def start_selecting(self, info):
svg = self.svg
side = self.default_side
(x, y) = self.event_position(info)
self.select_start = dGraph.pos(x,y)
self.select_end = dGraph.pos(x+side, y+side)
if self.selection_id is None:
# create a selection rectangle
svg.rect(SELECTION, x, y, side, side, "black",
style_dict={"fill-opacity": 0.2})
self.selection_id = SELECTION
else:
atts = {"x": x, "y": y, "width": side, "height": side}
svg.change_element(self.selection_id, atts)
svg.send_commands()
self.selecting = True
def iGraphLayout(G, name, fit=1000):
iG = asIGraph(G)
index_to_name = {i: n.attributes()["name"]
for (i, n) in enumerate(iG.vs)}
L = iG.layout(name)
L.fit_into([0, 0, fit, fit])
D = {index_to_name[i]: pos(xy[0], xy[1])
for (i,xy) in enumerate(L)}
return D
def load(filename):
with open(filename) as f:
jlayout = json.load(f)
# Lower case gene names and array positions.
layout = {k.lower(): pos(*jlayout[k]) for k in jlayout}
return layout
def __init__(self):
self.title_html = widgets.HTML("Gene network")
self.zoom_button = self.make_button("zoom", self.zoom_click, True)
self.trim_button = self.make_button("trim", self.trim_click)
self.layout_button = self.make_button("layout", self.layout_click)
self.expand_button = self.make_button("expand", self.expand_click)
self.regulates_button = self.make_button("regulates", self.regulates_click)
self.targeted_button = self.make_button("targeted by", self.targeted_click)
self.focus_button = self.make_button("focus", self.focus_click)
self.restore_button = self.make_button("restore", self.restore_click)
self.ignore_button = self.make_button("ignore", self.ignore_click)
self.nodes_button = self.make_button("list nodes", self.nodes_click)
self.edges_button = self.make_button("list edges", self.edges_click)
self.layout_dropdown = self.make_layout_dropdown()
self.labels_button = self.make_checkbox("labels", self.labels_click)
self.colors_button = self.make_checkbox("colors", self.colors_click)
self.draw_button = self.make_button("draw", self.draw_click)
# Assemble the layout
self.threshhold_assembly = self.make_threshhold_assembly()
self.pattern_assembly = self.make_pattern_assembly()
self.info_area = widgets.Textarea(description="status")
self.colors_assembly = self.make_colors_assembly()
self.dialog = self.make_dialog()
self.colors_assembly.visible = False
svg = self.svg = canvas.SVGCanvasWidget()
sslider = self.size_slider = widgets.FloatSlider(value=500, min=500, max=2000, step=10,
readout=False, width="150px")
self.depth_slider = widgets.IntSlider(
description="depth", value=0, min=0, max=5, width="50px")
traitlets.directional_link((sslider, "value"), (svg, "width"))
traitlets.directional_link((sslider, "value"), (svg, "height"))
#self.svg = widgets.Button(description="dummy button")
svg.add_style("background-color", "white")
svg.watch_event = "click mousedown mouseup mousemove mouseover"
svg.default_event_callback = self.svg_callback
left_panel = [self.title_html,
self.svg,
self.threshhold_assembly,
self.pattern_assembly,
self.info_area]
self.vertical = widgets.VBox(children=left_panel)
buttons = [self.zoom_button,
self.focus_button,
self.ignore_button,
self.trim_button,
self.expand_button,
self.regulates_button,
self.targeted_button,
self.layout_dropdown,
self.layout_button,
self.nodes_button,
self.edges_button,
self.labels_button,
self.restore_button,
self.size_slider,
self.draw_button,
self.depth_slider,
self.colors_button,
self.colors_assembly,
self.dialog]
self.inputs = widgets.VBox(children=buttons)
self.assembly = widgets.HBox(children=[self.inputs, self.vertical])
self.select_start = None
self.select_end = None
self.selection_id = None
self.selecting = False
self.data_graph = None
self.data_positions = None
self.display_positions = None
self.display_graph = None
self.selected_nodes = None
self.svg_origin = dGraph.pos(0, 0)
self.moving_node = None
def event_position(self, info):
"Get the position array for an event info descriptor."
x = info.get("svgX")
y = info.get("svgY")
return dGraph.pos(x, y)
