@ -293,7 +319,7 @@ class MainWindow(QMainWindow):
         self.openProjectAction = self.createAction(self, "&Open project ...",
                                                    self.loadProject,
                                                    QKeySequence.Open,
-                                                   openIcon,
+                                                   openProjectIcon,
                                                    "Load project file")
         self.saveProjectAction = self.createAction(self, "&Save project ...",
                                                    self.saveProject,
@@ -304,34 +330,34 @@ class MainWindow(QMainWindow):
         self.saveProjectAsAction = self.createAction(self, "Save project as ...",
                                                      self.saveProjectAs,
                                                      QKeySequence.SaveAs,
-                                                     saveProjectIcon,
+                                                     saveProjectAsIcon,
                                                      "Save project file as...")
         self.saveProjectAsAction.setEnabled(False)
         # newEventAction = self.createAction(self, "&New event ...",
         #                                    self.createNewEvent,
         #                                    QKeySequence.New, newIcon,
         #                                    "Create a new event.")
-        self.openmanualpicksaction = self.createAction(self, "Load &manual picks ...",
+        self.openmanualpicksaction = self.createAction(self, "Load event ...",
                                                        self.load_data,
                                                        "Ctrl+M",
-                                                       manupicksicon,
-                                                       "Load manual picks for "
+                                                       openEventIcon,
+                                                       "Load event information for "
                                                        "the displayed event.")
         self.openmanualpicksaction.setEnabled(False)
         self.openmanualpicksaction.setData(None)
 
-        self.openautopicksaction = self.createAction(self, "Load &automatic picks ... ",
-                                                     self.load_autopicks,
+        self.openautopicksaction = self.createAction(self, "Load event information &automatically ... ",
+                                                     self.load_multiple_data,
                                                      "Ctrl+A",
-                                                     autopicksicon,
-                                                     "Load automatic picks "
-                                                     "for the displayed event.")
+                                                     openEventsIcon,
+                                                     "Load event data automatically "
+                                                     "for for all events.")
         self.openautopicksaction.setEnabled(False)
         self.openautopicksaction.setData(None)
 
         self.loadlocationaction = self.createAction(self, "Load &location ...",
                                                     self.load_loc, "Ctrl+L",
-                                                    locactionicon,
+                                                    openLocIcon,
                                                     "Load location information on "
                                                     "the displayed event.")
         self.loadlocationaction.setEnabled(False)
@@ -345,17 +371,17 @@ class MainWindow(QMainWindow):
 
         self.saveManualPicksAction = self.createAction(self, "Save &picks ...",
                                                        self.saveData, "Ctrl+P",
-                                                       saveIcon, "Save event pick data.")
+                                                       saveEventsIcon, "Save event pick data.")
         self.disableSaveManualPicksAction()
 
         self.addEventDataAction = self.createAction(self, "Add &events ...",
                                                     self.add_events,
-                                                    "Ctrl+E", newFolderIcon,
+                                                    "Ctrl+E", addIcon,
                                                     "Add event data")
         prefsEventAction = self.createAction(self, "Preferences",
                                              self.PyLoTprefs,
                                              QKeySequence.Preferences,
-                                             QIcon(None),
+                                             prefIcon,
                                              "Edit PyLoT app preferences.")
         quitAction = self.createAction(self, "&Quit",
                                        QCoreApplication.instance().quit,
@@ -363,7 +389,7 @@ class MainWindow(QMainWindow):
                                        "Close event and quit PyLoT")
         self.parameterAction = self.createAction(self, "Parameter",
                                                  self.setParameter,
-                                                 None, QIcon(None),
+                                                 None, paraIcon,
                                                  "Modify Parameter")
         self.filterAction = self.createAction(self, "&Filter ...",
                                               self.filterWaveformData,
@@ -373,7 +399,7 @@ class MainWindow(QMainWindow):
                                               desired seismic phase.""", True)
         filterEditAction = self.createAction(self, "&Filter parameter ...",
                                              self.adjustFilterOptions,
-                                             "Alt+F", QIcon(None),
+                                             "Alt+F", filter_icon,
                                              """Adjust filter parameters.""")
         self.selectPAction = self.createAction(self, "&P", self.alterPhase,
                                                "Alt+P",
@@ -422,11 +448,15 @@ class MainWindow(QMainWindow):
         fileToolBar = self.addToolBar("FileTools")
         fileToolActions = (self.newProjectAction, self.addEventDataAction,
                            self.openProjectAction, self.saveProjectAction,
-                           self.saveProjectAsAction, self.openmanualpicksaction,
-                           self.openautopicksaction, self.loadlocationaction,
-                           self.loadpilotevent, self.saveManualPicksAction)
+                           self.saveProjectAsAction)
         fileToolBar.setObjectName("FileTools")
         self.addActions(fileToolBar, fileToolActions)
+        eventToolActions = (self.openmanualpicksaction, self.openautopicksaction,
+                            self.saveManualPicksAction, self.loadlocationaction,
+                            self.loadpilotevent)
+        eventToolBar = self.addToolBar("EventTools")
+        eventToolBar.setObjectName("EventTools")
+        self.addActions(eventToolBar, eventToolActions)
 
         # phaseToolBar = self.addToolBar("PhaseTools")
         # phaseToolActions = (self.selectPAction, self.selectSAction)
@@ -637,23 +667,66 @@ class MainWindow(QMainWindow):
         fname_dict = dict(phasfn=fn_phases, locfn=fn_loc)
         self.load_data(fname_dict, type=type)
 
-    def load_data(self, fname=None, type='manual', loc=False):
+    def load_multiple_data(self, type='manual'):
         if not self.okToContinue():
             return
+        refresh=False
+        events = self.project.eventlist
+        fext = '.xml'
+        for event in events:
+            path = event.path
+            eventname = path.split('/')[-1]
+            filename = os.path.join(path, 'PyLoT_'+eventname+fext)
+            if os.path.isfile(filename):
+                self.load_data(filename, draw=False, event=event, overwrite=True)
+                refresh=True
+        if not refresh:
+            return
+        if self.get_current_event().pylot_picks:
+            self.refreshEvents()
+        self.setDirty(True)
+
+    def load_data(self, fname=None, type='manual', loc=False, draw=True, event=None, overwrite=False):
+        if not overwrite:
+            if not self.okToContinue():
+                return
         if fname is None:
             action = self.sender()
             if isinstance(action, QAction):
                 fname = self.filename_from_action(action)
+                if not fname:
+                    return
         self.set_fname(fname, type)
-        data = dict(auto=self.autodata, manual=self.data)
-        data[type] += Data(self, evtdata=fname)
+        #data = dict(auto=self.autodata, manual=self.data)
+        if not event:
+            event = self.get_current_event()
+        data = Data(self, event)
+        try:
+            data_new = Data(self, evtdata=fname)
+            data += data_new
+        except ValueError:
+            qmb = QMessageBox(self, icon=QMessageBox.Question,
+                              text='Warning: Missmatch in event identifiers {} and {}. Continue?'.format(
+                                  data_new.get_evt_data().resource_id,
+                                  data.get_evt_data().resource_id),
+                              windowTitle='PyLoT - Load data warning')
+            qmb.setStandardButtons(QMessageBox.Yes | QMessageBox.No)
+            qmb.setDefaultButton(QMessageBox.No)
+            ret = qmb.exec_()
+            if ret == qmb.Yes:
+                data_new.setNew()
+                data += data_new
+            else:
+                return
+
+        self.data = data
+        print('Loading {} picks from file {}.'.format(type, fname))
         if not loc:
-            self.updatePicks(type=type)
-        if self.get_current_event().picks:
-            self.plotWaveformDataThread()
-        self.drawPicks(picktype=type)
-        self.draw()
-        self.setDirty(True)
+            self.updatePicks(type=type, event=event)
+        if draw:
+            if self.get_current_event().pylot_picks:
+                self.refreshEvents()
+            self.setDirty(True)
 
     def add_recentfile(self, event):
         self.recentfiles.insert(0, event)
@@ -676,8 +749,8 @@ class MainWindow(QMainWindow):
     def getWFFnames(self):
         try:
             evt = self.get_data().get_evt_data()
-            if evt.picks:
-                for pick in evt.picks:
+            if evt.pylot_picks:
+                for pick in evt.pylot_picks:
                     try:
                         if pick.waveform_id is not None:
                             fname = pick.waveform_id.getSEEDstring()
@@ -728,8 +801,8 @@ class MainWindow(QMainWindow):
         '''
         if not eventbox:
             eventbox = self.eventBox
-        index = eventbox.currentIndex()
-        return eventbox.itemData(index)
+        path = eventbox.currentText()
+        return self.project.getEventFromPath(path)
 
     def get_current_event_path(self, eventbox=None):
         '''
@@ -778,7 +851,7 @@ class MainWindow(QMainWindow):
             dirs = {
                 'database': path.split('/')[-2],
                 'datapath': path.split('/')[-3],
-                'rootpath': os.path.join(*path.split('/')[:-3])
+                'rootpath': '/'+os.path.join(*path.split('/')[:-3])
                     }
         except Exception as e:
             dirs = {
@@ -788,6 +861,10 @@ class MainWindow(QMainWindow):
                     }
             print('Warning: Could not automatically init folder structure. ({})'.format(e))
             
+        settings = QSettings()
+        settings.setValue("data/dataRoot", dirs['rootpath'])
+        settings.sync()
+        
         if not self.project.eventlist:
             #init parameter object
             self.setParameter(show=False)
@@ -880,10 +957,10 @@ class MainWindow(QMainWindow):
             event_path = event.path
             event_npicks = 0
             event_nautopicks = 0
-            if event.picks:
-                event_npicks = len(event.picks)
-            if event.autopicks:
-                event_nautopicks = len(event.autopicks)
+            if event.pylot_picks:
+                event_npicks = len(event.pylot_picks)
+            if event.pylot_autopicks:
+                event_nautopicks = len(event.pylot_autopicks)
             event_ref = event.isRefEvent()
             event_test = event.isTestEvent()
 
@@ -929,7 +1006,8 @@ class MainWindow(QMainWindow):
                            '{} unequal {}.'
                            .format(event.path, self.eventBox.itemText(id)))
                 raise ValueError(message)
-            eventBox.setItemData(id, event)
+            #not working with obspy events
+            #eventBox.setItemData(id, event)
         eventBox.setCurrentIndex(index)
         self.refreshRefTestButtons()
 
