def __init__(self, data_obj, sql_table, menu, menu_item_id):
"""
:param data_obj: object containing data to be viewed
:param sql_table: either 'DVHs', 'Plans', 'Beams', or 'Rxs'
:type sql_table: str
:param menu: a link to the main app menu, used to toggle Show/Hide status
:type menu: Menu
:param menu_item_id: the ID of the menu item associated with the specified data_obj
"""
wx.Frame.__init__(self, None, title='%s Data' % sql_table[0:-1])
self.data = data_obj
self.sql_table = sql_table
self.menu = menu
self.menu_item_id = menu_item_id
self.list_ctrl = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
# self.data_table = DataTable(self.list_ctrl, data=self.table_data, columns=self.columns)
self.data_table = DataTable(self.list_ctrl)
self.data_table.set_data(self.table_data, self.columns)
self.button_export = wx.Button(self, wx.ID_ANY, "Export to CSV")
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.run()
def __init__(self, parent, group_data, time_series, regression,
control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param group_data: dvh, table_data, and stats_data
:type group_data: dict
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.group_data = group_data
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.group_data = group_data
self.initial_columns = ['MRN', 'Tx Site', 'ROI Name', 'Volume (cc)']
self.widths = [150, 150, 250, 100]
self.button = {
'add': wx.Button(self.parent, wx.ID_ANY, "Add Endpoint"),
'del': wx.Button(self.parent, wx.ID_ANY, "Delete Endpoint"),
'exp': wx.Button(self.parent, wx.ID_ANY, 'Export')
}
self.table = {
key: wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
for key in [1, 2]
}
for table in self.table.values():
table.SetMinSize(get_window_size(0.623, 0.28))
self.data_table = {key: DataTable(self.table[key]) for key in [1, 2]}
self.endpoint_defs = DataTable(None,
columns=[
'label', 'output_type',
'input_type', 'input_value',
'units_in', 'units_out'
])
for key in [1, 2]:
if self.group_data[key]['dvh']:
self.group_data[key]['dvh'].endpoints[
'data'] = self.data_table[key].data
self.group_data[key]['dvh'].endpoints[
'defs'] = self.endpoint_defs.data
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.disable_buttons()
def __init__(self, parent, roi_map, physician, physician_roi):
"""
:param parent: GUI parent
:param roi_map: roi_map object
:type roi_map: DatabaseROIs
:param physician: initial physician value
:type physician: str
:param physician_roi: initial physician roi
:type physician_roi: str
"""
wx.Dialog.__init__(self, parent)
self.parent = parent
self.roi_map = roi_map
self.initial_physician = physician
self.initial_physician_roi = physician_roi
self.combo_box_physician = wx.ComboBox(
self,
wx.ID_ANY,
choices=list(self.roi_map.physicians),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_physician_roi = wx.ComboBox(self,
wx.ID_ANY,
choices=[],
style=wx.CB_DROPDOWN
| wx.CB_READONLY)
self.list_ctrl_variations = wx.ListCtrl(
self,
wx.ID_ANY,
style=wx.LC_NO_HEADER | wx.LC_REPORT | wx.BORDER_SUNKEN)
self.button_select_all = wx.Button(self, wx.ID_ANY, "Select All")
self.button_deselect_all = wx.Button(self, wx.ID_ANY, "Deselect All")
self.button_add = wx.Button(self, wx.ID_ANY, "Add")
self.button_delete = wx.Button(self, wx.ID_ANY, "Delete")
self.button_move = wx.Button(self, wx.ID_ANY, "Move")
self.button_dismiss = wx.Button(self, wx.ID_CANCEL, "Dismiss")
self.button_move.Disable()
self.button_delete.Disable()
self.button_deselect_all.Disable()
self.button_add_physician = wx.Button(self, wx.ID_ANY, "Add")
self.button_add_physician_roi = wx.Button(self, wx.ID_ANY, "Add")
self.columns = ['Variations']
self.data_table = DataTable(self.list_ctrl_variations,
columns=self.columns,
widths=[400])
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.run()
def __init__(self, roi_map):
"""
:param roi_map: roi_map object
:type roi_map: DatabaseROIs
"""
wx.Frame.__init__(self, None, title='Database Administrator')
set_msw_background_color(self) # If windows, change the background color
self.roi_map = roi_map
self.db_tree = self.get_db_tree()
self.SetSize(get_window_size(0.792, 0.781))
self.window_db_editor = wx.SplitterWindow(self, wx.ID_ANY, style=wx.SP_3D)
self.window_pane_db_tree = wx.ScrolledWindow(self.window_db_editor, wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.TAB_TRAVERSAL)
self.tree_ctrl_db = wx.TreeCtrl(self.window_pane_db_tree, wx.ID_ANY, style=wx.TR_HAS_BUTTONS | wx.TR_MULTIPLE)
self.window_pane_query = wx.Panel(self.window_db_editor, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.TAB_TRAVERSAL)
self.text_ctrl_condition = wx.TextCtrl(self.window_pane_query, wx.ID_ANY, "")
self.list_ctrl_query_results = wx.ListCtrl(self.window_pane_query, wx.ID_ANY,
style=wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.data_query_results = DataTable(self.list_ctrl_query_results, columns=['mrn', 'study_instance_uid'])
self.combo_box_query_table = wx.ComboBox(self.window_pane_query, wx.ID_ANY, choices=list(self.db_tree),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.button = {'delete_all_data': wx.Button(self, wx.ID_ANY, "Delete All Data"),
'rebuild_db': wx.Button(self, wx.ID_ANY, "Rebuild Database"),
# 'calculations': wx.Button(self, wx.ID_ANY, "Calculations"),
'edit_db': wx.Button(self, wx.ID_ANY, "Edit Database"),
'reimport': wx.Button(self, wx.ID_ANY, "Reimport from DICOM"),
'delete_study': wx.Button(self, wx.ID_ANY, "Delete Study"),
'change_mrn_uid': wx.Button(self, wx.ID_ANY, "Change MRN/UID"),
'query': wx.Button(self.window_pane_query, wx.ID_ANY, "Query"),
'clear': wx.Button(self.window_pane_query, wx.ID_ANY, "Clear"),
'export_csv': wx.Button(self.window_pane_query, wx.ID_ANY, "Export"),
'remap_roi_names': wx.Button(self, wx.ID_ANY, "Remap ROI Names")}
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.selected_columns = {table: {c: False for c in list(self.db_tree[table])} for table in list(self.db_tree)}
self.selected_tables = {table: False for table in list(self.db_tree)}
self.window_db_editor.SetSashPosition(250)
self.tree_ctrl_db.Expand(self.db_tree_root)
self.allow_tree_select_change = True
self.Show()
def __init__(self, main_app_frame):
self.main_app_frame = main_app_frame
self.parent = main_app_frame.notebook_tab['Endpoints']
self.group_data = main_app_frame.group_data
self.time_series = main_app_frame.time_series
self.regression = main_app_frame.regression
self.control_chart = main_app_frame.control_chart
self.group_data = main_app_frame.group_data
self.initial_columns = ['MRN', 'Tx Site', 'ROI Name', 'Volume (cc)']
self.widths = [150, 150, 250, 100]
self.button = {
'add': wx.Button(self.parent, wx.ID_ANY, "Add Endpoint"),
'del': wx.Button(self.parent, wx.ID_ANY, "Delete Endpoint"),
'exp': wx.Button(self.parent, wx.ID_ANY, 'Export')
}
self.table = {
key: wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
for key in [1, 2]
}
for table in self.table.values():
table.SetMinSize(get_window_size(0.623, 0.28))
self.data_table = {key: DataTable(self.table[key]) for key in [1, 2]}
self.endpoint_defs = DataTable(None,
columns=[
'label', 'output_type',
'input_type', 'input_value',
'units_in', 'units_out'
])
for key in [1, 2]:
if self.group_data[key]['dvh']:
self.group_data[key]['dvh'].endpoints[
'data'] = self.data_table[key].data
self.group_data[key]['dvh'].endpoints[
'defs'] = self.endpoint_defs.data
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.disable_buttons()
def __init__(self, app):
"""
:param app: easier to pass main frame pointer than several links to each data type
:type app: DVHAMainFrame
"""
wx.Dialog.__init__(self, None)
self.app = app
# Each of these objects shoudl have a has_data property, if False, those UI elements in this class will
# be disabled (i.e., don't allow user to export empty tables
self.enabled = {'DVHs': self.app.group_data[1]['dvh'].has_data,
'DVHs Summary': self.app.group_data[1]['dvh'].has_data,
'Endpoints': self.app.endpoint.has_data,
'Radbio': self.app.radbio.has_data,
'Charting Variables': self.app.time_series.has_data}
checkbox_keys = ['DVHs', 'DVHs Summary', 'Endpoints', 'Radbio', 'Charting Variables']
self.checkbox = {key: wx.CheckBox(self, wx.ID_ANY, key) for key in checkbox_keys}
# set to a dictionary because previous versions had a tree with Regression
self.list_ctrl = {'Charting Variables': wx.ListCtrl(self, wx.ID_ANY,
style=wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)}
time_series_column = "Variables"
time_series_variables = self.app.time_series.combo_box_y_axis.GetItems()
time_series_data = {time_series_column: time_series_variables}
self.data_table_time_series = DataTable(self.list_ctrl['Charting Variables'],
columns=[time_series_column], widths=[400])
self.data_table_time_series.set_data(time_series_data, [time_series_column])
# set to a dictionary because previous versions had a table with Regression
self.button_select_data = {'Charting Variables': {'Select': wx.Button(self, wx.ID_ANY, "Select All"),
'Deselect': wx.Button(self, wx.ID_ANY, "Deselect All")}}
self.button_save = wx.Button(self, wx.ID_OK, "Save")
self.button_cancel = wx.Button(self, wx.ID_CANCEL, "Cancel")
self.button_select_all = wx.Button(self, wx.ID_ANY, 'Select All')
self.button_deselect_all = wx.Button(self, wx.ID_ANY, 'Deselect All')
self.__set_properties()
self.__do_bind()
self.__do_layout()
self.run()
def __init__(self, parent, dvh, time_series, regression, control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param dvh: dvh data object
:type dvh: DVH
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.dvh = dvh
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.table_published_values = wx.ListCtrl(self.parent, wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.text_input_eud_a = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_gamma_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_td_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.button_apply_parameters = wx.Button(self.parent, wx.ID_ANY, "Apply Parameters")
self.button_export = wx.Button(self.parent, wx.ID_ANY, "Export")
self.table_rad_bio = wx.ListCtrl(self.parent, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.columns = ['MRN', 'ROI Name', 'a', u'\u03b3_50', 'TD or TCD', 'EUD', 'NTCP or TCP', 'PTV Overlap',
'ROI Type', 'Rx Dose', 'Total Fxs', 'Fx Dose']
self.width = [100, 175, 50, 50, 80, 80, 80, 100, 100, 100, 100, 100]
formats = [wx.LIST_FORMAT_RIGHT] * len(self.columns)
formats[0] = wx.LIST_FORMAT_LEFT
formats[1] = wx.LIST_FORMAT_LEFT
self.data_table_rad_bio = DataTable(self.table_rad_bio, columns=self.columns,
widths=self.width, formats=formats)
self.__set_properties()
self.__do_layout()
parent.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_parameter_select, self.table_published_values)
parent.Bind(wx.EVT_BUTTON, self.apply_parameters, id=self.button_apply_parameters.GetId())
parent.Bind(wx.EVT_BUTTON, self.on_export_csv, id=self.button_export.GetId())
self.disable_buttons()
def __init__(self, data_obj, columns, data_key, menu, menu_item_id):
"""
:param data_obj: object containing data to be viewed for each group
:type data_obj: dict
:param columns: columns to be displayed in table
:type columns: list
:param data_key: either 'DVHs', 'Plans', 'Beams', 'Rxs', or 'StatsData'
:type data_key: str
:param menu: a link to the main app menu, used to toggle Show/Hide status
:type menu: Menu
:param menu_item_id: the ID of the menu item associated with the specified data_obj
"""
wx.Frame.__init__(self, None, title='%s Data' % data_key[0:-1])
self.data = data_obj
self.columns = columns
self.sql_table = data_key
self.menu = menu
self.menu_item_id = menu_item_id
self.list_ctrl = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
self.button_export = wx.Button(self, wx.ID_ANY, "Export to CSV")
self.radio_button_query_group = wx.RadioBox(self,
wx.ID_ANY,
'Query Group',
choices=['1', '2'])
self.data_table = DataTable(self.list_ctrl)
self.data_table.set_data(self.table_data, self.columns)
if not self.data[2]:
self.radio_button_query_group.Disable()
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.run()
def __init__(self, main_app_frame):
self.main_app_frame = main_app_frame
self.parent = main_app_frame.notebook_tab['Rad Bio']
self.group_data = main_app_frame.group_data
self.time_series = main_app_frame.time_series
self.regression = main_app_frame.regression
self.control_chart = main_app_frame.control_chart
self.table_published_values = wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.LC_HRULES | wx.LC_REPORT
| wx.LC_VRULES)
self.text_input_eud_a = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_gamma_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_td_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.radio_box_query_group = wx.RadioBox(self.parent,
wx.ID_ANY,
'Query Group',
choices=['1', '2', 'Both'])
self.button_apply_parameters = wx.Button(self.parent, wx.ID_ANY,
"Apply Parameters")
self.button_export = wx.Button(self.parent, wx.ID_ANY, "Export")
self.table_rad_bio = {
grp: wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
for grp in [1, 2]
}
self.columns = [
'MRN', 'ROI Name', 'a', u'\u03b3_50', 'TD or TCD', 'EUD',
'NTCP or TCP', 'PTV Overlap', 'ROI Type', 'Rx Dose', 'Total Fxs',
'Fx Dose'
]
self.width = [100, 175, 50, 50, 80, 80, 80, 100, 100, 100, 100, 100]
formats = [wx.LIST_FORMAT_RIGHT] * len(self.columns)
formats[0] = wx.LIST_FORMAT_LEFT
formats[1] = wx.LIST_FORMAT_LEFT
self.data_table_rad_bio = {
grp: DataTable(self.table_rad_bio[grp],
columns=self.columns,
widths=self.width,
formats=formats)
for grp in [1, 2]
}
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.disable_buttons()
class EndpointFrame:
"""
Object to be passed into notebook panel for the Endpoint tab
"""
def __init__(self, parent, dvh, time_series, regression, control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param dvh: dvh data object
:type dvh: DVH
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.dvh = dvh
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.initial_columns = ['MRN', 'Tx Site', 'ROI Name', 'Volume (cc)']
self.widths = [150, 150, 250, 100]
self.button = {'add': wx.Button(self.parent, wx.ID_ANY, "Add Endpoint"),
'del': wx.Button(self.parent, wx.ID_ANY, "Delete Endpoint"),
'exp': wx.Button(self.parent, wx.ID_ANY, 'Export')}
self.table = wx.ListCtrl(self.parent, wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.table.SetMinSize(get_window_size(0.623, 0.762))
self.data_table = DataTable(self.table)
self.endpoint_defs = DataTable(None, columns=['label', 'output_type', 'input_type',
'input_value', 'units_in', 'units_out'])
if dvh:
self.dvh.endpoints['data'] = self.data_table.data
self.dvh.endpoints['defs'] = self.endpoint_defs.data
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.disable_buttons()
def __do_bind(self):
self.parent.Bind(wx.EVT_BUTTON, self.add_ep_button_click, id=self.button['add'].GetId())
self.parent.Bind(wx.EVT_BUTTON, self.del_ep_button_click, id=self.button['del'].GetId())
self.parent.Bind(wx.EVT_BUTTON, self.on_export_csv, id=self.button['exp'].GetId())
def __set_properties(self):
for i, column in enumerate(self.initial_columns):
self.table.AppendColumn(column, format=wx.LIST_FORMAT_LEFT, width=self.widths[i])
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
vbox = wx.BoxSizer(wx.VERTICAL)
hbox = wx.BoxSizer(wx.HORIZONTAL)
for key in list(self.button):
hbox.Add(self.button[key], 0, wx.ALL, 5)
vbox.Add(hbox, 0, wx.ALL | wx.EXPAND, 5)
vbox.Add(self.table, 1, wx.EXPAND, 0)
sizer_wrapper.Add(vbox, 1, wx.ALL | wx.EXPAND, 20)
self.layout = sizer_wrapper
def calculate_endpoints(self):
columns = [c for c in self.initial_columns]
if self.data_table.data:
current_labels = [key for key in list(self.data_table.data) if key not in columns]
else:
current_labels = []
ep = {'MRN': self.dvh.mrn,
'Tx Site': self.dvh.get_plan_values('tx_site'),
'ROI Name': self.dvh.roi_name,
'Volume (cc)': self.dvh.volume}
ep_defs = self.endpoint_defs.data
if ep_defs:
for i, ep_name in enumerate(ep_defs['label']):
if ep_name not in columns:
columns.append(ep_name)
if ep_name in current_labels:
ep[ep_name] = deepcopy(self.data_table.data[ep_name])
else:
endpoint_input = ep_defs['input_type'][i]
endpoint_output = ep_defs['output_type'][i]
x = float(ep_defs['input_value'][i])
if endpoint_input == 'relative':
x /= 100.
if 'V' in ep_name:
ep[ep_name] = self.dvh.get_volume_of_dose(x, volume_scale=endpoint_output,
dose_scale=endpoint_input)
else:
ep[ep_name] = self.dvh.get_dose_to_volume(x, dose_scale=endpoint_output,
volume_scale=endpoint_input)
self.data_table.set_data(ep, columns)
self.data_table.set_column_width(0, 150)
self.data_table.set_column_width(1, 150)
self.data_table.set_column_width(2, 200)
def add_ep_button_click(self, evt):
dlg = AddEndpointDialog()
res = dlg.ShowModal()
if res == wx.ID_OK and dlg.is_endpoint_valid:
self.endpoint_defs.append_row(dlg.endpoint_row)
self.calculate_endpoints()
self.enable_buttons()
self.update_endpoints_in_dvh()
self.time_series.update_y_axis_options()
dlg.Destroy()
self.regression.stats_data.update_endpoints_and_radbio()
self.regression.update_combo_box_choices()
self.control_chart.update_combo_box_y_choices()
def del_ep_button_click(self, evt):
dlg = DelEndpointDialog(self.data_table.columns)
res = dlg.ShowModal()
if res == wx.ID_OK:
for value in dlg.selected_values:
self.data_table.delete_column(value)
endpoint_def_row = self.endpoint_defs.data['label'].index(value)
self.update_endpoints_in_dvh()
self.endpoint_defs.delete_row(endpoint_def_row)
self.time_series.update_y_axis_options()
dlg.Destroy()
self.regression.stats_data.update_endpoints_and_radbio()
self.regression.update_combo_box_choices()
self.control_chart.update_combo_box_y_choices()
if self.data_table.column_count == 3:
self.button['del'].Disable()
self.button['exp'].Disable()
def update_dvh(self, dvh):
self.dvh = dvh
self.update_endpoints_in_dvh()
def update_endpoints_in_dvh(self):
if self.dvh:
self.dvh.endpoints['data'] = self.data_table.data
self.dvh.endpoints['defs'] = self.endpoint_defs.data
def clear_data(self):
self.data_table.delete_all_rows()
self.endpoint_defs.delete_all_rows(force_delete_data=True) # no attached layout, force delete
if self.data_table.data:
for column in list(self.data_table.data):
if column not in self.initial_columns:
self.data_table.delete_column(column)
def enable_buttons(self):
for key in list(self.button):
self.button[key].Enable()
def disable_buttons(self):
for key in list(self.button):
self.button[key].Disable()
def enable_initial_buttons(self):
self.button['add'].Enable()
def get_csv(self, selection=None):
uid = {1: {'title': 'Study Instance UID',
'data': self.dvh.uid}}
return self.data_table.get_csv(extra_column_data=uid)
def on_export_csv(self, evt):
save_data_to_file(self.parent, "Export Endpoints to CSV", self.get_csv())
def get_save_data(self):
return deepcopy({'data_table': self.data_table.get_save_data(),
'endpoint_defs': self.endpoint_defs.get_save_data()})
def load_save_data(self, save_data):
self.data_table.load_save_data(save_data['data_table'], ignore_layout=True)
self.endpoint_defs.load_save_data(save_data['endpoint_defs'], ignore_layout=True)
self.calculate_endpoints()
@property
def has_data(self):
if self.endpoint_defs.data and self.endpoint_defs.data['label']:
return True
return False
def __init__(self, *args, **kwds):
kwds["style"] = kwds.get("style", 0) | wx.DEFAULT_FRAME_STYLE
wx.Frame.__init__(self, *args, **kwds)
self.layout_set = False
self.sizer_dvhs = wx.BoxSizer(wx.VERTICAL)
set_msw_background_color(self) # If windows, change the background color
self.options = Options()
# Initial DVH object and data
self.save_data = {}
self.group_data = {1: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None},
2: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None}}
self.toolbar_keys = ['Open', 'Close', 'Save', 'Export', 'Import', 'Database', 'ROI Map', 'Settings']
self.toolbar_ids = {key: i + 1000 for i, key in enumerate(self.toolbar_keys)}
# sql_columns.py contains dictionaries of all queryable variables along with their
# SQL columns and tables. Numerical categories include their units as well.
self.categorical_columns = sql_columns.categorical
self.numerical_columns = sql_columns.numerical
# Keep track of currently selected row in the query tables
self.selected_index_categorical = None
self.selected_index_numerical = None
# Load ROI Map now and pass to other objects for continuity
# TODO: Need a method to address multiple users editing roi_map at the same time
self.roi_map = DatabaseROIs()
self.query_filters = None
self.reset_query_filters()
self.__add_menubar()
self.__add_tool_bar()
self.__add_layout_objects()
self.__bind_layout_objects()
columns = {'categorical': ['category_1', 'category_2', 'Filter Type'],
'numerical': ['category', 'min', 'max', 'Filter Type']}
self.data_table_categorical = DataTable(self.table_categorical, columns=columns['categorical'])
self.data_table_numerical = DataTable(self.table_numerical, columns=columns['numerical'])
self.__set_properties()
self.__set_tooltips()
self.__add_notebook_frames()
self.__do_layout()
self.disable_query_buttons('categorical')
self.disable_query_buttons('numerical')
self.button_query_execute.Disable()
self.__disable_notebook_tabs()
self.Bind(wx.EVT_CLOSE, self.on_quit)
self.tool_bar_windows = {key: None for key in ['import', 'database', 'roi_map']}
wx.CallAfter(self.__catch_failed_sql_connection_on_app_launch)
self.__do_subscribe()
class DatabaseEditorFrame(wx.Frame):
"""
Various viewing and editing tools for the SQL database. This object is called on Database toolbar click.
