def create_nice_cx_from_server(server=None,
username=None,
password=None,
uuid=None):
"""
Create a NiceCXNetwork based on a network retrieved from NDEx, specified by its UUID.
If the network is not public, then username and password arguments for an account on
the server with permission to access the network must be supplied.
:param server: the URL of the NDEx server hosting the network.
:param username: the user name of an account with permission to access the network.
:param password: the password of an account with permission to access the network.
:param uuid: the UUID of the network.
:return: NiceCXNetwork
"""
if server and uuid:
my_nicecx = NiceCXNetwork()
# ===================
# METADATA
# ===================
available_aspects = []
md_aspect_iter = my_nicecx.get_aspect(uuid, 'metaData', server,
username, password)
if md_aspect_iter:
for ae in (o for o in md_aspect_iter):
available_aspects.append(ae.get(CX_CONSTANTS.METADATA_NAME))
mde = MetaDataElement(cx_fragment=ae)
my_nicecx.add_metadata(mde)
else:
if not username or not password:
raise Exception(
'Network is not available. Username and/or password not supplied'
)
else:
raise Exception('Network not available')
opaque_aspects = set(available_aspects).difference(known_aspects_min)
# ====================
# NETWORK ATTRIBUTES
# ====================
if 'networkAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'networkAttributes', server,
username, password)
for network_item in objects:
my_nicecx.add_network_attribute(json_obj=network_item)
my_nicecx.add_metadata_stub('networkAttributes')
# ===================
# @CONTEXT
# ===================
if '@context' in available_aspects:
objects = my_nicecx.get_aspect(uuid, '@context', server, username,
password)
my_nicecx.set_context(objects)
if (my_nicecx.metadata.get('@context') is None):
my_nicecx.add_metadata_stub('@context')
else:
my_nicecx.metadata.get('@context').set_element_count(1)
# ===================
# NODES
# ===================
if 'nodes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodes', server, username,
password)
for node_item in objects:
my_nicecx.create_node(cx_fragment=node_item)
my_nicecx.add_metadata_stub('nodes')
# ===================
# EDGES
# ===================
if 'edges' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edges', server, username,
password)
for edge_item in objects:
my_nicecx.create_edge(cx_fragment=edge_item)
my_nicecx.add_metadata_stub('edges')
# ===================
# NODE ATTRIBUTES
# ===================
if 'nodeAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodeAttributes', server,
username, password)
for att in objects:
# my_nicecx.set_node_attribute(att.get('po'), att.get('n'), att.get('v'), type=att.get('d'))
node_attribute_element = NodeAttributesElement(cx_fragment=att)
my_nicecx.nodeAttributeHeader.add(
node_attribute_element.get_name())
nodeAttrs = my_nicecx.nodeAttributes.get(
node_attribute_element.get_property_of())
if nodeAttrs is None:
nodeAttrs = []
my_nicecx.nodeAttributes[
node_attribute_element.get_property_of()] = nodeAttrs
nodeAttrs.append(node_attribute_element)
my_nicecx.add_metadata_stub('nodeAttributes')
# ===================
# EDGE ATTRIBUTES
# ===================
if 'edgeAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeAttributes', server,
username, password)
for att in objects:
edge_attribute_element = EdgeAttributesElement(cx_fragment=att)
my_nicecx.edgeAttributeHeader.add(
edge_attribute_element.get_name())
edge_attrs = my_nicecx.edgeAttributes.get(att.get('po'))
if edge_attrs is None:
edge_attrs = []
my_nicecx.edgeAttributes[
edge_attribute_element.get_property_of()] = edge_attrs
edge_attrs.append(edge_attribute_element)
my_nicecx.add_metadata_stub('edgeAttributes')
# ===================
# CITATIONS
# ===================
if 'citations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'citations', server, username,
password)
for cit in objects:
aspect_element = AspectElement(cit, 'citations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('citations')
# ===================
# SUPPORTS
# ===================
if 'supports' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'supports', server, username,
password)
for sup in objects:
aspect_element = AspectElement(sup, 'supports')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('supports')
# ===================
# EDGE SUPPORTS
# ===================
if 'edgeSupports' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeSupports', server,