@@ -940,7 +1018,7 @@ class MainWindow(QMainWindow):
             caption = "Open an event file"
             fname = QFileDialog().getOpenFileName(self, caption=caption,
                                                   filter=filt,
-                                                  dir=self.getRoot())
+                                                  dir=self.get_current_event_path())
             fname = fname[0]
         else:
             fname = str(action.data().toString())
@@ -959,27 +1037,42 @@ class MainWindow(QMainWindow):
             self.set_fname(self.get_data().getEventFileName(), type)
         return self.get_fnames(type)
 
-    def saveData(self):
+    def saveData(self, directory=None, outformat=None):
 
-        def getSavePath(e):
+        def getSavePath(e, directory, outformat):
             print('warning: {0}'.format(e))
-            directory = self.get_current_event_path()
+            if not directory:
+               dlgflag = 1
+               directory = self.get_current_event_path()
+            else:
+               dlgflag = 0
             eventname = self.get_current_event_name()
-            filename = 'picks_'+eventname
+            filename = 'PyLoT_'+eventname
             outpath = os.path.join(directory, filename)
-            file_filter = "QuakeML file (*.xml);;VELEST observation file " \
-                          "format (*.cnv);;NonLinLoc observation file (*.obs)"
             title = 'Save pick data ...'
-            fname, selected_filter = QFileDialog.getSaveFileName(self,
-                                                                 title,
-                                                                 outpath,
-                                                                 file_filter)
+            if not outformat: 
+               outformat = settings.value('output/Format')
+               outformat = outformat[0:4]
+            else:
+               selected_filter = "NonLinLoc observation file (*.obs)"
+               fname = outpath
+            if outformat == '.obs':
+               file_filter = "NonLinLoc observation file (*.obs)"
+            elif outformat == '.cnv':
+               file_filter = "VELEST observation file format (*.cnv)"
+            elif outformat == '.xml':
+               file_filter = "QuakeML file (*.xml)"
+
+            if dlgflag == 1:
+               fname, selected_filter = QFileDialog.getSaveFileName(self,
+                                                                    title,
+                                                                    outpath,
+                                                                    file_filter)
 
             fbasename, exform = os.path.splitext(fname)
 
             if not exform and selected_filter or not exform in OUTPUTFORMATS:
                 exform = selected_filter.split('*')[1][:-1]
-            if not exform in OUTPUTFORMATS:
                 return fname, exform
             return fbasename, exform
 
@@ -987,7 +1080,7 @@ class MainWindow(QMainWindow):
         fbasename = self.getEventFileName()
         exform = settings.value('data/exportFormat', 'QUAKEML')
         try:
-            self.get_data().applyEVTData(self.getPicks())
+            self.get_data().applyEVTData(self.get_current_event(), typ='event')#getPicks())
         except OverwriteError:
         #     msgBox = QMessageBox()
         #     msgBox.setText("Picks have been modified!")
@@ -1006,9 +1099,9 @@ class MainWindow(QMainWindow):
         try:
             self.get_data().exportEvent(fbasename, exform)
         except FormatError as e:
-            fbasename, exform = getSavePath(e)
+            fbasename, exform = getSavePath(e, directory, outformat)
         except AttributeError as e:
-            fbasename, exform = getSavePath(e)
+            fbasename, exform = getSavePath(e, directory, outformat)
 
         # catch all possible cases before going on
         if not fbasename:
@@ -1057,7 +1150,7 @@ class MainWindow(QMainWindow):
             return self.get_current_event().getPicks()
         if type == 'auto':
             return self.get_current_event().getAutopicks()
-        # rdict = dict(auto=self.autopicks, manual=self.picks)
+        # rdict = dict(auto=self.pylot_autopicks, manual=self.pylot_picks)
         # return rdict[type]
 
     def getPicksOnStation(self, station, type='manual'):
@@ -1131,7 +1224,7 @@ class MainWindow(QMainWindow):
         if event:
             self.ref_event_button.setChecked(event.isRefEvent())
             self.test_event_button.setChecked(event.isTestEvent())
-            self.enableRefTestButtons(bool(self.get_current_event().picks))
+            self.enableRefTestButtons(bool(self.get_current_event().pylot_picks))
             return
         self.ref_event_button.setChecked(False)
         self.test_event_button.setChecked(False)
@@ -1190,14 +1283,14 @@ class MainWindow(QMainWindow):
             if not event:
                 return
             # update picks saved in GUI mainwindow (to be changed in future!!) MP MP
-            if not event.picks:
-                self.picks = {}
+            if not event.pylot_picks:
+                self.pylot_picks = {}
             else:
-                self.picks = event.picks
-            if not event.autopicks:
-                self.autopicks = {}
+                self.pylot_picks = event.pylot_picks
+            if not event.pylot_autopicks:
+                self.pylot_autopicks = {}
             else:
-                self.autopicks = event.autopicks
+                self.pylot_autopicks = event.pylot_autopicks
         # if current tab is waveformPlot-tab and the data in this tab was not yet refreshed
         if self.tabs.currentIndex() == 0:
             if self._eventChanged[0]:
@@ -1343,12 +1436,13 @@ class MainWindow(QMainWindow):
         self.openautopicksaction.setEnabled(True)
         self.loadpilotevent.setEnabled(True)
         event = self.get_current_event()
-        if event.picks:
-            self.picks = event.picks
+        if event.pylot_picks:
+            self.pylot_picks = event.pylot_picks
             self.drawPicks(picktype='manual')
             self.enableSaveManualPicksAction()
-        if event.autopicks:
-            self.autopicks = event.autopicks
+            self.locateEvent.setEnabled(True)
+        if event.pylot_autopicks:
+            self.pylot_autopicks = event.pylot_autopicks
             self.drawPicks(picktype='auto')
             self.compare_action.setEnabled(True)
         self.draw()
@@ -1506,6 +1600,11 @@ class MainWindow(QMainWindow):
         if wfID in plot_dict.keys():
             return plot_dict[wfID][0]
 
+    def getNetworkName(self, wfID):
+        plot_dict = self.getPlotWidget().getPlotDict()
+        if wfID in plot_dict.keys():
+            return plot_dict[wfID][2]
+        
     def alterPhase(self):
         pass
 
@@ -1570,13 +1669,14 @@ class MainWindow(QMainWindow):
         
     def pickDialog(self, wfID, nextStation=False):
         station = self.getStationName(wfID)
+        network = self.getNetworkName(wfID)
         if not station:
             return
         self.update_status('picking on station {0}'.format(station))
         data = self.get_data().getWFData()
         pickDlg = PickDlg(self, parameter=self._inputs, 
                           data=data.select(station=station),
-                          station=station,
+                          station=station, network=network,
                           picks=self.getPicksOnStation(station, 'manual'),
                           autopicks=self.getPicksOnStation(station, 'auto'))
         pickDlg.nextStation.setChecked(nextStation)
@@ -1725,14 +1825,16 @@ class MainWindow(QMainWindow):
         #         raise Exception('FATAL: Should never occur!')
         # MP MP prompt redundant because new picks have to be accepted in the first place closing PickDlg
 
-    def updatePicks(self, type='manual'):
+    def updatePicks(self, type='manual', event=None):
+        if not event:
+            event = self.get_current_event()
         picks = picksdict_from_picks(evt=self.get_data(type).get_evt_data())
         if type == 'manual':
-            self.get_current_event().addPicks(picks)
-            self.picks.update(picks)
+            event.addPicks(picks)
+            self.pylot_picks.update(picks)
         elif type == 'auto':
-            self.get_current_event().addAutopicks(picks)            
-            self.autopicks.update(picks)
+            event.addAutopicks(picks)            
+            self.pylot_autopicks.update(picks)
         self.check4Comparison()
 
     def drawPicks(self, station=None, picktype='manual'):
@@ -1769,7 +1871,7 @@ class MainWindow(QMainWindow):
 
         for phase in stat_picks:
             picks = stat_picks[phase]
-            if type(stat_picks[phase]) is not dict:
+            if type(stat_picks[phase]) is not dict and type(stat_picks[phase]) is not AttribDict:
                 return
             colors = phase_col[phase[0].upper()]
 
@@ -1871,11 +1973,14 @@ class MainWindow(QMainWindow):
 
         outfile = settings.value("{0}/outputFile".format(loctool),
                                  os.path.split(os.tempnam())[-1])
-        phasefile = os.path.split(os.tempnam())[-1]
+        obsdir = os.path.join(locroot, 'obs')
+        self.saveData(directory=obsdir, outformat='.obs')
+        eventname = self.get_current_event_name()
+        filename = 'PyLoT_'+eventname
+        locpath = os.path.join(locroot, 'loc', filename)
+        phasefile = os.path.join(obsdir, filename + '.obs')
         phasepath = os.path.join(locroot, 'obs', phasefile)
-        locpath = os.path.join(locroot, 'loc', outfile)
-        lt.export(self.getPicks(), phasepath)
-        lt.modify_inputs(infile, locroot, outfile, phasefile, ttt)
+        lt.modify_inputs(infile, locroot, filename, phasefile, ttt)
         try:
             lt.locate(infile)
         except RuntimeError as e:
@@ -1883,8 +1988,8 @@ class MainWindow(QMainWindow):
         finally:
             os.remove(phasepath)
 
-        self.get_data().applyEVTData(lt.read_location(locpath), type='event')
-        self.get_data().applyEVTData(self.calc_magnitude(), type='event')
+        self.get_data().applyEVTData(lt.read_location(locpath), typ='event')
+        #self.get_data().applyEVTData(self.calc_magnitude(), typ='event')
 
     def init_array_tab(self):
         '''
@@ -1969,6 +2074,12 @@ class MainWindow(QMainWindow):
         if not self.array_map:
             return
         # refresh with new picks here!!!
+        event = self.get_current_event()
+        if hasattr(event, 'origins'):
+            if event.origins:
+                lat = event.origins[0].latitude
+                lon = event.origins[0].longitude
+                self.array_map.eventLoc = (lat, lon)
         self.array_map.refresh_drawings(self.get_current_event().getPicks())
         self._eventChanged[1] = False
 
