Exemple #1
0
    def __init__(self, parent, browser, image_container, region_names):
        Module.__init__(self, parent, browser)
        self._imagecontainer = image_container
        self._image_dict = {}
        self._display_images = {}
        self._rgb_images = {}

        palettes = self.import_palettes()

        self.object_region_changed.connect(browser.on_object_region_changed)

        layout = QBoxLayout(QBoxLayout.TopToBottom, self)
        layout.setContentsMargins(5, 5, 5, 5)

        frame_channels = QGroupBox('Channels', self)
        layout_channels = QBoxLayout(QBoxLayout.TopToBottom, frame_channels)
        layout_channels.setContentsMargins(10, 12, 7, 10)
        frame_enhance = QGroupBox('Image Enhancement', self)
        layout_enhance = QBoxLayout(QBoxLayout.TopToBottom, frame_enhance)
        layout_enhance.setContentsMargins(5, 10, 5, 5)
        frame_objects = QGroupBox('Objects', self)
        layout_objects = QBoxLayout(QBoxLayout.TopToBottom, frame_objects)
        layout_objects.setContentsMargins(5, 10, 5, 5)
        frame_display = QGroupBox('Display', self)
        layout_display = QBoxLayout(QBoxLayout.TopToBottom, frame_display)
        layout_display.setContentsMargins(5, 10, 5, 5)

        layout.addSpacing(15)
        layout.addWidget(frame_channels)
        layout.addSpacing(7)
        layout.addWidget(frame_enhance)
        layout.addSpacing(7)
        layout.addWidget(frame_display)
        layout.addSpacing(7)
        layout.addWidget(frame_objects)
        layout.addStretch(1)

        self._channels = OrderedDict()
        channel_names = sorted(self._imagecontainer.channels)
        for idx, channel_name in enumerate(channel_names):
            widget = ChannelItem(channel_name, idx, palettes, self)
            layout_channels.addWidget(widget)
            self._channels[channel_name] = widget
            widget.channel_changed.connect(self.on_channel_changed)

        self._enhancement = EnhancementFrame(channel_names, frame_enhance)
        self._enhancement.values_changed.connect(self.on_display_changed)
        layout_enhance.addWidget(self._enhancement)

        display = ObjectsFrame(browser, region_names, frame_objects)
        self.browser.update_regions.connect(display.update_regionbox)
        display.object_region_changed.connect(self.on_object_region_changed)
        layout_objects.addWidget(display)

        display = DisplayFrame(browser, frame_display)
        layout_display.addWidget(display)
Exemple #2
0
    def __init__(self, parent, browser, image_container, region_names):
        Module.__init__(self, parent, browser)
        self._imagecontainer = image_container
        self._image_dict = {}
        self._display_images = {}
        self._rgb_images = {}

        palettes = self.import_palettes()

        self.object_region_changed.connect(browser.on_object_region_changed)

        layout = QBoxLayout(QBoxLayout.TopToBottom, self)
        layout.setContentsMargins(5, 5, 5, 5)

        frame_channels = QGroupBox("Channels", self)
        layout_channels = QBoxLayout(QBoxLayout.TopToBottom, frame_channels)
        layout_channels.setContentsMargins(10, 12, 7, 10)
        frame_enhance = QGroupBox("Image Enhancement", self)
        layout_enhance = QBoxLayout(QBoxLayout.TopToBottom, frame_enhance)
        layout_enhance.setContentsMargins(5, 10, 5, 5)
        frame_objects = QGroupBox("Objects", self)
        layout_objects = QBoxLayout(QBoxLayout.TopToBottom, frame_objects)
        layout_objects.setContentsMargins(5, 10, 5, 5)
        frame_display = QGroupBox("Display", self)
        layout_display = QBoxLayout(QBoxLayout.TopToBottom, frame_display)
        layout_display.setContentsMargins(5, 10, 5, 5)

        layout.addSpacing(15)
        layout.addWidget(frame_channels)
        layout.addSpacing(7)
        layout.addWidget(frame_enhance)
        layout.addSpacing(7)
        layout.addWidget(frame_display)
        layout.addSpacing(7)
        layout.addWidget(frame_objects)
        layout.addStretch(1)

