def test_get_node(self):
assert self.P3.get_node(1) == "1"
one = self.P3.get_node(1)
nh = one.get_handle()
node = pgv.Node(self.P3, 1)
assert node.get_handle() == nh
assert node == "1"
with pytest.raises(KeyError):
pgv.Node(self.P3, 10)
def render_string_graph(string: str,
start: str,
end: str,
transitions: TransitionsTable,
name: str = 'output.png',
draw: bool = True,
engine: str = 'circo') -> gv.AGraph:
'''
Given a string, a start state, an end state, end a
transitions table, produces the graph resulting in
the traversal of the string through the states defined
in the transitions table. By default, it will
output a png file of the result, but that can be
suppressed.
'''
graph = gv.AGraph(directed=True)
graph.graph_attr['label'] = f'Evaluating {string}'
node_names = it.count()
current_state = start
node_name = next(node_names)
graph.add_node(node_name)
current_node = gv.Node(graph, node_name)
current_node.attr['label'] = current_state
current_node.attr['fillcolor'] = '#0000FF'
current_node.attr['style'] = 'filled'
for letter in string:
node_name = next(node_names)
graph.add_node(node_name)
next_node = gv.Node(graph, node_name)
# TODO: The algorithm prioritizes just the first
# found state, which may not produce a correct
# answer. Needs to fix this
next_state = transitions[current_state][letter][0]
next_node.attr['label'] = next_state
graph.add_edge(current_node, next_node, label=letter)
current_node = next_node
current_state = next_state
if current_state == end:
current_node.attr['style'] = 'filled'
current_node.attr['fillcolor'] = '#00FF00'
if draw:
graph.layout(prog=engine)
graph.draw(name)
return graph
def pygraphviz_layout_with_rank(self,
G,
prog="dot",
root=None,
sameRank=[],
args=""):
try:
import pygraphviz
except ImportError:
raise ImportError('requires pygraphviz ',
'http://networkx.lanl.gov/pygraphviz ',
'(not available for Python3)')
if root is not None:
args += "-Groot=%s" % root
A = nx.nx_agraph.to_agraph(G)
for sameNodeHeight in sameRank:
if type(sameNodeHeight) == str:
print("node \"%s\" has no peers in its rank group" %
sameNodeHeight)
A.add_subgraph(sameNodeHeight, rank="same")
A.layout(prog=prog, args=args)
node_pos = {}
for n in G:
node = pygraphviz.Node(A, n)
try:
xx, yy = node.attr["pos"].split(',')
node_pos[n] = (float(xx), float(yy))
except:
print("no position for node", n)
node_pos[n] = (0.0, 0.0)
return node_pos
def test_get_node(self):
assert_equal(self.P3.get_node(1), '1')
one = self.P3.get_node(1)
nh = one.get_handle()
node = pgv.Node(self.P3, 1)
assert_equal(node.get_handle(), nh)
assert_equal(node, '1')
assert_raises(KeyError, pgv.Node, self.P3, 10)
def pygraphviz_layout(G, prog="neato", root=None, args=""):
"""Create node positions for G using Graphviz.
Parameters
----------
G : NetworkX graph
A graph created with NetworkX
prog : string
Name of Graphviz layout program
root : string, optional
Root node for twopi layout
args : string, optional
Extra arguments to Graphviz layout program
Returns
-------
node_pos : dict
Dictionary of x, y, positions keyed by node.
Examples
--------
>>> G = nx.petersen_graph()
>>> pos = nx.nx_agraph.graphviz_layout(G)
>>> pos = nx.nx_agraph.graphviz_layout(G, prog="dot")
Notes
-----
If you use complex node objects, they may have the same string
representation and GraphViz could treat them as the same node.