username, password)
for add_this_edge_sup in objects:
aspect_element = AspectElement(add_this_edge_sup,
'edgeSupports')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('edgeSupports')
# ===================
# NODE CITATIONS
# ===================
if 'nodeCitations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodeCitations', server,
username, password)
for node_cit in objects:
aspect_element = AspectElement(node_cit, 'nodeCitations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('nodeCitations')
# ===================
# EDGE CITATIONS
# ===================
if 'edgeCitations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeCitations', server,
username, password)
for edge_cit in objects:
aspect_element = AspectElement(edge_cit, 'edgeCitations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('edgeCitations')
# ===================
# OPAQUE ASPECTS
# ===================
for oa in opaque_aspects:
objects = my_nicecx.get_aspect(uuid, oa, server, username,
password)
for oa_item in objects:
aspect_element = AspectElement(oa_item, oa)
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub(oa)
else:
raise Exception('Server and uuid not specified')
return my_nicecx
def create_nice_cx_from_networkx(G):
"""
Create a NiceCXNetwork based on a networkx graph. The resulting NiceCXNetwork
contains the nodes edges and their attributes from the networkx graph and also
preserves the graph 'pos' attribute as a CX cartesian coordinates aspect.
:param G: networkx graph
:type G: networkx graph
:return: NiceCXNetwork
:rtype: NiceCXNetwork
"""
if G is None:
raise Exception('Networkx input is empty')
my_nicecx = NiceCXNetwork()
if G.graph.get('name'):
my_nicecx.set_name(G.graph.get('name'))
else:
my_nicecx.set_name('created from networkx')
my_nicecx.add_metadata_stub('networkAttributes')
for n, d in G.nodes_iter(data=True):
# =============
# ADD NODES
# =============
if d and d.get('name'):
my_nicecx.create_node(id=n,
node_name=d.get('name'),
node_represents=d.get('name'))
else:
my_nicecx.create_node(id=n, node_name=n, node_represents=n)
# ======================
# ADD NODE ATTRIBUTES
# ======================
for k, v in d.items():
attr_type = None
if isinstance(v, float):
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif isinstance(v, int):
attr_type = ATTRIBUTE_DATA_TYPE.INTEGER
my_nicecx.set_node_attribute(n, k, v, type=attr_type)
index = 0
for u, v, d in G.edges_iter(data=True):
# =============
# ADD EDGES
# =============
my_nicecx.create_edge(id=index,
edge_source=u,
edge_target=v,
edge_interaction=d.get('interaction'))
# ==============================
# ADD EDGE ATTRIBUTES
# ==============================
for k, val in d.items():
if k != 'interaction':
attr_type = None
if isinstance(val, float):
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif isinstance(val, int):
attr_type = ATTRIBUTE_DATA_TYPE.INTEGER
my_nicecx.set_edge_attribute(index, k, val, type=attr_type)
index += 1
my_nicecx.add_metadata_stub('nodes')
my_nicecx.add_metadata_stub('edges')
if my_nicecx.nodeAttributes:
my_nicecx.add_metadata_stub('nodeAttributes')
if my_nicecx.edgeAttributes:
my_nicecx.add_metadata_stub('edgeAttributes')
if hasattr(G, 'pos'):
aspect = _create_cartesian_coordinates_aspect_from_networkx(G)
my_nicecx.add_opaque_aspect('cartesianLayout', aspect)
my_nicecx.add_metadata_stub('cartesianLayout')
return my_nicecx
def create_nice_cx_from_pandas(df,
source_field=None,
target_field=None,
source_node_attr=[],
target_node_attr=[],
edge_attr=[],
edge_interaction=None):
"""
Create a NiceCXNetwork from a pandas dataframe in which each row
specifies one edge in the network.
If only the df argument is provided the dataframe is treated as 'SIF' format,
where the first two columns specify the source and target node ids of the edge
and all other columns are ignored. The edge interaction is defaulted to "interacts-with"
If both the source_field and target_field arguments are provided, the those and any other
arguments refer to headers in the dataframe, controlling the mapping of columns to
the attributes of nodes, and edges in the resulting NiceCXNetwork. If a header is not
mapped the corresponding column is ignored. If the edge_interaction is not specified it
defaults to "interacts-with"
:param df: pandas dataframe to process
:param source_field: header name specifying the name of the source node.