@@ -1995,19 +2106,19 @@ class MainWindow(QMainWindow):
             # changes attributes of the corresponding event
             table = self.project._table
             event = self.project.getEventFromPath(table[row][0].text())
-            if column == 3 or column == 4:
+            if column == 8 or column == 9:
                 #toggle checked states (exclusive)
-                item_ref = table[row][3]
-                item_test = table[row][4]
-                if column == 3 and item_ref.checkState():
+                item_ref = table[row][8]
+                item_test = table[row][9]
+                if column == 8 and item_ref.checkState():
                     item_test.setCheckState(QtCore.Qt.Unchecked)
                     event.setRefEvent(True)
-                elif column == 3 and not item_ref.checkState():
+                elif column == 8 and not item_ref.checkState():
                     event.setRefEvent(False)                    
-                elif column == 4 and item_test.checkState():
+                elif column == 9 and item_test.checkState():
                     item_ref.setCheckState(QtCore.Qt.Unchecked)
                     event.setTestEvent(True)
-                elif column == 4 and not item_test.checkState():
+                elif column == 9 and not item_test.checkState():
                     event.setTestEvent(False)
                 self.fill_eventbox()
             elif column == 5:
@@ -2023,22 +2134,35 @@ class MainWindow(QMainWindow):
             
         # init new qtable
         self.event_table = QtGui.QTableWidget()
-        self.event_table.setColumnCount(6)
+        self.event_table.setColumnCount(11)
         self.event_table.setRowCount(len(eventlist))
-        self.event_table.setHorizontalHeaderLabels(['Event', '[N] MP',
-                                            '[N] AP', 'Tuning Set',
-                                            'Test Set', 'Notes'])
+        self.event_table.setHorizontalHeaderLabels(['Event',
+                                                    'Time',
+                                                    'Lat',
+                                                    'Lon',
+                                                    'Depth',
+                                                    'Mag',
+                                                    '[N] MP',
+                                                    '[N] AP',
+                                                    'Tuning Set',
+                                                    'Test Set',
+                                                    'Notes'])
 
         # iterate through eventlist and generate items for table rows
         self.project._table = []
         for index, event in enumerate(eventlist):
             event_npicks = 0
             event_nautopicks = 0
-            if event.picks:
-                event_npicks = len(event.picks)
-            if event.autopicks:
-                event_nautopicks = len(event.autopicks)
+            if event.pylot_picks:
+                event_npicks = len(event.pylot_picks)
+            if event.pylot_autopicks:
+                event_nautopicks = len(event.pylot_autopicks)
             item_path = QtGui.QTableWidgetItem()
+            item_time = QtGui.QTableWidgetItem()
+            item_lat = QtGui.QTableWidgetItem()
+            item_lon = QtGui.QTableWidgetItem()
+            item_depth = QtGui.QTableWidgetItem()
+            item_mag = QtGui.QTableWidgetItem()                        
             item_nmp = QtGui.QTableWidgetItem(str(event_npicks))
             item_nmp.setIcon(self.manupicksicon_small)
             item_nap = QtGui.QTableWidgetItem(str(event_nautopicks))
@@ -2050,11 +2174,23 @@ class MainWindow(QMainWindow):
             item_ref.setBackground(self._colors['ref'])
             item_test.setBackground(self._colors['test'])
             item_path.setText(event.path)
-            item_notes.setText(event.notes)            
+            if hasattr(event, 'origins'):
+                if event.origins:
+                    origin = event.origins[0]
+                    item_time.setText(str(origin.time).split('.')[0])
+                    item_lon.setText(str(origin.longitude))
+                    item_lat.setText(str(origin.latitude))
+                    item_depth.setText(str(origin.depth))
+            if hasattr(event, 'magnitudes'):
+                if event.magnitudes:
+                    magnitude = event.magnitudes[0]
+                    item_mag.setText(str(magnitude.mag))
+            item_notes.setText(event.notes)
+            
             set_enabled(item_path, True, False)
             set_enabled(item_nmp, True, False)
             set_enabled(item_nap, True, False)
-            if event.picks:
+            if event.pylot_picks:
                 set_enabled(item_ref, True, True)
                 set_enabled(item_test, True, True)
             else:
@@ -2070,7 +2206,8 @@ class MainWindow(QMainWindow):
             else:
                 item_test.setCheckState(QtCore.Qt.Unchecked)
                 
-            column=[item_path, item_nmp, item_nap, item_ref, item_test, item_notes]
+            column=[item_path, item_time, item_lat, item_lon, item_depth, item_mag,
+                    item_nmp, item_nap, item_ref, item_test, item_notes]
             self.project._table.append(column)
 
         for r_index, row in enumerate(self.project._table):
@@ -2389,6 +2526,63 @@ class Project(object):
                 self.setDirty()
             else:
                 print('Skipping event with path {}. Already part of project.'.format(event.path))
+        self.search_eventfile_info()
+
+    def read_eventfile_info(self, filename, separator=','):
+        '''
+        Try to read event information from file (:param:filename) comparing specific event datetimes.
+        File structure (each row): event, date, time, magnitude, latitude, longitude, depth
+        separated by :param:separator each.
+        '''
+        infile = open(filename, 'r')
+        for line in infile.readlines():
+            event, date, time, mag, lat, lon, depth  = line.split(separator)[:7]
+            #skip first line
+            try:
+                month, day, year = date.split('/')
+            except:
+                continue
+            year = int(year)
+            #hardcoded, if year only consists of 2 digits (e.g. 16 instead of 2016)
+            if year<100:
+                year += 2000
+            datetime = '{}-{}-{}T{}'.format(year, month, day, time)                
+            try:
+                datetime = UTCDateTime(datetime)
+            except Exception as e:
+                print(e, datetime, filename)
+                continue
+            for event in self.eventlist:
+                if not event.origins:
+                    continue
+                origin = event.origins[0] #should have only one origin
+                if origin.time == datetime:
+                    origin.latitude = float(lat)
+                    origin.longitude = float(lon)
+                    origin.depth = float(depth)
+                    event.magnitudes.append(Magnitude(resource_id=event.resource_id,
+                                                      mag=float(mag),
+                                                      mag_type='M'))
+                    
+    def search_eventfile_info(self):
+        '''
+        Search all datapaths in rootpath for filenames with given file extension fext
+        and try to read event info from it
+        '''
+        datapaths = []
+        fext='.csv'
+        for event in self.eventlist:
+            if not event.datapath in datapaths:
+                datapaths.append(event.datapath)
+        for datapath in datapaths:
+            datapath = os.path.join(self.rootpath, datapath)
+            for filename in os.listdir(datapath):
+                filename = os.path.join(datapath, filename)
+                if os.path.isfile(filename) and filename.endswith(fext):
+                    try:
+                        self.read_eventfile_info(filename)
+                    except Exception as e:
+                        print('Failed on reading eventfile info from file {}: {}'.format(filename, e))
 
     def getPaths(self):
         '''
@@ -2449,123 +2643,6 @@ class Project(object):
         return project
     
 
-class Event(object):
-    '''
-    Pickable class containing information on a single event.
-    '''
-    def __init__(self, path):
-        self.path = path
-        self.database = path.split('/')[-2]
-        self.datapath = path.split('/')[-3]
-        self.rootpath = os.path.join(*path.split('/')[:-3])
-        self.autopicks = {}
-        self.picks = {}
-        self.notes = ''
-        self._testEvent = False
-        self._refEvent = False
-        try:
-            self.get_notes()
-        except:
-            pass
-
-    def get_notes_path(self):
-        notesfile = os.path.join(self.path, 'notes.txt')
-        return notesfile
-    
-    def get_notes(self):
-        notesfile = self.get_notes_path()
-        if os.path.isfile(notesfile):
-            with open(notesfile) as infile:
-                text = '[eventInfo: '+str(infile.readlines()[0].split('\n')[0])+']'
-                self.addNotes(text)
-
-    def addNotes(self, notes):
-        self.notes = str(notes)
-
-    def clearNotes(self):
-        self.notes = None
-
-    def isRefEvent(self):
-        return self._refEvent
-
-    def isTestEvent(self):
-        return self._testEvent
-
-    def setRefEvent(self, bool):
-        self._refEvent = bool
-        if bool: self._testEvent = False
-
-    def setTestEvent(self, bool):
-        self._testEvent = bool
-        if bool: self._refEvent = False
-
-    def addPicks(self, picks):
-        for station in picks:
-            self.picks[station] = picks[station]
-        
-    def addAutopicks(self, autopicks):
-        for station in autopicks:
-            self.autopicks[station] = autopicks[station]
-        
-    def setPick(self, station, pick):
-        if pick:
-            self.picks[station] = pick
-
-    def setPicks(self, picks):
-        self.picks = picks
-        
-    def getPick(self, station):
-        if station in self.picks.keys():
-            return self.picks[station]
-
-    def getPicks(self):
-        return self.picks
-
-    def setAutopick(self, station, autopick):
-        if autopick:
-            self.autopicks[station] = autopick
-
-    def setAutopicks(self, autopicks):
-        self.autopicks = autopicks
-        
-    def getAutopick(self, station):
-        if station in self.autopicks.keys():
-            return self.autopicks[station]
-
-    def getAutopicks(self):
-        return self.autopicks
-
-    def save(self, filename):
-        '''
-        Save PyLoT Event to a file. 
-        Can be loaded by using event.load(filename).
-        '''
-        try:
-            import cPickle
-        except ImportError:
-            import _pickle as cPickle
-
-        try:
-            outfile = open(filename, 'wb')
-            cPickle.dump(self, outfile, -1)
-        except Exception as e:
-            print('Could not pickle PyLoT event. Reason: {}'.format(e))
-
-    @staticmethod
-    def load(filename):
-        '''
-        Load project from filename.
-        '''
-        try:
-            import cPickle
-        except ImportError:
-            import _pickle as cPickle
-        infile = open(filename, 'rb')
-        event = cPickle.load(infile)
-        print('Loaded %s' % filename)
-        return event
-
-    
 class getExistingDirectories(QFileDialog):
     '''
     File dialog with possibility to select multiple folders.

autoPyLoT.py

@@ -98,8 +98,8 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
 
         exf = ['root', 'dpath', 'dbase']
         