The layout may assign both nodes a single location. See Issue #1568
If this occurs in your case, consider relabeling the nodes just
for the layout computation using something similar to::
>>> H = nx.convert_node_labels_to_integers(G, label_attribute="node_label")
>>> H_layout = nx.nx_agraph.pygraphviz_layout(G, prog="dot")
>>> G_layout = {H.nodes[n]["node_label"]: p for n, p in H_layout.items()}
"""
try:
import pygraphviz
except ImportError as err:
raise ImportError(
"requires pygraphviz " "http://pygraphviz.github.io/"
) from err
if root is not None:
args += f"-Groot={root}"
A = to_agraph(G)
A.layout(prog=prog, args=args)
node_pos = {}
for n in G:
node = pygraphviz.Node(A, n)
try:
xs = node.attr["pos"].split(",")
node_pos[n] = tuple(float(x) for x in xs)
except:
print("no position for node", n)
node_pos[n] = (0.0, 0.0)
return node_pos
def add_latents(self, *ls: Iterable[str]):
ls = set(ls)
for n in self.graph.nodes():
if n.name in ls:
node_set_attr(n, self.LATENT, self.BUG_AVOID)
ls.remove(n.name)
for l in ls:
n = g.Node(self.graph, name=l)
node_set_attr(n, self.LATENT, self.BUG_AVOID)
self.graph.add_node(n)
def exposure(self, exp: str):
attr_set = False
for n in self.graph.nodes():
if n.name == exp:
node_set_attr(n, self.EXPOSURE, self.BUG_AVOID)
if node_has_attr(n, self.EXPOSURE):
node_del_attr(n, self.EXPOSURE)
if not attr_set:
n = g.Node(self.graph, exp)
node_set_attr(n, self.EXPOSURE, self.BUG_AVOID)
self.graph.add_node(n)
def outcome(self, out: str):
attr_set = False
for n in self.graph.nodes():
if n.name == out:
node_set_attr(n, self.OUTCOME, self.BUG_AVOID)
if node_has_attr(n, self.OUTCOME):
node_del_attr(n, self.OUTCOME)
if not attr_set:
n = g.Node(self.graph, name=out)
node_set_attr(n, self.OUTCOME, self.BUG_AVOID)
self.graph.add_node(n)
def _graphvizNodePos(self, graph, nodeId):
pos = None
if pygraphviz is not None:
node = pygraphviz.Node(graph, nodeId)
if 'pos' in node.attr:
pos = node.attr['pos']
else:
node = graph.get_node(nodeId)
if isinstance(node, pydot.Node):
pos = node.get_pos()[1:-1]
return pos
def pygraphviz_layout(self, G, prog="neato", bundle=False, root=None, args=""):
if root is not None:
args += "-Groot=%s" % root
A = to_agraph(G)
A.layout(prog=prog, args=args)
node_pos = []
node_pos_dic = {}
edge_pos = []
Nodes = G.nodes()
Edges = G.edges()
for n in G:
node = pygraphviz.Node(A, n)
try:
xs = node.attr["pos"].split(",")
npos = tuple(float(x) for x in xs)
except:
npos = (0.0, 0.0)
node_pos_dic[n] = npos
Nodes[n]["pos"] = npos
node_pos.append(npos)
if bundle:
A.layout(prog="mingle")
for source, target in Edges:
edge = pygraphviz.Edge(A, source, target)
edgepos = edge.attr["pos"]
edgepos = edgepos.replace(u"\\", "")
edgepos = edgepos.replace(u"\r", u"")
edgepos = edgepos.replace(u"\n", u"")
edgepos = edgepos.split(" ")
tmp = []
for i in edgepos:
if i != u"":
ss = i.split(",")
x = float(ss[0])
y = float(ss[1])
tmp.append((x, y))
edge_pos.append(tmp)
Edges[(source, target)]["pos"] = tmp
else:
for source, target in Edges:
posb = node_pos_dic[source]
pose = node_pos_dic[target]
posmx = (posb[0] + pose[0]) / 2 + (pose[1] - posb[1]) / 4
posmy = (posb[1] + pose[1]) / 2 + (posb[0] - pose[0]) / 4
tmp = curves.curve3_bezier(
(posb[0], posb[1]), (posmx, posmy), (pose[0], pose[1])
)
edge_pos.append(tmp)
Edges[(source, target)]["pos"] = tmp
return node_pos, edge_pos
def get_hacked_pos(netx_graph, name_nodes=None, prog='dot'):
import pygraphviz
import networkx as netx
# Add "invisible" edges to induce an ordering
# Hack for layout (ordering of top level nodes)
netx_graph2 = netx_graph.copy()