"""
def __init__(self, roi_map, options):
"""
:param roi_map: roi_map object
:type roi_map: DatabaseROIs
"""
wx.Frame.__init__(self, None, title='Database Administrator')
set_frame_icon(self)
set_msw_background_color(
self) # If windows, change the background color
self.roi_map = roi_map
self.options = options
self.db_tree = self.get_db_tree()
self.SetSize(get_window_size(0.792, 0.781))
self.window_db_editor = wx.SplitterWindow(self,
wx.ID_ANY,
style=wx.SP_3D)
self.window_pane_db_tree = wx.ScrolledWindow(self.window_db_editor,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.TAB_TRAVERSAL)
self.tree_ctrl_db = wx.TreeCtrl(self.window_pane_db_tree,
wx.ID_ANY,
style=wx.TR_HAS_BUTTONS
| wx.TR_MULTIPLE)
self.window_pane_query = wx.Panel(self.window_db_editor,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.TAB_TRAVERSAL)
self.text_ctrl_condition = wx.TextCtrl(self.window_pane_query,
wx.ID_ANY, "")
self.list_ctrl_query_results = wx.ListCtrl(
self.window_pane_query,
wx.ID_ANY,
style=wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.data_query_results = DataTable(
self.list_ctrl_query_results,
columns=['mrn', 'study_instance_uid'])
self.combo_box_query_table = wx.ComboBox(self.window_pane_query,
wx.ID_ANY,
choices=list(self.db_tree),
style=wx.CB_DROPDOWN
| wx.CB_READONLY)
self.button = {
'delete_all_data':
wx.Button(self, wx.ID_ANY, "Delete All Data"),
'rebuild_db':
wx.Button(self, wx.ID_ANY, "Rebuild Database"),
'calculations':
wx.Button(self, wx.ID_ANY, "Calculations"),
'edit_db':
wx.Button(self, wx.ID_ANY, "Edit Database"),
'reimport':
wx.Button(self, wx.ID_ANY, "Reimport from DICOM"),
'delete_study':
wx.Button(self, wx.ID_ANY, "Delete Study"),
'change_mrn_uid':
wx.Button(self, wx.ID_ANY, "Change MRN/UID"),
'query':
wx.Button(self.window_pane_query, wx.ID_ANY, "Query"),
'clear':
wx.Button(self.window_pane_query, wx.ID_ANY, "Clear"),
'export_csv':
wx.Button(self.window_pane_query, wx.ID_ANY, "Export"),
'remap_roi_names':
wx.Button(self, wx.ID_ANY, "Remap ROI Names"),
'update_from_csv':
wx.Button(self, wx.ID_ANY, "Update from CSV"),
# 'plan_complexity': wx.Button(self, wx.ID_ANY, "Recalc Plan Complexities"),
'auto_fit_columns':
wx.Button(self.window_pane_query, wx.ID_ANY, "Auto-fit Columns")
}
self.checkbox_auto_backup = wx.CheckBox(
self, wx.ID_ANY, "Auto Backup SQLite DB After Import")
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.selected_columns = {
table: {c: False
for c in list(self.db_tree[table])}
for table in list(self.db_tree)
}
self.selected_tables = {table: False for table in list(self.db_tree)}
self.window_db_editor.SetSashPosition(250)
self.tree_ctrl_db.Expand(self.db_tree_root)
self.allow_tree_select_change = True
self.Show()
def __set_properties(self):
self.SetTitle("Database Administrator")
self.window_pane_db_tree.SetScrollRate(10, 10)
self.window_db_editor.SetMinimumPaneSize(20)
self.db_tree_root = self.tree_ctrl_db.AddRoot('DVH Analytics')
self.table_nodes = {
table: self.tree_ctrl_db.AppendItem(self.db_tree_root, table)
for table in self.db_tree
}
self.column_nodes = {table: {} for table in self.db_tree}
for table in self.db_tree:
for column in self.db_tree[table]:
self.column_nodes[table][
column] = self.tree_ctrl_db.AppendItem(
self.table_nodes[table], column)
self.combo_box_query_table.SetValue('Plans')
self.checkbox_auto_backup.SetFont(
wx.Font(11, wx.FONTFAMILY_DEFAULT, wx.FONTSTYLE_NORMAL,
wx.FONTWEIGHT_NORMAL, 0, ""))
self.checkbox_auto_backup.SetValue(self.options.AUTO_SQL_DB_BACKUP)
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_query = wx.BoxSizer(wx.VERTICAL)
sizer_query_table = wx.StaticBoxSizer(
wx.StaticBox(self.window_pane_query, wx.ID_ANY, "Query Results"),
wx.VERTICAL)
sizer_condition_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_download_button = wx.BoxSizer(wx.VERTICAL)
sizer_clear_button = wx.BoxSizer(wx.VERTICAL)
sizer_query_button = wx.BoxSizer(wx.VERTICAL)
sizer_auto_fit_columns_button = wx.BoxSizer(wx.VERTICAL)
sizer_condition = wx.BoxSizer(wx.VERTICAL)
sizer_combo_box = wx.BoxSizer(wx.VERTICAL)
sizer_db_tree = wx.BoxSizer(wx.HORIZONTAL)
sizer_dialog_buttons = wx.BoxSizer(wx.VERTICAL)
sizer_dialog_buttons_1 = wx.BoxSizer(wx.HORIZONTAL)
sizer_dialog_buttons_1.Add(self.button['calculations'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['edit_db'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['reimport'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['delete_study'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['change_mrn_uid'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['rebuild_db'], 0, wx.ALL, 5)
sizer_dialog_buttons_1.Add(self.button['delete_all_data'], 0, wx.ALL,
5)
sizer_dialog_buttons_1.Add(self.button['remap_roi_names'], 0, wx.ALL,
5)
sizer_dialog_buttons_1.Add(self.button['update_from_csv'], 0, wx.ALL,
5)
# sizer_dialog_buttons.Add(self.button['plan_complexity'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(sizer_dialog_buttons_1, 0, 0, 0)
sizer_dialog_buttons.Add(self.checkbox_auto_backup, 0, wx.LEFT, 5)
sizer_wrapper.Add(sizer_dialog_buttons, 0, wx.ALL, 5)
sizer_db_tree.Add(self.tree_ctrl_db, 1, wx.EXPAND, 0)
self.window_pane_db_tree.SetSizer(sizer_db_tree)
label_table = wx.StaticText(self.window_pane_query, wx.ID_ANY,
"Table:")
sizer_combo_box.Add(label_table, 0, wx.BOTTOM | wx.TOP, 5)
sizer_combo_box.Add(self.combo_box_query_table, 0, 0, 0)
sizer_condition_buttons.Add(sizer_combo_box, 0, wx.ALL | wx.EXPAND, 5)
label_condition = wx.StaticText(self.window_pane_query, wx.ID_ANY,
"Condition:")
sizer_condition.Add(label_condition, 0, wx.BOTTOM | wx.TOP, 5)
sizer_condition.Add(self.text_ctrl_condition, 0, wx.ALL | wx.EXPAND, 0)
sizer_condition_buttons.Add(sizer_condition, 1, wx.ALL | wx.EXPAND, 5)
label_spacer_1 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_query_button.Add(label_spacer_1, 0, wx.BOTTOM, 5)
sizer_query_button.Add(self.button['query'], 0, wx.ALL, 5)
sizer_condition_buttons.Add(sizer_query_button, 0, wx.ALL, 5)
label_spacer_2 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_download_button.Add(label_spacer_2, 0, wx.BOTTOM, 5)
sizer_download_button.Add(self.button['export_csv'], 0,
wx.TOP | wx.BOTTOM, 5)
sizer_condition_buttons.Add(sizer_download_button, 0, wx.ALL, 5)
label_spacer_3 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_clear_button.Add(label_spacer_3, 0, wx.BOTTOM, 5)
sizer_clear_button.Add(self.button['clear'], 0, wx.TOP | wx.BOTTOM, 5)
sizer_condition_buttons.Add(sizer_clear_button, 0, wx.ALL, 5)
label_spacer_4 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_auto_fit_columns_button.Add(label_spacer_4, 0, wx.BOTTOM, 5)
sizer_auto_fit_columns_button.Add(self.button['auto_fit_columns'], 0,
wx.ALL, 5)
sizer_condition_buttons.Add(sizer_auto_fit_columns_button, 0, wx.ALL,
5)
sizer_query.Add(sizer_condition_buttons, 0,
wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.RIGHT, 5)
sizer_query_table.Add(self.list_ctrl_query_results, 1, wx.EXPAND, 0)
sizer_query.Add(sizer_query_table, 1, wx.ALL | wx.EXPAND, 5)
self.window_pane_query.SetSizer(sizer_query)
self.window_db_editor.SplitVertically(self.window_pane_db_tree,
self.window_pane_query)
sizer_wrapper.Add(self.window_db_editor, 1, wx.EXPAND, 0)
self.SetSizer(sizer_wrapper)
self.Layout()
self.Center()
def __do_bind(self):
# self.Bind(wx.EVT_TREE_SEL_CHANGED, self.OnTreeAdd, self.tree_ctrl_db, id=self.tree_ctrl_db.GetId())
# All buttons are bound to a function based on their key prepended with 'on_'
# For example, query button calls on_query when clicked
for key, button in self.button.items():
self.Bind(wx.EVT_BUTTON,
getattr(self, 'on_' + key),
id=button.GetId())
self.Bind(wx.EVT_CHECKBOX,
self.on_auto_backup,
id=self.checkbox_auto_backup.GetId())
self.Bind(wx.EVT_LIST_COL_CLICK, self.sort_query_results,
self.list_ctrl_query_results)
def on_auto_fit_columns(self, *evt):
self.data_query_results.set_column_widths(auto=True)
def on_tree_add(self, evt):
self.update_selected_tree_items()
# def UnselectOtherTables(self, selected_table):
# self.allow_tree_select_change = False
# for table, node in self.table_nodes.items():
# if table != selected_table:
# self.tree_ctrl_db.UnselectItem(node)
# self.allow_tree_select_change = True
def on_query(self, evt):
self.update_selected_tree_items()
table = self.combo_box_query_table.GetValue()
columns = [
c for c, sel in self.selected_columns[table].items()
if sel and c not in {'mrn', 'study_instance_uid'}
]
columns.sort()
if not columns:
columns = [
c for c in self.db_tree[table]
if c not in {'mrn', 'study_instance_uid'}
]
columns.insert(0, 'study_instance_uid')
columns.insert(0, 'mrn')
condition = self.text_ctrl_condition.GetValue()
with DVH_SQL() as cnx:
try:
data = cnx.query(table,
','.join(columns),
condition,
bokeh_cds=True)
self.data_query_results.set_data(data, columns)
except SQLError as e:
SQLErrorDialog(self, e)
self.data_query_results.clear()
def on_clear(self, evt):
self.data_query_results.clear()
@staticmethod
def get_db_tree():
tree = get_database_tree()
for table in list(tree):
tree[table] = [
column for column in tree[table] if 'string' not in column
]
return tree
def update_selected_tree_items(self):
for table, table_item in self.table_nodes.items():
self.selected_tables[table] = self.tree_ctrl_db.IsSelected(
table_item)
for column, column_item in self.column_nodes[table].items():
self.selected_columns[table][
column] = self.tree_ctrl_db.IsSelected(column_item)
def on_change_mrn_uid(self, evt):
self.change_or_delete_dlg(ChangePatientIdentifierDialog)
def on_delete_study(self, evt):
self.change_or_delete_dlg(DeletePatientDialog)
def change_or_delete_dlg(self, class_type):
selected_data = self.data_query_results.selected_row_data
if selected_data:
class_type(mrn=selected_data[0][0],
study_instance_uid=selected_data[0][1])
else:
class_type()
def on_reimport(self, evt):
selected_data = self.data_query_results.selected_row_data
if selected_data:
ReimportDialog(self.roi_map,
self.options,
mrn=selected_data[0][0],
study_instance_uid=selected_data[0][1])
else:
ReimportDialog(self.roi_map, self.options)
@staticmethod
def on_edit_db(evt):
EditDatabaseDialog()
@staticmethod
def on_calculations(evt):
CalculationsDialog()
def on_rebuild_db(self, evt):
RebuildDB(self, self.roi_map, self.options)
def on_delete_all_data(self, evt):
DeleteAllData(self, self.options)
def on_export_csv(self, evt):
save_data_to_file(self, "Export Data Table to CSV",
self.data_query_results.get_csv())
def on_remap_roi_names(self, evt):
RemapROIFrame(self.roi_map, remap_all=True)
def sort_query_results(self, evt):
self.data_query_results.sort_table(evt)
def on_auto_backup(self, *evt):
self.options.AUTO_SQL_DB_BACKUP = self.checkbox_auto_backup.GetValue()
# @staticmethod
# def on_plan_complexity(*evt):
# with wx.BusyCursor() as busy:
# recalculate_plan_complexities_from_beams()
def on_update_from_csv(self, *evt):
msg = "Load a CSV file and update your database. Please see manual for " \
"more information. Formatting is critical, this can not be undone!"
caption = "USE WITH EXTREME CAUTION"
ErrorDialog(self,
msg,
caption,
flags=wx.ICON_WARNING | wx.OK | wx.OK_DEFAULT)
with wx.FileDialog(self,
"Load CSV into Database",
style=wx.FD_FILE_MUST_EXIST
| wx.FD_OPEN) as fileDialog:
if fileDialog.ShowModal() == wx.ID_CANCEL:
return
pathname = fileDialog.GetPath()
with open(pathname, 'r') as fp:
lines = fp.readlines()
header_row = "table,column,value,condition"
if lines and header_row in lines[0].strip():
params = [csv_to_list(line.strip()) for line in lines[1:]]
ProgressFrame(params,
update_db_with_csv,
title="Update Database from CSV file",
action_msg="Processing row",
star_map=True)
else:
msg = "The selected file was not recognized. " \
"Be sure you have a header row of: %s" % header_row
caption = "CSV load failure"
ErrorDialog(self,
msg,
caption,
flags=wx.ICON_WARNING | wx.OK | wx.OK_DEFAULT)
class EndpointFrame:
"""
Object to be passed into notebook panel for the Endpoint tab
"""
def __init__(self, parent, group_data, time_series, regression,
control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param group_data: dvh, table_data, and stats_data
:type group_data: dict
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.group_data = group_data
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.group_data = group_data
self.initial_columns = ['MRN', 'Tx Site', 'ROI Name', 'Volume (cc)']
self.widths = [150, 150, 250, 100]
self.button = {
'add': wx.Button(self.parent, wx.ID_ANY, "Add Endpoint"),
'del': wx.Button(self.parent, wx.ID_ANY, "Delete Endpoint"),
'exp': wx.Button(self.parent, wx.ID_ANY, 'Export')
}
self.table = {
key: wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
for key in [1, 2]
}
for table in self.table.values():
table.SetMinSize(get_window_size(0.623, 0.28))
self.data_table = {key: DataTable(self.table[key]) for key in [1, 2]}
self.endpoint_defs = DataTable(None,
columns=[
'label', 'output_type',
'input_type', 'input_value',
'units_in', 'units_out'
])
for key in [1, 2]:
if self.group_data[key]['dvh']:
self.group_data[key]['dvh'].endpoints[
'data'] = self.data_table[key].data
self.group_data[key]['dvh'].endpoints[
'defs'] = self.endpoint_defs.data
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.disable_buttons()
def __do_bind(self):
self.parent.Bind(wx.EVT_BUTTON,
self.add_ep_button_click,
id=self.button['add'].GetId())
self.parent.Bind(wx.EVT_BUTTON,
self.del_ep_button_click,
id=self.button['del'].GetId())
self.parent.Bind(wx.EVT_BUTTON,
self.on_export_csv,
id=self.button['exp'].GetId())
def __set_properties(self):
for table in self.table.values():
for i, column in enumerate(self.initial_columns):
table.AppendColumn(column,
format=wx.LIST_FORMAT_LEFT,
width=self.widths[i])
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
vbox = wx.BoxSizer(wx.VERTICAL)
hbox = wx.BoxSizer(wx.HORIZONTAL)
for key in list(self.button):
hbox.Add(self.button[key], 0, wx.ALL, 5)
vbox.Add(hbox, 0, wx.ALL | wx.EXPAND, 5)
for grp in [1, 2]:
vbox.Add(
wx.StaticText(self.parent, wx.ID_ANY, "Query Group %s:" % grp),
0, wx.EXPAND | wx.BOTTOM, 5)
vbox.Add(self.table[grp], 1, wx.EXPAND, 0)
vbox.Add((10, 10), 0, 0, 0)
sizer_wrapper.Add(vbox, 1, wx.ALL | wx.EXPAND, 20)
self.layout = sizer_wrapper
def calculate_endpoints(self):
columns = {key: [c for c in self.initial_columns] for key in [1, 2]}
if self.data_table[1].data:
current_labels = [
key for key in list(self.data_table[1].data)
if key not in columns
]
else:
current_labels = []
eps = {
grp: {
'MRN': group_data['dvh'].mrn,
'Tx Site': group_data['dvh'].get_plan_values('tx_site'),
'ROI Name': group_data['dvh'].roi_name,
'Volume (cc)': group_data['dvh'].volume
}
for grp, group_data in self.group_data.items() if group_data['dvh']
}
ep_defs = self.endpoint_defs.data
for group, ep in eps.items():
if ep_defs:
for i, ep_name in enumerate(ep_defs['label']):
if ep_name not in columns[group]:
columns[group].append(ep_name)
if ep_name in current_labels:
ep[ep_name] = deepcopy(
self.data_table[group].data[ep_name])
else:
endpoint_input = ep_defs['input_type'][i]
endpoint_output = ep_defs['output_type'][i]
x = float(ep_defs['input_value'][i])
if endpoint_input == 'relative':
x /= 100.
dvh = self.group_data[group]['dvh']
if 'V' in ep_name:
ep[ep_name] = dvh.get_volume_of_dose(
x,
volume_scale=endpoint_output,
dose_scale=endpoint_input)
else:
ep[ep_name] = dvh.get_dose_to_volume(
x,
dose_scale=endpoint_output,
volume_scale=endpoint_input)
for group, ep in eps.items():
self.data_table[group].set_data(ep, columns[group])
self.data_table[group].set_column_width(0, 150)
self.data_table[group].set_column_width(1, 150)
self.data_table[group].set_column_width(2, 200)
def add_ep_button_click(self, evt):
# TODO: Track down duplicate table refreshes/calculations
dlg = AddEndpointDialog()
res = dlg.ShowModal()
if res == wx.ID_OK and dlg.is_endpoint_valid:
self.endpoint_defs.append_row(dlg.endpoint_row)
self.calculate_endpoints()
self.enable_buttons()
self.update_endpoints_in_dvh()
dlg.Destroy()
self.update_endpoints_and_radbio_in_group_data()
self.regression.update_combo_box_choices()
self.control_chart.update_combo_box_y_choices()
self.time_series.update_y_axis_options()
def del_ep_button_click(self, evt):
dlg = DelEndpointDialog(self.data_table[1].columns)
res = dlg.ShowModal()
if res == wx.ID_OK:
for value in dlg.selected_values:
for data_table in self.data_table.values():
if data_table.columns and value in data_table.columns:
data_table.delete_column(value)
endpoint_def_row = self.endpoint_defs.data['label'].index(
value)
self.update_endpoints_in_dvh()
self.endpoint_defs.delete_row(endpoint_def_row)
self.update_endpoints_and_radbio_in_group_data()
self.time_series.update_y_axis_options()
dlg.Destroy()
for group in self.group_data.values():
if group['stats_data']:
group['stats_data'].update_endpoints_and_radbio()
self.regression.update_combo_box_choices()
self.control_chart.update_combo_box_y_choices()
for data_table in self.data_table.values():
if data_table.column_count == 3:
self.button['del'].Disable()
self.button['exp'].Disable()
def update_dvh(self, group_data):
self.group_data = group_data
self.update_endpoints_in_dvh()
def update_endpoints_and_radbio_in_group_data(self):
for grp, data in self.group_data.items():
if data['stats_data']:
data['stats_data'].update_endpoints_and_radbio()
if grp == 2:
sync_variables_in_stats_data_objects(
self.group_data[1]['stats_data'],
self.group_data[2]['stats_data'])
def update_endpoints_in_dvh(self):
for group in [1, 2]:
if self.group_data[group]['dvh']:
self.group_data[group]['dvh'].endpoints[
'data'] = self.data_table[group].data
self.group_data[group]['dvh'].endpoints[
'defs'] = self.endpoint_defs.data
def clear_data(self):
for data_table in self.data_table.values():
data_table.delete_all_rows()
self.endpoint_defs.delete_all_rows(
force_delete_data=True) # no attached layout, force delete
for data_table in self.data_table.values():
if data_table.data:
for column in list(data_table.data):
if column not in self.initial_columns:
data_table.delete_column(column)
def enable_buttons(self):
for key in list(self.button):
self.button[key].Enable()
def disable_buttons(self):
for key in list(self.button):
self.button[key].Disable()
def enable_initial_buttons(self):
self.button['add'].Enable()
def get_csv(self, selection=None):
uid = {
1: {
'title': 'Study Instance UID',
'data': self.group_data[1]['dvh'].uid
}
}
csv = self.data_table[1].get_csv(extra_column_data=uid)
if self.group_data[2]['dvh']:
uid = {
1: {
'title': 'Study Instance UID',
'data': self.group_data[2]['dvh'].uid
}
}
csv = 'Group 1\n%s\n\nGroup 2\n%s' % (
csv, self.data_table[2].get_csv(extra_column_data=uid))
return csv
def on_export_csv(self, evt):
save_data_to_file(self.parent, "Export Endpoints to CSV",
self.get_csv())
def get_save_data(self):
return {
'data_table_1': self.data_table[1].get_save_data(),
'data_table_2': self.data_table[2].get_save_data(),
'endpoint_defs': self.endpoint_defs.get_save_data()
}
def load_save_data(self, save_data):
self.data_table[1].load_save_data(save_data['data_table_1'],
ignore_layout=True)
self.data_table[2].load_save_data(save_data['data_table_2'],
ignore_layout=True)
self.endpoint_defs.load_save_data(save_data['endpoint_defs'],
ignore_layout=True)
self.calculate_endpoints()
@property
def has_data(self):
if self.endpoint_defs.data and self.endpoint_defs.data['label']:
return True
return False
class RoiManager(wx.Dialog):
"""
Dialog accessible from the DICOM import GUI to allow user to easily update the ROI map with new plans
"""
def __init__(self, parent, roi_map, physician, physician_roi):
"""
:param parent: GUI parent
:param roi_map: roi_map object
:type roi_map: DatabaseROIs
:param physician: initial physician value
:type physician: str
:param physician_roi: initial physician roi
:type physician_roi: str
"""
wx.Dialog.__init__(self, parent)
self.parent = parent
self.roi_map = roi_map
self.initial_physician = physician
self.initial_physician_roi = physician_roi
self.combo_box_physician = wx.ComboBox(
self,
wx.ID_ANY,
choices=list(self.roi_map.physicians),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_physician_roi = wx.ComboBox(self,
wx.ID_ANY,
choices=[],
style=wx.CB_DROPDOWN
| wx.CB_READONLY)
self.list_ctrl_variations = wx.ListCtrl(
self,
wx.ID_ANY,
style=wx.LC_NO_HEADER | wx.LC_REPORT | wx.BORDER_SUNKEN)
self.button_select_all = wx.Button(self, wx.ID_ANY, "Select All")
self.button_deselect_all = wx.Button(self, wx.ID_ANY, "Deselect All")
self.button_add = wx.Button(self, wx.ID_ANY, "Add")
self.button_delete = wx.Button(self, wx.ID_ANY, "Delete")
self.button_move = wx.Button(self, wx.ID_ANY, "Move")
self.button_dismiss = wx.Button(self, wx.ID_CANCEL, "Dismiss")
self.button_move.Disable()
self.button_delete.Disable()
self.button_deselect_all.Disable()
self.button_add_physician = wx.Button(self, wx.ID_ANY, "Add")
self.button_add_physician_roi = wx.Button(self, wx.ID_ANY, "Add")
self.columns = ['Variations']
self.data_table = DataTable(self.list_ctrl_variations,
columns=self.columns,
widths=[400])
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.run()
def __set_properties(self):
self.SetTitle("ROI Manager")
self.combo_box_physician.SetValue(self.initial_physician)
self.update_physician_rois()
self.combo_box_physician_roi.SetValue(self.initial_physician_roi)
self.update_variations()
def __do_bind(self):
self.Bind(wx.EVT_COMBOBOX,
self.physician_ticker,
id=self.combo_box_physician.GetId())
self.Bind(wx.EVT_COMBOBOX,
self.physician_roi_ticker,
id=self.combo_box_physician_roi.GetId())
self.Bind(wx.EVT_BUTTON,
self.add_physician,
id=self.button_add_physician.GetId())
self.Bind(wx.EVT_BUTTON,
self.add_physician_roi,
id=self.button_add_physician_roi.GetId())
self.Bind(wx.EVT_BUTTON,
self.select_all,
id=self.button_select_all.GetId())
self.Bind(wx.EVT_BUTTON,
self.deselect_all,
id=self.button_deselect_all.GetId())
self.Bind(wx.EVT_BUTTON,
self.add_variation,
id=self.button_add.GetId())
self.Bind(wx.EVT_BUTTON,
self.move_variations,
id=self.button_move.GetId())
self.Bind(wx.EVT_BUTTON,
self.delete_variations,
id=self.button_delete.GetId())
self.Bind(wx.EVT_LIST_ITEM_SELECTED,
self.update_button_enable,
id=self.list_ctrl_variations.GetId())
self.Bind(wx.EVT_LIST_ITEM_DESELECTED,
self.update_button_enable,
id=self.list_ctrl_variations.GetId())
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_variation_buttons = wx.BoxSizer(wx.VERTICAL)
sizer_variation_table = wx.BoxSizer(wx.VERTICAL)
sizer_select = wx.StaticBoxSizer(wx.StaticBox(self, wx.ID_ANY, ""),
wx.VERTICAL)
sizer_variations = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician_roi = wx.BoxSizer(wx.VERTICAL)
sizer_physician_roi_row_2 = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician = wx.BoxSizer(wx.VERTICAL)
label_physician = wx.StaticText(self, wx.ID_ANY, "Physician:")
sizer_physician.Add(label_physician, 0, wx.LEFT, 5)
sizer_physician_row = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician_row.Add(self.combo_box_physician, 1,
wx.EXPAND | wx.LEFT | wx.RIGHT, 5)
sizer_physician_row.Add(self.button_add_physician, 0,
wx.EXPAND | wx.LEFT | wx.RIGHT, 10)
sizer_physician.Add(sizer_physician_row, 1, wx.EXPAND, 0)
sizer_select.Add(sizer_physician, 0, wx.ALL | wx.EXPAND, 5)
label_physician_roi = wx.StaticText(self, wx.ID_ANY, "Physician ROI:")
sizer_physician_roi.Add(label_physician_roi, 0, wx.LEFT, 5)
sizer_physician_roi_row_2.Add(self.combo_box_physician_roi, 1,
wx.EXPAND | wx.LEFT | wx.RIGHT, 5)
sizer_physician_roi_row_2.Add(self.button_add_physician_roi, 0,
wx.EXPAND | wx.LEFT | wx.RIGHT, 10)
sizer_physician_roi.Add(sizer_physician_roi_row_2, 0, wx.EXPAND, 0)
sizer_select.Add(sizer_physician_roi, 0, wx.ALL | wx.EXPAND, 5)
label_variations = wx.StaticText(self, wx.ID_ANY, "Variations:")
label_variations_buttons = wx.StaticText(self, wx.ID_ANY, " ")
sizer_variation_table.Add(label_variations, 0, 0, 0)
sizer_variation_table.Add(self.list_ctrl_variations, 1,
wx.ALL | wx.EXPAND, 0)
sizer_variations.Add(sizer_variation_table, 0, wx.ALL, 5)
sizer_variation_buttons.Add(label_variations_buttons, 0, 0, 0)
sizer_variation_buttons.Add(self.button_add, 0,
wx.EXPAND | wx.LEFT | wx.RIGHT | wx.BOTTOM,
5)
sizer_variation_buttons.Add(self.button_delete, 0, wx.EXPAND | wx.ALL,
5)
sizer_variation_buttons.Add(self.button_move, 0, wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(self.button_select_all, 0,
wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(self.button_deselect_all, 0,
wx.EXPAND | wx.ALL, 5)
sizer_variations.Add(sizer_variation_buttons, 0, wx.EXPAND | wx.ALL, 5)
sizer_select.Add(sizer_variations, 0, wx.ALL | wx.EXPAND, 5)