-        if parameter.hasParam('eventID') and fnames == 'None':
-            dsfields['eventID'] = parameter.get('eventID')
+        if parameter['eventID'] is not '*' and fnames == 'None':
+            dsfields['eventID'] = parameter['eventID']
             exf.append('eventID')
 
         datastructure.modifyFields(**dsfields)
@@ -133,13 +133,13 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
         if not input_dict:
             # started in production mode
             datapath = datastructure.expandDataPath()
-            if fnames == 'None' and not parameter['eventID']:
+            if fnames == 'None' and parameter['eventID'] is '*':
                 # multiple event processing
                 # read each event in database
                 events = [events for events in glob.glob(os.path.join(datapath, '*')) if os.path.isdir(events)]
-            elif fnames == 'None' and parameter['eventID']:
+            elif fnames == 'None' and parameter['eventID'] is not '*':
                 # single event processing
-                events = glob.glob(os.path.join(datapath, parameter.get('eventID')))
+                events = glob.glob(os.path.join(datapath, parameter['eventID']))
             else:
                 # autoPyLoT was initialized from GUI
                 events = []
@@ -243,7 +243,7 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
                         # get latest NLLoc-location file if several are available
                         nllocfile = max(glob.glob(locsearch), key=os.path.getctime)
                         evt = read_events(nllocfile)[0]
-                        # calculating seismic moment Mo and moment magnitude Mw
+                        # calculate seismic moment Mo and moment magnitude Mw
                         moment_mag = MomentMagnitude(corr_dat, evt, parameter.get('vp'),
                                                      parameter.get('Qp'),
                                                      parameter.get('rho'), True, \
@@ -252,15 +252,29 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
                         for station, props in moment_mag.moment_props.items():
                             picks[station]['P'].update(props)
                         evt = moment_mag.updated_event()
+                        net_mw = moment_mag.net_magnitude()
+                        print("Network moment magnitude: %4.1f" % net_mw.mag)
+                        # calculate local (Richter) magntiude
+                        WAscaling = parameter.get('WAscaling')
+                        magscaling = parameter.get('magscaling')
                         local_mag = LocalMagnitude(corr_dat, evt,
-                                                   parameter.get('sstop'), parameter.get('WAscaling'), \
-                                                   True, iplot)
+                                                   parameter.get('sstop'), 
+                                                   WAscaling, True, iplot)
                         for station, amplitude in local_mag.amplitudes.items():
                             picks[station]['S']['Ao'] = amplitude.generic_amplitude
-                        evt = local_mag.updated_event()
+                        print("Local station magnitudes scaled with:")
+                        print("log(Ao) + %f * log(r) + %f * r + %f" % (WAscaling[0], 
+                                                                       WAscaling[1],
+                                                                       WAscaling[2]))
+                        evt = local_mag.updated_event(magscaling)
+                        net_ml = local_mag.net_magnitude(magscaling)
+                        print("Network local magnitude: %4.1f" % net_ml.mag)
+                        print("Network local magnitude scaled with:")
+                        print("%f * Ml + %f" % (magscaling[0], magscaling[1]))
                     else:
                         print("autoPyLoT: No NLLoc-location file available!")
                         print("No source parameter estimation possible!")
+                        locflag = 9
                 else:
                     # get theoretical P-onset times from NLLoc-location file
                     locsearch = '%s/loc/%s.????????.??????.grid?.loc.hyp' % (nllocroot, nllocout)
@@ -301,7 +315,7 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
                                 nlloccounter = maxnumit
                         evt = read_events(nllocfile)[0]
                         if locflag < 2:
-                            # calculating seismic moment Mo and moment magnitude Mw
+                            # calculate seismic moment Mo and moment magnitude Mw
                             moment_mag = MomentMagnitude(corr_dat, evt, parameter.get('vp'),
                                                          parameter.get('Qp'),
                                                          parameter.get('rho'), True, \
@@ -310,14 +324,25 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
                             for station, props in moment_mag.moment_props.items():
                                 picks[station]['P'].update(props)
                             evt = moment_mag.updated_event()
-                            local_mag = LocalMagnitude(corr_dat, evt,
-                                                       parameter.get('sstop'), parameter.get('WAscaling'), \
-                                                       True, iplot)
-                            for station, amplitude in local_mag.amplitudes.items():
-                                picks[station]['S']['Ao'] = amplitude.generic_amplitude
-                            evt = local_mag.updated_event()
                             net_mw = moment_mag.net_magnitude()
                             print("Network moment magnitude: %4.1f" % net_mw.mag)
+                            # calculate local (Richter) magntiude
+                            WAscaling = parameter.get('WAscaling')
+                            magscaling = parameter.get('magscaling')
+                            local_mag = LocalMagnitude(corr_dat, evt,
+                                                       parameter.get('sstop'), 
+                                                       WAscaling, True, iplot)
+                            for station, amplitude in local_mag.amplitudes.items():
+                                picks[station]['S']['Ao'] = amplitude.generic_amplitude
+                            print("Local station magnitudes scaled with:")
+                            print("log(Ao) + %f * log(r) + %f * r + %f" % (WAscaling[0], 
+                                                                           WAscaling[1],
+                                                                           WAscaling[2]))
+                            evt = local_mag.updated_event(magscaling)
+                            net_ml = local_mag.net_magnitude(magscaling)
+                            print("Network local magnitude: %4.1f" % net_ml.mag)
+                            print("Network local magnitude scaled with:")
+                            print("%f * Ml + %f" % (magscaling[0], magscaling[1]))
                     else:
                         print("autoPyLoT: No NLLoc-location file available! Stop iteration!")
                         locflag = 9
@@ -328,26 +353,26 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
             data.applyEVTData(picks)
             if evt is not None:
                 data.applyEVTData(evt, 'event')
-            fnqml = '%s/autoPyLoT' % event
-            data.exportEvent(fnqml)
-            # HYPO71
-            hypo71file = '%s/autoPyLoT_HYPO71_phases' % event
-            hypo71.export(picks, hypo71file, parameter)
-            # HYPOSAT
-            hyposatfile = '%s/autoPyLoT_HYPOSAT_phases' % event
-            hyposat.export(picks, hyposatfile, parameter)
+            fnqml = '%s/PyLoT_%s' % (event, evID)
+            data.exportEvent(fnqml, fnext='.xml', fcheck='manual')
             if locflag == 1:
+                # HYPO71
+                hypo71file = '%s/PyLoT_%s_HYPO71_phases' % (event, evID)
+                hypo71.export(picks, hypo71file, parameter)
+                # HYPOSAT
+                hyposatfile = '%s/PyLoT_%s_HYPOSAT_phases' % (event, evID)
+                hyposat.export(picks, hyposatfile, parameter)
             	# VELEST
-            	velestfile = '%s/autoPyLoT_VELEST_phases.cnv' % event
+            	velestfile = '%s/PyLoT_%s_VELEST_phases.cnv' % (event, evID)
             	velest.export(picks, velestfile, parameter, evt)
             	# hypoDD
-            	hypoddfile = '%s/autoPyLoT_hypoDD_phases.pha' % event
+            	hypoddfile = '%s/PyLoT_%s_hypoDD_phases.pha' % (event, evID)
             	hypodd.export(picks, hypoddfile, parameter, evt)
             	# FOCMEC
-            	focmecfile = '%s/autoPyLoT_FOCMEC.in' % event
+            	focmecfile = '%s/PyLoT_%s_FOCMEC.in' % (event, evID)
             	focmec.export(picks, focmecfile, parameter, evt)
             	# HASH
-            	hashfile = '%s/autoPyLoT_HASH' % event
+            	hashfile = '%s/PyLoT_%s_HASH' % (event, evID)
             	hash.export(picks, hashfile, parameter, evt)
 
             endsplash = '''------------------------------------------\n'

icons.qrc

@@ -1,15 +1,29 @@
 <RCC>
     <qresource>
-        <file>icons/Library-icon.png</file>
         <file>icons/pylot.ico</file>
         <file>icons/pylot.png</file>
-        <file>icons/manupicsicon.png</file>
-        <file>icons/autopicsicon.png</file>
-        <file>icons/autopylot_button.png</file>
+        <file>icons/newfile.png</file>
+        <file>icons/open.png</file>
+        <file>icons/openproject.png</file>
+        <file>icons/add.png</file>
+        <file>icons/save.png</file>
+        <file>icons/saveas.png</file>
+        <file>icons/saveproject.png</file>
+        <file>icons/saveprojectas.png</file>
         <file>icons/manupicksicon_small.png</file>
         <file>icons/autopicksicon_small.png</file>
-        <file>icons/autopick_button.png</file>
-        <file>icons/locactionicon.png</file>
+        <file>icons/tune.png</file>
+        <file>icons/autopylot_button.png</file>
+        <file>icons/pick.png</file>
+        <file>icons/waveform.png</file>
+        <file>icons/openpick.png</file>
+        <file>icons/openpicks.png</file>
+        <file>icons/openpick.png</file>
+        <file>icons/openpicks.png</file>
+        <file>icons/savepicks.png</file>
+        <file>icons/preferences.png</file>
+        <file>icons/parameter.png</file>
+        <file>icons/openloc.png</file>
         <file>icons/compare_button.png</file>
         <file>icons/locate_button.png</file>
         <file>icons/Matlab_PILOT_icon.png</file>

pylot/RELEASE-VERSION

@@ -1 +0,0 @@
-97ee-dirty

pylot/core/analysis/magnitude.py

@@ -2,6 +2,7 @@
 # -*- coding: utf-8 -*-
 """
 Created autumn/winter 2015.
+Revised/extended summer 2017.
 
 :author: Ludger Küperkoch / MAGS2 EP3 working group
 """
@@ -115,23 +116,30 @@ class Magnitude(object):
     def calc(self):
         pass
 
-    def updated_event(self):
-        self.event.magnitudes.append(self.net_magnitude())
+    def updated_event(self, magscaling=None):
+        self.event.magnitudes.append(self.net_magnitude(magscaling))
         return self.event
 
-    def net_magnitude(self):
+    def net_magnitude(self, magscaling=None):
         if self:
-            # TODO if an average Magnitude instead of the median is calculated
-            # StationMagnitudeContributions should be added to the returned
-            # Magnitude object
-            # mag_error => weights (magnitude error estimate from peak_to_peak, calcsourcespec?)
-            # weights => StationMagnitdeContribution
-            mag = ope.Magnitude(
-                mag=np.median([M.mag for M in self.magnitudes.values()]),
-                magnitude_type=self.type,
-                origin_id=self.origin_id,
-                station_count=len(self.magnitudes),
-                azimuthal_gap=self.origin_id.get_referred_object().quality.azimuthal_gap)
+            if magscaling is not None and str(magscaling) is not '[0.0, 0.0]':
+                # scaling necessary
+                print("Scaling network magnitude ...")
+                mag = ope.Magnitude(
+                    mag=np.median([M.mag for M in self.magnitudes.values()]) *\
+                                   magscaling[0] + magscaling[1],
+                    magnitude_type=self.type,
+                    origin_id=self.origin_id,
+                    station_count=len(self.magnitudes),
+                    azimuthal_gap=self.origin_id.get_referred_object().quality.azimuthal_gap)
+            else:
+                # no saling necessary
+                mag = ope.Magnitude(
+                    mag=np.median([M.mag for M in self.magnitudes.values()]),
+                    magnitude_type=self.type,
+                    origin_id=self.origin_id,
+                    station_count=len(self.magnitudes),
+                    azimuthal_gap=self.origin_id.get_referred_object().quality.azimuthal_gap)
             return mag
         return None
 