if getattr(netx_graph, 'ttype2_cpds', None) is not None:
grouped_nodes = []
for ttype in netx_graph.ttype2_cpds.keys():
ttype_cpds = netx_graph.ttype2_cpds[ttype]
# use defined ordering
ttype_nodes = ut.list_getattr(ttype_cpds, 'variable')
# ttype_nodes = sorted(ttype_nodes)
invis_edges = list(ut.itertwo(ttype_nodes))
netx_graph2.add_edges_from(invis_edges)
grouped_nodes.append(ttype_nodes)
A = netx.to_agraph(netx_graph2)
for nodes in grouped_nodes:
A.add_subgraph(nodes, rank='same')
else:
A = netx.to_agraph(netx_graph2)
# if name_nodes is not None:
# #netx.set_node_attributes(netx_graph, name='label', values={n: {'label': n} for n in all_nodes})
# invis_edges = list(ut.itertwo(name_nodes))
# netx_graph2.add_edges_from(invis_edges)
# A.add_subgraph(name_nodes, rank='same')
# else:
# A = netx.to_agraph(netx_graph2)
args = ''
G = netx_graph
A.layout(prog=prog, args=args)
# A.draw('example.png', prog='dot')
node_pos = {}
for n in G:
node_ = pygraphviz.Node(A, n)
try:
xx, yy = node_.attr['pos'].split(',')
node_pos[n] = (float(xx), float(yy))
except Exception:
logger.info('no position for node', n)
node_pos[n] = (0.0, 0.0)
return node_pos
def pygraphviz_layout(G, prog='neato', root=None, args=''):
"""Create node positions for G using Graphviz.
Parameters
----------
G : NetworkX graph
A graph created with NetworkX
prog : string
Name of Graphviz layout program
root : string, optional
Root node for twopi layout
args : string, optional
Extra arguments to Graphviz layout program
Returns : dictionary
Dictionary of x,y, positions keyed by node.
Examples
--------
>>> G=nx.petersen_graph()
>>> pos=nx.graphviz_layout(G)
>>> pos=nx.graphviz_layout(G,prog='dot')
"""
try:
import pygraphviz
except ImportError:
raise ImportError(
"pygraphviz_layout() requires pygraphviz: http://networkx.lanl.gov/pygraphviz (not available for Python3"
)
A = to_agraph(G)
if root is not None:
args += "-Groot=%s" % root
A.layout(prog=prog, args=args)
node_pos = {}
for n in G:
node = pygraphviz.Node(A, n)
try:
xx, yy = node.attr["pos"].split(',')
node_pos[n] = (float(xx), float(yy))
except:
print("no position for node", n)
node_pos[n] = (0.0, 0.0)
return node_pos
def get_bayesnet_layout(model, name_nodes=None, prog='dot'):
"""
Ensures ordering of layers is in order of addition via templates
"""
import pygraphviz
import networkx as nx
# Add "invisible" edges to induce an ordering
# Hack for layout (ordering of top level nodes)
netx_graph2 = model.copy()
if getattr(model, 'ttype2_cpds', None) is not None:
grouped_nodes = []
for ttype in model.ttype2_cpds.keys():
ttype_cpds = model.ttype2_cpds[ttype]
# use defined ordering
ttype_nodes = ut.list_getattr(ttype_cpds, 'variable')
# ttype_nodes = sorted(ttype_nodes)
invis_edges = list(ut.itertwo(ttype_nodes))
netx_graph2.add_edges_from(invis_edges)
grouped_nodes.append(ttype_nodes)
agraph = nx.nx_agraph.to_agraph(netx_graph2)
for nodes in grouped_nodes:
agraph.add_subgraph(nodes, rank='same')
else:
agraph = nx.nx_agraph.to_agraph(netx_graph2)
logger.info(agraph)
args = ''
agraph.layout(prog=prog, args=args)
# agraph.draw('example.png', prog='dot')
node_pos = {}
for n in model:
node_ = pygraphviz.Node(agraph, n)
try:
xx, yy = node_.attr['pos'].split(',')
node_pos[n] = (float(xx), float(yy))
except Exception:
logger.info('no position for node', n)
node_pos[n] = (0.0, 0.0)
return node_pos
def pygraphviz_layout(G, prog='neato', root=None, args=''):
"""
Create layout using pygraphviz and graphviz.
