Exemple #1
0
def main():
    """ Entry point for standalone testing/debugging. """
    from pyanno.ui.model_data_view import ModelDataView

    model = ModelBtLoopDesign.create_initial_state(5)
    model_data_view = ModelDataView()
    model_data_view.set_model(model)

    # open model_data_view
    model_data_view.configure_traits(view='traits_view')

    return model, model_data_view
def main():
    """ Entry point for standalone testing/debugging. """
    from pyanno.ui.model_data_view import ModelDataView

    model = ModelBtLoopDesign.create_initial_state(5)
    model_data_view = ModelDataView()
    model_data_view.set_model(model)

    # open model_data_view
    model_data_view.configure_traits(view='traits_view')

    return model, model_data_view
class PyannoApplication(HasTraits):

    database = Instance(PyannoDatabase)

    main_window = Instance(ModelDataView)

    database_window = Instance(DatabaseView)

    database_ui = Instance(UI)

    logging_level = Int(logging.INFO)

    pyanno_pathname = Str

    db_window_open = Property(Bool)
    def _get_db_window_open(self):
        return (self.database_ui is not None
                and self.database_ui.control is not None)


    def open(self):
        self._start_logging()
        self._open_pyanno_database()
        self._open_main_window()


    def close(self):
        self.database.close()
        logger.info('Closing pyAnno -- Goodbye!')


    def _start_logging(self):
        logging.basicConfig(level=self.logging_level)
        logger.info('Starting pyAnno')


    def _create_pyanno_directory(self):
        """Create a pyanno directort in the user's home if it is missing."""
        home_dir = os.getenv('HOME') or os.getenv('HOMEPATH')
        logger.debug('Found home directory at ' + str(home_dir))

        self.pyanno_pathname = os.path.join(home_dir, PYANNO_PATH_NAME)

        try:
            logger.debug('Creating pyAnno directory at ' + self.pyanno_pathname)
            os.makedirs(self.pyanno_pathname)
        except OSError as e:
            logger.debug('pyAnno directory already existing')
            if e.errno != errno.EEXIST:
                raise


    def _open_pyanno_database(self):
        # database filename
        self._create_pyanno_directory()
        db_filename = os.path.join(self.pyanno_pathname,
                                   DATABASE_FILENAME)
        self.database = PyannoDatabase(db_filename)


    def _open_main_window(self):
        self.main_window = ModelDataView(application=self)

        model = ModelBt.create_initial_state(5, 8)
        self.main_window.set_model(model=model)

        self.main_window.configure_traits()


    def open_database_window(self):
        if self.db_window_open:
            # windows exists, raise
            self.database_ui.control.Raise()
        else:
            # window was closed or not existent
            logger.debug('Open database window')
            database_window = DatabaseView(database=self.database,
                                           application=self)
            database_ui = database_window.edit_traits(kind='live')

            self.database_window = database_window
            self.database_ui = database_ui


    def close_database_window(self):
        # wx specific
        self.database_ui.control.Close()


    def update_window_from_database_record(self, record):
        """Update main window from pyanno database record.
        """
        self.main_window.set_from_database_record(record)


    def add_current_state_to_database(self):
        mdv = self.main_window

        # file name may contain unicode characters
        data_id = mdv.annotations_view.annotations_container.name
        if data_id is '':
            data_id = 'anonymous_annotations'
        elif type(data_id) is unicode:
            u_data_id = unicodedata.normalize('NFKD', data_id)
            data_id = u_data_id.encode('ascii','ignore')

        try:
            self.database.store_result(
                data_id,
                mdv.annotations_view.annotations_container,
                mdv.model,
                mdv.log_likelihood
            )
        except PyannoValueError as e:
            logger.info(e)
            errmsg = e.args[0]
            error('Error: ' + errmsg)

        if self.db_window_open:
            self.database_window.db_updated = True


    def _create_debug_database(self):
        """Create and populate a test database in a temporary file.
        """

        from tempfile import mktemp
        from pyanno.modelA import ModelA
        from pyanno.modelB import ModelB
        from pyanno.annotations import AnnotationsContainer

        # database filename
        tmp_filename = mktemp(prefix='tmp_pyanno_db_')
        db = PyannoDatabase(tmp_filename)

        def _create_new_entry(model, annotations, id):
            value = model.log_likelihood(annotations)
            ac = AnnotationsContainer.from_array(annotations, name=id)
            db.store_result(id, ac, model, value)