:param target_field: header name specifying the name of the target node.
:param source_node_attr: list of header names specifying attributes of the source node.
:param target_node_attr: list of header names specifying attributes of the target node.
:param edge_attr: list of header names specifying attributes of the edge.
:param edge_interaction: the relationship between the source node and the target node, defaulting to "interacts-with"
:return: NiceCXNetwork
"""
my_nicecx = NiceCXNetwork()
# ====================================================
# IF NODE FIELD NAME (SOURCE AND TARGET) IS PROVIDED
# THEN USE THOSE FIELDS OTHERWISE USE INDEX 0 & 1
# ====================================================
my_nicecx.set_name('Pandas Upload')
my_nicecx.add_metadata_stub('networkAttributes')
count = 0
if source_field and target_field:
for index, row in df.iterrows():
if count % 10000 == 0:
print(count)
count += 1
# =============
# ADD NODES
# =============
my_nicecx.create_node(id=row[source_field],
node_name=row[source_field],
node_represents=row[source_field])
my_nicecx.create_node(id=row[target_field],
node_name=row[target_field],
node_represents=row[target_field])
# =============
# ADD EDGES
# =============
if edge_interaction:
if row.get(edge_interaction):
my_nicecx.create_edge(
id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction=row[edge_interaction])
else:
my_nicecx.create_edge(id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction=edge_interaction)
else:
my_nicecx.create_edge(id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction='interacts-with')
# ==============================
# ADD SOURCE NODE ATTRIBUTES
# ==============================
for sp in source_node_attr:
attr_type = None
if type(row[sp]) is float and math.isnan(row[sp]):
row[sp] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[sp]) is float and math.isinf(row[sp]):
row[sp] = 'Inf'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[sp]) is float:
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif isinstance(row[sp], int):
attr_type = ATTRIBUTE_DATA_TYPE.INTEGER
my_nicecx.set_node_attribute(row[source_field],
sp,
row[sp],
type=attr_type)
# ==============================
# ADD TARGET NODE ATTRIBUTES
# ==============================
for tp in target_node_attr:
attr_type = None
if type(row[tp]) is float and math.isnan(row[tp]):
row[tp] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[tp]) is float and math.isinf(row[tp]):
row[tp] = 'Inf'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[tp]) is float:
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif isinstance(row[tp], int):
attr_type = ATTRIBUTE_DATA_TYPE.INTEGER
my_nicecx.set_node_attribute(row[target_field],
tp,
row[tp],
type=attr_type)
# ==============================
# ADD EDGE ATTRIBUTES
# ==============================
for ep in edge_attr:
attr_type = None
if type(row[ep]) is float and math.isnan(row[ep]):
row[ep] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[ep]) is float and math.isinf(row[ep]):
row[ep] = 'INFINITY'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
my_nicecx.set_edge_attribute(index,
ep,
row[ep],
type=attr_type)
else:
for index, row in df.iterrows():
# =============
# ADD NODES
# =============
my_nicecx.create_node(id=row[0],
node_name=row[0],
node_represents=row[0])
my_nicecx.create_node(id=row[1],
node_name=row[1],
node_represents=row[1])
# =============
# ADD EDGES
# =============
if len(row) > 2:
my_nicecx.create_edge(id=index,
edge_source=row[0],
edge_target=row[1],
edge_interaction=row[2])
else:
my_nicecx.create_edge(id=index,
edge_source=row[0],
edge_target=row[1],
edge_interaction='interacts-with')
my_nicecx.add_metadata_stub('nodes')
my_nicecx.add_metadata_stub('edges')
if source_node_attr or target_node_attr:
my_nicecx.add_metadata_stub('nodeAttributes')
if edge_attr:
my_nicecx.add_metadata_stub('edgeAttributes')
return my_nicecx
def create_nice_cx_from_cx(cx):
"""
Create a NiceCXNetwork from a CX list.