Returns a dictionary of positions keyed by node.
>>> G=nx.petersen_graph()
>>> pos=nx.pygraphviz_layout(G)
>>> pos=nx.pygraphviz_layout(G,prog='dot')
"""
A = to_agraph(G)
if root is not None:
args += "-Groot=%s" % root
A.layout(prog=prog, args=args)
node_pos = {}
for n in G:
node = pygraphviz.Node(A, n)
try:
xx, yy = node.attr["pos"].split(',')
node_pos[n] = (float(xx), float(yy))
except:
print "no position for node", n
node_pos[n] = (0.0, 0.0)
return node_pos
def apply(bpmn_graph, parameters=None):
"""
Layouts a BPMN graph (inserting the positions of the nodes and the layouting of the edges)
Parameters
-------------
bpmn_graph
BPMN graph
parameters
Parameters of the algorithm
Returns
-------------
bpmn_graph
BPMN graph with layout information
"""
if parameters is None:
parameters = {}
try:
import pygraphviz
except ImportError:
raise ImportError('missing pygraphviz: ',
'http://pygraphviz.github.io/')
nodes = bpmn_graph.get_nodes()
flows = bpmn_graph.get_flows()
graph = bpmn_graph.get_graph()
# convert nx graph to pygraphviz graph
A = pygraphviz.AGraph(name=bpmn_graph.get_name(), strict=True, directed=True, rankdir="LR")
graph_nodes, graph_edges = get_sorted_nodes_edges(bpmn_graph)
for n in graph_nodes:
A.add_node(n)
for tup in graph_edges:
A.add_edge(tup[0], tup[1])
# use built-in layout function from pygraphviz
A.layout(prog="dot")
focus = exec_utils.get_param_value(Parameters.FOCUS, parameters, 0.42)
scaling_fact_x = exec_utils.get_param_value(Parameters.SCALING_FACT_X, parameters, 320.0) * focus
scaling_fact_y = exec_utils.get_param_value(Parameters.SCALING_FACT_Y, parameters, 150.0) * focus
task_wh = exec_utils.get_param_value(Parameters.TASK_WH, parameters, 60)
# add node positions to BPMN nodes
for n in graph_nodes:
node = pygraphviz.Node(A, n)
xs = node.attr["pos"].split(',')
node_pos = tuple(float(x) for x in xs)
# width = round(100.0 * float(node.attr["width"]) / 7.0)
n.set_x(int(node_pos[0]))
n.set_y(int(node_pos[1]))
n.set_height(task_wh)
if isinstance(n, BPMN.Task):
this_width = min(round(2 * task_wh), round(2 * (len(n.get_name()) + 7) * task_wh / 22.0))
n.set_width(this_width)
else:
n.set_width(task_wh)
# stretch BPMN a bit, cause y coordinates are ususally pretty small compared to x
max_node_x = max(node.get_x() for node in nodes)
max_node_y = max(node.get_y() for node in nodes)
different_x = len(set(node.get_x() for node in nodes))
different_y = len(set(node.get_y() for node in nodes))
stretch_fact_x = scaling_fact_x * different_x / max_node_x
stretch_fact_y = scaling_fact_y * different_y / max_node_y
for node in nodes:
node.set_x(round(node.get_x() * stretch_fact_x))
node.set_y(round(node.get_y() * stretch_fact_y))
outgoing_edges = dict()
ingoing_edges = dict()
sources_dict = dict()
targets_dict = dict()
for flow in flows:
source = flow.get_source()
target = flow.get_target()
x_src = source.get_x()