sizer_wrapper.Add(sizer_select, 0, wx.ALL, 5)
sizer_buttons.Add(self.button_dismiss, 0, wx.ALIGN_CENTER | wx.ALL, 5)
sizer_wrapper.Add(sizer_buttons, 0, wx.ALIGN_CENTER | wx.ALL, 0)
self.SetSizer(sizer_wrapper)
self.Layout()
self.Fit()
self.Center()
def run(self):
self.ShowModal()
self.Destroy()
def update_physicians(self, old_physicians=None):
choices = list(self.roi_map.physicians)
self.update_combo_box_choices(self.combo_box_physician, choices,
old_physicians)
def update_physician_rois(self, old_physician_rois=None):
choices = self.roi_map.get_physician_rois(self.physician)
self.update_combo_box_choices(self.combo_box_physician_roi, choices,
old_physician_rois)
@staticmethod
def update_combo_box_choices(combo_box, choices, old_choices):
if choices:
value = choices[0]
if old_choices:
value = list(set(choices) - set(old_choices))
value = value[0] if len(value) else combo_box.GetValue()
combo_box.Clear()
combo_box.AppendItems(choices)
combo_box.SetValue(value)
def update_variations(self):
self.data_table.set_data(self.variation_table_data, self.columns)
self.update_button_enable()
def physician_ticker(self, evt):
self.update_physician_rois()
self.update_variations()
def physician_roi_ticker(self, evt):
self.update_variations()
@property
def physician(self):
return self.combo_box_physician.GetValue()
@property
def physician_roi(self):
return self.combo_box_physician_roi.GetValue()
@property
def variations(self):
variations = self.roi_map.get_variations(
self.combo_box_physician.GetValue(),
self.combo_box_physician_roi.GetValue())
variations = list(
set(variations) -
{self.combo_box_physician_roi.GetValue()}) # remove physician roi
variations.sort()
return variations
@property
def variation_table_data(self):
return {'Variations': self.variations}
@property
def selected_indices(self):
return get_selected_listctrl_items(self.list_ctrl_variations)
@property
def selected_values(self):
return [
self.list_ctrl_variations.GetItem(i, 0).GetText()
for i in self.selected_indices
]
@property
def variation_count(self):
return len(self.variations)
def select_all(self, evt):
self.apply_global_selection()
def deselect_all(self, evt):
self.apply_global_selection(on=0)
def apply_global_selection(self, on=1):
for i in range(self.variation_count):
self.list_ctrl_variations.Select(i, on=on)
def delete_variations(self, evt):
self.roi_map.delete_variations(self.physician, self.physician_roi,
self.selected_values)
self.update_variations()
def add_variation(self, evt):
AddVariation(self.parent, self.physician, self.roi_map,
self.physician_roi)
self.update_variations()
def move_variations(self, evt):
choices = [
roi for roi in self.roi_map.get_physician_rois(self.physician)
if roi != self.physician_roi
]
MoveVariationDialog(self, self.selected_values, self.physician,
self.physician_roi, choices, self.roi_map)
self.update_variations()
def update_button_enable(self, *evt):
if self.selected_indices:
self.button_move.Enable()
self.button_delete.Enable()
self.button_deselect_all.Enable()
else:
self.button_move.Disable()
self.button_delete.Disable()
self.button_deselect_all.Disable()
def add_physician_roi(self, evt):
old_physician_rois = self.roi_map.get_physician_rois(self.physician)
AddPhysicianROI(self.parent, self.physician, self.roi_map)
self.update_physician_rois(old_physician_rois=old_physician_rois)
def add_physician(self, evt):
old_physicians = list(self.roi_map.physicians)
AddPhysician(self.roi_map)
self.update_physicians(old_physicians=old_physicians)
class QueriedDataFrame(wx.Frame):
"""
Generate a simple table to view data of the current query for a specified SQL table
"""
def __init__(self, data_obj, sql_table, menu, menu_item_id):
"""
:param data_obj: object containing data to be viewed
:param sql_table: either 'DVHs', 'Plans', 'Beams', or 'Rxs'
:type sql_table: str
:param menu: a link to the main app menu, used to toggle Show/Hide status
:type menu: Menu
:param menu_item_id: the ID of the menu item associated with the specified data_obj
"""
wx.Frame.__init__(self, None, title='%s Data' % sql_table[0:-1])
self.data = data_obj
self.sql_table = sql_table
self.menu = menu
self.menu_item_id = menu_item_id
self.list_ctrl = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
# self.data_table = DataTable(self.list_ctrl, data=self.table_data, columns=self.columns)
self.data_table = DataTable(self.list_ctrl)
self.data_table.set_data(self.table_data, self.columns)
self.button_export = wx.Button(self, wx.ID_ANY, "Export to CSV")
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.run()
def __set_properties(self):
self.SetSize(get_window_size(0.714, 0.762))
def __do_bind(self):
self.Bind(wx.EVT_BUTTON, self.on_export, id=self.button_export.GetId())
self.Bind(wx.EVT_LIST_COL_CLICK, self.sort_table, self.list_ctrl)
self.Bind(wx.EVT_CLOSE, self.on_close)
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_wrapper.Add(self.button_export, 0, wx.ALL, 10)
sizer_wrapper.Add(self.list_ctrl, 1,
wx.LEFT | wx.RIGHT | wx.BOTTOM | wx.EXPAND, 10)
self.SetSizer(sizer_wrapper)
self.Center()
@property
def columns(self):
if self.sql_table == 'DVHs':
columns = self.data.keys
elif self.sql_table == 'Rxs':
columns = [
'plan_name', 'fx_dose', 'rx_percent', 'fxs', 'rx_dose',
'fx_grp_number', 'fx_grp_count', 'fx_grp_name',
'normalization_method', 'normalization_object'
]
else:
columns = [
obj['var_name'] for obj in sql_column_info.values()
if obj['table'] == self.sql_table
]
for starter_column in ['study_instance_uid', 'mrn']:
if starter_column in columns:
columns.pop(columns.index(starter_column))
columns.insert(0, starter_column)
return columns
@property
def table_data(self):
return {column: getattr(self.data, column) for column in self.columns}
def run(self):
self.toggle_data_menu_item()
self.Show()
def on_close(self, *args):
self.toggle_data_menu_item()
self.Destroy()
def on_export(self, *args):
save_data_to_file(self, "Export %s to CSV" % self.sql_table,
self.data_table.get_csv())
def toggle_data_menu_item(self):
short_cut = ['DVHs', 'Plans', 'Rxs', 'Beams'].index(self.sql_table) + 1
show_hide = ['Show',
'Hide']['Show' in self.menu.GetLabel(self.menu_item_id)]
self.menu.SetLabel(
self.menu_item_id,
'%s %s\tCtrl+%s' % (show_hide, self.sql_table, short_cut))
def sort_table(self, evt):
self.data_table.sort_table(evt)
class DatabaseEditorFrame(wx.Frame):
"""
Various viewing and editing tools for the SQL database. This object is called on Database toolbar click.
"""
def __init__(self, roi_map):
"""
:param roi_map: roi_map object
:type roi_map: DatabaseROIs
"""
wx.Frame.__init__(self, None, title='Database Administrator')
set_msw_background_color(self) # If windows, change the background color
self.roi_map = roi_map
self.db_tree = self.get_db_tree()
self.SetSize(get_window_size(0.792, 0.781))
self.window_db_editor = wx.SplitterWindow(self, wx.ID_ANY, style=wx.SP_3D)
self.window_pane_db_tree = wx.ScrolledWindow(self.window_db_editor, wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.TAB_TRAVERSAL)
self.tree_ctrl_db = wx.TreeCtrl(self.window_pane_db_tree, wx.ID_ANY, style=wx.TR_HAS_BUTTONS | wx.TR_MULTIPLE)
self.window_pane_query = wx.Panel(self.window_db_editor, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.TAB_TRAVERSAL)
self.text_ctrl_condition = wx.TextCtrl(self.window_pane_query, wx.ID_ANY, "")
self.list_ctrl_query_results = wx.ListCtrl(self.window_pane_query, wx.ID_ANY,
style=wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.data_query_results = DataTable(self.list_ctrl_query_results, columns=['mrn', 'study_instance_uid'])
self.combo_box_query_table = wx.ComboBox(self.window_pane_query, wx.ID_ANY, choices=list(self.db_tree),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.button = {'delete_all_data': wx.Button(self, wx.ID_ANY, "Delete All Data"),
'rebuild_db': wx.Button(self, wx.ID_ANY, "Rebuild Database"),
# 'calculations': wx.Button(self, wx.ID_ANY, "Calculations"),
'edit_db': wx.Button(self, wx.ID_ANY, "Edit Database"),
'reimport': wx.Button(self, wx.ID_ANY, "Reimport from DICOM"),
'delete_study': wx.Button(self, wx.ID_ANY, "Delete Study"),
'change_mrn_uid': wx.Button(self, wx.ID_ANY, "Change MRN/UID"),
'query': wx.Button(self.window_pane_query, wx.ID_ANY, "Query"),
'clear': wx.Button(self.window_pane_query, wx.ID_ANY, "Clear"),
'export_csv': wx.Button(self.window_pane_query, wx.ID_ANY, "Export"),
'remap_roi_names': wx.Button(self, wx.ID_ANY, "Remap ROI Names")}
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.selected_columns = {table: {c: False for c in list(self.db_tree[table])} for table in list(self.db_tree)}
self.selected_tables = {table: False for table in list(self.db_tree)}
self.window_db_editor.SetSashPosition(250)
self.tree_ctrl_db.Expand(self.db_tree_root)
self.allow_tree_select_change = True
self.Show()
def __set_properties(self):
self.SetTitle("Database Administrator")
self.window_pane_db_tree.SetScrollRate(10, 10)
self.window_db_editor.SetMinimumPaneSize(20)
self.db_tree_root = self.tree_ctrl_db.AddRoot('DVH Analytics')
self.table_nodes = {table: self.tree_ctrl_db.AppendItem(self.db_tree_root, table) for table in self.db_tree}
self.column_nodes = {table: {} for table in self.db_tree}
for table in self.db_tree:
for column in self.db_tree[table]:
self.column_nodes[table][column] = self.tree_ctrl_db.AppendItem(self.table_nodes[table], column)
self.combo_box_query_table.SetValue('Plans')
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_query = wx.BoxSizer(wx.VERTICAL)
sizer_query_table = wx.StaticBoxSizer(wx.StaticBox(self.window_pane_query, wx.ID_ANY, "Query Results"),
wx.VERTICAL)
sizer_condition_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_download_button = wx.BoxSizer(wx.VERTICAL)
sizer_clear_button = wx.BoxSizer(wx.VERTICAL)
sizer_query_button = wx.BoxSizer(wx.VERTICAL)
sizer_condition = wx.BoxSizer(wx.VERTICAL)
sizer_combo_box = wx.BoxSizer(wx.VERTICAL)
sizer_db_tree = wx.BoxSizer(wx.HORIZONTAL)
sizer_dialog_buttons = wx.BoxSizer(wx.HORIZONTAL)
# sizer_dialog_buttons.Add(self.button['calculations'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['edit_db'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['reimport'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['delete_study'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['change_mrn_uid'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['rebuild_db'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['delete_all_data'], 0, wx.ALL, 5)
sizer_dialog_buttons.Add(self.button['remap_roi_names'], 0, wx.ALL, 5)
sizer_wrapper.Add(sizer_dialog_buttons, 0, wx.ALL, 5)
sizer_db_tree.Add(self.tree_ctrl_db, 1, wx.EXPAND, 0)
self.window_pane_db_tree.SetSizer(sizer_db_tree)
label_table = wx.StaticText(self.window_pane_query, wx.ID_ANY, "Table:")
sizer_combo_box.Add(label_table, 0, wx.BOTTOM | wx.TOP, 5)
sizer_combo_box.Add(self.combo_box_query_table, 0, 0, 0)
sizer_condition_buttons.Add(sizer_combo_box, 0, wx.ALL | wx.EXPAND, 5)
label_condition = wx.StaticText(self.window_pane_query, wx.ID_ANY, "Condition:")
sizer_condition.Add(label_condition, 0, wx.BOTTOM | wx.TOP, 5)
sizer_condition.Add(self.text_ctrl_condition, 0, wx.ALL | wx.EXPAND, 0)
sizer_condition_buttons.Add(sizer_condition, 1, wx.ALL | wx.EXPAND, 5)
label_spacer_1 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_query_button.Add(label_spacer_1, 0, wx.BOTTOM, 5)
sizer_query_button.Add(self.button['query'], 0, wx.ALL, 5)
sizer_condition_buttons.Add(sizer_query_button, 0, wx.ALL, 5)
label_spacer_2 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_download_button.Add(label_spacer_2, 0, wx.BOTTOM, 5)
sizer_download_button.Add(self.button['export_csv'], 0, wx.TOP | wx.BOTTOM, 5)
sizer_condition_buttons.Add(sizer_download_button, 0, wx.ALL, 5)
label_spacer_3 = wx.StaticText(self.window_pane_query, wx.ID_ANY, "")
sizer_clear_button.Add(label_spacer_3, 0, wx.BOTTOM, 5)
sizer_clear_button.Add(self.button['clear'], 0, wx.ALL, 5)
sizer_condition_buttons.Add(sizer_clear_button, 0, wx.ALL, 5)
sizer_query.Add(sizer_condition_buttons, 0, wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.RIGHT, 5)
sizer_query_table.Add(self.list_ctrl_query_results, 1, wx.EXPAND, 0)
sizer_query.Add(sizer_query_table, 1, wx.ALL | wx.EXPAND, 5)
self.window_pane_query.SetSizer(sizer_query)
self.window_db_editor.SplitVertically(self.window_pane_db_tree, self.window_pane_query)
sizer_wrapper.Add(self.window_db_editor, 1, wx.EXPAND, 0)
self.SetSizer(sizer_wrapper)
self.Layout()
self.Center()
def __do_bind(self):
# self.Bind(wx.EVT_TREE_SEL_CHANGED, self.OnTreeAdd, self.tree_ctrl_db, id=self.tree_ctrl_db.GetId())
# All buttons are bound to a function based on their key prepended with 'on_'
# For example, query button calls on_query when clicked
for key, button in self.button.items():
self.Bind(wx.EVT_BUTTON, getattr(self, 'on_' + key), id=button.GetId())
self.Bind(wx.EVT_LIST_COL_CLICK, self.sort_query_results, self.list_ctrl_query_results)
def on_tree_add(self, evt):
self.update_selected_tree_items()
# def UnselectOtherTables(self, selected_table):
# self.allow_tree_select_change = False
# for table, node in self.table_nodes.items():
# if table != selected_table:
# self.tree_ctrl_db.UnselectItem(node)
# self.allow_tree_select_change = True
def on_query(self, evt):
self.update_selected_tree_items()
table = self.combo_box_query_table.GetValue()
columns = [c for c, sel in self.selected_columns[table].items()
if sel and c not in {'mrn', 'study_instance_uid'}]
columns.sort()
if not columns:
columns = [c for c in self.db_tree[table] if c not in {'mrn', 'study_instance_uid'}]
columns.insert(0, 'study_instance_uid')
columns.insert(0, 'mrn')
condition = self.text_ctrl_condition.GetValue()
wait = wx.BusyInfo("Querying data\nPlease wait...")
with DVH_SQL() as cnx:
try:
data = cnx.query(table, ','.join(columns), condition, bokeh_cds=True)
self.data_query_results.set_data(data, columns)
except SQLError as e:
SQLErrorDialog(self, e)
self.data_query_results.clear()
del wait
def on_clear(self, evt):
self.data_query_results.clear()
@staticmethod
def get_db_tree():
tree = get_database_tree()
for table in list(tree):
tree[table] = [column for column in tree[table] if 'string' not in column]
return tree
def update_selected_tree_items(self):
for table, table_item in self.table_nodes.items():
self.selected_tables[table] = self.tree_ctrl_db.IsSelected(table_item)
for column, column_item in self.column_nodes[table].items():
self.selected_columns[table][column] = self.tree_ctrl_db.IsSelected(column_item)
def on_change_mrn_uid(self, evt):
self.change_or_delete_dlg(ChangePatientIdentifierDialog)
def on_delete_study(self, evt):
# TODO: Needs an Are you sure? dialog
self.change_or_delete_dlg(DeletePatientDialog)
def change_or_delete_dlg(self, class_type):
selected_data = self.data_query_results.selected_row_data
if selected_data:
class_type(mrn=selected_data[0][0], study_instance_uid=selected_data[0][1])
else:
class_type()
def on_reimport(self, evt):
selected_data = self.data_query_results.selected_row_data
if selected_data:
ReimportDialog(mrn=selected_data[0][0], study_instance_uid=selected_data[0][1])
else:
ReimportDialog()
@staticmethod
def on_edit_db(evt):
EditDatabaseDialog()
@staticmethod
def on_calculations(evt):
CalculationsDialog()
def on_rebuild_db(self, evt):
RebuildDB(self)
def on_delete_all_data(self, evt):
DeleteAllData(self)
def on_export_csv(self, evt):
save_data_to_file(self, "Export Data Table to CSV", self.data_query_results.get_csv())
def on_remap_roi_names(self, evt):
RemapROIFrame(self.roi_map, remap_all=True)
def sort_query_results(self, evt):
self.data_query_results.sort_table(evt)
class DVHAMainFrame(wx.Frame):
def __init__(self, *args, **kwds):
kwds["style"] = kwds.get("style", 0) | wx.DEFAULT_FRAME_STYLE
wx.Frame.__init__(self, *args, **kwds)
self.layout_set = False
self.sizer_dvhs = wx.BoxSizer(wx.VERTICAL)
set_msw_background_color(
self) # If windows, change the background color
self.options = Options()
# Initial DVH object and data
self.dvh = None
self.data = {key: None for key in ['Plans', 'Beams', 'Rxs']}
self.stats_data = None
self.save_data = {}
self.toolbar_keys = [
'Open', 'Close', 'Save', 'Export', 'Import', 'Database', 'ROI Map',
'Settings'
]
self.toolbar_ids = {
key: i + 1000
for i, key in enumerate(self.toolbar_keys)
}
# sql_columns.py contains dictionaries of all queryable variables along with their
# SQL columns and tables. Numerical categories include their units as well.
self.categorical_columns = sql_columns.categorical
self.numerical_columns = sql_columns.numerical
# Keep track of currently selected row in the query tables
self.selected_index_categorical = None
self.selected_index_numerical = None
# Load ROI Map now and pass to other objects for continuity
# TODO: Need a method to address multiple users editing roi_map at the same time
self.roi_map = DatabaseROIs()
self.__add_menubar()
self.__add_tool_bar()
self.__add_layout_objects()
self.__bind_layout_objects()
self.__set_properties()
self.__set_tooltips()
self.__add_notebook_frames()
self.__do_layout()
self.disable_query_buttons('categorical')
self.disable_query_buttons('numerical')
self.button_query_execute.Disable()
self.__disable_notebook_tabs()
columns = {
'categorical': ['category_1', 'category_2', 'Filter Type'],
'numerical': ['category', 'min', 'max', 'Filter Type']
}
self.data_table_categorical = DataTable(self.table_categorical,
columns=columns['categorical'])
self.data_table_numerical = DataTable(self.table_numerical,
columns=columns['numerical'])
if not echo_sql_db():
self.__disable_add_filter_buttons()
def __add_tool_bar(self):
self.frame_toolbar = wx.ToolBar(self,
-1,
style=wx.TB_HORIZONTAL | wx.TB_TEXT)
self.SetToolBar(self.frame_toolbar)
description = {
'Open': "Open previously queried data",
'Close': "Clear queried data",
'Save': "Save queried data",
# 'Print': "Print a report",
'Export': "Export data to CSV",
'Import': "DICOM import wizard",
'Settings': "User Settings",
'Database': "Database Administrator Tools",
'ROI Map': "Define ROI name aliases"
}
for key in self.toolbar_keys:
bitmap = wx.Bitmap(ICONS[key], wx.BITMAP_TYPE_ANY)
if is_windows() or is_linux():
bitmap = scale_bitmap(bitmap, 30, 30)
self.frame_toolbar.AddTool(self.toolbar_ids[key], key, bitmap,
wx.NullBitmap, wx.ITEM_NORMAL,
description[key], "")
if key in {'Close', 'Export', 'ROI Map'}:
self.frame_toolbar.AddSeparator()
self.Bind(wx.EVT_TOOL, self.on_save, id=self.toolbar_ids['Save'])
self.Bind(wx.EVT_TOOL, self.on_open, id=self.toolbar_ids['Open'])
self.Bind(wx.EVT_TOOL, self.on_export, id=self.toolbar_ids['Export'])
self.Bind(wx.EVT_TOOL,
self.on_toolbar_database,
id=self.toolbar_ids['Database'])
self.Bind(wx.EVT_TOOL,
self.on_toolbar_settings,
id=self.toolbar_ids['Settings'])
self.Bind(wx.EVT_TOOL,
self.on_toolbar_roi_map,
id=self.toolbar_ids['ROI Map'])
self.Bind(wx.EVT_TOOL, self.on_close, id=self.toolbar_ids['Close'])
self.Bind(wx.EVT_TOOL,
self.on_toolbar_import,
id=self.toolbar_ids['Import'])
def __add_menubar(self):
self.frame_menubar = wx.MenuBar()
file_menu = wx.Menu()
# file_menu.Append(wx.ID_NEW, '&New')
menu_open = file_menu.Append(wx.ID_OPEN, '&Open\tCtrl+O')
menu_save = file_menu.Append(wx.ID_ANY, '&Save\tCtrl+S')
menu_close = file_menu.Append(wx.ID_ANY, '&Close')
export_plot = wx.Menu()
export_dvhs = export_plot.Append(wx.ID_ANY, 'DVHs')
export_time_series = export_plot.Append(wx.ID_ANY, 'Time Series')
export_regression = export_plot.Append(wx.ID_ANY, 'Regression')
export_control_chart = export_plot.Append(wx.ID_ANY, 'Control Chart')
export = wx.Menu()
export_csv = export.Append(wx.ID_ANY, 'Data to csv\tCtrl+E')
export.AppendSubMenu(export_plot, 'Plot to html')
file_menu.AppendSeparator()
qmi = file_menu.Append(wx.ID_ANY, '&Quit\tCtrl+Q')
self.data_menu = wx.Menu()
self.data_views = {
key: None
for key in ['DVHs', 'Plans', 'Rxs', 'Beams']
}
self.data_menu.AppendSubMenu(export, '&Export')
self.data_menu_items = {
'DVHs': self.data_menu.Append(wx.ID_ANY, 'Show DVHs\tCtrl+1'),
'Plans': self.data_menu.Append(wx.ID_ANY, 'Show Plans\tCtrl+2'),
'Rxs': self.data_menu.Append(wx.ID_ANY, 'Show Rxs\tCtrl+3'),
'Beams': self.data_menu.Append(wx.ID_ANY, 'Show Beams\tCtrl+4')
}
settings_menu = wx.Menu()
menu_pref = settings_menu.Append(wx.ID_PREFERENCES)
menu_sql = settings_menu.Append(wx.ID_ANY,
'&Database Connection\tCtrl+D')
menu_user_settings = settings_menu.Append(wx.ID_ANY,
'&User Settings\tCtrl+,')
help_menu = wx.Menu()
menu_about = help_menu.Append(wx.ID_ANY, '&About')
self.Bind(wx.EVT_MENU, self.on_quit, qmi)
self.Bind(wx.EVT_MENU, self.on_open, menu_open)
self.Bind(wx.EVT_MENU, self.on_close, menu_close)
self.Bind(wx.EVT_MENU, self.on_export, export_csv)
self.Bind(wx.EVT_MENU, self.on_save, menu_save)
self.Bind(wx.EVT_MENU, self.on_pref, menu_pref)
self.Bind(wx.EVT_MENU, self.on_pref, menu_user_settings)
self.Bind(wx.EVT_MENU, self.on_about, menu_about)
self.Bind(wx.EVT_MENU, self.on_sql, menu_sql)
self.Bind(wx.EVT_MENU, self.on_save_plot_dvhs, export_dvhs)
self.Bind(wx.EVT_MENU, self.on_save_plot_time_series,
export_time_series)
self.Bind(wx.EVT_MENU, self.on_save_plot_regression, export_regression)
self.Bind(wx.EVT_MENU, self.on_save_plot_control_chart,
export_control_chart)
self.Bind(wx.EVT_MENU, self.on_view_dvhs, self.data_menu_items['DVHs'])
self.Bind(wx.EVT_MENU, self.on_view_plans,
self.data_menu_items['Plans'])
self.Bind(wx.EVT_MENU, self.on_view_rxs, self.data_menu_items['Rxs'])
self.Bind(wx.EVT_MENU, self.on_view_beams,
self.data_menu_items['Beams'])
self.frame_menubar.Append(file_menu, '&File')
self.frame_menubar.Append(self.data_menu, '&Data')
self.frame_menubar.Append(settings_menu, '&Settings')
self.frame_menubar.Append(help_menu, '&Help')
self.SetMenuBar(self.frame_menubar)
def __add_layout_objects(self):
self.button_categorical = {
'add': wx.Button(self, wx.ID_ANY, "Add Filter"),
'del': wx.Button(self, wx.ID_ANY, "Delete Selected"),
'edit': wx.Button(self, wx.ID_ANY, "Edit Selected")
}
self.button_numerical = {
'add': wx.Button(self, wx.ID_ANY, "Add Filter"),
'del': wx.Button(self, wx.ID_ANY, "Delete Selected"),
'edit': wx.Button(self, wx.ID_ANY, "Edit Selected")
}
self.table_categorical = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.LC_REPORT)
self.table_numerical = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.LC_REPORT)
self.button_query_execute = wx.Button(self, wx.ID_ANY,
"Query and Retrieve")
self.notebook_main_view = wx.Notebook(self, wx.ID_ANY)
self.tab_keys = [
'Welcome', 'DVHs', 'Endpoints', 'Rad Bio', 'Time Series',
'Regression', 'Control Chart'
]
self.notebook_tab = {
key: wx.Panel(self.notebook_main_view, wx.ID_ANY)
for key in self.tab_keys
}
self.text_summary = wx.StaticText(self,
wx.ID_ANY,
"",
style=wx.ALIGN_LEFT)
def __bind_layout_objects(self):
self.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_item_select_categorical,
self.table_categorical)
self.Bind(wx.EVT_BUTTON,
self.add_row_categorical,
id=self.button_categorical['add'].GetId())
self.Bind(wx.EVT_BUTTON,
self.del_row_categorical,
id=self.button_categorical['del'].GetId())
self.Bind(wx.EVT_BUTTON,
self.edit_row_categorical,
id=self.button_categorical['edit'].GetId())
self.Bind(wx.EVT_LIST_ITEM_ACTIVATED, self.doubleclick_categorical,
self.table_categorical)
self.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_item_select_numerical,
self.table_numerical)
self.Bind(wx.EVT_BUTTON,
self.add_row_numerical,
id=self.button_numerical['add'].GetId())
self.Bind(wx.EVT_BUTTON,
self.del_row_numerical,
id=self.button_numerical['del'].GetId())
self.Bind(wx.EVT_BUTTON,
self.edit_row_numerical,
id=self.button_numerical['edit'].GetId())
self.Bind(wx.EVT_LIST_ITEM_ACTIVATED, self.doubleclick_numerical,
self.table_numerical)
self.Bind(wx.EVT_BUTTON,
self.exec_query_button,
id=self.button_query_execute.GetId())
self.Bind(wx.EVT_SIZE, self.on_resize)
def __set_properties(self):
self.SetTitle("DVH Analytics")
self.frame_toolbar.Realize()
self.table_categorical.AppendColumn("Category1",
format=wx.LIST_FORMAT_LEFT,
width=180)
self.table_categorical.AppendColumn("Category2",
format=wx.LIST_FORMAT_LEFT,
width=150)
self.table_categorical.AppendColumn("Filter Type",
format=wx.LIST_FORMAT_LEFT,
width=80)
self.table_numerical.AppendColumn("Category",
format=wx.LIST_FORMAT_LEFT,
width=150)
self.table_numerical.AppendColumn("Min",
format=wx.LIST_FORMAT_LEFT,
width=90)
self.table_numerical.AppendColumn("Max",
format=wx.LIST_FORMAT_LEFT,
width=90)
self.table_numerical.AppendColumn("Filter Type",
format=wx.LIST_FORMAT_LEFT,
width=80)
def __set_tooltips(self):
self.button_categorical['add'].SetToolTip(
"Add a categorical data filter.")