        # populate database
        model = ModelA.create_initial_state(5)
        annotations = model.generate_annotations(100)
        _create_new_entry(model, annotations, 'test_id')

        modelb = ModelB.create_initial_state(5, 8)
        _create_new_entry(modelb, annotations, 'test_id')

        annotations = model.generate_annotations(100)
        _create_new_entry(modelb, annotations, 'test_id2')

        self.database = db
class PyannoApplication(HasTraits):

    database = Instance(PyannoDatabase)

    main_window = Instance(ModelDataView)

    database_window = Instance(DatabaseView)

    database_ui = Instance(UI)

    logging_level = Int(logging.INFO)

    pyanno_pathname = Str

    db_window_open = Property(Bool)

    def _get_db_window_open(self):
        return (self.database_ui is not None
                and self.database_ui.control is not None)

    def open(self):
        self._start_logging()
        self._open_pyanno_database()
        self._open_main_window()

    def close(self):
        self.database.close()
        logger.info('Closing pyAnno -- Goodbye!')

    def _start_logging(self):
        logging.basicConfig(level=self.logging_level)
        logger.info('Starting pyAnno')

    def _create_pyanno_directory(self):
        """Create a pyanno directort in the user's home if it is missing."""
        home_dir = os.getenv('HOME') or os.getenv('HOMEPATH')
        logger.debug('Found home directory at ' + str(home_dir))

        self.pyanno_pathname = os.path.join(home_dir, PYANNO_PATH_NAME)

        try:
            logger.debug('Creating pyAnno directory at ' +
                         self.pyanno_pathname)
            os.makedirs(self.pyanno_pathname)
        except OSError as e:
            logger.debug('pyAnno directory already existing')
            if e.errno != errno.EEXIST:
                raise

    def _open_pyanno_database(self):
        # database filename
        self._create_pyanno_directory()
        db_filename = os.path.join(self.pyanno_pathname, DATABASE_FILENAME)
        self.database = PyannoDatabase(db_filename)

    def _open_main_window(self):
        self.main_window = ModelDataView(application=self)

        model = ModelBt.create_initial_state(5, 8)
        self.main_window.set_model(model=model)

        self.main_window.configure_traits()

    def open_database_window(self):
        if self.db_window_open:
            # windows exists, raise
            self.database_ui.control.Raise()
        else:
            # window was closed or not existent
            logger.debug('Open database window')
            database_window = DatabaseView(database=self.database,
                                           application=self)
            database_ui = database_window.edit_traits(kind='live')

            self.database_window = database_window
            self.database_ui = database_ui

    def close_database_window(self):
        # wx specific
        self.database_ui.control.Close()

    def update_window_from_database_record(self, record):
        """Update main window from pyanno database record.
        """
        self.main_window.set_from_database_record(record)

    def add_current_state_to_database(self):
        mdv = self.main_window

        # file name may contain unicode characters
        data_id = mdv.annotations_view.annotations_container.name
        if data_id is '':
            data_id = 'anonymous_annotations'
        elif type(data_id) is unicode:
            u_data_id = unicodedata.normalize('NFKD', data_id)
            data_id = u_data_id.encode('ascii', 'ignore')

        try:
            self.database.store_result(
                data_id, mdv.annotations_view.annotations_container, mdv.model,
                mdv.log_likelihood)
        except PyannoValueError as e:
            logger.info(e)
            errmsg = e.args[0]
            error('Error: ' + errmsg)

        if self.db_window_open:
            self.database_window.db_updated = True

    def _create_debug_database(self):
        """Create and populate a test database in a temporary file.
        """

        from tempfile import mktemp
        from pyanno.modelA import ModelA
        from pyanno.modelB import ModelB
        from pyanno.annotations import AnnotationsContainer

        # database filename
        tmp_filename = mktemp(prefix='tmp_pyanno_db_')
        db = PyannoDatabase(tmp_filename)

        def _create_new_entry(model, annotations, id):
            value = model.log_likelihood(annotations)
            ac = AnnotationsContainer.from_array(annotations, name=id)
            db.store_result(id, ac, model, value)

        # populate database
        model = ModelA.create_initial_state(5)
        annotations = model.generate_annotations(100)
        _create_new_entry(model, annotations, 'test_id')

        modelb = ModelB.create_initial_state(5, 8)
        _create_new_entry(modelb, annotations, 'test_id')

        annotations = model.generate_annotations(100)
        _create_new_entry(modelb, annotations, 'test_id2')

        self.database = db