x_trg = target.get_x()
y_src = source.get_y()
y_trg = target.get_y()
sources_dict[(x_src, y_src)] = source
targets_dict[(x_trg, y_trg)] = target
diff_x = abs(x_trg - x_src)
diff_y = abs(y_src - y_trg)
if not (x_src, y_src) in outgoing_edges:
outgoing_edges[(x_src, y_src)] = {}
outgoing_edges[(x_src, y_src)][(x_trg, y_trg)] = {EndpointDirection.RIGHT: 0.0, EndpointDirection.LEFT: 0.0,
EndpointDirection.TOP: 0.0, EndpointDirection.BOTTOM: 0.0}
if not (x_trg, y_trg) in ingoing_edges:
ingoing_edges[(x_trg, y_trg)] = {}
ingoing_edges[(x_trg, y_trg)][(x_src, y_src)] = {EndpointDirection.RIGHT: 0.0, EndpointDirection.LEFT: 0.0,
EndpointDirection.TOP: 0.0, EndpointDirection.BOTTOM: 0.0}
if x_trg > x_src:
outgoing_edges[(x_src, y_src)][(x_trg, y_trg)][EndpointDirection.RIGHT] = diff_x / (diff_x + diff_y)
ingoing_edges[(x_trg, y_trg)][(x_src, y_src)][EndpointDirection.LEFT] = diff_x / (diff_x + diff_y)
else:
outgoing_edges[(x_src, y_src)][(x_trg, y_trg)][EndpointDirection.LEFT] = diff_x / (diff_x + diff_y)
ingoing_edges[(x_trg, y_trg)][(x_src, y_src)][EndpointDirection.RIGHT] = diff_x / (diff_x + diff_y)
if y_src > y_trg:
outgoing_edges[(x_src, y_src)][(x_trg, y_trg)][EndpointDirection.TOP] = diff_y / (diff_x + diff_y)
ingoing_edges[(x_trg, y_trg)][(x_src, y_src)][EndpointDirection.BOTTOM] = diff_y / (diff_x + diff_y)
else:
outgoing_edges[(x_src, y_src)][(x_trg, y_trg)][EndpointDirection.BOTTOM] = diff_y / (diff_x + diff_y)
ingoing_edges[(x_trg, y_trg)][(x_src, y_src)][EndpointDirection.TOP] = diff_y / (diff_x + diff_y)
# normalization
outgoing_edges0 = deepcopy(outgoing_edges)
ingoing_edges0 = deepcopy(ingoing_edges)
for p1 in outgoing_edges:
sum_right = 0.0
sum_left = 0.0
sum_top = 0.0
sum_bottom = 0.0
for p2 in outgoing_edges[p1]:
sum_right += outgoing_edges0[p1][p2][EndpointDirection.RIGHT]
sum_left += outgoing_edges0[p1][p2][EndpointDirection.LEFT]
sum_top += outgoing_edges0[p1][p2][EndpointDirection.TOP]
sum_bottom += outgoing_edges0[p1][p2][EndpointDirection.BOTTOM]
if p1 in ingoing_edges:
for p2 in ingoing_edges[p1]:
sum_right += ingoing_edges0[p1][p2][EndpointDirection.RIGHT]
sum_left += ingoing_edges0[p1][p2][EndpointDirection.LEFT]
sum_top += ingoing_edges0[p1][p2][EndpointDirection.TOP]
sum_bottom += ingoing_edges0[p1][p2][EndpointDirection.BOTTOM]
for p2 in outgoing_edges[p1]:
if sum_right > 0:
outgoing_edges[p1][p2][EndpointDirection.RIGHT] = outgoing_edges[p1][p2][
EndpointDirection.RIGHT] ** 2 / sum_right
if sum_left > 0:
outgoing_edges[p1][p2][EndpointDirection.LEFT] = outgoing_edges[p1][p2][
EndpointDirection.LEFT] ** 2 / sum_left
if sum_top > 0:
outgoing_edges[p1][p2][EndpointDirection.TOP] = outgoing_edges[p1][p2][
EndpointDirection.TOP] ** 2 / sum_top
if sum_bottom > 0:
outgoing_edges[p1][p2][EndpointDirection.BOTTOM] = outgoing_edges[p1][p2][
EndpointDirection.BOTTOM] ** 2 / sum_bottom
for p1 in ingoing_edges:
sum_right = 0.0
sum_left = 0.0
sum_top = 0.0
sum_bottom = 0.0
for p2 in ingoing_edges[p1]:
sum_right += ingoing_edges0[p1][p2][EndpointDirection.RIGHT]
sum_left += ingoing_edges0[p1][p2][EndpointDirection.LEFT]
sum_top += ingoing_edges0[p1][p2][EndpointDirection.TOP]
sum_bottom += ingoing_edges0[p1][p2][EndpointDirection.BOTTOM]
if p1 in outgoing_edges:
for p2 in outgoing_edges[p1]:
sum_right += outgoing_edges0[p1][p2][EndpointDirection.RIGHT]
sum_left += outgoing_edges0[p1][p2][EndpointDirection.LEFT]
sum_top += outgoing_edges0[p1][p2][EndpointDirection.TOP]
sum_bottom += outgoing_edges0[p1][p2][EndpointDirection.BOTTOM]
for p2 in ingoing_edges[p1]:
if sum_right > 0:
ingoing_edges[p1][p2][EndpointDirection.RIGHT] = ingoing_edges[p1][p2][
EndpointDirection.RIGHT] ** 2 / sum_right
if sum_left > 0:
ingoing_edges[p1][p2][EndpointDirection.LEFT] = ingoing_edges[p1][p2][
EndpointDirection.LEFT] ** 2 / sum_left
if sum_top > 0:
ingoing_edges[p1][p2][EndpointDirection.TOP] = ingoing_edges[p1][p2][
EndpointDirection.TOP] ** 2 / sum_top
if sum_bottom > 0:
ingoing_edges[p1][p2][EndpointDirection.BOTTOM] = ingoing_edges[p1][p2][
EndpointDirection.BOTTOM] ** 2 / sum_bottom
# keep best direction
for p1 in outgoing_edges:
for p2 in outgoing_edges[p1]:
vals = sorted([(x, y) for x, y in outgoing_edges[p1][p2].items()], key=lambda x: x[1], reverse=True)
outgoing_edges[p1][p2] = vals[0][0]
for p1 in ingoing_edges:
for p2 in ingoing_edges[p1]:
vals = sorted([(x, y) for x, y in ingoing_edges[p1][p2].items()], key=lambda x: x[1], reverse=True)
ingoing_edges[p1][p2] = vals[0][0]
total_counter = dict()
partial_counter = dict()
for p1 in outgoing_edges:
if p1 not in total_counter:
total_counter[p1] = Counter()
for p2 in outgoing_edges[p1]:
dir = outgoing_edges[p1][p2]
total_counter[p1][dir] += 1
for p1 in ingoing_edges:
if p1 not in total_counter:
total_counter[p1] = Counter()
for p2 in ingoing_edges[p1]:
dir = ingoing_edges[p1][p2]
total_counter[p1][dir] += 1
outgoing_edges_dirs = deepcopy(outgoing_edges)
ingoing_edges_dirs = deepcopy(ingoing_edges)
# decide exiting/entering point for edges
for p1 in outgoing_edges:
node = sources_dict[p1]
if p1 not in partial_counter:
partial_counter[p1] = Counter()
sorted_outgoing_edges = sorted(outgoing_edges[p1], key=lambda x: x, reverse=False)
for p2 in sorted_outgoing_edges:
dir = outgoing_edges[p1][p2]
partial_counter[p1][dir] += 1
if dir == EndpointDirection.RIGHT:
outgoing_edges[p1][p2] = get_right_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.LEFT:
outgoing_edges[p1][p2] = get_left_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.TOP:
outgoing_edges[p1][p2] = get_top_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.BOTTOM:
outgoing_edges[p1][p2] = get_bottom_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
for p1 in ingoing_edges:
node = targets_dict[p1]
if p1 not in partial_counter:
partial_counter[p1] = Counter()
sorted_ingoing_edges = sorted(ingoing_edges[p1], key=lambda x: x, reverse=False)
for p2 in sorted_ingoing_edges:
dir = ingoing_edges[p1][p2]
partial_counter[p1][dir] += 1
if dir == EndpointDirection.RIGHT:
ingoing_edges[p1][p2] = get_right_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.LEFT:
ingoing_edges[p1][p2] = get_left_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.TOP:
ingoing_edges[p1][p2] = get_top_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
elif dir == EndpointDirection.BOTTOM:
ingoing_edges[p1][p2] = get_bottom_edge_coord(node, p1, partial_counter[p1], total_counter[p1])
# order the left-entering ingoing edges better
for p1 in ingoing_edges:
vals = [(x, y) for x, y in ingoing_edges[p1].items() if y[0] == p1[0]]
if len(vals) > 1:
vals_x = [x[0] for x in vals]
vals_y = [x[1] for x in vals]
vals_x = sorted(vals_x)
vals_y = sorted(vals_y)
for i in range(len(vals_x)):
ingoing_edges[p1][vals_x[i]] = vals_y[i]
# set waypoints for edges
for flow in flows:
source = flow.get_source()
target = flow.get_target()
flow.del_waypoints()
x_src = source.get_x()
x_trg = target.get_x()
y_src = source.get_y()
y_trg = target.get_y()
p1 = (x_src, y_src)
p2 = (x_trg, y_trg)
source_x = outgoing_edges[p1][p2][0]
source_y = outgoing_edges[p1][p2][1]
target_x = ingoing_edges[p2][p1][0]
target_y = ingoing_edges[p2][p1][1]
dir_source = outgoing_edges_dirs[p1][p2]
dir_target = ingoing_edges_dirs[p2][p1]
middle_x = (source_x + target_x) / 2.0
middle_y = (source_y + target_y) / 2.0
flow.add_waypoint((source_x, source_y))
if dir_source in [EndpointDirection.LEFT, EndpointDirection.RIGHT]:
if dir_target in [EndpointDirection.LEFT, EndpointDirection.RIGHT]:
flow.add_waypoint((middle_x, source_y))
flow.add_waypoint((middle_x, target_y))
elif dir_target in [EndpointDirection.TOP, EndpointDirection.BOTTOM]:
flow.add_waypoint((target_x, source_y))
elif dir_source in [EndpointDirection.TOP, EndpointDirection.BOTTOM]:
if dir_target in [EndpointDirection.TOP, EndpointDirection.BOTTOM]:
flow.add_waypoint((source_x, middle_y))
flow.add_waypoint((target_x, middle_y))
elif dir_target in [EndpointDirection.LEFT, EndpointDirection.RIGHT]:
flow.add_waypoint((source_x, target_y))
flow.add_waypoint((target_x, target_y))
return bpmn_graph
def to_agraph(N, graph_attr=None, node_attr=None, strict=True):
"""Return a pygraphviz graph from a NetworkX graph N.
If N is a Graph or DiGraph, graphviz attributes can
be supplied through the arguments
graph_attr: dictionary with default attributes for graph, nodes, and edges
keyed by 'graph', 'node', and 'edge' to attribute dictionaries
node_attr: dictionary keyed by node to node attribute dictionary
If N has an dict N.graph_attr an attempt will be made first
to copy properties attached to the graph (see from_agraph)
and then updated with the calling arguments if any.