self.button_categorical['del'].SetToolTip(
"Delete the currently selected category filter.")
self.button_categorical['edit'].SetToolTip(
"Edit the currently selected category filter.")
self.button_numerical['add'].SetToolTip("Add a numerical data filter.")
self.button_numerical['del'].SetToolTip(
"Delete the currently selected numerical data filter.")
self.button_numerical['edit'].SetToolTip(
"Edit the currently selected data filter.")
self.button_query_execute.SetToolTip(
"Query the database with the filters entered below. At least one "
"filter must be added.")
def __add_notebook_frames(self):
self.plot = PlotStatDVH(self.notebook_tab['DVHs'], self.dvh,
self.options)
self.time_series = TimeSeriesFrame(self.notebook_tab['Time Series'],
self.dvh, self.data, self.options)
self.regression = RegressionFrame(self.notebook_tab['Regression'],
self.stats_data, self.options)
self.control_chart = ControlChartFrame(
self.notebook_tab['Control Chart'], self.dvh, self.stats_data,
self.options)
self.radbio = RadBioFrame(self.notebook_tab['Rad Bio'], self.dvh,
self.time_series, self.regression,
self.control_chart)
self.endpoint = EndpointFrame(self.notebook_tab['Endpoints'], self.dvh,
self.time_series, self.regression,
self.control_chart)
def __do_layout(self):
sizer_summary = wx.StaticBoxSizer(
wx.StaticBox(self, wx.ID_ANY, "Summary"), wx.HORIZONTAL)
sizer_query_numerical = wx.StaticBoxSizer(
wx.StaticBox(self, wx.ID_ANY, "Query by Numerical Data"),
wx.VERTICAL)
sizer_query_categorical = wx.StaticBoxSizer(
wx.StaticBox(self, wx.ID_ANY, "Query by Categorical Data"),
wx.VERTICAL)
sizer_categorical_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_numerical_buttons = wx.BoxSizer(wx.HORIZONTAL)
for key in ['add', 'del', 'edit']:
sizer_categorical_buttons.Add(self.button_categorical[key], 0,
wx.ALL, 5)
sizer_numerical_buttons.Add(self.button_numerical[key], 0, wx.ALL,
5)
sizer_query_categorical.Add(sizer_categorical_buttons, 0,
wx.ALL | wx.EXPAND, 5)
sizer_query_categorical.Add(self.table_categorical, 1,
wx.ALL | wx.EXPAND, 10)
sizer_query_numerical.Add(sizer_numerical_buttons, 0,
wx.ALL | wx.EXPAND, 5)
sizer_query_numerical.Add(self.table_numerical, 1, wx.ALL | wx.EXPAND,
10)
sizer_summary.Add(self.text_summary)
panel_left = wx.BoxSizer(wx.VERTICAL)
panel_left.Add(sizer_query_categorical, 0,
wx.EXPAND | wx.LEFT | wx.RIGHT | wx.SHAPED | wx.TOP, 5)
panel_left.Add(sizer_query_numerical, 0,
wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.RIGHT | wx.SHAPED,
5)
panel_left.Add(self.button_query_execute, 0,
wx.ALIGN_CENTER | wx.LEFT | wx.RIGHT, 15)
panel_left.Add(sizer_summary, 1, wx.ALL | wx.EXPAND, 5)
bitmap_logo = wx.StaticBitmap(self.notebook_tab['Welcome'], wx.ID_ANY,
wx.Bitmap(LOGO_PATH, wx.BITMAP_TYPE_ANY))
text_welcome = wx.StaticText(
self.notebook_tab['Welcome'],
wx.ID_ANY,
"\n\nWelcome to DVH Analytics.\nIf you already have a database built, design "
"a query with the filters to the left.\n\n\n\nDVH Analytics is a software "
"application to help radiation oncology departments build an in-house database "
"of treatment planning data for the purpose of historical comparisons and "
"statistical analysis. This code is still in development. Please contact the "
"developer if you are interested in testing or collaborating.\n\nThe application "
"builds a SQL database of DVHs and various planning parameters from DICOM files "
"(i.e., Plan, Structure, Dose). Since the data is extracted directly from DICOM "
"files, we intend to accommodate an array of treatment planning system vendors.",
style=wx.ALIGN_CENTER)
text_welcome_size = get_window_size(0.417, 0.476)
text_welcome.SetMinSize(text_welcome_size)
text_welcome.Wrap(text_welcome_size[1])
sizer_welcome = wx.BoxSizer(wx.VERTICAL)
sizer_welcome.Add(bitmap_logo, 0,
wx.ALIGN_CENTER | wx.LEFT | wx.RIGHT | wx.TOP, 100)
sizer_welcome.Add(text_welcome, 0, wx.ALIGN_CENTER | wx.ALL, 25)
self.notebook_tab['Welcome'].SetSizer(sizer_welcome)
self.sizer_dvhs.Add(self.plot.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['DVHs'].SetSizer(self.sizer_dvhs)
sizer_endpoint = wx.BoxSizer(wx.VERTICAL)
sizer_endpoint.Add(self.endpoint.layout, 0, wx.ALL, 25)
self.notebook_tab['Endpoints'].SetSizer(sizer_endpoint)
sizer_rad_bio = wx.BoxSizer(wx.VERTICAL)
sizer_rad_bio.Add(self.radbio.layout, 0, wx.ALL, 25)
self.notebook_tab['Rad Bio'].SetSizer(sizer_rad_bio)
sizer_time_series = wx.BoxSizer(wx.VERTICAL)
sizer_time_series.Add(self.time_series.layout, 1, wx.EXPAND | wx.ALL,
25)
self.notebook_tab['Time Series'].SetSizer(sizer_time_series)
sizer_regression = wx.BoxSizer(wx.VERTICAL)
sizer_regression.Add(self.regression.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Regression'].SetSizer(sizer_regression)
sizer_control_chart = wx.BoxSizer(wx.VERTICAL)
sizer_control_chart.Add(self.control_chart.layout, 1,
wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Control Chart'].SetSizer(sizer_control_chart)
for key in self.tab_keys:
self.notebook_main_view.AddPage(self.notebook_tab[key], key)
sizer_main = wx.BoxSizer(wx.VERTICAL)
sizer_main_wrapper = wx.BoxSizer(wx.HORIZONTAL)
hbox_main = wx.BoxSizer(wx.HORIZONTAL)
hbox_main.Add(panel_left, 0, wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.TOP,
5)
hbox_main.Add(self.notebook_main_view, 1,
wx.BOTTOM | wx.EXPAND | wx.RIGHT | wx.TOP, 5)
sizer_main_wrapper.Add(hbox_main, 1, wx.EXPAND, 0)
sizer_main.Add(sizer_main_wrapper, 1, wx.EXPAND, 0)
self.SetSizer(sizer_main)
self.Layout()
self.SetSize(get_window_size(0.833, 0.857))
self.Center()
def __enable_notebook_tabs(self):
for key in self.tab_keys:
if key in {'Regression', 'Control Chart'}:
self.notebook_tab[key].Enable(self.dvh.count > 1)
else:
self.notebook_tab[key].Enable()
self.__enable_initial_buttons_in_tabs()
def __disable_notebook_tabs(self):
for key in self.tab_keys:
if key != 'Welcome':
self.notebook_tab[key].Disable()
def __enable_initial_buttons_in_tabs(self):
self.endpoint.enable_initial_buttons()
self.radbio.enable_initial_buttons()
self.time_series.enable_initial_buttons()
def __disable_add_filter_buttons(self):
self.button_categorical['add'].Disable()
self.button_numerical['add'].Disable()
def __enable_add_filter_buttons(self):
self.button_categorical['add'].Enable()
self.button_numerical['add'].Enable()
def enable_query_buttons(self, query_type):
for key in ['del', 'edit']:
{
'categorical': self.button_categorical[key],
'numerical': self.button_numerical[key]
}[query_type].Enable()
def disable_query_buttons(self, query_type):
for key in ['del', 'edit']:
{
'categorical': self.button_categorical[key],
'numerical': self.button_numerical[key]
}[query_type].Disable()
def update_all_query_buttons(self):
tables = {
'numerical': self.data_table_numerical,
'categorical': self.data_table_categorical
}
for key, table in tables.items():
if table.data is not None:
[self.disable_query_buttons,
self.enable_query_buttons][table.row_count > 0](key)
else:
self.disable_query_buttons(key)
if self.data_table_numerical.row_count + self.data_table_categorical.row_count > 0:
self.button_query_execute.Enable()
else:
self.button_query_execute.Disable()
# --------------------------------------------------------------------------------------------------------------
# Menu bar event functions
# --------------------------------------------------------------------------------------------------------------
def on_save(self, evt):
if self.save_data:
dlg = wx.FileDialog(self,
"Save your downloaded data to file",
"",
wildcard='*.dvha',
style=wx.FD_SAVE)
dlg.SetDirectory(DATA_DIR)
if dlg.ShowModal() == wx.ID_OK:
self.save_data_obj()
save_object_to_file(self.save_data, dlg.GetPath())
dlg.Destroy()
else:
wx.MessageBox(
'There is no data to save. Please query/open some data first.',
'Save Error', wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
def on_open(self, evt):
dlg = wx.FileDialog(self,
"Open saved data",
"",
wildcard='*.dvha',
style=wx.FD_FILE_MUST_EXIST | wx.FD_OPEN)
if dlg.ShowModal() == wx.ID_OK:
self.close()
self.load_data_obj(dlg.GetPath())
dlg.Destroy()
def save_data_obj(self):
self.save_data['dvh'] = self.dvh
self.save_data['main_data'] = self.data
self.save_data['time_stamp'] = datetime.now()
self.save_data['version'] = self.options.VERSION
# data_table_categorical and data_table_numerical saved after query to ensure these data reflect
# the rest of the saved data
self.save_data['endpoint'] = self.endpoint.get_save_data()
self.save_data['time_series'] = self.time_series.get_save_data()
self.save_data['radbio'] = self.radbio.get_save_data()
self.save_data['regression'] = self.regression.get_save_data()
def load_data_obj(self, abs_file_path):
self.save_data = load_object_from_file(abs_file_path)
self.dvh = self.save_data['dvh']
self.data = self.save_data['main_data']
# .load_save_data loses column widths?
self.data_table_categorical.data = deepcopy(
self.save_data['main_categorical']['data'])
self.data_table_numerical.data = deepcopy(
self.save_data['main_numerical']['data'])
self.data_table_categorical.set_data_in_layout()
self.data_table_numerical.set_data_in_layout()
self.update_all_query_buttons()
self.exec_query(load_saved_dvh_data=True)
self.endpoint.load_save_data(self.save_data['endpoint'])
if self.endpoint.has_data:
self.endpoint.enable_buttons()
self.radbio.load_save_data(self.save_data['radbio'])
self.endpoint.update_endpoints_in_dvh()
self.time_series.update_y_axis_options()
self.time_series.load_save_data(self.save_data['time_series'])
self.time_series.update_plot()
if self.dvh.count > 1:
self.regression.stats_data.update_endpoints_and_radbio()
self.regression.update_combo_box_choices()
self.regression.load_save_data(self.save_data['regression'])
self.control_chart.update_combo_box_y_choices()
def on_toolbar_settings(self, evt):
self.on_pref()
def on_toolbar_import(self, evt):
self.check_db_then_call(ImportDicomFrame, self.roi_map, self.options)
def on_toolbar_database(self, evt):
self.check_db_then_call(DatabaseEditorFrame, self.roi_map)
def on_toolbar_roi_map(self, evt):
self.check_db_then_call(ROIMapFrame, self.roi_map)
def check_db_then_call(self, func, *parameters):
if not echo_sql_db():
self.on_sql()
if echo_sql_db():
func(*parameters)
else:
wx.MessageBox(
'Connection to SQL database could not be established.',
'Connection Error', wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
# --------------------------------------------------------------------------------------------------------------
# Query event functions
# --------------------------------------------------------------------------------------------------------------
def on_item_select_categorical(self, evt):
self.selected_index_categorical = self.table_categorical.GetFirstSelected(
)
def on_item_select_numerical(self, evt):
self.selected_index_numerical = self.table_numerical.GetFirstSelected()
def add_row_categorical(self, evt):
query_dlg(self, 'categorical')
self.button_query_execute.Enable()
self.update_all_query_buttons()
def add_row_numerical(self, evt):
query_dlg(self, 'numerical')
self.update_all_query_buttons()
def edit_row_categorical(self, *args):
if self.selected_index_categorical is not None:
query_dlg(self, 'categorical', set_values=True)
def edit_row_numerical(self, *args):
if self.selected_index_numerical is not None:
query_dlg(self, 'numerical', set_values=True)
def doubleclick_categorical(self, evt):
self.selected_index_categorical = self.table_categorical.GetFirstSelected(
)
self.edit_row_categorical()
def doubleclick_numerical(self, evt):
self.selected_index_numerical = self.table_numerical.GetFirstSelected()
self.edit_row_numerical()
def del_row_categorical(self, evt):
self.data_table_categorical.delete_row(self.selected_index_categorical)
self.selected_index_categorical = None
self.update_all_query_buttons()
def del_row_numerical(self, evt):
self.data_table_numerical.delete_row(self.selected_index_numerical)
self.selected_index_numerical = None
self.update_all_query_buttons()
def exec_query_button(self, evt):
# TODO: Thread this process
self.exec_query()
def exec_query(self, load_saved_dvh_data=False):
wait = wx.BusyCursor()
# self.dvh = None
self.plot.clear_plot()
self.endpoint.clear_data()
self.time_series.clear_data()
self.time_series.initialize_y_axis_options()
self.regression.clear()
self.control_chart.clear_data()
self.control_chart.initialize_y_axis_options()
self.radbio.clear_data()
if not load_saved_dvh_data:
uids, dvh_str = self.get_query()
self.dvh = DVH(dvh_condition=dvh_str, uid=uids)
if self.dvh.count:
self.endpoint.update_dvh(self.dvh)
self.text_summary.SetLabelText(self.dvh.get_summary())
self.plot.update_plot(self.dvh)
del wait
self.notebook_main_view.SetSelection(1)
self.update_data(load_saved_dvh_data=load_saved_dvh_data)
self.time_series.update_data(self.dvh, self.data)
if self.dvh.count > 1:
self.control_chart.update_data(self.dvh, self.stats_data)
self.radbio.update_dvh_data(self.dvh)
self.__enable_notebook_tabs()
self.save_data[
'main_categorical'] = self.data_table_categorical.get_save_data(
)
self.save_data[
'main_numerical'] = self.data_table_numerical.get_save_data()
else:
del wait
wx.MessageBox(
'No DVHs returned. Please modify query or import more data.',
'Query Error', wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
self.dvh = None
def get_query(self):
# Used to accumulate lists of query strings for each table
# Will assume each item in list is complete query for that SQL column
queries = {'Plans': [], 'Rxs': [], 'Beams': [], 'DVHs': []}
# Used to group queries by variable, will combine all queries of same variable with an OR operator
# e.g., queries_by_sql_column['Plans'][key] = list of strings, where key is sql column
queries_by_sql_column = {
'Plans': {},
'Rxs': {},
'Beams': {},
'DVHs': {}
}
# Categorical filter
if self.data_table_categorical.row_count:
for i, category in enumerate(
self.data_table_categorical.data['category_1']):
table = self.categorical_columns[category]['table']
col = self.categorical_columns[category]['var_name']
value = self.data_table_categorical.data['category_2'][i]
if col not in queries_by_sql_column[table]:
queries_by_sql_column[table][col] = []
operator = ['=', '!='][{
'Include': 0,
'Exclude': 1
}[self.data_table_categorical.data['Filter Type'][i]]]
queries_by_sql_column[table][col].append(
"%s %s '%s'" % (col, operator, value))
# Range filter
if self.data_table_numerical.row_count:
for i, category in enumerate(
self.data_table_numerical.data['category']):
table = self.numerical_columns[category]['table']
col = self.numerical_columns[category]['var_name']
value_low = self.data_table_numerical.data['min'][i]
value_high = self.data_table_numerical.data['max'][i]
if 'date' in col:
value_low = "'%s'::date" % value_low
value_high = "'%s'::date" % value_high
if col not in queries_by_sql_column[table]:
queries_by_sql_column[table][col] = []
operator = ['BETWEEN', 'NOT BETWEEN'][{
'Include': 0,
'Exclude': 1
}[self.data_table_numerical.data['Filter Type'][i]]]
queries_by_sql_column[table][col].append(
"%s %s %s AND %s" % (col, operator, value_low, value_high))
for table in queries:
for col in queries_by_sql_column[table]:
queries[table].append(
"(%s)" % ' OR '.join(queries_by_sql_column[table][col]))
queries[table] = ' AND '.join(queries[table])
uids = get_study_instance_uids(plans=queries['Plans'],
rxs=queries['Rxs'],
beams=queries['Beams'])['common']
return uids, queries['DVHs']
def update_data(self, load_saved_dvh_data=False):
wait = wx.BusyCursor()
tables = ['Plans', 'Rxs', 'Beams']
if hasattr(self.dvh, 'study_instance_uid'):
if not load_saved_dvh_data:
condition_str = "study_instance_uid in ('%s')" % "','".join(
self.dvh.study_instance_uid)
self.data = {
key: QuerySQL(key, condition_str)
for key in tables
}
else:
self.data = {key: None for key in tables}
del wait
if hasattr(self.dvh, 'study_instance_uid'):
wait = wx.BusyCursor()
self.stats_data = StatsData(self.dvh, self.data)
self.regression.stats_data = self.stats_data
self.control_chart.stats_data = self.stats_data
try:
self.regression.update_combo_box_choices()
except ValueError:
# TODO: Print error in GUI
pass
self.control_chart.update_combo_box_y_choices()
del wait
# --------------------------------------------------------------------------------------------------------------
# Menu bar event functions
# --------------------------------------------------------------------------------------------------------------
def on_quit(self, evt):
self.Close()
def on_close(self, evt):
if self.dvh:
dlg = wx.MessageDialog(self,
"Clear all data and plots?",
caption='Close',
style=wx.YES | wx.NO | wx.NO_DEFAULT
| wx.CENTER | wx.ICON_EXCLAMATION)
dlg.Center()
res = dlg.ShowModal()
if res == wx.ID_YES:
self.close()
dlg.Destroy()
def close(self):
self.dvh = None
self.data_table_categorical.delete_all_rows()
self.data_table_numerical.delete_all_rows()
self.plot.clear_plot()
self.endpoint.clear_data()
self.radbio.clear_data()
self.time_series.clear_data()
self.notebook_main_view.SetSelection(0)
self.text_summary.SetLabelText("")
self.__disable_notebook_tabs()
self.disable_query_buttons('categorical')
self.disable_query_buttons('numerical')
self.button_query_execute.Disable()
self.time_series.initialize_y_axis_options()
self.regression.clear()
self.control_chart.initialize_y_axis_options()
self.control_chart.plot.clear_plot()
def on_export(self, evt):
if self.dvh is not None:
ExportCSVDialog(self)
else:
wx.MessageBox(
'There is no data to export! Please query some data first.',
'Export Error', wx.OK | wx.ICON_WARNING)
def on_about(self, evt):
About()
def on_pref(self, *args):
UserSettings(self.options)
def on_sql(self, *args):
SQLSettingsDialog()
[self.__disable_add_filter_buttons,
self.__enable_add_filter_buttons][echo_sql_db()]()
def on_save_plot_dvhs(self, evt):
save_data_to_file(self,
'Save DVHs plot',
self.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_time_series(self, evt):
save_data_to_file(self,
'Save Time Series plot',
self.time_series.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_regression(self, evt):
save_data_to_file(self,
'Save Regression plot',
self.regression.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_control_chart(self, evt):
save_data_to_file(self,
'Save Control Chart plot',
self.control_chart.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_view_dvhs(self, evt):
self.view_table_data('DVHs')
def on_view_plans(self, evt):
self.view_table_data('Plans')
def on_view_rxs(self, evt):
self.view_table_data('Rxs')
def on_view_beams(self, evt):
self.view_table_data('Beams')
def view_table_data(self, key):
if key == 'DVHs':
data = self.dvh
else:
data = self.data[key]
if data:
if self.get_menu_item_status(key) == 'Show':
self.data_views[key] = QueriedDataFrame(
data, key, self.data_menu,
self.data_menu_items[key].GetId())
else:
self.data_views[key].on_close()
self.data_views[key] = None
else:
dlg = wx.MessageDialog(self, 'Please query/open some data first.',
'ERROR!', wx.ICON_ERROR | wx.OK_DEFAULT)
dlg.ShowModal()
dlg.Destroy()
def get_menu_item_status(self, key):
show_hide = [
'Hide', 'Show'
]['Show' in self.data_menu.GetLabel(self.data_menu_items[key].GetId())]
return show_hide
def redraw_plots(self):
if self.dvh:
self.plot.redraw_plot()
self.time_series.plot.redraw_plot()
self.regression.plot.redraw_plot()
self.control_chart.plot.redraw_plot()
def on_resize(self, *evt):
try:
self.Refresh()
self.Layout()
wx.CallAfter(self.redraw_plots)
except RuntimeError:
pass
class ROIMapFrame(wx.Frame):
"""
Class to view and edit roi map
"""
def __init__(self, roi_map):
"""
:param roi_map: roi map object
:type roi_map: DatabaseROIs
"""
wx.Frame.__init__(self, None, title='ROI Map')
set_frame_icon(self)
self.roi_map = roi_map
self.window_size = get_window_size(0.893, 0.762)
self.SetSize(self.window_size)
self.window = wx.SplitterWindow(self, wx.ID_ANY)
self.window_tree = wx.Panel(self.window, wx.ID_ANY, style=wx.BORDER_SUNKEN)
self.combo_box_tree_plot_data = wx.ComboBox(self.window_tree, wx.ID_ANY,
choices=['All', 'Linked', 'Unlinked', 'Branched'],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.plot = PlotROIMap(self.window_tree, roi_map)
self.window_editor = wx.Panel(self.window, wx.ID_ANY, style=wx.BORDER_SUNKEN)
self.combo_box_physician = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=self.roi_map.get_physicians(),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_physician_roi = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=[],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.list_ctrl_variations = wx.ListCtrl(self.window_editor, wx.ID_ANY,
style=wx.LC_NO_HEADER | wx.LC_REPORT | wx.BORDER_SUNKEN)
self.button_variation_select_all = wx.Button(self.window_editor, wx.ID_ANY, "Select All")
self.button_variation_deselect_all = wx.Button(self.window_editor, wx.ID_ANY, "Deselect All")
self.button_variation_add = wx.Button(self.window_editor, wx.ID_ANY, "Add")
self.button_variation_delete = wx.Button(self.window_editor, wx.ID_ANY, "Delete")
self.button_variation_move = wx.Button(self.window_editor, wx.ID_ANY, "Move")
self.button_variation_move.Disable()
self.button_variation_delete.Disable()
self.button_variation_deselect_all.Disable()
self.button_physician = {'add': wx.Button(self.window_editor, wx.ID_ANY, "+"),
'del': wx.Button(self.window_editor, wx.ID_ANY, "-"),
'edit': wx.Button(self.window_editor, wx.ID_ANY, "Δ")}
self.button_physician_roi = {'add': wx.Button(self.window_editor, wx.ID_ANY, "+"),
'del': wx.Button(self.window_editor, wx.ID_ANY, "-"),
'edit': wx.Button(self.window_editor, wx.ID_ANY, "Δ")}
self.button_link_physician_roi = wx.Button(self.window_editor, wx.ID_ANY, "Link")
self.button_link_physician_roi.Disable()
self.combo_box_uncategorized_ignored = wx.ComboBox(self.window_editor, wx.ID_ANY,
choices=["Uncategorized", "Ignored"],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_uncategorized_ignored_roi = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=[],
style=wx.CB_DROPDOWN)
self.button_uncategorized_ignored_delete = wx.Button(self.window_editor, wx.ID_ANY, "Delete DVH")
self.button_uncategorized_ignored_ignore = wx.Button(self.window_editor, wx.ID_ANY, "Ignore DVH")
self.combo_box_physician_roi_merge = {'a': wx.ComboBox(self.window_editor, wx.ID_ANY, style=wx.CB_DROPDOWN),
'b': wx.ComboBox(self.window_editor, wx.ID_ANY, style=wx.CB_DROPDOWN)}