        self._channels = OrderedDict()
        channel_names = sorted(self._imagecontainer.channels)
        for idx, channel_name in enumerate(channel_names):
            widget = ChannelItem(channel_name, idx, palettes, self)
            layout_channels.addWidget(widget)
            self._channels[channel_name] = widget
            widget.channel_changed.connect(self.on_channel_changed)

        self._enhancement = EnhancementFrame(channel_names, frame_enhance)
        self._enhancement.values_changed.connect(self.on_display_changed)
        layout_enhance.addWidget(self._enhancement)

        display = ObjectsFrame(browser, region_names, frame_objects)
        self.browser.update_regions.connect(display.update_regionbox)
        display.object_region_changed.connect(self.on_object_region_changed)
        layout_objects.addWidget(display)

        display = DisplayFrame(browser, frame_display)
        layout_display.addWidget(display)
Exemple #3
0
    def __init__(self, parent, browser, imagecontainer):
        Module.__init__(self, parent, browser)

        self._imagecontainer = imagecontainer

        frame_info = QGroupBox('Plate Information', self)
        layout = QGridLayout(frame_info)
#         frame_info.setStyleSheet('QLabel { font-size: 10px }')
        self._label_info = QLabel(frame_info)
        layout.addWidget(self._label_info, 0, 0, 0, 0,
                         Qt.AlignCenter | Qt.AlignHCenter)

        splitter = QSplitter(Qt.Vertical, self)
        splitter.setMinimumWidth(40)

        layout = QBoxLayout(QBoxLayout.TopToBottom, self)
        layout.setContentsMargins(5, 5, 5, 5)
        layout.addWidget(splitter)

        grp1 = QGroupBox('Plates', splitter)
        grp2 = QGroupBox('Positions', splitter)
        splitter.addWidget(grp1)
        splitter.addWidget(grp2)

        layout = QGridLayout(grp1)
        layout.setContentsMargins(5, 10, 5, 5)

        table = QTableWidget(grp1)
        table.setEditTriggers(QTableWidget.NoEditTriggers)
        table.setSelectionMode(QTableWidget.SingleSelection)
        table.setSelectionBehavior(QTableWidget.SelectRows)
        table.setAlternatingRowColors(True)
#         table.setStyleSheet('font-size: 10px;')
        table.currentItemChanged.connect(self._on_plate_changed)
        self._table_plate = table
        layout.addWidget(table, 0, 0)

        self._update_plate_table()

        layout = QGridLayout(grp2)
        layout.setContentsMargins(5, 10, 5, 5)

        table = QTableWidget(grp2)
        table.setEditTriggers(QTableWidget.NoEditTriggers)
        table.setSelectionMode(QTableWidget.SingleSelection)
        table.setSelectionBehavior(QTableWidget.SelectRows)
        table.setAlternatingRowColors(True)
#         table.setStyleSheet('font-size: 10px;')
        table.currentItemChanged.connect(self._on_position_changed)
        self._table_position = table
        layout.addWidget(table, 0, 0)

        if self._imagecontainer.has_timelapse:
            grp3 = QGroupBox('Time', splitter)
            splitter.addWidget(grp3)

            layout = QGridLayout(grp3)
            layout.setContentsMargins(5, 10, 5, 5)

            table = QTableWidget(grp3)
            table.setEditTriggers(QTableWidget.NoEditTriggers)
            table.setSelectionMode(QTableWidget.SingleSelection)
            table.setSelectionBehavior(QTableWidget.SelectRows)
            table.setAlternatingRowColors(True)
#             table.setStyleSheet('font-size: 10px;')
            table.currentItemChanged.connect(self._on_time_changed)
            self._table_time = table
            layout.addWidget(table, 0, 0)

        splitter.addWidget(frame_info)
Exemple #4
0
    def __init__(self, parent, browser, settings, imagecontainer):
        Module.__init__(self, parent, browser)

        self._current_class = None
        self._detect_objects = False
        self._current_scene_items = set()

        self._settings = settings
        self._imagecontainer = imagecontainer

        self._annotations = Annotations()
        self._object_items = {}

        splitter = QSplitter(Qt.Vertical, self)