"""
directed = N.directed
strict = not N.multigraph # FIXME and N.number_of_selfloops()==0
A = pygraphviz.AGraph(name=N.name, strict=strict, directed=directed)
# default graph attributes
try:
A.graph_attr.update(N.graph_attr['graph'])
except:
pass
try:
A.graph_attr.update(graph_attr['graph'])
except:
pass
# default node attributes
try:
A.node_attr.update(N.graph_attr['node'])
except:
pass
try:
A.node_attr.update(graph_attr['node'])
except:
pass
# default edge attributes
try:
A.edge_attr.update(N.graph_attr['edge'])
except:
pass
try:
A.edge_attr.update(graph_attr['edge'])
except:
pass
# add nodes
for n in N:
A.add_node(n)
node = pygraphviz.Node(A, n)
# try node attributes attached to graph
try:
if n in N.node_attr:
node.attr.update(N.node_attr[n])
except:
pass
# update with attributes from calling parameters
try:
if n in node_attr:
node.attr.update(node_attr[n])
except:
pass
# loop over edges
for e in N.edges_iter():
if len(e) == 2:
(u, v) = e
d = None
else:
(u, v, d) = e
if d is None:
# no data, just add edge
A.add_edge(u, v)
else:
if hasattr(d, "__iter__"):
# edge data is dictionary-like, treat it as attributes
# check for user assigned key
if 'key' in d:
key = d['key']
del d['key']
else:
key = str(d)
data = d
else:
# edge data is some other object
key = str(d)
data = {'data': key}
A.add_edge(u, v, key=key, **data)
edge = pygraphviz.Edge(A, u, v, key)
return A
def make_agraph(graph_, inplace=False):
import pygraphviz
patch_pygraphviz()
if not inplace:
graph_ = graph_.copy()
# Convert to agraph format
num_nodes = len(graph_)
LARGE_GRAPH = 100
is_large = num_nodes > LARGE_GRAPH
if is_large:
print('Making agraph for large graph %d nodes. '
'May take time' % (num_nodes))
# nx_ensure_agraph_color(graph_)
# Reduce size to be in inches not pixels
# FIXME: make robust to param settings
# Hack to make the w/h of the node take thae max instead of
# dot which takes the minimum
shaped_nodes = [n for n, d in graph_.nodes(data=True) if 'width' in d]
node_dict = graph_.nodes
node_attrs = ub.dict_take(node_dict, shaped_nodes)
width_px = np.array([n['width'] for n in node_attrs])
height_px = np.array([n['height'] for n in node_attrs])
scale = np.array([n.get('scale', 1.0) for n in node_attrs])
inputscale = 72.0
width_in = width_px / inputscale * scale
height_in = height_px / inputscale * scale
width_in_dict = dict(zip(shaped_nodes, width_in))
height_in_dict = dict(zip(shaped_nodes, height_in))
nx.set_node_attributes(graph_, name='width', values=width_in_dict)
nx.set_node_attributes(graph_, name='height', values=height_in_dict)
nx_delete_node_attr(graph_, name='scale')
# Check for any nodes with groupids
node_to_groupid = nx.get_node_attributes(graph_, 'groupid')
if node_to_groupid:
groupid_to_nodes = ub.group_items(*zip(*node_to_groupid.items()))
else:
groupid_to_nodes = {}
# Initialize agraph format
nx_delete_None_edge_attr(graph_)
agraph = nx.nx_agraph.to_agraph(graph_)
# Add subgraphs labels
# TODO: subgraph attrs
group_attrs = graph_.graph.get('groupattrs', {})
for groupid, nodes in groupid_to_nodes.items():
# subgraph_attrs = {}
subgraph_attrs = group_attrs.get(groupid, {}).copy()
cluster_flag = True
# FIXME: make this more natural to specify
if 'cluster' in subgraph_attrs:
cluster_flag = subgraph_attrs['cluster']
del subgraph_attrs['cluster']
name = groupid
if cluster_flag:
# graphviz treast subgraphs labeld with cluster differently
name = 'cluster_' + groupid
else:
name = groupid
agraph.add_subgraph(nodes, name, **subgraph_attrs)
for node in graph_.nodes():
anode = pygraphviz.Node(agraph, node)
# TODO: Generally fix node positions
ptstr_ = anode.attr['pos']
if (ptstr_ is not None and len(ptstr_) > 0
and not ptstr_.endswith('!')):
ptstr = ptstr_.strip('[]').strip(' ').strip('()')
ptstr_list = [x.rstrip(',') for x in re.split(r'\s+', ptstr)]
pt_list = list(map(float, ptstr_list))
pt_arr = np.array(pt_list) / inputscale
new_ptstr_list = list(map(str, pt_arr))
new_ptstr_ = ','.join(new_ptstr_list)
if anode.attr['pin'] is True:
anode.attr['pin'] = 'true'
if anode.attr['pin'] == 'true':
new_ptstr = new_ptstr_ + '!'
else:
new_ptstr = new_ptstr_
anode.attr['pos'] = new_ptstr
if graph_.graph.get('ignore_labels', False):
for node in graph_.nodes():
anode = pygraphviz.Node(agraph, node)
if 'label' in anode.attr:
try:
del anode.attr['label']
except KeyError:
pass
return agraph