self.button_merge = wx.Button(self.window_editor, wx.ID_ANY, "Merge")
self.button_save_and_update = wx.Button(self.window_editor, wx.ID_ANY, "Save and Update Database")
self.button_cancel = wx.Button(self.window_editor, wx.ID_ANY, "Cancel Changes and Reload")
self.uncategorized_variations = {}
self.columns = ['Variations']
self.data_table = DataTable(self.list_ctrl_variations, columns=self.columns, widths=[490])
self.__set_properties()
self.__do_bind()
self.__do_layout()
self.plot.update_roi_map_source_data(self.physician)
self.run()
def __set_properties(self):
self.combo_box_uncategorized_ignored.SetSelection(0)
self.button_uncategorized_ignored_ignore.SetMinSize((110, 20))
self.combo_box_physician.SetValue('DEFAULT')
self.update_physician_rois()
self.update_variations()
self.combo_box_physician.SetValue('DEFAULT')
self.combo_box_tree_plot_data.SetValue('ALL')
self.update_uncategorized_ignored_choices()
self.window_tree.SetBackgroundColour('white')
for button in self.button_physician.values():
button.SetMaxSize((25, 25))
for button in self.button_physician_roi.values():
button.SetMaxSize((25, 25))
self.update_physician_enable()
self.update_merge_physician_rois()
def __do_bind(self):
self.window_tree.Bind(wx.EVT_COMBOBOX, self.on_plot_data_type_change, id=self.combo_box_tree_plot_data.GetId())
self.window_editor.Bind(wx.EVT_COMBOBOX, self.update_uncategorized_ignored_choices,
id=self.combo_box_uncategorized_ignored.GetId())
self.window_editor.Bind(wx.EVT_COMBOBOX, self.physician_ticker, id=self.combo_box_physician.GetId())
self.window_editor.Bind(wx.EVT_COMBOBOX, self.physician_roi_ticker, id=self.combo_box_physician_roi.GetId())
self.window_editor.Bind(wx.EVT_COMBOBOX, self.uncategorized_ticker, id=self.combo_box_uncategorized_ignored.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.add_physician, id=self.button_physician['add'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_delete_physician, id=self.button_physician['del'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_edit_physician, id=self.button_physician['edit'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_link_physician_roi, id=self.button_link_physician_roi.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.add_physician_roi, id=self.button_physician_roi['add'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_delete_physician_roi, id=self.button_physician_roi['del'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_edit_physician_roi, id=self.button_physician_roi['edit'].GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.select_all_variations, id=self.button_variation_select_all.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.deselect_all_variations, id=self.button_variation_deselect_all.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.add_variation, id=self.button_variation_add.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.move_variations, id=self.button_variation_move.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.delete_variations, id=self.button_variation_delete.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_delete_dvh, id=self.button_uncategorized_ignored_delete.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_ignore_dvh, id=self.button_uncategorized_ignored_ignore.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_merge, id=self.button_merge.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.save_and_update, id=self.button_save_and_update.GetId())
self.window_editor.Bind(wx.EVT_BUTTON, self.on_cancel, id=self.button_cancel.GetId())
self.Bind(wx.EVT_CLOSE, self.on_close)
self.window_editor.Bind(wx.EVT_COMBOBOX, self.update_merge_enable,
id=self.combo_box_physician_roi_merge['a'].GetId())
self.window_editor.Bind(wx.EVT_COMBOBOX, self.update_merge_enable,
id=self.combo_box_physician_roi_merge['b'].GetId())
self.window_editor.Bind(wx.EVT_LIST_ITEM_SELECTED, self.update_button_variation_enable,
id=self.list_ctrl_variations.GetId())
self.window_editor.Bind(wx.EVT_LIST_ITEM_DESELECTED, self.update_button_variation_enable,
id=self.list_ctrl_variations.GetId())
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.HORIZONTAL)
sizer_editor = wx.BoxSizer(wx.VERTICAL)
sizer_physician_roi_merger = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician_roi_merger_merge = wx.BoxSizer(wx.VERTICAL)
sizer_physician_roi_b = wx.BoxSizer(wx.VERTICAL)
sizer_physician_roi_a = wx.BoxSizer(wx.VERTICAL)
sizer_uncategorized_ignored = wx.StaticBoxSizer(
wx.StaticBox(self.window_editor, wx.ID_ANY, "Uncategorized / Ignored"), wx.HORIZONTAL)
sizer_uncategorized_ignored_ignore = wx.BoxSizer(wx.VERTICAL)
sizer_uncategorized_ignored_delete = wx.BoxSizer(wx.VERTICAL)
sizer_uncategorized_ignored_roi = wx.BoxSizer(wx.VERTICAL)
sizer_uncategorized_ignored_type = wx.BoxSizer(wx.VERTICAL)
sizer_tree = wx.BoxSizer(wx.VERTICAL)
sizer_tree_input = wx.BoxSizer(wx.HORIZONTAL)
sizer_tree_plot_data = wx.BoxSizer(wx.VERTICAL)
sizer_roi_manager = wx.BoxSizer(wx.VERTICAL)
sizer_variation_buttons = wx.BoxSizer(wx.VERTICAL)
sizer_variation_table = wx.BoxSizer(wx.VERTICAL)
sizer_map_editor = wx.StaticBoxSizer(wx.StaticBox(self.window_editor, wx.ID_ANY, "ROI Map Editor"), wx.VERTICAL)
sizer_variations = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician_roi = wx.BoxSizer(wx.VERTICAL)
sizer_physician = wx.BoxSizer(wx.VERTICAL)
sizer_physician_row = wx.BoxSizer(wx.HORIZONTAL)
sizer_physician_roi_row = wx.BoxSizer(wx.HORIZONTAL)
sizer_save_cancel_buttons = wx.BoxSizer(wx.HORIZONTAL)
label_physician = wx.StaticText(self.window_editor, wx.ID_ANY, "Physician:")
sizer_physician.Add(label_physician, 0, 0, 0)
sizer_physician_row.Add(self.combo_box_physician, 1, wx.EXPAND | wx.RIGHT, 5)
sizer_physician_row.Add(self.button_physician['add'], 0, wx.LEFT | wx.RIGHT, 5)
sizer_physician_row.Add(self.button_physician['del'], 0, wx.RIGHT, 5)
sizer_physician_row.Add(self.button_physician['edit'], 0, wx.RIGHT, 10)
sizer_physician.Add(sizer_physician_row, 1, wx.EXPAND, 0)
self.label_physician_roi = wx.StaticText(self.window_editor, wx.ID_ANY, "Institutional ROI:")
sizer_physician_roi.Add(self.label_physician_roi, 0, 0, 0)
sizer_physician_roi_row.Add(self.combo_box_physician_roi, 1, wx.EXPAND | wx.RIGHT, 5)
sizer_physician_roi_row.Add(self.button_link_physician_roi, 0, wx.EXPAND | wx.LEFT | wx.RIGHT, 5)
sizer_physician_roi_row.Add(self.button_physician_roi['add'], 0, wx.LEFT | wx.RIGHT, 5)
sizer_physician_roi_row.Add(self.button_physician_roi['del'], 0, wx.RIGHT, 5)
sizer_physician_roi_row.Add(self.button_physician_roi['edit'], 0, wx.RIGHT, 10)
sizer_physician_roi.Add(sizer_physician_roi_row, 0, wx.EXPAND, 0)
sizer_map_editor.Add(sizer_physician, 0, wx.ALL | wx.EXPAND, 5)
sizer_map_editor.Add(sizer_physician_roi, 0, wx.ALL | wx.EXPAND, 5)
label_variations = wx.StaticText(self.window_editor, wx.ID_ANY, "Variations:")
label_variations_buttons = wx.StaticText(self.window_editor, wx.ID_ANY, " ")
sizer_variation_table.Add(label_variations, 0, 0, 0)
sizer_variation_table.Add(self.list_ctrl_variations, 1, wx.BOTTOM | wx.EXPAND, 15)
sizer_variations.Add(sizer_variation_table, 1, wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(label_variations_buttons, 0, 0, 0)
sizer_variation_buttons.Add(self.button_variation_add, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.BOTTOM, 5)
sizer_variation_buttons.Add(self.button_variation_delete, 0, wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(self.button_variation_move, 0, wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(self.button_variation_select_all, 0, wx.EXPAND | wx.ALL, 5)
sizer_variation_buttons.Add(self.button_variation_deselect_all, 0, wx.EXPAND | wx.ALL, 5)
sizer_variations.Add(sizer_variation_buttons, 0, wx.EXPAND | wx.ALL, 5)
sizer_map_editor.Add(sizer_variations, 0, wx.EXPAND, 0)
label_physician_roi_a = wx.StaticText(self.window_editor, wx.ID_ANY, "Merge Physician ROI A:")
sizer_physician_roi_a.Add(label_physician_roi_a, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.TOP, 5)
sizer_physician_roi_a.Add(self.combo_box_physician_roi_merge['a'], 1,
wx.EXPAND | wx.BOTTOM | wx.LEFT | wx.RIGHT, 5)
sizer_physician_roi_merger.Add(sizer_physician_roi_a, 1, wx.EXPAND, 0)
label_physician_roi_b = wx.StaticText(self.window_editor, wx.ID_ANY, "Into Physician ROI B:")
sizer_physician_roi_b.Add(label_physician_roi_b, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.TOP, 5)
sizer_physician_roi_b.Add(self.combo_box_physician_roi_merge['b'], 1,
wx.EXPAND | wx.BOTTOM | wx.LEFT | wx.RIGHT, 5)
sizer_physician_roi_merger.Add(sizer_physician_roi_b, 1, wx.EXPAND, 0)
sizer_physician_roi_merger_merge.Add((20, 16), 0, 0, 0)
sizer_physician_roi_merger_merge.Add(self.button_merge, 0, wx.ALL, 5)
sizer_physician_roi_merger.Add(sizer_physician_roi_merger_merge, 0, wx.ALL | wx.EXPAND, 0)
sizer_map_editor.Add(sizer_physician_roi_merger, 0, wx.EXPAND, 0)
sizer_save_cancel_buttons.Add(self.button_save_and_update, 1, wx.EXPAND | wx.LEFT | wx.RIGHT, 40)
sizer_save_cancel_buttons.Add(self.button_cancel, 1, wx.EXPAND | wx.LEFT| wx.RIGHT, 40)
sizer_map_editor.Add((10, 10), 0, 0, 0)
sizer_map_editor.Add(sizer_save_cancel_buttons, 0, wx.EXPAND | wx.ALL, 10)
sizer_roi_manager.Add(sizer_map_editor, 1, wx.EXPAND, 0)
sizer_editor.Add(sizer_roi_manager, 0, wx.EXPAND | wx.ALL, 5)
label_tree_plot_data = wx.StaticText(self.window_tree, wx.ID_ANY, 'Institutional Data to Display:')
sizer_tree_plot_data.Add(label_tree_plot_data, 0, wx.LEFT | wx.RIGHT | wx.TOP, 5)
sizer_tree_plot_data.Add(self.combo_box_tree_plot_data, 0, wx.EXPAND | wx.LEFT | wx.BOTTOM | wx.RIGHT, 5)
sizer_tree_input.Add(sizer_tree_plot_data, 0, wx.EXPAND | wx.LEFT | wx.TOP, 5)
sizer_tree.Add(sizer_tree_input, 0, wx.EXPAND, 0)
sizer_tree.Add(self.plot.layout, 1, wx.EXPAND, 0)
self.window_tree.SetSizer(sizer_tree)
label_uncategorized_ignored = wx.StaticText(self.window_editor, wx.ID_ANY, "Type:")
label_uncategorized_ignored.SetMinSize((38, 16))
sizer_uncategorized_ignored_type.Add(label_uncategorized_ignored, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.TOP, 5)
sizer_uncategorized_ignored_type.Add(self.combo_box_uncategorized_ignored, 1, wx.EXPAND | wx.BOTTOM | wx.LEFT | wx.RIGHT, 5)
sizer_uncategorized_ignored.Add(sizer_uncategorized_ignored_type, 1, wx.EXPAND, 0)
label_uncategorized_ignored_roi = wx.StaticText(self.window_editor, wx.ID_ANY, "ROI:")
label_uncategorized_ignored_roi.SetMinSize((30, 16))
sizer_uncategorized_ignored_roi.Add(label_uncategorized_ignored_roi, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.TOP, 5)
sizer_uncategorized_ignored_roi.Add(self.combo_box_uncategorized_ignored_roi, 1, wx.EXPAND | wx.BOTTOM | wx.LEFT | wx.RIGHT, 5)
sizer_uncategorized_ignored.Add(sizer_uncategorized_ignored_roi, 1, wx.EXPAND, 0)
sizer_uncategorized_ignored_delete.Add((20, 16), 0, 0, 0)
sizer_uncategorized_ignored_delete.Add(self.button_uncategorized_ignored_delete, 0, wx.ALL, 5)
sizer_uncategorized_ignored.Add(sizer_uncategorized_ignored_delete, 0, wx.EXPAND, 0)
sizer_uncategorized_ignored_ignore.Add((20, 16), 0, 0, 0)
sizer_uncategorized_ignored_ignore.Add(self.button_uncategorized_ignored_ignore, 0, wx.ALL, 5)
sizer_uncategorized_ignored.Add(sizer_uncategorized_ignored_ignore, 0, wx.EXPAND, 0)
sizer_editor.Add(sizer_uncategorized_ignored, 0, wx.ALL | wx.EXPAND, 5)
self.window_editor.SetSizer(sizer_editor)
self.window.SplitVertically(self.window_tree, self.window_editor)
self.window.SetSashPosition(int(self.window_size[0] * 0.55))
sizer_wrapper.Add(self.window, 1, wx.EXPAND, 0)
self.SetSizer(sizer_wrapper)
self.Layout()
self.Centre()
def run(self):
self.Show()
@staticmethod
def update_combo_box_choices(combo_box, choices, value):
if not value:
value = combo_box.GetValue()
combo_box.Clear()
combo_box.AppendItems(choices)
combo_box.SetValue(value)
def update_roi_map(self):
self.plot.update_roi_map_source_data(self.physician, plot_type=self.plot_data_type)
@property
def physician(self):
return self.combo_box_physician.GetValue()
@property
def physician_roi(self):
return self.combo_box_physician_roi.GetValue()
@property
def plot_data_type(self):
return self.combo_box_tree_plot_data.GetValue()
def physician_ticker(self, evt):
self.update_physician_roi_label()
self.update_physician_enable()
self.update_all(skip_physicians=True)
def on_plot_data_type_change(self, evt):
self.update_roi_map()
def update_uncategorized_ignored_choices(self, *args):
ignored_variations = self.combo_box_uncategorized_ignored.GetValue() == 'Ignored'
self.uncategorized_variations = self.get_uncategorized_variations(self.physician,
ignored_variations=ignored_variations)
choices = list(self.uncategorized_variations)
choices.sort()
if not choices:
choices = ['None']
self.button_uncategorized_ignored_delete.Disable()
self.button_uncategorized_ignored_ignore.Disable()
else:
self.button_uncategorized_ignored_delete.Enable()
self.button_uncategorized_ignored_ignore.Enable()
self.combo_box_uncategorized_ignored_roi.Clear()
self.combo_box_uncategorized_ignored_roi.Append(choices)
self.combo_box_uncategorized_ignored_roi.SetValue(choices[0])
@staticmethod
def get_uncategorized_variations(physician, ignored_variations=False):
if echo_sql_db():
with DVH_SQL() as cnx:
physician = clean_name(physician).upper()
condition = "physician_roi = '%s'" % ['uncategorized', 'ignored'][ignored_variations]
cursor_rtn = cnx.query('dvhs', 'roi_name, study_instance_uid', condition)
new_variations = {}
for row in cursor_rtn:
variation = clean_name(str(row[0]))
study_instance_uid = str(row[1])
physician_db = cnx.get_unique_values('Plans', 'physician',
"study_instance_uid = '%s'" % study_instance_uid)
if physician_db and physician_db[0] == physician:
if variation not in list(new_variations):
new_variations[variation] = {'roi_name': variation,
'study_instance_uid': [study_instance_uid]}
else:
new_variations[variation]['study_instance_uid'].append(study_instance_uid)
return new_variations
@property
def selected_indices(self):
return get_selected_listctrl_items(self.list_ctrl_variations)
def update_button_variation_enable(self, *args):
if self.selected_indices:
self.button_variation_move.Enable()
self.button_variation_delete.Enable()
self.button_variation_deselect_all.Enable()
else:
self.button_variation_move.Disable()
self.button_variation_delete.Disable()
self.button_variation_deselect_all.Disable()
self.button_variation_select_all.Enable(self.variation_count > 0)
def update_variations(self):
self.data_table.set_data(self.variation_table_data, self.columns)
self.update_button_variation_enable()
def physician_roi_ticker(self, evt):
self.update_variations()
def update_physicians(self, old_physicians=None):
choices = self.roi_map.get_physicians()
new = choices[0]
if old_physicians:
new = list(set(choices) - set(old_physicians))
if new:
new = clean_name(new[0]).upper()
self.update_combo_box_choices(self.combo_box_physician, choices, new)
self.update_physician_roi_label()
self.update_physician_enable()
def update_physician_rois(self, old_physician_rois=None):
choices = self.roi_map.get_physician_rois(self.physician)
new = choices[0]
if old_physician_rois:
new = list(set(choices) - set(old_physician_rois))
if new:
new = clean_name(new[0])
self.update_combo_box_choices(self.combo_box_physician_roi, choices, new)
@property
def variations(self):
variations = self.roi_map.get_variations(self.physician, self.physician_roi)
variations = list(set(variations) - {self.physician_roi}) # remove physician roi
variations.sort()
return variations
@property
def variation_table_data(self):
return {'Variations': self.variations}
def add_physician_roi(self, evt):
old_physician_rois = self.roi_map.get_physician_rois(self.physician)
dlg = AddPhysicianROI(self, self.physician, self.roi_map, institutional_mode=self.physician == 'DEFAULT')
if dlg.res == wx.ID_OK:
self.update_all(old_physician_rois=old_physician_rois)
def add_physician(self, evt):
old_physicians = self.roi_map.get_physicians()
dlg = AddPhysician(self.roi_map)
if dlg.res == wx.ID_OK:
self.update_all(old_physicians=old_physicians)
@property
def variation_count(self):
return len(self.variations)
@property
def selected_values(self):
return [self.list_ctrl_variations.GetItem(i, 0).GetText() for i in self.selected_indices]
def select_all_variations(self, evt):
self.apply_global_selection()
def deselect_all_variations(self, evt):
self.apply_global_selection(on=0)
def apply_global_selection(self, on=1):
for i in range(self.variation_count):
self.list_ctrl_variations.Select(i, on=on)
def delete_variations(self, evt):
self.roi_map.delete_variations(self.physician, self.physician_roi, self.selected_values)
self.update_variations()
def add_variation(self, evt):
dlg = AddVariationDialog(self, self.physician, self.physician_roi, self.roi_map)
res = dlg.ShowModal()
if res == wx.ID_OK:
try:
self.roi_map.add_variation(self.physician, self.physician_roi, dlg.text_ctrl_variation.GetValue())
self.update_variations()
except ROIVariationError as e:
ROIVariationErrorDialog(self, e)
dlg.Destroy()
def move_variations(self, evt):
choices = [roi for roi in self.roi_map.get_physician_rois(self.physician) if roi != self.physician_roi]
MoveVariationDialog(self, self.selected_values, self.physician, self.physician_roi, choices, self.roi_map)
self.update_variations()
def on_delete_physician(self, evt):
MessageDialog(self, 'Delete Physician %s?' % self.physician, action_yes_func=self.delete_physician)
def delete_physician(self):
self.roi_map.delete_physician(self.physician)
self.update_all()
def on_delete_physician_roi(self, evt):
if self.physician == 'DEFAULT':
MessageDialog(self, "Delete Institutional ROI %s?" % self.physician_roi,
action_yes_func=self.delete_institutional_roi)
else:
MessageDialog(self, "Delete Physician ROI %s?" % self.physician_roi,
action_yes_func=self.delete_physician_roi)
def delete_physician_roi(self):
self.roi_map.delete_physician_roi(self.physician, self.physician_roi)
self.update_all(skip_physicians=True)
def delete_institutional_roi(self):
self.roi_map.delete_institutional_roi(self.physician_roi)
self.update_all(skip_physicians=True)
def on_delete_dvh(self, evt):
MessageDialog(self, "Delete all DVHs named %s for %s?" % (self.dvh, self.physician),
message="Are you sure? This cannot be undone!",
action_yes_func=self.delete_dvh)
def delete_dvh(self):
with DVH_SQL() as cnx:
for uid in self.dvh_uids:
cnx.delete_dvh(self.dvh, uid)
self.update_uncategorized_ignored_choices()
def on_ignore_dvh(self, evt):
msg_type = ['Unignore', 'Ignore'][self.button_uncategorized_ignored_ignore.GetLabelText() == 'Ignore DVH']
MessageDialog(self, "%s all DVHs named %s for %s?" % (msg_type, self.dvh, self.physician),
action_yes_func=self.ignore_dvh)
def ignore_dvh(self):
unignore = self.button_uncategorized_ignored_ignore.GetLabelText() == 'Unignore DVH'
with DVH_SQL() as cnx:
for uid in self.dvh_uids:
cnx.ignore_dvh(self.dvh, uid, unignore=unignore)
self.update_uncategorized_ignored_choices()
@property
def dvh(self):
return self.combo_box_uncategorized_ignored_roi.GetValue()
@property
def dvh_uids(self):
return self.uncategorized_variations[self.dvh]['study_instance_uid']
def update_all(self, old_physicians=None, old_physician_rois=None, skip_physicians=False):
if not skip_physicians:
self.update_physicians(old_physicians=old_physicians)
self.update_physician_rois(old_physician_rois=old_physician_rois)
self.update_variations()
self.update_uncategorized_ignored_choices()
self.update_merge_physician_rois()
self.update_roi_map()
def on_edit_physician(self, evt):
current_physicians = self.roi_map.get_physicians()
dlg = RenamePhysicianDialog(self.physician, self.roi_map)
if dlg.res == wx.ID_OK:
self.update_all(old_physicians=current_physicians)
def on_edit_physician_roi(self, evt):
current_physician_rois = self.roi_map.get_physician_rois(self.physician)
if self.physician == 'DEFAULT':
dlg = RenameInstitutionalROIDialog(self.physician_roi, self.roi_map)
else:
dlg = RenamePhysicianROIDialog(self.physician, self.physician_roi, self.roi_map)
if dlg.res == wx.ID_OK:
self.update_all(old_physician_rois=current_physician_rois, skip_physicians=True)
def update_physician_enable(self):
self.button_physician['del'].Enable(self.physician != 'DEFAULT')
self.button_physician['edit'].Enable(self.physician != 'DEFAULT')
self.button_variation_add.Enable(self.physician != 'DEFAULT')
def update_physician_roi_label(self):
label_text = ['Physician ROI:', 'Institutional ROI:'][self.physician == 'DEFAULT']
self.label_physician_roi.SetLabelText(label_text)
self.button_link_physician_roi.Enable(self.physician != 'DEFAULT')
def uncategorized_ticker(self, evt):
if self.combo_box_uncategorized_ignored.GetValue() == 'Uncategorized':
self.button_uncategorized_ignored_ignore.SetLabelText('Ignore DVH')
else:
self.button_uncategorized_ignored_ignore.SetLabelText('Unignore DVH')
self.update_uncategorized_ignored_choices()
def update_merge_physician_rois(self):
options = []
if self.physician != 'DEFAULT':
options = self.roi_map.get_physician_rois(self.physician)
if not options:
options = ['']
for combo_box in self.combo_box_physician_roi_merge.values():
combo_box.Clear()
combo_box.Append(options)
combo_box.SetValue(options[0])
self.update_merge_enable()
@property
def merge_a(self):
return self.combo_box_physician_roi_merge['a'].GetValue()
@property
def merge_b(self):
return self.combo_box_physician_roi_merge['b'].GetValue()
def on_merge(self, evt):
self.roi_map.merge_physician_rois(self.physician, [self.merge_a, self.merge_b], self.merge_b)
self.update_all(skip_physicians=True)
def update_merge_enable(self, *args): # *args to catch wx.EVT_BUTTON
self.combo_box_physician_roi_merge['a'].Enable(bool(self.merge_a and self.merge_b))
self.combo_box_physician_roi_merge['b'].Enable(bool(self.merge_a and self.merge_b))
self.button_merge.Enable(bool(self.merge_a) and bool(self.merge_b) and self.merge_a != self.merge_b)
def on_link_physician_roi(self, evt):
dlg = LinkPhysicianROI(self, self.physician, self.physician_roi, self.roi_map)
if dlg.res == wx.ID_OK:
self.update_roi_map()
def save_and_update(self, evt):
RemapROIFrame(self.roi_map)
self.Destroy()
def on_cancel(self, *args):
self.roi_map.import_from_file()
self.update_roi_map()
def on_close(self, *args):
self.Destroy()
self.roi_map.import_from_file()
class ExportCSVDialog(wx.Dialog):
"""
Allow user to select available data for export to CSV into one file.