@@ -153,7 +161,7 @@ class LocalMagnitude(Magnitude):
 
     _amplitudes = dict()
 
-    def __init__(self, stream, event, calc_win, wascaling=None, verbosity=False, iplot=0):
+    def __init__(self, stream, event, calc_win, wascaling, verbosity=False, iplot=0):
         super(LocalMagnitude, self).__init__(stream, event, verbosity, iplot)
 
         self._calc_win = calc_win
@@ -207,6 +215,8 @@ class LocalMagnitude(Magnitude):
         th = np.arange(0, len(sqH) * dt, dt)
         # get maximum peak within pick window
         iwin = getsignalwin(th, t0 - stime, self.calc_win)
+        ii = min([iwin[len(iwin)-1], len(th)])
+        iwin = iwin[0:ii]
         wapp = np.max(sqH[iwin])
         if self.verbose:
             print("Determined Wood-Anderson peak-to-peak amplitude for station {0}: {1} "
@@ -257,12 +267,13 @@ class LocalMagnitude(Magnitude):
             self.amplitudes = (station, amplitude)
             # using standard Gutenberg-Richter relation
             # or scale WA amplitude with given scaling relation
-            if self.wascaling == None:
+            if str(self.wascaling) == '[0.0, 0.0, 0.0]':
                 print("Calculating original Richter magnitude ...")
                 magnitude = ope.StationMagnitude(mag=np.log10(a0) \
                             + richter_magnitude_scaling(delta))
             else:
                 print("Calculating scaled local magnitude ...")
+                a0 = a0 * 1e03 # mm to nm (see Havskov & Ottemöller, 2010)
                 magnitude = ope.StationMagnitude(mag=np.log10(a0) \
                             + self.wascaling[0] * np.log10(delta) + self.wascaling[1] 
                             * delta + self.wascaling[2])

pylot/core/io/data.py

@@ -6,11 +6,12 @@ import os
 from obspy import read_events
 from obspy.core import read, Stream, UTCDateTime
 from obspy.io.sac import SacIOError
-from obspy.core.event import Event
+from obspy.core.event import Event as ObsPyEvent
 from pylot.core.io.phases import readPILOTEvent, picks_from_picksdict, \
     picksdict_from_pilot, merge_picks
 from pylot.core.util.errors import FormatError, OverwriteError
 from pylot.core.util.utils import fnConstructor, full_range
+from pylot.core.util.event import Event
 
 class Data(object):
     """
@@ -33,7 +34,7 @@ class Data(object):
             self.comp = 'Z'
             self.wfdata = Stream()
         self._new = False
-        if isinstance(evtdata, Event):
+        if isinstance(evtdata, ObsPyEvent) or isinstance(evtdata, Event):
             pass
         elif isinstance(evtdata, dict):
             evt = readPILOTEvent(**evtdata)
@@ -49,7 +50,7 @@ class Data(object):
                 if 'Unknown format for file' in e.message:
                     if 'PHASES' in evtdata:
                         picks = picksdict_from_pilot(evtdata)
-                        evtdata = Event()
+                        evtdata = ObsPyEvent()
                         evtdata.picks = picks_from_picksdict(picks)
                     elif 'LOC' in evtdata:
                         raise NotImplementedError('PILOT location information '
@@ -61,7 +62,7 @@ class Data(object):
                     raise e
         else:  # create an empty Event object
             self.setNew()
-            evtdata = Event()
+            evtdata = ObsPyEvent()
             evtdata.picks = []
         self.evtdata = evtdata
         self.wforiginal = None
@@ -73,6 +74,8 @@ class Data(object):
 
     def __add__(self, other):
         assert isinstance(other, Data), "operands must be of same type 'Data'"
+        rs_id = self.get_evt_data().get('resource_id')
+        rs_id_other = other.get_evt_data().get('resource_id')        
         if other.isNew() and not self.isNew():
             picks_to_add = other.get_evt_data().picks
             old_picks = self.get_evt_data().picks
@@ -84,7 +87,7 @@ class Data(object):
             self.evtdata = new.get_evt_data()
         elif self.isNew() and other.isNew():
             pass
-        elif self.get_evt_data().get('id') == other.get_evt_data().get('id'):
+        elif rs_id == rs_id_other:
             other.setNew()
             return self + other
         else:
@@ -95,7 +98,7 @@ class Data(object):
     def getPicksStr(self):
         picks_str = ''
         for pick in self.get_evt_data().picks:
-            picks_str += str(pick) + '\n'
+            picks_str += str(PyLoT) + '\n'
         return picks_str
 
     def getParent(self):
@@ -144,12 +147,13 @@ class Data(object):
         # handle forbidden filenames especially on windows systems
         return fnConstructor(str(ID))
 
-    def exportEvent(self, fnout, fnext='.xml'):
+    def exportEvent(self, fnout, fnext='.xml', fcheck='auto'):
 
         """
 
         :param fnout:
         :param fnext:
+        :param fcheck:
         :raise KeyError:
         """
         from pylot.core.util.defaults import OUTPUTFORMATS
@@ -160,13 +164,71 @@ class Data(object):
             errmsg = '{0}; selected file extension {1} not ' \
                      'supported'.format(e, fnext)
             raise FormatError(errmsg)
+   
+        # check for already existing xml-file
+        if fnext == '.xml':
+            if os.path.isfile(fnout + fnext):
+                print("xml-file already exists! Check content ...")
+                cat_old = read_events(fnout + fnext)
+                checkflag = 0
+                for j in range(len(cat_old.events[0].picks)):
+                   if cat_old.events[0].picks[j].method_id.id.split('/')[1] == fcheck:
+                      print("Found %s pick(s), append to new catalog." % fcheck)
+                      checkflag = 1
+                      break
+                if checkflag == 1:
+                    self.get_evt_data().write(fnout + fnext, format=evtformat)
+                    cat_new = read_events(fnout + fnext)
+                    cat_new.append(cat_old.events[0])
+                    cat_new.write(fnout + fnext, format=evtformat)
+                else:
+                    self.get_evt_data().write(fnout + fnext, format=evtformat)
+            else:
+                self.get_evt_data().write(fnout + fnext, format=evtformat)
 
         # try exporting event via ObsPy
-        try:
-            self.get_evt_data().write(fnout + fnext, format=evtformat)
-        except KeyError as e:
-            raise KeyError('''{0} export format
-                              not implemented: {1}'''.format(evtformat, e))
+        else:
+            # check for stations picked automatically as well as manually
+            # Prefer manual picks!
+            evtdata_copy = self.get_evt_data().copy()
+            evtdata_org = self.get_evt_data()
+            for i in range(len(evtdata_org.picks)):
+                if evtdata_org.picks[i].method_id == 'manual':
+                   mstation = evtdata_org.picks[i].waveform_id.station_code
+                   mstation_ext = mstation + '_'
+                   for k in range(len(evtdata_copy.picks)):
+                       if evtdata_copy.picks[k].waveform_id.station_code == mstation  or \
+                          evtdata_copy.picks[k].waveform_id.station_code == mstation_ext and \
+                          evtdata_copy.picks[k].method_id == 'auto':
+                          del evtdata_copy.picks[k]
+                          break
+            lendiff = len(evtdata_org.picks) - len(evtdata_copy.picks)
+            if lendiff is not 0:
+               print("Manual as well as automatic picks available. Prefered the {} manual ones!".format(lendiff))
+
+            if fnext == '.obs':
+               try:
+                   evtdata_copy.write(fnout + fnext, format=evtformat)
+                   # write header afterwards
+                   evid = str(evtdata_org.resource_id).split('/')[1]
+                   header = '# EQEVENT:  Label: EQ%s  Loc:  X 0.00  Y 0.00  Z 10.00  OT 0.00 \n' % evid
+                   nllocfile = open(fnout + fnext)
+                   l = nllocfile.readlines()
+                   nllocfile.close()
+                   l.insert(0, header)
+                   nllocfile = open(fnout + fnext, 'w')
+                   nllocfile.write("".join(l))
+                   nllocfile.close()
+               except KeyError as e:
+                   raise KeyError('''{0} export format
+                                     not implemented: {1}'''.format(evtformat, e))
+            if fnext == '.cnv':
+               try:
+                   evtdata_org.write(fnout + fnext, format=evtformat)
+               except KeyError as e:
+                   raise KeyError('''{0} export format
+                                     not implemented: {1}'''.format(evtformat, e))
+
 
     def getComp(self):
         """
@@ -279,12 +341,12 @@ class Data(object):
     def setEvtData(self, event):
         self.evtdata = event
 
-    def applyEVTData(self, data, type='pick', authority_id='rub'):
+    def applyEVTData(self, data, typ='pick', authority_id='rub'):
 
         """
 
         :param data:
-        :param type:
+        :param typ:
         :param authority_id:
         :raise OverwriteError:
         """
@@ -326,19 +388,27 @@ class Data(object):
             information on the event to the actual data
             :param event:
             """
-            if not self.isNew():
+            if self.isNew():
                 self.setEvtData(event)
             else:
                 # prevent overwriting original pick information
-                picks =  copy.deepcopy(self.get_evt_data().picks)
+                event_old = self.get_evt_data()
+                print(event_old.resource_id, event.resource_id)
+                if not event_old.resource_id == event.resource_id:
+                    print("WARNING: Missmatch in event resource id's: {} and {}".format(
+                        event_old.resource_id,
+                        event.resource_id))
+                picks = copy.deepcopy(event_old.picks)
                 event = merge_picks(event, picks)
                 # apply event information from location
-                self.get_evt_data().update(event)
+                event_old.update(event)
 
         applydata = {'pick': applyPicks,
                      'event': applyEvent}
 
-        applydata[type](data)
+        applydata[typ](data)
+        self._new = False
+        
 
 
 class GenericDataStructure(object):

pylot/core/io/default_parameters.py

@@ -14,7 +14,7 @@ defaults = {'rootpath': {'type': str,
                          'value': ''},
             
             'eventID': {'type': str,
-                        'tooltip': 'event ID for single event processing',
+                        'tooltip': 'event ID for single event processing (* for all events found in database)',
                         'value': ''},
             