        grp_box = QGroupBox('Classes', splitter)
        layout = QBoxLayout(QBoxLayout.TopToBottom, grp_box)
        layout.setContentsMargins(5, 10, 5, 5)

        class_table = QTableWidget(grp_box)
        class_table.setEditTriggers(QTableWidget.NoEditTriggers)
        class_table.setSelectionMode(QTableWidget.SingleSelection)
        class_table.setSelectionBehavior(QTableWidget.SelectRows)
        #class_table.setSortingEnabled(True)
        class_table.setColumnCount(4)
        class_table.setHorizontalHeaderLabels(['Name', 'Label', 'Color',
                                               'Samples',
                                               ])
        class_table.resizeColumnsToContents()
        class_table.currentItemChanged.connect(self._on_class_changed)
        class_table.setStyleSheet('font-size: 10px;')
        layout.addWidget(class_table)
        self._class_table = class_table

        frame2 = QFrame(grp_box)
        layout2 = QBoxLayout(QBoxLayout.LeftToRight, frame2)
        layout2.setContentsMargins(0,0,0,0)
        self._import_class_definitions_btn = QPushButton('Import class definitions')
        layout2.addWidget(self._import_class_definitions_btn)
        self._import_class_definitions_btn.clicked.connect(self._on_import_class_definitions)
        layout.addWidget(frame2)

        frame2 = QFrame(grp_box)
        layout2 = QBoxLayout(QBoxLayout.LeftToRight, frame2)
        layout2.setContentsMargins(0,0,0,0)
        self._class_sbox = QSpinBox(frame2)
        self._class_color_btn = ColorButton(None, frame2)
        self._class_sbox.setRange(0, 1000)
        self._class_text = QLineEdit(frame2)
        layout2.addWidget(self._class_color_btn)
        layout2.addWidget(self._class_sbox)
        layout2.addWidget(self._class_text)
        layout.addWidget(frame2)

        frame2 = QFrame(grp_box)
        layout2 = QBoxLayout(QBoxLayout.LeftToRight, frame2)
        layout2.setContentsMargins(0,0,0,0)
        btn = QPushButton('Apply', frame2)
        btn.clicked.connect(self._on_class_apply)
        layout2.addWidget(btn)
        btn = QPushButton('Add', frame2)
        btn.clicked.connect(self._on_class_add)
        layout2.addWidget(btn)
        btn = QPushButton('Remove', frame2)
        btn.clicked.connect(self._on_class_remove)
        layout2.addWidget(btn)
        layout.addWidget(frame2)

        splitter.addWidget(grp_box)


        grp_box = QGroupBox('Annotations', splitter)
        layout = QBoxLayout(QBoxLayout.TopToBottom, grp_box)
        layout.setContentsMargins(5, 10, 5, 5)

        ann_table = QTableWidget(grp_box)
        ann_table.setEditTriggers(QTableWidget.NoEditTriggers)
        ann_table.setSelectionMode(QTableWidget.SingleSelection)
        ann_table.setSelectionBehavior(QTableWidget.SelectRows)
        #ann_table.setSortingEnabled(True)
        column_names = ['Position', 'Frame', 'Samples']
        if self._imagecontainer.has_multiple_plates:
            column_names = ['Plate'] + column_names
        ann_table.setColumnCount(len(column_names))
        ann_table.setHorizontalHeaderLabels(column_names)
        ann_table.resizeColumnsToContents()
        ann_table.currentItemChanged.connect(self._on_anntable_changed)
        ann_table.setStyleSheet('font-size: 10px;')
        layout.addWidget(ann_table)
        self._ann_table = ann_table
        splitter.addWidget(grp_box)


        frame = QFrame(grp_box)
        layout_frame = QBoxLayout(QBoxLayout.LeftToRight, frame)
        layout_frame.setContentsMargins(0, 0, 0, 0)
        btn = QPushButton('New', frame)
        btn.clicked.connect(self._on_new_classifier)
        layout_frame.addWidget(btn)
        #layout_frame.addSpacing(5)
        btn = QPushButton('Open', frame)
        btn.clicked.connect(self._on_open_classifier)
        layout_frame.addWidget(btn)
        btn = QPushButton('Save', frame)
        btn.clicked.connect(self._on_save_classifier)
        layout_frame.addWidget(btn)
        #layout_frame.addSpacing(5)
        btn = QPushButton('Save as', frame)
        btn.pressed.connect(self._on_saveas_classifier)
        layout_frame.addWidget(btn)
        layout.addWidget(frame)