This class leverages the get_csv functions built-into each of the data types / tabs
"""
def __init__(self, app):
"""
:param app: easier to pass main frame pointer than several links to each data type
:type app: DVHAMainFrame
"""
wx.Dialog.__init__(self, None)
self.app = app
# Each of these objects shoudl have a has_data property, if False, those UI elements in this class will
# be disabled (i.e., don't allow user to export empty tables
self.enabled = {
'DVHs': self.app.dvh.has_data,
'DVHs Summary': self.app.dvh.has_data,
'Endpoints': self.app.endpoint.has_data,
'Radbio': self.app.radbio.has_data,
'Charting Variables': self.app.time_series.has_data
}
checkbox_keys = [
'DVHs', 'DVHs Summary', 'Endpoints', 'Radbio', 'Charting Variables'
]
self.checkbox = {
key: wx.CheckBox(self, wx.ID_ANY, key)
for key in checkbox_keys
}
# set to a dictionary because previous versions had a tree with Regression
self.list_ctrl = {
'Charting Variables':
wx.ListCtrl(self,
wx.ID_ANY,
style=wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
}
time_series_column = "Variables"
time_series_variables = self.app.time_series.combo_box_y_axis.GetItems(
)
time_series_data = {time_series_column: time_series_variables}
self.data_table_time_series = DataTable(
self.list_ctrl['Charting Variables'],
columns=[time_series_column],
widths=[400])
self.data_table_time_series.set_data(time_series_data,
[time_series_column])
# set to a dictionary because previous versions had a table with Regression
self.button_select_data = {
'Charting Variables': {
'Select': wx.Button(self, wx.ID_ANY, "Select All"),
'Deselect': wx.Button(self, wx.ID_ANY, "Deselect All")
}
}
self.button_save = wx.Button(self, wx.ID_OK, "Save")
self.button_cancel = wx.Button(self, wx.ID_CANCEL, "Cancel")
self.button_select_all = wx.Button(self, wx.ID_ANY, 'Select All')
self.button_deselect_all = wx.Button(self, wx.ID_ANY, 'Deselect All')
self.__set_properties()
self.__do_bind()
self.__do_layout()
self.run()
def __set_properties(self):
self.SetTitle("Export Data to CSV")
self.button_select_all.SetToolTip(
'Only data objects with data will be enabled.')
self.validate_ui_objects()
def __do_bind(self):
self.Bind(wx.EVT_BUTTON,
self.on_select_all,
id=self.button_select_all.GetId())
self.Bind(wx.EVT_BUTTON,
self.on_deselect_all,
id=self.button_deselect_all.GetId())
self.Bind(
wx.EVT_BUTTON,
self.on_time_series_select_all,
id=self.button_select_data['Charting Variables']['Select'].GetId())
self.Bind(wx.EVT_BUTTON,
self.on_time_series_deselect_all,
id=self.button_select_data['Charting Variables']
['Deselect'].GetId())
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_main = wx.BoxSizer(wx.VERTICAL)
sizer_main_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_data = wx.StaticBoxSizer(
wx.StaticBox(self, wx.ID_ANY, "Data Selection"), wx.VERTICAL)
sizer_time_series = wx.BoxSizer(wx.VERTICAL)
sizer_time_series_listctrl = wx.BoxSizer(wx.HORIZONTAL)
sizer_time_series_checkboxes = wx.BoxSizer(wx.HORIZONTAL)
sizer_time_series_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_radbio = wx.BoxSizer(wx.VERTICAL)
sizer_endpoints = wx.BoxSizer(wx.VERTICAL)
sizer_dvhs = wx.BoxSizer(wx.VERTICAL)
sizer_dvhs_checkboxes = wx.BoxSizer(wx.HORIZONTAL)
keys = ['DVHs', 'Endpoints', 'Radbio']
static_line = {key: wx.StaticLine(self, wx.ID_ANY) for key in keys}
sizer_dvhs_checkboxes.Add(self.checkbox['DVHs'], 1, wx.ALL | wx.EXPAND,
5)
sizer_dvhs_checkboxes.Add(self.checkbox['DVHs Summary'], 1,
wx.ALL | wx.EXPAND, 5)
sizer_dvhs.Add(sizer_dvhs_checkboxes, 1, wx.EXPAND, 0)
sizer_dvhs.Add(static_line['DVHs'], 0, wx.EXPAND | wx.TOP, 5)
sizer_data.Add(sizer_dvhs, 0, wx.ALL | wx.EXPAND, 5)
sizer_endpoints.Add(self.checkbox['Endpoints'], 0, wx.ALL, 5)
sizer_endpoints.Add(static_line['Endpoints'], 0, wx.EXPAND | wx.TOP, 5)
sizer_data.Add(sizer_endpoints, 0, wx.ALL | wx.EXPAND, 5)
sizer_radbio.Add(self.checkbox['Radbio'], 0, wx.ALL, 5)
sizer_radbio.Add(static_line['Radbio'], 0, wx.EXPAND | wx.TOP, 5)
sizer_data.Add(sizer_radbio, 0, wx.ALL | wx.EXPAND, 5)
sizer_time_series_checkboxes.Add(self.checkbox['Charting Variables'],
1, wx.EXPAND, 0)
sizer_time_series_buttons.Add(
self.button_select_data['Charting Variables']['Select'], 0,
wx.ALL | wx.EXPAND, 5)
sizer_time_series_buttons.Add(
self.button_select_data['Charting Variables']['Deselect'], 0,
wx.ALL | wx.EXPAND, 5)
sizer_time_series_checkboxes.Add(sizer_time_series_buttons, 1,
wx.EXPAND, 0)
sizer_time_series.Add(sizer_time_series_checkboxes, 0,
wx.ALL | wx.EXPAND, 5)
sizer_time_series_listctrl.Add((20, 20), 0, 0, 0)
sizer_time_series_listctrl.Add(self.list_ctrl['Charting Variables'], 1,
wx.ALL | wx.EXPAND, 5)
sizer_time_series.Add(sizer_time_series_listctrl, 0,
wx.ALL | wx.EXPAND, 5)
sizer_data.Add(sizer_time_series, 0, wx.ALL | wx.EXPAND, 5)
sizer_main.Add(sizer_data, 0, wx.ALL | wx.EXPAND, 5)
sizer_main_buttons.Add(self.button_select_all, 0, wx.ALL, 5)
sizer_main_buttons.Add(self.button_deselect_all, 0, wx.ALL, 5)
sizer_main_buttons.Add(self.button_save, 0, wx.ALL, 5)
sizer_main_buttons.Add(self.button_cancel, 0, wx.ALL, 5)
sizer_main.Add(sizer_main_buttons, 0, wx.ALIGN_RIGHT | wx.ALL, 5)
sizer_wrapper.Add(sizer_main, 1, wx.EXPAND, 0)
self.SetSizer(sizer_wrapper)
self.Layout()
self.Fit()
self.Center()
def set_checkbox_values(self, value):
for checkbox in self.checkbox.values():
checkbox.SetValue(value)
def on_select_all(self, evt):
self.set_checkbox_values(True)
self.validate_ui_objects(allow_enable=False)
def on_deselect_all(self, evt):
self.set_checkbox_values(False)
self.validate_ui_objects(allow_enable=False)
def on_time_series_select_all(self, evt):
self.data_table_time_series.apply_selection_to_all(1)
def on_time_series_deselect_all(self, evt):
self.data_table_time_series.apply_selection_to_all(0)
def validate_ui_objects(self, allow_enable=True):
tables = {'Charting Variables': self.data_table_time_series}
for key, data_table in tables.items():
state = data_table.has_data
if not state or (state and allow_enable):
self.list_ctrl[key].Enable(state)
self.button_select_data[key]['Select'].Enable(state)
self.button_select_data[key]['Deselect'].Enable(state)
for key, value in self.enabled.items():
if not value or (value and allow_enable):
self.checkbox[key].SetValue(value)
self.checkbox[key].Enable(value)
def run(self):
res = self.ShowModal()
if res == wx.ID_OK:
save_data_to_file(self, 'Export CSV Data', self.csv)
self.Destroy()
def is_checked(self, key):
return self.checkbox[key].GetValue()
def on_dvh_check(self, evt):
if not self.is_checked('DVHs'):
self.checkbox['DVHs Summary'].SetValue(False)
@property
def csv(self):
csv_data = []
csv_key = ['DVHs', 'Endpoints', 'Radbio', 'Charting Variables']
csv_obj = [
None, self.app.endpoint, self.app.radbio, self.app.time_series,
self.app.control_chart
]
for i, key in enumerate(csv_key):
if self.is_checked(key):
csv_data.append('%s\n' % key)
if key == 'DVHs': # DVHs has a summary and plot data for export
csv_data.append(
self.app.plot.get_csv(
include_summary=self.is_checked('DVHs Summary'),
include_dvhs=self.is_checked('DVHs')))
else:
if key == 'Charting Variables':
selection_indices = get_selected_listctrl_items(
self.list_ctrl['Charting Variables'])
y_choices = self.app.time_series.combo_box_y_axis.GetItems(
)
selection = [
y for i, y in enumerate(y_choices)
if i in selection_indices
]
else:
selection = None
csv_data.append(csv_obj[i].get_csv(selection=selection))
csv_data.append('\n\n')
return '\n'.join(csv_data)
class QueriedDataFrame(wx.Frame):
"""
Generate a simple table to view data of the current query for a specified SQL table
"""
def __init__(self, data_obj, columns, data_key, menu, menu_item_id):
"""
:param data_obj: object containing data to be viewed for each group
:type data_obj: dict
:param columns: columns to be displayed in table
:type columns: list
:param data_key: either 'DVHs', 'Plans', 'Beams', 'Rxs', or 'StatsData'
:type data_key: str
:param menu: a link to the main app menu, used to toggle Show/Hide status
:type menu: Menu
:param menu_item_id: the ID of the menu item associated with the specified data_obj
"""
wx.Frame.__init__(self, None, title='%s Data' % data_key[0:-1])
self.data = data_obj
self.columns = columns
self.sql_table = data_key
self.menu = menu
self.menu_item_id = menu_item_id
self.list_ctrl = wx.ListCtrl(self,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
self.button_export = wx.Button(self, wx.ID_ANY, "Export to CSV")
self.radio_button_query_group = wx.RadioBox(self,
wx.ID_ANY,
'Query Group',
choices=['1', '2'])
self.data_table = DataTable(self.list_ctrl)
self.data_table.set_data(self.table_data, self.columns)
if not self.data[2]:
self.radio_button_query_group.Disable()
self.__do_bind()
self.__set_properties()
self.__do_layout()
self.run()
def __set_properties(self):
self.SetSize(get_window_size(0.714, 0.762))
set_msw_background_color(self)
set_frame_icon(self)
def __do_bind(self):
self.Bind(wx.EVT_BUTTON, self.on_export, id=self.button_export.GetId())
self.Bind(wx.EVT_LIST_COL_CLICK, self.sort_table, self.list_ctrl)
self.Bind(wx.EVT_CLOSE, self.on_close)
self.Bind(wx.EVT_RADIOBOX,
self.on_group_select,
id=self.radio_button_query_group.GetId())
def __do_layout(self):
sizer_wrapper = wx.BoxSizer(wx.VERTICAL)
sizer_widgets = wx.BoxSizer(wx.HORIZONTAL)
sizer_button = wx.BoxSizer(wx.HORIZONTAL)
sizer_button.Add(self.button_export, 0, wx.TOP, 15)
sizer_widgets.Add(sizer_button, 0, wx.ALL, 10)
sizer_widgets.Add(self.radio_button_query_group, 0, wx.ALL, 10)
sizer_wrapper.Add(sizer_widgets, 0, 0, 0)
sizer_wrapper.Add(self.list_ctrl, 1,
wx.LEFT | wx.RIGHT | wx.BOTTOM | wx.EXPAND, 10)
self.SetSizer(sizer_wrapper)
self.Center()
@property
def table_data(self):
return {
column: getattr(self.selected_data, column)
for column in self.columns
}
@property
def selected_group(self):
return self.radio_button_query_group.GetSelection() + 1
@property
def selected_data(self):
return self.data[self.selected_group]
def run(self):
self.toggle_data_menu_item()
self.Show()
def on_close(self, *args):
self.toggle_data_menu_item()
self.Destroy()
def on_export(self, *args):
save_data_to_file(
self, "Export Group %s %s to CSV" %
(self.selected_group, self.sql_table), self.data_table.get_csv())
def toggle_data_menu_item(self):
short_cut = ['DVHs', 'Plans', 'Rxs', 'Beams'].index(self.sql_table) + 1
show_hide = ['Show',
'Hide']['Show' in self.menu.GetLabel(self.menu_item_id)]
self.menu.SetLabel(
self.menu_item_id,
'%s %s\tCtrl+%s' % (show_hide, self.sql_table, short_cut))
def sort_table(self, evt):
self.data_table.sort_table(evt)
def on_group_select(self, *evt):
self.data_table.clear()
self.data_table.set_data(self.table_data, self.columns)
def __init__(self, parent, group_data, time_series, regression,
control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param group_data: dvh, table_data, and stats_data
:type group_data: dict
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.group_data = group_data
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.table_published_values = wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN
| wx.LC_HRULES | wx.LC_REPORT
| wx.LC_VRULES)
self.text_input_eud_a = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_gamma_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_td_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.radio_box_query_group = wx.RadioBox(self.parent,
wx.ID_ANY,
'Query Group',
choices=['1', '2', 'Both'])
self.button_apply_parameters = wx.Button(self.parent, wx.ID_ANY,
"Apply Parameters")
self.button_export = wx.Button(self.parent, wx.ID_ANY, "Export")
self.table_rad_bio = {
grp: wx.ListCtrl(self.parent,
wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES
| wx.LC_REPORT | wx.LC_VRULES)
for grp in [1, 2]
}
self.columns = [
'MRN', 'ROI Name', 'a', u'\u03b3_50', 'TD or TCD', 'EUD',
'NTCP or TCP', 'PTV Overlap', 'ROI Type', 'Rx Dose', 'Total Fxs',
'Fx Dose'
]
self.width = [100, 175, 50, 50, 80, 80, 80, 100, 100, 100, 100, 100]
formats = [wx.LIST_FORMAT_RIGHT] * len(self.columns)
formats[0] = wx.LIST_FORMAT_LEFT
formats[1] = wx.LIST_FORMAT_LEFT
self.data_table_rad_bio = {
grp: DataTable(self.table_rad_bio[grp],
columns=self.columns,
widths=self.width,
formats=formats)
for grp in [1, 2]
}
self.__set_properties()
self.__do_layout()
self.__do_bind()
self.disable_buttons()
class DVHAMainFrame(wx.Frame):
def __init__(self, *args, **kwds):
kwds["style"] = kwds.get("style", 0) | wx.DEFAULT_FRAME_STYLE
wx.Frame.__init__(self, *args, **kwds)
self.layout_set = False
self.sizer_dvhs = wx.BoxSizer(wx.VERTICAL)
set_msw_background_color(self) # If windows, change the background color
self.options = Options()
# Initial DVH object and data
self.save_data = {}
self.group_data = {1: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None},
2: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None}}
self.toolbar_keys = ['Open', 'Close', 'Save', 'Export', 'Import', 'Database', 'ROI Map', 'Settings']
self.toolbar_ids = {key: i + 1000 for i, key in enumerate(self.toolbar_keys)}
# sql_columns.py contains dictionaries of all queryable variables along with their
# SQL columns and tables. Numerical categories include their units as well.
self.categorical_columns = sql_columns.categorical
self.numerical_columns = sql_columns.numerical
# Keep track of currently selected row in the query tables
self.selected_index_categorical = None
self.selected_index_numerical = None
# Load ROI Map now and pass to other objects for continuity
# TODO: Need a method to address multiple users editing roi_map at the same time
self.roi_map = DatabaseROIs()
self.query_filters = None
self.reset_query_filters()
self.__add_menubar()
self.__add_tool_bar()
self.__add_layout_objects()
self.__bind_layout_objects()
columns = {'categorical': ['category_1', 'category_2', 'Filter Type'],
'numerical': ['category', 'min', 'max', 'Filter Type']}
self.data_table_categorical = DataTable(self.table_categorical, columns=columns['categorical'])
self.data_table_numerical = DataTable(self.table_numerical, columns=columns['numerical'])
self.__set_properties()
self.__set_tooltips()
self.__add_notebook_frames()
self.__do_layout()
self.disable_query_buttons('categorical')
self.disable_query_buttons('numerical')
self.button_query_execute.Disable()
self.__disable_notebook_tabs()
self.Bind(wx.EVT_CLOSE, self.on_quit)
self.tool_bar_windows = {key: None for key in ['import', 'database', 'roi_map']}
wx.CallAfter(self.__catch_failed_sql_connection_on_app_launch)
self.__do_subscribe()
def __add_tool_bar(self):
self.frame_toolbar = wx.ToolBar(self, -1, style=wx.TB_HORIZONTAL | wx.TB_TEXT)
self.SetToolBar(self.frame_toolbar)
description = {'Open': "Open previously queried data",
'Close': "Clear queried data",
'Save': "Save queried data",
# 'Print': "Print a report",
'Export': "Export data to CSV",
'Import': "DICOM import wizard",
'Settings': "User Settings",
'Database': "Database Administrator Tools",
'ROI Map': "Define ROI name aliases"}
for key in self.toolbar_keys:
bitmap = wx.Bitmap(ICONS[key], wx.BITMAP_TYPE_ANY)
if is_windows() or is_linux():
bitmap = scale_bitmap(bitmap, 30, 30)
self.frame_toolbar.AddTool(self.toolbar_ids[key], key, bitmap,
wx.NullBitmap, wx.ITEM_NORMAL, description[key], "")
if key in {'Close', 'Export', 'ROI Map'}:
self.frame_toolbar.AddSeparator()
self.Bind(wx.EVT_TOOL, self.on_save, id=self.toolbar_ids['Save'])
self.Bind(wx.EVT_TOOL, self.on_open, id=self.toolbar_ids['Open'])
self.Bind(wx.EVT_TOOL, self.on_export, id=self.toolbar_ids['Export'])
self.Bind(wx.EVT_TOOL, self.on_toolbar_database, id=self.toolbar_ids['Database'])
self.Bind(wx.EVT_TOOL, self.on_toolbar_settings, id=self.toolbar_ids['Settings'])
self.Bind(wx.EVT_TOOL, self.on_toolbar_roi_map, id=self.toolbar_ids['ROI Map'])
self.Bind(wx.EVT_TOOL, self.on_close, id=self.toolbar_ids['Close'])
self.Bind(wx.EVT_TOOL, self.on_toolbar_import, id=self.toolbar_ids['Import'])
def __add_menubar(self):
self.frame_menubar = wx.MenuBar()
file_menu = wx.Menu()
# file_menu.Append(wx.ID_NEW, '&New')
menu_open = file_menu.Append(wx.ID_OPEN, '&Open\tCtrl+O')
menu_import = file_menu.Append(wx.ID_OPEN, '&Import DICOM\tCtrl+I')
menu_save = file_menu.Append(wx.ID_ANY, '&Save\tCtrl+S')
menu_close = file_menu.Append(wx.ID_ANY, '&Close')
load_model = wx.Menu()
load_model_mvr = load_model.Append(wx.ID_ANY, 'Multi-Variable Regression')
load_model_ml = load_model.Append(wx.ID_ANY, 'Machine Learning')
export_plot = wx.Menu()
export_dvhs = export_plot.Append(wx.ID_ANY, 'DVHs')
export_time_series = export_plot.Append(wx.ID_ANY, 'Time Series')
export_correlation = export_plot.Append(wx.ID_ANY, 'Correlation')
export_regression = export_plot.Append(wx.ID_ANY, 'Regression')
export_control_chart = export_plot.Append(wx.ID_ANY, 'Control Chart')
export = wx.Menu()
export_csv = export.Append(wx.ID_ANY, 'Data to csv\tCtrl+E')
export.AppendSubMenu(export_plot, 'Plot to html')
file_menu.AppendSeparator()
qmi = file_menu.Append(wx.ID_ANY, '&Quit\tCtrl+Q')
self.data_menu = wx.Menu()
self.data_views = {key: None for key in ['DVHs', 'Plans', 'Rxs', 'Beams']}
menu_db_admin = self.data_menu.Append(wx.ID_ANY, 'Database Administrator')
self.data_menu.AppendSubMenu(load_model, 'Load &Model')
self.data_menu.AppendSubMenu(export, '&Export')
self.data_menu_items = {'DVHs': self.data_menu.Append(wx.ID_ANY, 'Show DVHs\tCtrl+1'),
'Plans': self.data_menu.Append(wx.ID_ANY, 'Show Plans\tCtrl+2'),
'Rxs': self.data_menu.Append(wx.ID_ANY, 'Show Rxs\tCtrl+3'),
'Beams': self.data_menu.Append(wx.ID_ANY, 'Show Beams\tCtrl+4'),
'StatsData1': self.data_menu.Append(wx.ID_ANY, 'Show Stats Data: Group 1\tCtrl+5'),
'StatsData2': self.data_menu.Append(wx.ID_ANY, 'Show Stats Data: Group 2\tCtrl+6')}
settings_menu = wx.Menu()
menu_pref = settings_menu.Append(wx.ID_PREFERENCES)
menu_sql = settings_menu.Append(wx.ID_ANY, '&Database Connection\tCtrl+D')
menu_roi_map = settings_menu.Append(wx.ID_ANY, '&ROI Map\tCtrl+R')
help_menu = wx.Menu()
menu_github = help_menu.Append(wx.ID_ANY, 'GitHub Page')
menu_report_issue = help_menu.Append(wx.ID_ANY, 'Report an Issue')
menu_about = help_menu.Append(wx.ID_ANY, '&About')
self.Bind(wx.EVT_MENU, self.on_quit, qmi)
self.Bind(wx.EVT_MENU, self.on_open, menu_open)
self.Bind(wx.EVT_MENU, self.on_toolbar_import, menu_import)
self.Bind(wx.EVT_MENU, self.on_load_mvr_model, load_model_mvr)
self.Bind(wx.EVT_MENU, self.on_load_ml_model, load_model_ml)
self.Bind(wx.EVT_MENU, self.on_close, menu_close)
self.Bind(wx.EVT_MENU, self.on_export, export_csv)
self.Bind(wx.EVT_MENU, self.on_save, menu_save)
self.Bind(wx.EVT_MENU, self.on_pref, menu_pref)
self.Bind(wx.EVT_MENU, self.on_githubpage, menu_github)
self.Bind(wx.EVT_MENU, self.on_report_issue, menu_report_issue)
self.Bind(wx.EVT_MENU, self.on_about, menu_about)
self.Bind(wx.EVT_MENU, self.on_sql, menu_sql)
self.Bind(wx.EVT_MENU, self.on_toolbar_roi_map, menu_roi_map)
if is_mac():
menu_user_settings = settings_menu.Append(wx.ID_ANY, '&Preferences\tCtrl+,')
self.Bind(wx.EVT_MENU, self.on_pref, menu_user_settings)
self.Bind(wx.EVT_MENU, self.on_save_plot_dvhs, export_dvhs)
self.Bind(wx.EVT_MENU, self.on_save_plot_time_series, export_time_series)
self.Bind(wx.EVT_MENU, self.on_save_plot_correlation, export_correlation)
self.Bind(wx.EVT_MENU, self.on_save_plot_regression, export_regression)
self.Bind(wx.EVT_MENU, self.on_save_plot_control_chart, export_control_chart)
self.Bind(wx.EVT_MENU, self.on_toolbar_database, menu_db_admin)
self.Bind(wx.EVT_MENU, self.on_view_dvhs, self.data_menu_items['DVHs'])
self.Bind(wx.EVT_MENU, self.on_view_plans, self.data_menu_items['Plans'])
self.Bind(wx.EVT_MENU, self.on_view_rxs, self.data_menu_items['Rxs'])
self.Bind(wx.EVT_MENU, self.on_view_beams, self.data_menu_items['Beams'])
self.Bind(wx.EVT_MENU, self.on_view_stats_data_1, self.data_menu_items['StatsData1'])
self.Bind(wx.EVT_MENU, self.on_view_stats_data_2, self.data_menu_items['StatsData2'])
self.frame_menubar.Append(file_menu, '&File')
self.frame_menubar.Append(self.data_menu, '&Data')
self.frame_menubar.Append(settings_menu, '&Settings')
self.frame_menubar.Append(help_menu, '&Help')
self.SetMenuBar(self.frame_menubar)
def __add_layout_objects(self):
self.button_categorical = {'add': wx.Button(self, wx.ID_ANY, "Add Filter"),
'del': wx.Button(self, wx.ID_ANY, "Delete Selected"),
'edit': wx.Button(self, wx.ID_ANY, "Edit Selected")}
self.button_numerical = {'add': wx.Button(self, wx.ID_ANY, "Add Filter"),
'del': wx.Button(self, wx.ID_ANY, "Delete Selected"),
'edit': wx.Button(self, wx.ID_ANY, "Edit Selected")}
self.table_categorical = wx.ListCtrl(self, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.LC_REPORT)
self.table_numerical = wx.ListCtrl(self, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.LC_REPORT)
self.radio_button_query_group = wx.RadioBox(self, wx.ID_ANY, 'Query Group', choices=['1', '2'])
self.button_query_execute = wx.Button(self, wx.ID_ANY, "Query and Retrieve Group 1")
self.notebook_main_view = wx.Notebook(self, wx.ID_ANY)
self.tab_keys = ['Welcome', 'DVHs', 'Endpoints', 'Rad Bio', 'Time Series',
'Correlation', 'Regression', 'Control Chart']
self.notebook_tab = {key: wx.Panel(self.notebook_main_view, wx.ID_ANY) for key in self.tab_keys}
self.text_summary = wx.StaticText(self, wx.ID_ANY, "", style=wx.ALIGN_LEFT)
def __bind_layout_objects(self):
self.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_item_select_categorical, self.table_categorical)
self.Bind(wx.EVT_BUTTON, self.add_row_categorical, id=self.button_categorical['add'].GetId())
self.Bind(wx.EVT_BUTTON, self.del_row_categorical, id=self.button_categorical['del'].GetId())
self.Bind(wx.EVT_BUTTON, self.edit_row_categorical, id=self.button_categorical['edit'].GetId())
self.Bind(wx.EVT_LIST_ITEM_ACTIVATED, self.doubleclick_categorical, self.table_categorical)
self.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_item_select_numerical, self.table_numerical)
self.Bind(wx.EVT_BUTTON, self.add_row_numerical, id=self.button_numerical['add'].GetId())
self.Bind(wx.EVT_BUTTON, self.del_row_numerical, id=self.button_numerical['del'].GetId())
self.Bind(wx.EVT_BUTTON, self.edit_row_numerical, id=self.button_numerical['edit'].GetId())
self.Bind(wx.EVT_LIST_ITEM_ACTIVATED, self.doubleclick_numerical, self.table_numerical)
self.Bind(wx.EVT_RADIOBOX, self.on_group_select, id=self.radio_button_query_group.GetId())
self.Bind(wx.EVT_BUTTON, self.exec_query_button, id=self.button_query_execute.GetId())
self.Bind(wx.EVT_SIZE, self.on_resize)
def __set_properties(self):
self.SetTitle("DVH Analytics")
self.frame_toolbar.Realize()
widths = [180, 150, 80]
self.table_categorical.AppendColumn("Category1", format=wx.LIST_FORMAT_LEFT, width=widths[0])
self.table_categorical.AppendColumn("Category2", format=wx.LIST_FORMAT_LEFT, width=widths[1])
self.table_categorical.AppendColumn("Filter Type", format=wx.LIST_FORMAT_LEFT, width=widths[2])
self.data_table_categorical.widths = widths
widths = [150, 90, 90, 80]
self.table_numerical.AppendColumn("Category", format=wx.LIST_FORMAT_LEFT, width=widths[0])
self.table_numerical.AppendColumn("Min", format=wx.LIST_FORMAT_LEFT, width=widths[1])
self.table_numerical.AppendColumn("Max", format=wx.LIST_FORMAT_LEFT, width=widths[2])
self.table_numerical.AppendColumn("Filter Type", format=wx.LIST_FORMAT_LEFT, width=widths[3])
self.data_table_numerical.widths = widths
def __set_tooltips(self):
self.button_categorical['add'].SetToolTip("Add a categorical data filter.")