             'extent': {'type': str,
@@ -278,12 +278,14 @@ defaults = {'rootpath': {'type': str,
                              'value': 1.0},
             
             'WAscaling': {'type': (float, float, float),
-                         'tooltip': 'Scaling relation (log(Ao)+Alog(r)+Br+C) of Wood-Anderson amplitude Ao [nm]',
-                         'value': (1.0, 1.0, 1.0)},
+                         'tooltip': 'Scaling relation (log(Ao)+Alog(r)+Br+C) of Wood-Anderson amplitude Ao [nm] \
+                                     If zeros are set, original Richter magnitude is calculated!',
+                         'value': (0., 0., 0.)},
 
             'magscaling': {'type': (float, float),
-                           'tooltip': 'Scaling relation for derived local magnitude [a*Ml+b]',
-                           'value': (1.0, 1.0)},
+                         'tooltip': 'Scaling relation for derived local magnitude [a*Ml+b]. \
+                                     If zeros are set, no scaling of network magnitude is applied!',
+                         'value': (0., 0.)}
             
             'minfreq': {'type': float,
                         'tooltip': 'Lower filter frequency',

pylot/core/io/inputs.py

@@ -222,26 +222,25 @@ class PylotParameter(object):
         # for key, value in self.iteritems():
         #     lines.append('{key}\t{value}\n'.format(key=key, value=value))
         # fid_out.writelines(lines)
-
         header = ('%This is a parameter input file for PyLoT/autoPyLoT.\n'+
                   '%All main and special settings regarding data handling\n'+
                   '%and picking are to be set here!\n'+
-                  '%Parameters are optimized for local data sets!\n')
-        seperator = '%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%\n'
+                  '%Parameters are optimized for %{} data sets!\n'.format(self.get_main_para_names()['pick'][0]))
+        separator = '%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%\n'
 
         fid_out.write(header)
         self.write_section(fid_out, self.get_main_para_names()['dirs'],
-                           'main settings', seperator)
+                           'main settings', separator)
         self.write_section(fid_out, self.get_main_para_names()['nlloc'],
-                           'NLLoc settings', seperator)
+                           'NLLoc settings', separator)
         self.write_section(fid_out, self.get_main_para_names()['smoment'],
-                           'parameters for seismic moment estimation', seperator)
+                           'parameters for seismic moment estimation', separator)
         self.write_section(fid_out, self.get_main_para_names()['localmag'],
-                           'settings local magnitude', seperator)
+                           'settings local magnitude', separator)
         self.write_section(fid_out, self.get_main_para_names()['filter'],
                            'filter settings', seperator)
         self.write_section(fid_out, self.get_main_para_names()['pick'],
-                           'common settings picker', seperator)
+                           'common settings picker', separator)
         fid_out.write(('#special settings for calculating CF#\n'+
                        '%!!Edit the following only if you know what you are doing!!%\n'))
         self.write_section(fid_out, self.get_special_para_names()['z'],
@@ -253,9 +252,9 @@ class PylotParameter(object):
         self.write_section(fid_out, self.get_special_para_names()['quality'],
                            'quality assessment', None)
 
-    def write_section(self, fid, names, title, seperator):
-        if seperator:
-            fid.write(seperator)
+    def write_section(self, fid, names, title, separator):
+        if separator:
+            fid.write(separator)
         fid.write('#{}#\n'.format(title))
         l_val = 50
         l_name = 15

pylot/core/io/phases.py

@@ -7,6 +7,7 @@ import os
 import scipy.io as sio
 import warnings
 from obspy.core import UTCDateTime
+from obspy.core.util import AttribDict
 
 from pylot.core.io.inputs import PylotParameter
 from pylot.core.io.location import create_arrival, create_event, \
@@ -195,6 +196,7 @@ def picksdict_from_picks(evt):
         phase = {}
         station = pick.waveform_id.station_code
         channel = pick.waveform_id.channel_code
+        network = pick.waveform_id.network_code
         try:
             onsets = picks[station]
         except KeyError as e:
@@ -215,6 +217,7 @@ def picksdict_from_picks(evt):
         phase['lpp'] = lpp
         phase['spe'] = spe
         phase['channel'] = channel
+        phase['network'] = network
         try:
             picker = str(pick.method_id)
             if picker.startswith('smi:local/'):
@@ -231,7 +234,7 @@ def picks_from_picksdict(picks, creation_info=None):
     picks_list = list()
     for station, onsets in picks.items():
         for label, phase in onsets.items():
-            if not isinstance(phase, dict):
+            if not isinstance(phase, dict) and not isinstance(phase, AttribDict):
                 continue
             onset = phase['mpp']
             try:
@@ -382,12 +385,12 @@ def reassess_pilot_event(root_dir, db_dir, event_id, out_dir=None, fn_param=None
     evt.picks = picks_from_picksdict(picks_dict)
     # write phase information to file
     if not out_dir:
-        fnout_prefix = os.path.join(root_dir, db_dir, event_id, '{0}.'.format(event_id))
+        fnout_prefix = os.path.join(root_dir, db_dir, event_id, 'PyLoT_{0}.'.format(event_id))
     else:
         out_dir = os.path.join(out_dir, db_dir)
         if not os.path.isdir(out_dir):
             os.makedirs(out_dir)
-        fnout_prefix = os.path.join(out_dir, '{0}.'.format(event_id))
+        fnout_prefix = os.path.join(out_dir, 'PyLoT_{0}.'.format(event_id))
     evt.write(fnout_prefix + 'xml', format='QUAKEML')
     #evt.write(fnout_prefix + 'cnv', format='VELEST')
 
@@ -835,9 +838,10 @@ def merge_picks(event, picks):
         err = pick.time_errors
         phase = pick.phase_hint
         station = pick.waveform_id.station_code
+        network = pick.waveform_id.network_code
         method = pick.method_id
         for p in event.picks:
             if p.waveform_id.station_code == station and p.phase_hint == phase:
-                p.time, p.time_errors, p.method_id = time, err, method
-        del time, err, phase, station, method
+                p.time, p.time_errors, p.waveform_id.network_code, p.method_id = time, err, network, method
+        del time, err, phase, station, network, method
     return event

pylot/core/pick/picker.py

@@ -212,6 +212,14 @@ class AICPicker(AutoPicker):
                 self.Data[0].data = self.Data[0].data * 1000000
             # get signal window
             isignal = getsignalwin(self.Tcf, self.Pick, self.TSNR[2])
+            ii = min([isignal[len(isignal)-1], len(self.Tcf)])
+            isignal = isignal[0:ii]
+            try:
+               aic[isignal]
+            except IndexError as e:
+               msg = "Time series out of bounds! {}".format(e)
+               print(msg)
+               return
             # calculate SNR from CF
             self.SNR = max(abs(aic[isignal] - np.mean(aic[isignal]))) / \
                        max(abs(aic[inoise] - np.mean(aic[inoise])))

pylot/core/util/event.py

@@ -0,0 +1,144 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+
+import os
+
+from obspy import UTCDateTime
+from obspy.core.event import Event as ObsPyEvent
+from obspy.core.event import Origin, Magnitude, ResourceIdentifier
+
+from pylot.core.io.phases import picks_from_picksdict
+
+
+class Event(ObsPyEvent):
+    '''
+    Pickable class derived from ~obspy.core.event.Event containing information on a single event.
+    '''
+    def __init__(self, path):
+        self.pylot_id = path.split('/')[-1]
+        # initialize super class
+        super(Event, self).__init__(resource_id=ResourceIdentifier('smi:local/'+self.pylot_id))
+        self.path = path
+        self.database = path.split('/')[-2]
+        self.datapath = path.split('/')[-3]
+        self.rootpath = '/' + os.path.join(*path.split('/')[:-3])
+        self.pylot_autopicks = {}
+        self.pylot_picks = {}
+        self.notes = ''
+        self._testEvent = False
+        self._refEvent = False
+        self.get_notes()
+
+    def get_notes_path(self):
+        notesfile = os.path.join(self.path, 'notes.txt')
+        return notesfile
+    
+    def get_notes(self):
+        notesfile = self.get_notes_path()
+        if os.path.isfile(notesfile):
+            with open(notesfile) as infile:
+                path = str(infile.readlines()[0].split('\n')[0])
+                text = '[eventInfo: '+path+']'
+                self.addNotes(text)
+                try:
+                    datetime = UTCDateTime(path.split('/')[-1])
+                    origin = Origin(resource_id=self.resource_id, time=datetime, latitude=0, longitude=0, depth=0)
+                    self.origins.append(origin)
+                except:
+                    pass
+
+    def addNotes(self, notes):
+        self.notes = str(notes)
+
+    def clearNotes(self):
+        self.notes = None
+
+    def isRefEvent(self):
+        return self._refEvent
+
+    def isTestEvent(self):
+        return self._testEvent
+
+    def setRefEvent(self, bool):
+        self._refEvent = bool
+        if bool: self._testEvent = False
+
+    def setTestEvent(self, bool):
+        self._testEvent = bool
+        if bool: self._refEvent = False
+
+    def addPicks(self, picks):
+        '''
+        add pylot picks and overwrite existing
+        '''
+        for station in picks:
+            self.pylot_picks[station] = picks[station]
+        #add ObsPy picks
+        self.picks = picks_from_picksdict(self.pylot_picks)
+        
+    def addAutopicks(self, autopicks):
+        for station in autopicks:
+            self.pylot_autopicks[station] = autopicks[station]
+        
+    def setPick(self, station, pick):
+        if pick:
+            self.pylot_picks[station] = pick
+        self.picks = picks_from_picksdict(self.pylot_picks)
+        
+    def setPicks(self, picks):
+        '''
+        set pylot picks and delete and overwrite all existing
+        '''
+        self.pylot_picks = picks
+        self.picks = picks_from_picksdict(self.pylot_picks)
+                
+    def getPick(self, station):
+        if station in self.pylot_picks.keys():
+            return self.pylot_picks[station]
+
+    def getPicks(self):
+        return self.pylot_picks
+
+    def setAutopick(self, station, autopick):
+        if autopick:
+            self.pylot_autopicks[station] = autopick
+
+    def setAutopicks(self, autopicks):
+        self.pylot_autopicks = autopicks
+        
+    def getAutopick(self, station):
+        if station in self.pylot_autopicks.keys():
+            return self.pylot_autopicks[station]
+
+    def getAutopicks(self):
+        return self.pylot_autopicks
+
+    def save(self, filename):
+        '''
+        Save PyLoT Event to a file. 
+        Can be loaded by using event.load(filename).
+        '''
+        try:
+            import cPickle
+        except ImportError:
+            import _pickle as cPickle
+
+        try:
+            outfile = open(filename, 'wb')
+            cPickle.dump(self, outfile, -1)
+        except Exception as e:
+            print('Could not pickle PyLoT event. Reason: {}'.format(e))
+
+    @staticmethod
+    def load(filename):
+        '''
+        Load project from filename.
+        '''
+        try:
+            import cPickle
+        except ImportError:
+            import _pickle as cPickle
+        infile = open(filename, 'rb')
+        event = cPickle.load(infile)
+        print('Loaded %s' % filename)
+        return event

