def reaction2svg(self, G_old, G_new, rid):
font_size = 10
scene = svg.Scene(800, 300)
scene.add(G_old.svg(svg.Scene(300, 300)))
scene.add(svg.Text((30, font_size), graph2compound(G_old, self.ignore_chirality), font_size, fill_color=magenta))
scene.add(svg.Text((325, 120), self.reaction_templates[rid]['NAME'], font_size=font_size, fill_color=red))
scene.add(svg.ChemicalArrow((380, 150), (420, 150), stroke_width=2))
scene.add(G_new.svg(svg.Scene(300, 300)), (500, 0))
scene.add(svg.Text((530, font_size), graph2compound(G_new, self.ignore_chirality), font_size, fill_color=magenta))
# scene.justify()
scene.border(True)
return scene
def prepare_stage(self):
self.scale_start = (SQR_SIDE, (17 + len(self.dp.matrix)) * SQR_SIDE)
self.curve_start = (SQR_SIDE, (13 + len(self.dp.matrix)) * SQR_SIDE)
self.matrix_start = (SQR_SIDE, (1 + len(self.dp.matrix)) * SQR_SIDE)
self.scene = svg.Scene((17 + len(self.dp.matrix)) * SQR_SIDE,
(2 + len(self.dp.matrix)) * SQR_SIDE)
def draw_layer(filename, layer):
import svg
scene = svg.Scene(filename, (pwidth, pheight))
for a in layer:
scene.add(
svg.Rectangle((a['x'], a['y']), (a['width'], a['height']),
a['color']))
scene.write()
def get_svg():
if (graph_list == []):
error_stringvar.set("Not ready yet, please read a new graph")
root.update()
return None
scene = svg.Scene(400, 400, font_size=24)
graph_list[-1].svg(scene)
return scene
def build_scene():
scene = svg.Scene((xsize*amp + 2*offset, ysize*amp + 2*offset + 40))
# draw walls
for wall in walls:
p1 = wall[0] * amp + Point2(offset, offset)
p2 = wall[1] * amp + Point2(offset, offset)
scene.add(svg.Line(p1, p2))
scene.add(svg.Rectangle(Point2(offset, offset), Point2(xsize*amp, ysize*amp)))
return scene
def save_diagram(self, filename, size=1000):
''' Converts a collection of tiles to a scene of dimension size x size and saves it as a .svg file. '''
s = size/2
scene = svg.Scene('tiling', size, size)
scene.add(svg.Circle((s,s),s,(255,255,255))) # Boundary at infinity.
# Draw each tile.
for tile in self.tiles: scene.extend(tile.diagram(size))
scene.write_svg(filename)
def hash2svg(hash_string,
width=400,
height=400,
node_color=None,
bond_color=None):
graph = hash2graph(hash_string)
graph.width = width
graph.height = height
graph.initialize_pos()
scene = svg.Scene(width, height)
graph.svg(scene, node_color, bond_color)
return scene
def generate_image(genome, name="unnamed"):
#creating an svg
scene = svg.Scene(name, height=255, width=255)
#iterating over each circle
for i in range(len(genome) / CIRCLE_CODE_LENGTH):
start = i * CIRCLE_CODE_LENGTH
end = (i + 1) * CIRCLE_CODE_LENGTH
circle_code = genome[start:end]
xy = tuple(
circle_code[:2]) #getting the location of the circle from the gene
radius = circle_code[
2] #getting the radius of the circle from the gene #ALSO SCALING RAD DOWN A BIT
rgba = tuple(circle_code[3:]) #getting the rgba values of the circle
scene.add(svg.Circle(xy, radius, rgba))
return scene.strarray()
def test():
util._mkdir("../results")
f = open("../results/hash2compound.txt", "w")
for (h, compound) in map_hash2compound.iteritems():
f.write("compound = %s\n" % compound)
f.write("hash = %s\n" % h)
f.write("$$$$\n")
f.close()
import html_writer
compound_list = sorted(map_compound2graph.keys())
util._mkdir("../results/svg")
html_writer = html_writer.HtmlWriter("../results/compounds.html")
html_writer.write("<h1><center>Known Compounds</h1></center>")
for i in range(len(compound_list)):
G = map_compound2graph[compound_list[i].upper()]
scene = G.svg(svg.Scene(300, 300, 10))
scene.add(svg.Text((30, 10), compound_list[i], 10, fill_color=magenta))
html_writer.write_svg(scene, "svg/%s" % G.hash())
html_writer.display()
def mol2svg(mol, width=200, height=200, font_size=7):
G = ChemGraph()
G.read_mol(mol.split("\n"))
scene = svg.Scene(width, height, font_size)
G.svg(scene)
return scene
if (not os.path.isfile(mol_filename)):
print >> sys.stderr, "File not found: " + mol_filename
sys.exit(-2)
#file = open(mol_filename)
try:
G = molfile2graph(mol_filename)
except Exception, strerror:
root.title("ERROR")
Message(root, text=strerror, width=100).pack()
Button(root, text="OK", command=root.destroy).pack()
root.mainloop()
sys.exit(-1)
scene = svg.Scene(400, 400, 20)
G.svg(scene)
scene.set_attribute("height", 500)
h = G.hash()
scene.add(
svg.Line((0, 400), (400, 400), stroke_width=3, stroke_color=black))
scene.add(svg.Text((20, 450), h, font_size=20))
print h
#scene = mol2svg(file.read(), 500, 500, 20)
if (svg_filename != None):
scene.write_svg(svg_filename)
else:
scene.display()