self.button_categorical['del'].SetToolTip("Delete the currently selected category filter.")
self.button_categorical['edit'].SetToolTip("Edit the currently selected category filter.")
self.button_numerical['add'].SetToolTip("Add a numerical data filter.")
self.button_numerical['del'].SetToolTip("Delete the currently selected numerical data filter.")
self.button_numerical['edit'].SetToolTip("Edit the currently selected data filter.")
self.button_query_execute.SetToolTip("Query the database with the filters entered above. At least one "
"filter must be added.")
def __add_notebook_frames(self):
self.plot = PlotStatDVH(self.notebook_tab['DVHs'], self.group_data, self.options)
self.time_series = TimeSeriesFrame(self.notebook_tab['Time Series'], self.group_data, self.options)
self.correlation = CorrelationFrame(self.notebook_tab['Correlation'], self.group_data, self.options)
self.regression = RegressionFrame(self.notebook_tab['Regression'], self.group_data, self.options)
self.control_chart = ControlChartFrame(self.notebook_tab['Control Chart'], self.group_data, self.options)
self.radbio = RadBioFrame(self.notebook_tab['Rad Bio'], self.group_data, self.time_series, self.regression,
self.control_chart)
self.endpoint = EndpointFrame(self.notebook_tab['Endpoints'], self.group_data, self.time_series, self.regression,
self.control_chart)
def __do_layout(self):
sizer_summary = wx.StaticBoxSizer(wx.StaticBox(self, wx.ID_ANY, "Summary"), wx.HORIZONTAL)
sizer_query_numerical = wx.StaticBoxSizer(wx.StaticBox(self, wx.ID_ANY, "Query by Numerical Data"),
wx.VERTICAL)
sizer_query_categorical = wx.StaticBoxSizer(wx.StaticBox(self, wx.ID_ANY, "Query by Categorical Data"),
wx.VERTICAL)
sizer_categorical_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_numerical_buttons = wx.BoxSizer(wx.HORIZONTAL)
sizer_query_exec_buttons = wx.BoxSizer(wx.HORIZONTAL)
for key in ['add', 'del', 'edit']:
sizer_categorical_buttons.Add(self.button_categorical[key], 0, wx.ALL, 5)
sizer_numerical_buttons.Add(self.button_numerical[key], 0, wx.ALL, 5)
sizer_query_categorical.Add(sizer_categorical_buttons, 0, wx.ALL | wx.EXPAND, 5)
sizer_query_categorical.Add(self.table_categorical, 1, wx.ALL | wx.EXPAND, 10)
sizer_query_numerical.Add(sizer_numerical_buttons, 0, wx.ALL | wx.EXPAND, 5)
sizer_query_numerical.Add(self.table_numerical, 1, wx.TOP | wx.LEFT | wx.RIGHT | wx.EXPAND, 10)
sizer_summary.Add(self.text_summary)
panel_left = wx.BoxSizer(wx.VERTICAL)
panel_left.Add(sizer_query_categorical, 0, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.SHAPED | wx.TOP, 5)
panel_left.Add(sizer_query_numerical, 0, wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.RIGHT | wx.SHAPED, 5)
sizer_query_exec_buttons.Add(self.radio_button_query_group, 0, 0, 0)
sizer_query_exec_buttons.Add(self.button_query_execute, 1, wx.EXPAND | wx.LEFT | wx.RIGHT | wx.ALIGN_CENTER, 10)
panel_left.Add(sizer_query_exec_buttons, 0, wx.EXPAND | wx.ALIGN_CENTER | wx.RIGHT | wx.LEFT, 5)
panel_left.Add(sizer_summary, 1, wx.ALL | wx.EXPAND, 5)
bitmap_logo = wx.StaticBitmap(self.notebook_tab['Welcome'], wx.ID_ANY,
wx.Bitmap(LOGO_PATH, wx.BITMAP_TYPE_ANY))
text_welcome = wx.StaticText(self.notebook_tab['Welcome'], wx.ID_ANY,
"\n\nWelcome to DVH Analytics.\nIf you already have a database built, design "
"a query with the filters to the left.\n\n\n\nDVH Analytics is a software "
"application to help radiation oncology departments build an in-house database "
"of treatment planning data for the purpose of historical comparisons and "
"statistical analysis. This code is still in development. Please contact the "
"developer if you are interested in testing or collaborating.\n\nThe application "
"builds a SQL database of DVHs and various planning parameters from DICOM files "
"(i.e., Plan, Structure, Dose). Since the data is extracted directly from DICOM "
"files, we intend to accommodate an array of treatment planning system vendors.",
style=wx.ALIGN_CENTER)
text_welcome_size = get_window_size(0.417, 0.476)
text_welcome.SetMinSize(text_welcome_size)
text_welcome.Wrap(text_welcome_size[1])
sizer_welcome = wx.BoxSizer(wx.VERTICAL)
sizer_welcome.Add(bitmap_logo, 0, wx.ALIGN_CENTER | wx.LEFT | wx.RIGHT | wx.TOP, 100)
sizer_welcome.Add(text_welcome, 0, wx.ALIGN_CENTER | wx.ALL, 25)
self.notebook_tab['Welcome'].SetSizer(sizer_welcome)
self.sizer_dvhs.Add(self.plot.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['DVHs'].SetSizer(self.sizer_dvhs)
sizer_endpoint = wx.BoxSizer(wx.VERTICAL)
sizer_endpoint.Add(self.endpoint.layout, 0, wx.ALL, 25)
self.notebook_tab['Endpoints'].SetSizer(sizer_endpoint)
sizer_rad_bio = wx.BoxSizer(wx.VERTICAL)
sizer_rad_bio.Add(self.radbio.layout, 0, wx.ALL, 25)
self.notebook_tab['Rad Bio'].SetSizer(sizer_rad_bio)
sizer_time_series = wx.BoxSizer(wx.VERTICAL)
sizer_time_series.Add(self.time_series.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Time Series'].SetSizer(sizer_time_series)
sizer_correlation = wx.BoxSizer(wx.VERTICAL)
sizer_correlation.Add(self.correlation.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Correlation'].SetSizer(sizer_correlation)
sizer_regression = wx.BoxSizer(wx.VERTICAL)
sizer_regression.Add(self.regression.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Regression'].SetSizer(sizer_regression)
sizer_control_chart = wx.BoxSizer(wx.VERTICAL)
sizer_control_chart.Add(self.control_chart.layout, 1, wx.EXPAND | wx.ALL, 25)
self.notebook_tab['Control Chart'].SetSizer(sizer_control_chart)
for key in self.tab_keys:
self.notebook_main_view.AddPage(self.notebook_tab[key], key)
sizer_main = wx.BoxSizer(wx.VERTICAL)
sizer_main_wrapper = wx.BoxSizer(wx.HORIZONTAL)
hbox_main = wx.BoxSizer(wx.HORIZONTAL)
hbox_main.Add(panel_left, 0, wx.BOTTOM | wx.EXPAND | wx.LEFT | wx.TOP, 5)
hbox_main.Add(self.notebook_main_view, 1, wx.BOTTOM | wx.EXPAND | wx.RIGHT | wx.TOP, 5)
sizer_main_wrapper.Add(hbox_main, 1, wx.EXPAND, 0)
sizer_main.Add(sizer_main_wrapper, 1, wx.EXPAND, 0)
self.SetSizer(sizer_main)
self.Layout()
self.SetSize(get_window_size(0.833, 0.857))
self.Center()
def __enable_notebook_tabs(self):
for key in self.tab_keys:
self.notebook_tab[key].Enable()
self.__enable_initial_buttons_in_tabs()
def __disable_notebook_tabs(self):
for key in self.tab_keys:
if key != 'Welcome':
self.notebook_tab[key].Disable()
def __enable_initial_buttons_in_tabs(self):
self.endpoint.enable_initial_buttons()
self.radbio.enable_initial_buttons()
self.time_series.enable_initial_buttons()
def __disable_add_filter_buttons(self):
self.button_categorical['add'].Disable()
self.button_numerical['add'].Disable()
def __enable_add_filter_buttons(self):
self.button_categorical['add'].Enable()
self.button_numerical['add'].Enable()
def enable_query_buttons(self, query_type):
for key in ['del', 'edit']:
{'categorical': self.button_categorical[key],
'numerical': self.button_numerical[key]}[query_type].Enable()
def disable_query_buttons(self, query_type):
for key in ['del', 'edit']:
{'categorical': self.button_categorical[key],
'numerical': self.button_numerical[key]}[query_type].Disable()
def update_all_query_buttons(self):
tables = {'numerical': self.data_table_numerical, 'categorical': self.data_table_categorical}
for key, table in tables.items():
if table.data is not None:
[self.disable_query_buttons, self.enable_query_buttons][table.row_count > 0](key)
else:
self.disable_query_buttons(key)
if self.data_table_numerical.row_count + self.data_table_categorical.row_count > 0:
self.button_query_execute.Enable()
else:
self.button_query_execute.Disable()
# Force user to populate group 1 first
if self.selected_group == 2 and self.group_data[1]['dvh'] is None:
self.button_query_execute.Disable()
def __catch_failed_sql_connection_on_app_launch(self):
if self.options.DB_TYPE == 'pgsql':
if not echo_sql_db():
wx.MessageBox('Invalid credentials!', 'Echo SQL Database', wx.OK | wx.ICON_WARNING)
self.on_sql()
else: # if using sqlite
initialize_db()
def __do_subscribe(self):
pub.subscribe(self.raise_error_dialog, "import_status_raise_error")
def raise_error_dialog(self, msg):
MemoryErrorDialog(self, msg)
# --------------------------------------------------------------------------------------------------------------
# Menu bar event functions
# --------------------------------------------------------------------------------------------------------------
def on_save(self, evt):
if self.save_data:
dlg = wx.FileDialog(self, "Save your session data to file", "", wildcard='*.dvha',
style=wx.FD_SAVE | wx.FD_OVERWRITE_PROMPT)
dlg.SetDirectory(DATA_DIR)
if dlg.ShowModal() == wx.ID_OK:
self.save_data_obj()
save_object_to_file(self.save_data, dlg.GetPath())
dlg.Destroy()
else:
wx.MessageBox('There is no data to save. Please query/open some data first.', 'Save Error',
wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
def on_open(self, evt):
dlg = wx.FileDialog(self, "Open saved data", "", wildcard='*.dvha',
style=wx.FD_FILE_MUST_EXIST | wx.FD_OPEN)
if dlg.ShowModal() == wx.ID_OK:
self.close()
self.load_data_obj(dlg.GetPath())
dlg.Destroy()
def on_load_mvr_model(self, *evt):
with wx.FileDialog(self, "Load a multi-variable linear regression model", "", wildcard='*.mvr',
style=wx.FD_FILE_MUST_EXIST | wx.FD_OPEN) as dlg:
dlg.SetDirectory(MODELS_DIR)
if dlg.ShowModal() == wx.ID_OK:
model_file_path = dlg.GetPath()
dlg.Destroy()
LoadMultiVarModelFrame(model_file_path, self.group_data, self.selected_group, self.options)
def on_load_ml_model(self, *evt):
if self.group_data[self.selected_group]['stats_data']:
MachineLearningModelViewer(self, self.group_data, self.selected_group, self.options)
else:
wx.MessageBox('No data as been queried for Group %s.' % self.selected_group, 'Error',
wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
@property
def selected_group(self):
return self.radio_button_query_group.GetSelection() + 1
def save_data_obj(self):
self.save_data['group_data'] = self.group_data
self.save_data['query_filters'] = self.query_filters
self.save_data['time_stamp'] = datetime.now()
self.save_data['version'] = DefaultOptions().VERSION
# data_table_categorical and data_table_numerical saved after query to ensure these data reflect
# the rest of the saved data
self.save_data['endpoint'] = self.endpoint.get_save_data()
self.save_data['time_series'] = self.time_series.get_save_data()
self.save_data['radbio'] = self.radbio.get_save_data()
self.save_data['regression'] = self.regression.get_save_data()
self.save_data['control_chart'] = self.control_chart.get_save_data()
def load_data_obj(self, abs_file_path):
self.save_data = load_object_from_file(abs_file_path)
self.group_data = self.save_data['group_data']