pylot/core/util/map_projection.py

@@ -22,6 +22,7 @@ class map_projection(QtGui.QWidget):
         self.parser = parent.metadata[1]
         self.picks = None
         self.picks_dict = None
+        self.eventLoc = None
         self.figure = figure
         self.init_graphics()
         self.init_stations()
@@ -244,6 +245,10 @@ class map_projection(QtGui.QWidget):
         self.sc = self.basemap.scatter(self.lon, self.lat, s=50, facecolor='none', latlon=True,
                                   zorder=10, picker=True, edgecolor='m', label='Not Picked')
         self.cid = self.canvas.mpl_connect('pick_event', self.onpick)
+        if self.eventLoc:
+            lat, lon = self.eventLoc
+            self.sc_event = self.basemap.scatter(lon, lat, s=100, facecolor='red',
+                                                 latlon=True, zorder=11, label='Event (might be outside map region)')
 
     def scatter_picked_stations(self):
         lon = self.lon_no_nan
@@ -274,8 +279,7 @@ class map_projection(QtGui.QWidget):
 
     def refresh_drawings(self, picks=None):
         self.picks_dict = picks
-        self.remove_drawings()
-        self.draw_everything()
+        self._refresh_drawings()
 
     def _refresh_drawings(self):
         self.remove_drawings()
@@ -303,6 +307,9 @@ class map_projection(QtGui.QWidget):
         if hasattr(self, 'sc_picked'):
             self.sc_picked.remove()
             del(self.sc_picked)
+        if hasattr(self, 'sc_event'):
+            self.sc_event.remove()
+            del(self.sc_event)
         if hasattr(self, 'cbar'):
             self.cbar.remove()
             del(self.cbar)

pylot/core/util/utils.py

@@ -12,7 +12,7 @@ import subprocess
 from obspy import UTCDateTime, read
 from pylot.core.io.inputs import PylotParameter
 
-
+    
 def _pickle_method(m):
     if m.im_self is None:
         return getattr, (m.im_class, m.im_func.func_name)

pylot/core/util/widgets.py

@@ -35,6 +35,7 @@ from PySide.QtGui import QAction, QApplication, QCheckBox, QComboBox, \
 from PySide.QtCore import QSettings, Qt, QUrl, Signal, Slot
 from PySide.QtWebKit import QWebView
 from obspy import Stream, UTCDateTime
+from obspy.core.util import AttribDict 
 from pylot.core.io.data import Data
 from pylot.core.io.inputs import FilterOptions, PylotParameter
 from pylot.core.pick.utils import getSNR, earllatepicker, getnoisewin, \
@@ -707,7 +708,7 @@ class WaveformWidget(FigureCanvas):
         self.draw()
 
     def updateTitle(self, text):
-        self.getAxes().set_title(text)
+        self.getAxes().set_title(text, verticalalignment='bottom')
         self.draw()
 
     def updateWidget(self, xlabel, ylabel, title):
@@ -724,7 +725,7 @@ class WaveformWidget(FigureCanvas):
 
 class PickDlg(QDialog):
     update_picks = QtCore.Signal(dict)    
-    def __init__(self, parent=None, data=None, station=None, picks=None,
+    def __init__(self, parent=None, data=None, station=None, network=None, picks=None,
                  autopicks=None, rotate=False, parameter=None, embedded=False):
         super(PickDlg, self).__init__(parent)
 
@@ -732,6 +733,7 @@ class PickDlg(QDialog):
         self.parameter = parameter
         self._embedded = embedded
         self.station = station
+        self.network = network
         self.rotate = rotate
         self.components = 'ZNE'
         self.currentPhase = None
@@ -806,7 +808,15 @@ class PickDlg(QDialog):
         self.cidscroll = self.connectScrollEvent(self.scrollZoom)
 
     def setupUi(self):
+        menuBar = QtGui.QMenuBar(self)
+        if not self._embedded:
+            exitMenu = menuBar.addMenu('File')
+            exitAction = QtGui.QAction('Close', self)        
+            exitAction.triggered.connect(self.close)
+            exitMenu.addAction(exitAction)
 
+        self.addPickPhases(menuBar)
+        
         # create matplotlib toolbar to inherit functionality
         self.figToolBar = NavigationToolbar2QT(self.getPlotWidget(), self)
         self.figToolBar.hide()
@@ -847,8 +857,8 @@ class PickDlg(QDialog):
         self.p_button.setCheckable(True)
         self.s_button.setCheckable(True)
         # set button tooltips
-        self.p_button.setToolTip('Hotkey: "1"')
-        self.s_button.setToolTip('Hotkey: "2"')
+        # self.p_button.setToolTip('Hotkey: "1"')
+        # self.s_button.setToolTip('Hotkey: "2"')
                                                
         # create accept/reject button
         self.accept_button = QPushButton('&Accept Picks')
@@ -859,8 +869,8 @@ class PickDlg(QDialog):
         self._shortcut_space = QtGui.QShortcut(QtGui.QKeySequence(' '), self)
         self._shortcut_space.activated.connect(self.accept_button.clicked)
         # button shortcuts (1 for P-button, 2 for S-button)
-        self.p_button.setShortcut(QKeySequence('1'))
-        self.s_button.setShortcut(QKeySequence('2'))
+        # self.p_button.setShortcut(QKeySequence('1'))
+        # self.s_button.setShortcut(QKeySequence('2'))
         
         # layout the outermost appearance of the Pick Dialog
         _outerlayout = QVBoxLayout()
@@ -892,9 +902,13 @@ class PickDlg(QDialog):
         # merge widgets and layouts to establish the dialog
         if not self._embedded:
             _innerlayout.addWidget(_buttonbox)
+        _outerlayout.addWidget(menuBar)
         _outerlayout.addWidget(_dialtoolbar)
         _outerlayout.addLayout(_innerlayout)
-
+        _outerlayout.setStretch(0, 0)
+        _outerlayout.setStretch(1, 0)
+        _outerlayout.setStretch(2, 1)
+        
         # connect widget element signals with slots (methods to the dialog
         # object
         self.p_button.clicked.connect(self.p_clicked)
@@ -910,6 +924,60 @@ class PickDlg(QDialog):
         self.setLayout(_outerlayout)
         self.resize(1280, 720)        
 
+    def addPickPhases(self, menuBar):
+        settings = QtCore.QSettings()
+        p_phases = settings.value('p_phases')
+        s_phases = settings.value('s_phases')
+        
+        if p_phases:
+            p_phases = p_phases.split(',')
+        else:
+            p_phases = []
+        if s_phases:
+            s_phases = s_phases.split(',')
+        else:
+            s_phases = []
+            
+        phases = {'P': p_phases,
+                  'S': s_phases}
+        if not 'P' in phases['P'] and not 'p' in phases['P']:
+            phases['P'] = ['P'] + phases['P']
+        if not 'S' in phases['S'] and not 's' in phases['S']:
+            phases['S'] = ['S'] + phases['S']
+        
+        picksMenu = menuBar.addMenu('Picks')
+        self.picksActions = {}
+
+        # dictionary points on corresponding phase_select function
+        phaseSelect = {'P': self.p_phase_select,
+                       'S': self.s_phase_select}
+
+        nHotkey = 4 # max hotkeys per phase
+        hotkey = 1 # start hotkey
+        
+        # loop over P and S (use explicit list instead of iter over dict.keys to keep order)
+        for phaseIndex, phaseID in enumerate(['P', 'S']):
+            # loop through phases in list
+            for index, phase in enumerate(phases[phaseID]):
+                # remove zeros
+                phase = phase.strip()
+                # add hotkeys
+                if not index >= nHotkey:
+                    shortcut = str(hotkey)
+                    hotkey += 1
+                else:
+                    shortcut = None
+                # create action and add to menu
+                # phase name transferred using lambda function
+                slot = lambda phase=phase, phaseID=phaseID: phaseSelect[phaseID](phase)
+                picksAction = createAction(parent=self, text=phase,
+                                           slot=slot,
+                                           shortcut=shortcut)
+                picksMenu.addAction(picksAction)
+                self.picksActions[str(phase)] = picksAction # save action in dictionary
+            if phaseIndex == 0:
+                picksMenu.addSeparator()
+        
     def disconnectPressEvent(self):
         widget = self.getPlotWidget()
         widget.mpl_disconnect(self.cidpress)
@@ -952,9 +1020,32 @@ class PickDlg(QDialog):
     def enable_ar_buttons(self, bool=True):
         self.accept_button.setEnabled(bool)
         self.reject_button.setEnabled(bool)        
+
+    def p_phase_select(self, phase):
+        if not self.p_button.isChecked():
+            self.p_button.setChecked(True)
+            self.p_button.setText(phase)
+        else:
+            if str(phase) == str(self.p_button.text()):
+                self.reset_p_button()
+            else:
+                self.p_button.setText(phase)
+        self.p_clicked()
+        
+    def s_phase_select(self, phase):
+        if not self.s_button.isChecked():
+            self.s_button.setChecked(True)
+            self.s_button.setText(phase)
+        else:
+            if str(phase) == str(self.s_button.text()):
+                self.reset_s_button()
+            else:
+                self.s_button.setText(phase)
+        self.s_clicked()
         
     def p_clicked(self):
         if self.p_button.isChecked():
+            self.reset_s_button()
             self.s_button.setEnabled(False)
             self.init_p_pick()
         else:
@@ -962,7 +1053,8 @@ class PickDlg(QDialog):
 
     def s_clicked(self):
         if self.s_button.isChecked():
-            self.p_button.setEnabled(False)
+            self.reset_p_button()
+            self.p_button.setEnabled(False)            
             self.init_s_pick()
         else:
             self.leave_picking_mode()
@@ -971,13 +1063,13 @@ class PickDlg(QDialog):
         self.set_button_color(self.p_button, 'yellow')
         self.updateCurrentLimits()
         self.activatePicking()
-        self.currentPhase = 'P'
+        self.currentPhase = str(self.p_button.text())
 
     def init_s_pick(self):
         self.set_button_color(self.s_button, 'yellow')
         self.updateCurrentLimits()
         self.activatePicking()
-        self.currentPhase = 'S'
+        self.currentPhase = str(self.s_button.text())
 
     def set_button_color(self, button, color = None):
         if type(color) == QtGui.QColor:
@@ -989,14 +1081,22 @@ class PickDlg(QDialog):
         elif type(color) == str or not color:        
             button.setStyleSheet("background-color: {}".format(color))    
 