        layout = QBoxLayout(QBoxLayout.TopToBottom, self)
        layout.setContentsMargins(5, 5, 5, 5)
        layout.addWidget(splitter)


        self._learner = self._init_new_classifier()

        self._action_grp = QActionGroup(browser)
        class_fct = lambda id: lambda : self._on_shortcut_class_selected(id)
        for x in range(1,11):
            action = browser.create_action(
                'Select Class Label %d' % x,
                 shortcut=QKeySequence(str(x) if x < 10 else '0'),
                 slot=class_fct(x))
            self._action_grp.addAction(action)
            browser.addAction(action)

        browser.coordinates_changed.connect(self._on_coordinates_changed)
        browser.show_objects_toggled.connect(self._on_show_objects)
        browser.show_contours_toggled.connect(self._on_show_contours_toggled)
Exemple #5
0
    def __init__(self, parent, browser, imagecontainer):
        Module.__init__(self, parent, browser)

        self._imagecontainer = imagecontainer

        frame_info = QGroupBox('Plate Information', self)
        layout = QGridLayout(frame_info)
        frame_info.setStyleSheet('QLabel { font-size: 10px }')
        self._label_info = QLabel(frame_info)
        layout.addWidget(self._label_info, 0, 0, 0, 0,
                         Qt.AlignCenter | Qt.AlignHCenter)

        splitter = QSplitter(Qt.Vertical, self)
        splitter.setMinimumWidth(40)

        layout = QBoxLayout(QBoxLayout.TopToBottom, self)
        layout.setContentsMargins(5, 5, 5, 5)
        layout.addWidget(splitter)

        grp1 = QGroupBox('Plates', splitter)
        grp2 = QGroupBox('Positions', splitter)
        splitter.addWidget(grp1)
        splitter.addWidget(grp2)

        layout = QGridLayout(grp1)
        layout.setContentsMargins(5, 10, 5, 5)

        table = QTableWidget(grp1)
        table.setEditTriggers(QTableWidget.NoEditTriggers)
        table.setSelectionMode(QTableWidget.SingleSelection)
        table.setSelectionBehavior(QTableWidget.SelectRows)
        table.setAlternatingRowColors(True)
        table.setStyleSheet('font-size: 10px;')
        table.currentItemChanged.connect(self._on_plate_changed)
        self._table_plate = table
        layout.addWidget(table, 0, 0)

        self._update_plate_table()

        layout = QGridLayout(grp2)
        layout.setContentsMargins(5, 10, 5, 5)

        table = QTableWidget(grp2)
        table.setEditTriggers(QTableWidget.NoEditTriggers)
        table.setSelectionMode(QTableWidget.SingleSelection)
        table.setSelectionBehavior(QTableWidget.SelectRows)
        table.setAlternatingRowColors(True)
        table.setStyleSheet('font-size: 10px;')
        table.currentItemChanged.connect(self._on_position_changed)
        self._table_position = table
        layout.addWidget(table, 0, 0)

        if self._imagecontainer.has_timelapse:
            grp3 = QGroupBox('Time', splitter)
            splitter.addWidget(grp3)

            layout = QGridLayout(grp3)
            layout.setContentsMargins(5, 10, 5, 5)

            table = QTableWidget(grp3)
            table.setEditTriggers(QTableWidget.NoEditTriggers)
            table.setSelectionMode(QTableWidget.SingleSelection)
            table.setSelectionBehavior(QTableWidget.SelectRows)
            table.setAlternatingRowColors(True)
            table.setStyleSheet('font-size: 10px;')
            table.currentItemChanged.connect(self._on_time_changed)
            self._table_time = table
            layout.addWidget(table, 0, 0)

        splitter.addWidget(frame_info)