# .load_save_data loses column widths?
self.radio_button_query_group.SetSelection(0)
self.data_table_categorical.load_save_data(self.save_data['main_categorical_1'])
self.data_table_numerical.load_save_data(self.save_data['main_numerical_1'])
self.control_chart.load_save_data(self.save_data['control_chart'])
self.radio_button_query_group.SetSelection(0)
self.exec_query(load_saved_dvh_data=True, group=1)
if 'main_categorical_2' in self.save_data.keys():
self.radio_button_query_group.SetSelection(1)
self.on_group_select()
self.data_table_categorical.load_save_data(self.save_data['main_categorical_2'])
self.data_table_numerical.load_save_data(self.save_data['main_numerical_2'])
self.update_all_query_buttons()
self.exec_query(load_saved_dvh_data=True, group=2)
self.update_all_query_buttons()
self.endpoint.load_save_data(self.save_data['endpoint'])
if self.endpoint.has_data:
self.endpoint.enable_buttons()
self.radbio.load_save_data(self.save_data['radbio'])
self.endpoint.update_endpoints_in_dvh()
self.group_data[1]['stats_data'].update_endpoints_and_radbio()
if self.group_data[2]['stats_data']:
self.group_data[2]['stats_data'].update_endpoints_and_radbio()
self.time_series.load_save_data(self.save_data['time_series'])
self.time_series.update_plot()
self.regression.update_combo_box_choices()
self.regression.load_save_data(self.save_data['regression'])
self.control_chart.update_combo_box_y_choices()
def on_toolbar_settings(self, evt):
self.on_pref()
def on_toolbar_import(self, evt):
self.check_db_then_call(ImportDicomFrame, 'import', self.roi_map, self.options)
def on_toolbar_database(self, evt):
self.check_db_then_call(DatabaseEditorFrame, 'database', self.roi_map, self.options)
def on_toolbar_roi_map(self, evt):
self.check_db_then_call(ROIMapFrame, 'roi_map', self.roi_map)
def check_db_then_call(self, func, window_type, *parameters):
if not echo_sql_db():
self.on_sql()
if echo_sql_db():
if self.tool_bar_windows[window_type]:
self.tool_bar_windows[window_type].Raise()
else:
self.tool_bar_windows[window_type] = func(*parameters)
else:
wx.MessageBox('Connection to SQL database could not be established.', 'Connection Error',
wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
# --------------------------------------------------------------------------------------------------------------
# Query event functions
# --------------------------------------------------------------------------------------------------------------
def on_item_select_categorical(self, evt):
self.selected_index_categorical = self.table_categorical.GetFirstSelected()
def on_item_select_numerical(self, evt):
self.selected_index_numerical = self.table_numerical.GetFirstSelected()
def add_row_categorical(self, evt):
query_dlg(self, 'categorical')
self.button_query_execute.Enable()
self.update_all_query_buttons()
def add_row_numerical(self, evt):
query_dlg(self, 'numerical')
self.update_all_query_buttons()
def edit_row_categorical(self, *args):
if self.selected_index_categorical is not None:
query_dlg(self, 'categorical', set_values=True)
def edit_row_numerical(self, *args):
if self.selected_index_numerical is not None:
query_dlg(self, 'numerical', set_values=True)
def doubleclick_categorical(self, evt):
self.selected_index_categorical = self.table_categorical.GetFirstSelected()
self.edit_row_categorical()
def doubleclick_numerical(self, evt):
self.selected_index_numerical = self.table_numerical.GetFirstSelected()
self.edit_row_numerical()
def del_row_categorical(self, evt):
self.data_table_categorical.delete_row(self.selected_index_categorical)
self.selected_index_categorical = None
self.update_all_query_buttons()
def del_row_numerical(self, evt):
self.data_table_numerical.delete_row(self.selected_index_numerical)
self.selected_index_numerical = None
self.update_all_query_buttons()
def exec_query_button(self, evt):
self.exec_query()
def exec_query(self, load_saved_dvh_data=False, group=None):
wx.BeginBusyCursor()
if group is not None:
self.radio_button_query_group.SetSelection(group - 1)
group = self.selected_group
# TODO: retain group 1 endpoint defs after query of group 2
self.endpoint.clear_data()
if group == 1:
self.plot.clear_plot()
self.time_series.clear_data()
self.regression.clear(self.group_data)
self.control_chart.clear_data()
self.radbio.clear_data()
if not load_saved_dvh_data:
try:
uids, dvh_str = self.get_query()
self.group_data[group]['dvh'] = \
DVH(dvh_condition=dvh_str, uid=uids, dvh_bin_width=self.options.dvh_bin_width)
except MemoryError:
msg = "Querying memory error. Try querying less data. At least %s DVHs returned.\n"\
"NOTE: Threshold of this error is dependent on your computer." % self.group_data[group]['dvh'].count
MemoryErrorDialog(self, msg)
self.close()
return
count = self.group_data[group]['dvh'].count
if count > 1:
try:
self.endpoint.update_dvh(self.group_data)
self.set_summary_text(group)
self.plot.update_plot(self.group_data[1]['dvh'], dvh_2=self.group_data[2]['dvh'])
wx.EndBusyCursor()
self.update_data(load_saved_dvh_data=load_saved_dvh_data, group_2_only=bool(group-1))
if group == 1:
self.notebook_main_view.SetSelection(1)
self.__enable_notebook_tabs()
self.save_data['main_categorical_%s' % group] = self.data_table_categorical.get_save_data()
self.save_data['main_numerical_%s' % group] = self.data_table_numerical.get_save_data()
if group == 2:
self.regression.group = 2
self.control_chart.group = 2
self.update_stats_data_plots()
except PlottingMemoryError as e:
wx.EndBusyCursor()
self.on_plotting_memory_error(str(e))
else:
wx.EndBusyCursor()
msg = "%s DVHs returned. Please modify query or import more data." % ['Less than 2', 'No'][count == 0]
wx.MessageBox(msg, 'Query Error', wx.OK | wx.OK_DEFAULT | wx.ICON_WARNING)
self.group_data[group]['dvh'] = None
def get_query(self):
# Used to accumulate lists of query strings for each table
# Will assume each item in list is complete query for that SQL column
queries = {'Plans': [], 'Rxs': [], 'Beams': [], 'DVHs': []}
# Used to group queries by variable, will combine all queries of same variable with an OR operator
# e.g., queries_by_sql_column['Plans'][key] = list of strings, where key is sql column
queries_by_sql_column = {'Plans': {}, 'Rxs': {}, 'Beams': {}, 'DVHs': {}}
# Categorical filter
if self.data_table_categorical.row_count:
for i, category in enumerate(self.data_table_categorical.data['category_1']):
table = self.categorical_columns[category]['table']
col = self.categorical_columns[category]['var_name']
value = self.data_table_categorical.data['category_2'][i]
if col not in queries_by_sql_column[table]:
queries_by_sql_column[table][col] = []
operator = ['=', '!='][{'Include': 0, 'Exclude': 1}[self.data_table_categorical.data['Filter Type'][i]]]
queries_by_sql_column[table][col].append("%s %s '%s'" % (col, operator, value))
# Range filter
if self.data_table_numerical.row_count:
for i, category in enumerate(self.data_table_numerical.data['category']):
table = self.numerical_columns[category]['table']
col = self.numerical_columns[category]['var_name']
value_low = self.data_table_numerical.data['min'][i]
value_high = self.data_table_numerical.data['max'][i]
if 'date' in col:
value_low = "'%s'" % value_low
value_high = "'%s'" % value_high
if self.options.DB_TYPE == 'pgsql':
value_low = value_low + '::date'
value_high = value_high + '::date'
if col not in queries_by_sql_column[table]:
queries_by_sql_column[table][col] = []
operator = ['BETWEEN', 'NOT BETWEEN'][
{'Include': 0, 'Exclude': 1}[self.data_table_numerical.data['Filter Type'][i]]]
queries_by_sql_column[table][col].append("%s %s %s AND %s" % (col, operator, value_low, value_high))
for table in queries:
for col in queries_by_sql_column[table]:
queries[table].append("(%s)" % ' OR '.join(queries_by_sql_column[table][col]))
queries[table] = ' AND '.join(queries[table])
uids = get_study_instance_uids(plans=queries['Plans'], rxs=queries['Rxs'], beams=queries['Beams'])['common']
return uids, queries['DVHs']
def update_data(self, load_saved_dvh_data=False, group_2_only=False):
wx.BeginBusyCursor()
tables = ['Plans', 'Rxs', 'Beams']
for grp, grp_data in self.group_data.items():
if not(grp == 1 and group_2_only) or grp == 2:
if hasattr(grp_data['dvh'], 'study_instance_uid'):
if not load_saved_dvh_data:
condition_str = "study_instance_uid in ('%s')" % "','".join(
grp_data['dvh'].study_instance_uid)
grp_data['data'] = {key: QuerySQL(key, condition_str) for key in tables}
grp_data['stats_data'] = StatsData(grp_data['dvh'], grp_data['data'], group=grp)
else:
grp_data['data'] = {key: None for key in tables}
grp_data['stats_data'] = None
if self.group_data[2]['stats_data']:
sync_variables_in_stats_data_objects(self.group_data[1]['stats_data'],
self.group_data[2]['stats_data'])
self.time_series.update_data(self.group_data)
self.control_chart.update_data(self.group_data)
self.correlation.set_data(self.group_data)
self.regression.update_combo_box_choices()
self.radbio.update_dvh_data(self.group_data)
wx.EndBusyCursor()
# --------------------------------------------------------------------------------------------------------------
# Menu bar event functions
# --------------------------------------------------------------------------------------------------------------
def close_windows(self):
for view in self.data_views.values():
if hasattr(view, 'Destroy'):
try:
view.Destroy()
except RuntimeError:
pass
for window in self.tool_bar_windows.values():
if window and hasattr(window, 'Destroy'):
window.Destroy()
self.regression.close_mvr_frames()
def on_quit(self, evt):
self.close_windows()
self.Destroy()
def on_close(self, *evt):
if self.group_data[1]['dvh']:
dlg = wx.MessageDialog(self, "Clear all data and plots?", caption='Close',
style=wx.YES | wx.NO | wx.NO_DEFAULT | wx.CENTER | wx.ICON_EXCLAMATION)
dlg.Center()
res = dlg.ShowModal()
if res == wx.ID_YES:
self.close()
self.radio_button_query_group.SetSelection(0)
dlg.Destroy()
def close(self):
self.group_data = {1: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None},
2: {'dvh': None,
'data': {key: None for key in ['Plans', 'Beams', 'Rxs']},
'stats_data': None}}
self.data_table_categorical.delete_all_rows()
self.data_table_numerical.delete_all_rows()
self.plot.clear_plot()
self.endpoint.clear_data()
self.radbio.clear_data()
self.time_series.clear_data()
self.notebook_main_view.SetSelection(0)
self.text_summary.SetLabelText("")
self.__disable_notebook_tabs()
self.disable_query_buttons('categorical')
self.disable_query_buttons('numerical')
self.button_query_execute.Disable()
self.time_series.initialize_y_axis_options()
self.regression.clear(self.group_data)
self.control_chart.initialize_y_axis_options()
self.control_chart.plot.clear_plot()
self.control_chart.group = 1
self.close_windows()
self.reset_query_filters()
def on_export(self, evt):
if self.group_data[1]['dvh'] is not None:
ExportCSVDialog(self)
else:
wx.MessageBox('There is no data to export! Please query some data first.', 'Export Error',
wx.OK | wx.ICON_WARNING)
@staticmethod
def on_githubpage(evt):
webbrowser.open_new_tab("http://dvhanalytics.com/")
@staticmethod
def on_report_issue(evt):
webbrowser.open_new_tab("https://github.com/cutright/DVH-Analytics/issues")
@staticmethod
def on_about(evt):
About()
def on_pref(self, *args):
UserSettings(self.options)
def on_sql(self, *args):
SQLSettingsDialog(self.options)
[self.__disable_add_filter_buttons, self.__enable_add_filter_buttons][echo_sql_db()]()
def on_save_plot_dvhs(self, evt):
save_data_to_file(self, 'Save DVHs plot', self.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_time_series(self, evt):
save_data_to_file(self, 'Save Time Series plot', self.time_series.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_correlation(self, evt):
save_data_to_file(self, 'Save Correlation plot', self.correlation.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_regression(self, evt):
save_data_to_file(self, 'Save Regression plot', self.regression.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_save_plot_control_chart(self, evt):
save_data_to_file(self, 'Save Control Chart plot', self.control_chart.plot.html_str,
wildcard="HTML files (*.html)|*.html")
def on_view_dvhs(self, evt):
self.view_table_data('DVHs')
def on_view_plans(self, evt):
self.view_table_data('Plans')
def on_view_rxs(self, evt):
self.view_table_data('Rxs')
def on_view_beams(self, evt):
self.view_table_data('Beams')
def on_view_stats_data_1(self, evt):
self.view_table_data('StatsData1')
def on_view_stats_data_2(self, evt):
self.view_table_data('StatsData2')
def view_table_data(self, key):
if key == 'DVHs':
data = {grp: self.group_data[grp]['dvh'] for grp in [1, 2]}
elif 'StatsData' in key:
data = {grp: self.group_data[grp]['stats_data'] for grp in [1, 2]}
else:
data = {grp: self.group_data[grp]['data'][key] for grp in [1, 2]}
if data[1]:
if self.get_menu_item_status(key) == 'Show':
if 'StatsData' in key:
group = int(key[-1])
if group == 1 or data[2] is not None:
self.data_views[key] = StatsDataEditor(self.group_data, group, self.data_menu,
self.data_menu_items[key].GetId(), self.time_series,
self.regression, self.control_chart)
else:
self.no_queried_data_dlg()
else:
if key == 'DVHs':
columns = [c for c in data[1].keys]
elif key == 'Rxs':
columns = ['plan_name', 'fx_dose', 'rx_percent', 'fxs', 'rx_dose', 'fx_grp_number',
'fx_grp_count',
'fx_grp_name', 'normalization_method', 'normalization_object']
else:
columns = [obj['var_name'] for obj in sql_column_info.values() if obj['table'] == key]
for starter_column in ['study_instance_uid', 'mrn']:
if starter_column in columns:
columns.pop(columns.index(starter_column))
columns.insert(0, starter_column)
self.data_views[key] = QueriedDataFrame(data, columns, key,
self.data_menu, self.data_menu_items[key].GetId())
else:
self.data_views[key].on_close()
self.data_views[key] = None
else:
self.no_queried_data_dlg()
def no_queried_data_dlg(self):
dlg = wx.MessageDialog(self, 'Please query/open some data first.', 'ERROR!', wx.ICON_ERROR | wx.OK_DEFAULT)
dlg.ShowModal()
dlg.Destroy()
def get_menu_item_status(self, key):
show_hide = ['Hide', 'Show']['Show' in self.data_menu.GetLabel(self.data_menu_items[key].GetId())]
return show_hide
def redraw_plots(self):
if self.group_data[1]['dvh']:
self.plot.redraw_plot()
self.time_series.plot.redraw_plot()
self.correlation.plot.redraw_plot()
self.regression.plot.redraw_plot()
self.control_chart.plot.redraw_plot()
def update_stats_data_plots(self):
if self.group_data[1]['dvh']:
self.time_series.update_plot()
self.time_series.update_y_axis_options()
self.regression.update_plot()
self.control_chart.update_plot()
def on_resize(self, *evt):
try:
self.Refresh()
self.Layout()
wx.CallAfter(self.redraw_plots)
except RuntimeError:
pass
def on_plotting_memory_error(self, plot_type):
plot_type = [' (Plot type: %s)' % plot_type, ''][plot_type is None]
msg = "Plotting memory error%s. Try querying less data. At least %s DVHs returned.\n" \
"NOTE: Threshold of this error is dependent on your computer." % (plot_type, self.group_data[1]['dvh'].count)
MemoryErrorDialog(self, msg)
self.close()
def reset_query_filters(self):
self.query_filters = {key: None for key in [1, 2]}
def on_group_select(self, *evt):
group = self.selected_group
other = 3 - group
self.button_query_execute.SetLabelText('Query and Retrieve Group %s' % group)
self.query_filters[other] = {'main_categorical': self.data_table_categorical.get_save_data(),
'main_numerical': self.data_table_numerical.get_save_data()}
if self.query_filters[group] is not None:
self.data_table_categorical.load_save_data(self.query_filters[group]['main_categorical'])
self.data_table_numerical.load_save_data(self.query_filters[group]['main_numerical'])
else:
self.data_table_categorical.delete_all_rows()
self.data_table_numerical.delete_all_rows()
self.update_all_query_buttons()
self.set_summary_text(group)
if self.group_data[2]['stats_data']:
self.regression.group = group
self.regression.update_plot()
self.control_chart.group = group
self.control_chart.update_plot()
def set_summary_text(self, group):
if self.group_data[group]['dvh']:
text = self.group_data[group]['dvh'].get_summary()
else:
text = ''
self.text_summary.SetLabelText(text)
def __init__(self, roi_map):
"""
:param roi_map: roi map object
:type roi_map: DatabaseROIs
"""
wx.Frame.__init__(self, None, title='ROI Map')
set_frame_icon(self)
self.roi_map = roi_map
self.window_size = get_window_size(0.893, 0.762)
self.SetSize(self.window_size)
self.window = wx.SplitterWindow(self, wx.ID_ANY)
self.window_tree = wx.Panel(self.window, wx.ID_ANY, style=wx.BORDER_SUNKEN)
self.combo_box_tree_plot_data = wx.ComboBox(self.window_tree, wx.ID_ANY,
choices=['All', 'Linked', 'Unlinked', 'Branched'],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.plot = PlotROIMap(self.window_tree, roi_map)
self.window_editor = wx.Panel(self.window, wx.ID_ANY, style=wx.BORDER_SUNKEN)
self.combo_box_physician = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=self.roi_map.get_physicians(),
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_physician_roi = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=[],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.list_ctrl_variations = wx.ListCtrl(self.window_editor, wx.ID_ANY,
style=wx.LC_NO_HEADER | wx.LC_REPORT | wx.BORDER_SUNKEN)
self.button_variation_select_all = wx.Button(self.window_editor, wx.ID_ANY, "Select All")
self.button_variation_deselect_all = wx.Button(self.window_editor, wx.ID_ANY, "Deselect All")
self.button_variation_add = wx.Button(self.window_editor, wx.ID_ANY, "Add")
self.button_variation_delete = wx.Button(self.window_editor, wx.ID_ANY, "Delete")
self.button_variation_move = wx.Button(self.window_editor, wx.ID_ANY, "Move")
self.button_variation_move.Disable()
self.button_variation_delete.Disable()
self.button_variation_deselect_all.Disable()
self.button_physician = {'add': wx.Button(self.window_editor, wx.ID_ANY, "+"),
'del': wx.Button(self.window_editor, wx.ID_ANY, "-"),
'edit': wx.Button(self.window_editor, wx.ID_ANY, "Δ")}
self.button_physician_roi = {'add': wx.Button(self.window_editor, wx.ID_ANY, "+"),
'del': wx.Button(self.window_editor, wx.ID_ANY, "-"),
'edit': wx.Button(self.window_editor, wx.ID_ANY, "Δ")}
self.button_link_physician_roi = wx.Button(self.window_editor, wx.ID_ANY, "Link")
self.button_link_physician_roi.Disable()
self.combo_box_uncategorized_ignored = wx.ComboBox(self.window_editor, wx.ID_ANY,
choices=["Uncategorized", "Ignored"],
style=wx.CB_DROPDOWN | wx.CB_READONLY)
self.combo_box_uncategorized_ignored_roi = wx.ComboBox(self.window_editor, wx.ID_ANY, choices=[],
style=wx.CB_DROPDOWN)
self.button_uncategorized_ignored_delete = wx.Button(self.window_editor, wx.ID_ANY, "Delete DVH")
self.button_uncategorized_ignored_ignore = wx.Button(self.window_editor, wx.ID_ANY, "Ignore DVH")
self.combo_box_physician_roi_merge = {'a': wx.ComboBox(self.window_editor, wx.ID_ANY, style=wx.CB_DROPDOWN),
'b': wx.ComboBox(self.window_editor, wx.ID_ANY, style=wx.CB_DROPDOWN)}
self.button_merge = wx.Button(self.window_editor, wx.ID_ANY, "Merge")
self.button_save_and_update = wx.Button(self.window_editor, wx.ID_ANY, "Save and Update Database")
self.button_cancel = wx.Button(self.window_editor, wx.ID_ANY, "Cancel Changes and Reload")
self.uncategorized_variations = {}
self.columns = ['Variations']
self.data_table = DataTable(self.list_ctrl_variations, columns=self.columns, widths=[490])
self.__set_properties()
self.__do_bind()
self.__do_layout()
self.plot.update_roi_map_source_data(self.physician)
self.run()
class RadBioFrame:
"""
Object to be passed into notebook panel for the Rad Bio tab
"""
def __init__(self, parent, dvh, time_series, regression, control_chart):
"""
:param parent: notebook panel in main view
:type parent: Panel
:param dvh: dvh data object
:type dvh: DVH
:param time_series: Time Series object in notebook
:type time_series: TimeSeriesFrame
:param regression: Regression frame object in notebook
:type regression: RegressionFrame
:param control_chart: Control Chart frame object in notebook
:type control_chart: ControlChartFrame
"""
self.parent = parent
self.dvh = dvh
self.time_series = time_series
self.regression = regression
self.control_chart = control_chart
self.table_published_values = wx.ListCtrl(self.parent, wx.ID_ANY,
style=wx.BORDER_SUNKEN | wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.text_input_eud_a = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_gamma_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.text_input_td_50 = wx.TextCtrl(self.parent, wx.ID_ANY, "")
self.button_apply_parameters = wx.Button(self.parent, wx.ID_ANY, "Apply Parameters")
self.button_export = wx.Button(self.parent, wx.ID_ANY, "Export")
self.table_rad_bio = wx.ListCtrl(self.parent, wx.ID_ANY, style=wx.BORDER_SUNKEN | wx.LC_HRULES | wx.LC_REPORT | wx.LC_VRULES)
self.columns = ['MRN', 'ROI Name', 'a', u'\u03b3_50', 'TD or TCD', 'EUD', 'NTCP or TCP', 'PTV Overlap',
'ROI Type', 'Rx Dose', 'Total Fxs', 'Fx Dose']
self.width = [100, 175, 50, 50, 80, 80, 80, 100, 100, 100, 100, 100]
formats = [wx.LIST_FORMAT_RIGHT] * len(self.columns)
formats[0] = wx.LIST_FORMAT_LEFT
formats[1] = wx.LIST_FORMAT_LEFT
self.data_table_rad_bio = DataTable(self.table_rad_bio, columns=self.columns,
widths=self.width, formats=formats)
self.__set_properties()
self.__do_layout()
parent.Bind(wx.EVT_LIST_ITEM_SELECTED, self.on_parameter_select, self.table_published_values)
parent.Bind(wx.EVT_BUTTON, self.apply_parameters, id=self.button_apply_parameters.GetId())
parent.Bind(wx.EVT_BUTTON, self.on_export_csv, id=self.button_export.GetId())
self.disable_buttons()
def __set_properties(self):
self.table_published_values.AppendColumn("Structure", format=wx.LIST_FORMAT_LEFT, width=150)
self.table_published_values.AppendColumn("Endpoint", format=wx.LIST_FORMAT_LEFT, width=300)
self.table_published_values.AppendColumn("a", format=wx.LIST_FORMAT_LEFT, width=-1)
self.table_published_values.AppendColumn(u"\u03b3_50", format=wx.LIST_FORMAT_LEFT, width=-1)
self.table_published_values.AppendColumn("TD_50", format=wx.LIST_FORMAT_LEFT, width=-1)
for i, col in enumerate(self.columns):
self.table_rad_bio.AppendColumn(col, width=self.width[i])
self.published_data = [['Brain', 'Necrosis', 5, 3, 60],
['Brainstem', 'Necrosis', 7, 3, 65],
['Optic Chasm', 'Blindness', 25, 3, 65],
['Colon', 'Obstruction/Perforation', 6, 4, 55],
['Ear (mid/ext)', 'Acute serous otitus', 31, 3, 40],
['Ear (mid/ext)', 'Chronic serous otitus', 31, 4, 65],
['Esophagus', 'Perforation', 19, 4, 68],
['Heart', 'Pericarditus', 3, 3, 50],
['Kidney', 'Nephritis', 1, 3, 28],
['Lens', 'Cataract', 3, 1, 18],
['Liver', 'Liver Failure', 3, 3, 40],
['Lung', 'Pneumontis', 1, 2, 24.5],
['Optic Nerve', 'Blindness', 25, 3, 65],
['Retina', 'Blindness', 15, 2, 65]]
for row in self.published_data:
index = self.table_published_values.InsertItem(50000, str(row[0]))
for i in [1, 2, 3, 4]:
self.table_published_values.SetItem(index, i, str(row[i]))
def __do_layout(self):
sizer_main = wx.BoxSizer(wx.VERTICAL)
sizer_parameters = wx.BoxSizer(wx.VERTICAL)
sizer_parameters_input = wx.StaticBoxSizer(wx.StaticBox(self.parent, wx.ID_ANY, ""), wx.HORIZONTAL)
sizer_button = wx.BoxSizer(wx.VERTICAL)
sizer_button_2 = wx.BoxSizer(wx.VERTICAL)
sizer_td_50 = wx.BoxSizer(wx.VERTICAL)
sizer_gamma_50 = wx.BoxSizer(wx.VERTICAL)
sizer_eud = wx.BoxSizer(wx.VERTICAL)
sizer_published_values = wx.BoxSizer(wx.VERTICAL)
label_published_values = wx.StaticText(self.parent, wx.ID_ANY,
"Published EUD Parameters from Emami et. al. for 1.8-2.0Gy "
"fractions (Click to apply)")
label_published_values.SetFont(wx.Font(11, wx.FONTFAMILY_DEFAULT, wx.FONTSTYLE_NORMAL,
wx.FONTWEIGHT_BOLD, 0, ""))
sizer_published_values.Add(label_published_values, 0, wx.ALL, 5)
sizer_published_values.Add(self.table_published_values, 1, wx.ALL, 10)
sizer_published_values.SetMinSize(get_window_size(0.298, 0.319))
sizer_main.Add(sizer_published_values, 1, wx.ALL | wx.EXPAND, 10)
label_parameters = wx.StaticText(self.parent, wx.ID_ANY, "Parameters:")
label_parameters.SetFont(wx.Font(11, wx.FONTFAMILY_DEFAULT, wx.FONTSTYLE_NORMAL, wx.FONTWEIGHT_BOLD, 0, ""))
sizer_parameters.Add(label_parameters, 0, 0, 0)
label_eud = wx.StaticText(self.parent, wx.ID_ANY, "EUD a-value:")
sizer_eud.Add(label_eud, 0, 0, 0)
sizer_eud.Add(self.text_input_eud_a, 0, wx.ALL | wx.EXPAND, 5)
sizer_parameters_input.Add(sizer_eud, 1, wx.EXPAND, 0)
label_gamma_50 = wx.StaticText(self.parent, wx.ID_ANY, u"\u03b3_50:")
sizer_gamma_50.Add(label_gamma_50, 0, 0, 0)
sizer_gamma_50.Add(self.text_input_gamma_50, 0, wx.ALL | wx.EXPAND, 5)
sizer_parameters_input.Add(sizer_gamma_50, 1, wx.EXPAND, 0)
label_td_50 = wx.StaticText(self.parent, wx.ID_ANY, "TD_50 or TCD_50:")
sizer_td_50.Add(label_td_50, 0, 0, 0)
sizer_td_50.Add(self.text_input_td_50, 0, wx.ALL | wx.EXPAND, 5)
sizer_parameters_input.Add(sizer_td_50, 1, wx.EXPAND, 0)
sizer_button.Add(self.button_apply_parameters, 1, wx.ALL | wx.EXPAND, 15)
sizer_button_2.Add(self.button_export, 1, wx.ALL | wx.EXPAND, 15)
sizer_parameters_input.Add(sizer_button, 1, wx.EXPAND, 0)
sizer_parameters_input.Add(sizer_button_2, 1, wx.EXPAND, 0)
sizer_parameters.Add(sizer_parameters_input, 1, wx.ALL | wx.EXPAND, 5)
sizer_main.Add(sizer_parameters, 0, wx.ALL | wx.EXPAND, 10)
sizer_main.Add(self.table_rad_bio, 1, wx.ALL | wx.EXPAND, 10)
self.layout = sizer_main
def __set_tooltips(self):
self.button_apply_parameters.SetToolTip("Shift or Ctrl click for targeted application.")
def enable_buttons(self):
self.button_apply_parameters.Enable()
def disable_buttons(self):
self.button_apply_parameters.Disable()
def enable_initial_buttons(self):
self.button_apply_parameters.Enable()
def on_parameter_select(self, evt):
index = self.table_published_values.GetFirstSelected()
self.text_input_eud_a.SetValue(str(self.published_data[index][2]))
self.text_input_gamma_50.SetValue(str(self.published_data[index][3]))
self.text_input_td_50.SetValue(str(self.published_data[index][4]))
def update_dvh_data(self, dvh):
"""
Import dvh data, store into self.dvh and set data in data_table
:param dvh: dvh object from main frame
:type dvh: DVH
"""
self.dvh = dvh
data = {'MRN': self.dvh.mrn,
'ROI Name': self.dvh.roi_name,
'a': [''] * self.dvh.count,
u'\u03b3_50': [''] * self.dvh.count,
'TD or TCD': [''] * self.dvh.count,
'EUD': [''] * self.dvh.count,
'NTCP or TCP': [''] * self.dvh.count,
'PTV Overlap': self.dvh.ptv_overlap,
'ROI Type': self.dvh.roi_type,
'Rx Dose': self.dvh.rx_dose,
'Total Fxs': self.dvh.total_fxs,
'Fx Dose': self.dvh.fx_dose}
self.data_table_rad_bio.set_data(data, self.columns)
def apply_parameters(self, evt):
"""
Calculate rad bio values based on parameters supplied by user, pass information on to other tabs in GUI
"""
# Get the indices of the selected rows, or assume all should be updated
selected_indices = get_selected_listctrl_items(self.table_rad_bio)
if not selected_indices:
selected_indices = range(self.data_table_rad_bio.row_count)
# Concert user supplied parameters from text to floats
eud_a = float_or_none(self.text_input_eud_a.GetValue())
gamma_50 = float_or_none(self.text_input_gamma_50.GetValue())
td_50 = float_or_none(self.text_input_td_50.GetValue())
# set the data in the datatable for the selected indices
for i in selected_indices:
current_row = self.data_table_rad_bio.get_row(i)
for j in [7, 9]:
current_row[j] = convert_value_to_str(current_row[j])
new_row = deepcopy(current_row)
new_row[2], new_row[3], new_row[4] = eud_a, gamma_50, td_50
try:
new_row[5] = "%0.2f" % round(calc_eud(self.dvh.dvh[:, i], eud_a), 2)
except:
new_row[5] = 'None'
try:
new_row[6] = "%0.2f" % round(calc_tcp(gamma_50, td_50, float(new_row[5])), 3)
except:
new_row[6] = 'None'
self.data_table_rad_bio.edit_row(new_row, i)
# Update data in in dvh object
self.dvh.eud = []
self.dvh.ntcp_or_tcp = []
for i, eud in enumerate(self.data_table_rad_bio.data['EUD']):
self.dvh.eud.append(float_or_none(eud))
self.dvh.ntcp_or_tcp.append(float_or_none(self.data_table_rad_bio.data['NTCP or TCP'][i]))
# update data in time series
self.time_series.update_y_axis_options()
if self.time_series.combo_box_y_axis.GetValue() in ['EUD', 'NTCP or TCP']:
self.time_series.update_plot()
# update data in regression
self.regression.stats_data.update_endpoints_and_radbio()
self.regression.update_combo_box_y_choices()
# update data in control chart
self.control_chart.update_combo_box_y_choices()
if self.control_chart.combo_box_y_axis.GetValue() in ['EUD', 'NTCP or TCP']:
self.control_chart.update_plot()
def clear_data(self):
self.data_table_rad_bio.delete_all_rows()
def get_csv(self, selection=None):
return self.data_table_rad_bio.get_csv()
def on_export_csv(self, evt):
save_data_to_file(self.parent, "Export RadBio table to CSV", self.get_csv())
def get_save_data(self):
return self.data_table_rad_bio.get_save_data()
def load_save_data(self, save_data):
self.data_table_rad_bio.load_save_data(save_data)
@property
def has_data(self):
return any(self.data_table_rad_bio.data['a'])