+    def reset_p_button(self):
+        self.set_button_color(self.p_button)
+        self.p_button.setEnabled(True)
+        self.p_button.setChecked(False)
+        self.p_button.setText('P')
+        
+    def reset_s_button(self):
+        self.set_button_color(self.s_button)
+        self.s_button.setEnabled(True)
+        self.s_button.setChecked(False)
+        self.s_button.setText('S')        
+        
     def leave_picking_mode(self):
         self.currentPhase = None
-        self.set_button_color(self.p_button)
-        self.set_button_color(self.s_button)
-        self.p_button.setEnabled(True)
-        self.s_button.setEnabled(True)
-        self.p_button.setChecked(False)
-        self.s_button.setChecked(False)
+        self.reset_p_button()
+        self.reset_s_button()
         self.getPlotWidget().plotWFData(wfdata=self.getWFData(),
                                         title=self.getStation())
         self.drawAllPicks()
@@ -1035,6 +1135,8 @@ class PickDlg(QDialog):
         return self.components
 
     def getStation(self):
+        if self.network and self.station:
+            return self.network+'.'+self.station
         return self.station
 
     def getPlotWidget(self):
@@ -1057,7 +1159,7 @@ class PickDlg(QDialog):
         return self._user
 
     def getFilterOptions(self, phase):
-        options = self.filteroptions[phase]
+        options = self.filteroptions[phase[0]]
         return FilterOptions(**options)
 
     def getXLims(self):
@@ -1132,11 +1234,10 @@ class PickDlg(QDialog):
         self.disconnectMotionEvent()
         self.cidpress = self.connectPressEvent(self.setPick)
 
-        print(self.currentPhase)
-        if self.currentPhase == 'P':
+        if self.currentPhase.startswith('P'):
             self.set_button_color(self.p_button, 'green')
             self.setIniPickP(gui_event, wfdata, trace_number)
-        elif self.currentPhase == 'S':
+        elif self.currentPhase.startswith('S'):
             self.set_button_color(self.s_button, 'green')
             self.setIniPickS(gui_event, wfdata)
             
@@ -1169,7 +1270,7 @@ class PickDlg(QDialog):
 
         # filter data and trace on which is picked prior to determination of SNR
         phase = self.currentPhase
-        filteroptions = self.getFilterOptions(phase).parseFilterOptions()
+        filteroptions = self.getFilterOptions(phase[0]).parseFilterOptions()
         if filteroptions:
             data.filter(**filteroptions)
             wfdata.filter(**filteroptions)
@@ -1360,9 +1461,11 @@ class PickDlg(QDialog):
             'S': ('m', 'm--', 'r-', 'rv', 'r^', 'r', 'm:')
         }
         if self.getPicks(picktype):
-            if phase is not None and type(self.getPicks(picktype)[phase]) is dict:
-                picks = self.getPicks(picktype)[phase]
-                colors = phase_col[phase[0].upper()]
+            if phase is not None: 
+                if (type(self.getPicks(picktype)[phase]) is dict 
+                    or type(self.getPicks(picktype)[phase]) is AttribDict): 
+                    picks = self.getPicks(picktype)[phase] 
+                    colors = phase_col[phase[0].upper()] 
             elif phase is None:
                 for phase in self.getPicks(picktype):
                     self.drawPicks(phase, picktype)
@@ -1387,7 +1490,8 @@ class PickDlg(QDialog):
                 ax.plot([mpp + spe, mpp + spe], ylims, colors[1])
                 ax.plot([mpp, mpp], ylims, colors[2], label='{}-Pick'.format(phase))
             else:
-                ax.plot([mpp, mpp], ylims, colors[6], label='{}-Pick (NO PICKERROR)'.format(phase)) 
+                ax.plot([mpp, mpp], ylims, colors[6], label='{}-Pick (NO PICKERROR)'.format(phase))
+            ax.text(mpp, ylims[1], phase)
                 
         elif picktype == 'auto':
             ax.plot(mpp, ylims[1], colors[3],
@@ -1646,7 +1750,7 @@ class TuneAutopicker(QWidget):
         model = self.stationBox.model()
         for network, station in stations:
             item = QtGui.QStandardItem(network+'.'+station)
-            if station in self.get_current_event().picks:
+            if station in self.get_current_event().pylot_picks:
                 item.setBackground(self.parent._colors['ref'])
             model.appendRow(item)
 
@@ -1687,8 +1791,8 @@ class TuneAutopicker(QWidget):
         self.listWidget.scrollToBottom()
         
     def get_current_event(self):
-        index = self.eventBox.currentIndex()
-        return self.eventBox.itemData(index)
+        path = self.eventBox.currentText()
+        return self.parent.project.getEventFromPath(path)
         
     def get_current_event_name(self):
         return self.eventBox.currentText().split('/')[-1]
@@ -1698,13 +1802,13 @@ class TuneAutopicker(QWidget):
 
     def get_current_event_picks(self, station):
         event = self.get_current_event()
-        if station in event.picks.keys():
-            return event.picks[station]
+        if station in event.pylot_picks.keys():
+            return event.pylot_picks[station]
         
     def get_current_event_autopicks(self, station):
         event = self.get_current_event()
-        if event.autopicks:
-            return event.autopicks[station]
+        if event.pylot_autopicks:
+            return event.pylot_autopicks[station]
         
     def get_current_station(self):
         return str(self.stationBox.currentText()).split('.')[-1]
@@ -1855,6 +1959,9 @@ class TuneAutopicker(QWidget):
         self.init_tab_names()
 
     def fill_eventbox(self):
+        project = self.parent.project
+        if not project:
+            return
         # update own list
         self.parent.fill_eventbox(eventBox=self.eventBox, select_events='ref')
         index_start = self.parent.eventBox.currentIndex()
@@ -1862,11 +1969,15 @@ class TuneAutopicker(QWidget):
         if index == -1:
             index += 1
         nevents = self.eventBox.model().rowCount()
-        if self.eventBox.itemData(index).isTestEvent():
+        path = self.eventBox.itemText(index)
+        if project.getEventFromPath(path).isTestEvent():
             for index in range(nevents):
-                if not self.eventBox.itemData(index).isTestEvent():
-                    break
-                elif index == nevents - 1:
+                path = self.eventBox.itemText(index)
+                if project.getEventFromPath(index):
+                    if not project.getEventFromPath(index).isTestEvent():
+                        break
+                #in case all events are marked as test events and last event is reached
+                if index == nevents - 1:
                     index = -1
         self.eventBox.setCurrentIndex(index)
         if not index == index_start:
@@ -1911,8 +2022,8 @@ class TuneAutopicker(QWidget):
             self._warn('Could not execute picker:\n{}'.format(
                 self.ap_thread._executedError))
             return
-        self.picks = self.ap_thread.data
-        if not self.picks:
+        self.pylot_picks = self.ap_thread.data
+        if not self.pylot_picks:
             self._warn('No picks found. See terminal output.')
             return
         #renew tabs
@@ -2456,6 +2567,7 @@ class PropertiesDlg(QDialog):
                 elif setting.startswith('Channel N'):
                     component = 'N'
                     compclass.setCompPosition(value, component, False)
+                    
         settings.sync()
 
 
@@ -2547,7 +2659,7 @@ class OutputsTab(PropTab):
         settings = QSettings()
         curval = settings.value("output/Format", None)
 
-        eventOutputLabel = QLabel("event ouput format")
+        eventOutputLabel = QLabel("event/picks output format")
         self.eventOutputComboBox = QComboBox()
         eventoutputformats = OUTPUTFORMATS.keys()
         self.eventOutputComboBox.addItems(eventoutputformats)
@@ -2568,13 +2680,45 @@ class OutputsTab(PropTab):
     def resetValues(self, infile):
         values = {"output/Format": self.eventOutputComboBox.setCurrentIndex(1)}
         return values
+    
 
 class PhasesTab(PropTab):
     def __init__(self, parent=None):
         super(PhasesTab, self).__init__(parent)
 
-        pass
+        self.PphasesEdit = QLineEdit()
+        self.SphasesEdit = QLineEdit()
 
+        PphasesLabel = QLabel("P Phases to pick")
+        SphasesLabel = QLabel("S Phases to pick")
+
+        settings = QSettings()
+        Pphases = settings.value('p_phases')
+        Sphases = settings.value('s_phases')
+
+        self.PphasesEdit.setText("%s" % Pphases)
+        self.SphasesEdit.setText("%s" % Sphases)
+
+        layout = QGridLayout()
+        layout.addWidget(PphasesLabel, 0, 0)
+        layout.addWidget(SphasesLabel, 1, 0)
+
+        layout.addWidget(self.PphasesEdit, 0, 1)
+        layout.addWidget(self.SphasesEdit, 1, 1)
+        self.setLayout(layout)
+
+    def getValues(self):
+        values = {'p_phases': self.PphasesEdit.text(),
+                  's_phases': self.SphasesEdit.text()}
+        return values
+
+    def resetValues(self, infile=None):
+        Pphases = 'P, Pg, Pn, PmP, P1, P2, P3'
+        Sphases = 'S, Sg, Sn, SmS, S1, S2, S3'
+        values = {'p_phases': self.PphasesEdit.setText(Pphases),
+                  's_phases': self.SphasesEdit.setText(Sphases)}
+        return values
+    
 
 class GraphicsTab(PropTab):
     def __init__(self, parent=None):
@@ -2619,7 +2763,12 @@ class GraphicsTab(PropTab):
                   'pyqtgraphic': self.checkbox_pg.isChecked()}
         return values
         
+    def resetValues(self, infile=None):
+        values = {'nth_sample': self.spinbox_nth_sample.setValue(1),
+                  'pyqtgraphic': self.checkbox_pg.setChecked(True)}
+        return values
 
+    
 class ChannelOrderTab(PropTab):
     def __init__(self, parent=None, infile=None):
         super(ChannelOrderTab, self).__init__(parent)