:param cx: a list in CX format
:return: NiceCXNetwork
"""
my_nicecx = NiceCXNetwork()
if cx:
# ===================
# METADATA
# ===================
available_aspects = []
for ae in (
o
for o in my_nicecx.get_frag_from_list_by_key(cx, 'metaData')):
available_aspects.append(ae.get(CX_CONSTANTS.METADATA_NAME))
mde = MetaDataElement(cx_fragment=ae)
my_nicecx.add_metadata(mde)
opaque_aspects = set(available_aspects).difference(known_aspects_min)
# ====================
# NETWORK ATTRIBUTES
# ====================
if 'networkAttributes' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(
cx, 'networkAttributes')
for network_item in objects:
add_this_network_attribute = NetworkAttributesElement(
cx_fragment=network_item)
my_nicecx.add_network_attribute(
network_attribute_element=add_this_network_attribute)
my_nicecx.add_metadata_stub('networkAttributes')
# ===================
# NODES
# ===================
if 'nodes' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'nodes')
for node_item in objects:
my_nicecx.create_node(cx_fragment=node_item)
my_nicecx.add_metadata_stub('nodes')
# ===================
# EDGES
# ===================
if 'edges' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'edges')
for edge_item in objects:
my_nicecx.create_edge(cx_fragment=edge_item)
my_nicecx.add_metadata_stub('edges')
# ===================
# NODE ATTRIBUTES
# ===================
if 'nodeAttributes' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'nodeAttributes')
for att in objects:
# my_nicecx.set_node_attribute(None, None, None, cx_fragment=att)
node_attribute_element = NodeAttributesElement(cx_fragment=att)
my_nicecx.nodeAttributeHeader.add(
node_attribute_element.get_name())
nodeAttrs = my_nicecx.nodeAttributes.get(
node_attribute_element.get_property_of())
if nodeAttrs is None:
nodeAttrs = []
my_nicecx.nodeAttributes[
node_attribute_element.get_property_of()] = nodeAttrs
nodeAttrs.append(node_attribute_element)
my_nicecx.add_metadata_stub('nodeAttributes')
# ===================
# EDGE ATTRIBUTES
# ===================
if 'edgeAttributes' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'edgeAttributes')
for att in objects:
#my_nicecx.set_edge_attribute(None, None, None, cx_fragment=att)
edge_attribute_element = EdgeAttributesElement(cx_fragment=att)
my_nicecx.edgeAttributeHeader.add(
edge_attribute_element.get_name())
edge_attrs = my_nicecx.edgeAttributes.get(att.get('po'))
if edge_attrs is None:
edge_attrs = []
my_nicecx.edgeAttributes[
edge_attribute_element.get_property_of()] = edge_attrs
edge_attrs.append(edge_attribute_element)
my_nicecx.add_metadata_stub('edgeAttributes')
# ===================
# CITATIONS
# ===================
if 'citations' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'citations')
for cit in objects:
aspect_element = AspectElement(cit, 'citations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('citations')
# ===================
# SUPPORTS
# ===================
if 'supports' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'supports')
for sup in objects:
aspect_element = AspectElement(sup, 'supports')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('supports')
# ===================
# EDGE SUPPORTS
# ===================
if 'edgeSupports' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'edgeSupports')
for add_this_edge_sup in objects:
aspect_element = AspectElement(add_this_edge_sup,
'edgeSupports')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('edgeSupports')
# ===================
# NODE CITATIONS
# ===================
if 'nodeCitations' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'nodeCitations')
for node_cit in objects:
aspect_element = AspectElement(node_cit, 'nodeCitations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('nodeCitations')
# ===================
# EDGE CITATIONS
# ===================
if 'edgeCitations' in available_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, 'edgeCitations')
for edge_cit in objects:
aspect_element = AspectElement(edge_cit, 'edgeCitations')
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub('edgeCitations')
# ===================
# OPAQUE ASPECTS
# ===================
for oa in opaque_aspects:
objects = my_nicecx.get_frag_from_list_by_key(cx, oa)
for oa_item in objects:
aspect_element = AspectElement(oa_item, oa)
my_nicecx.add_opaque_aspect_element(aspect_element)
my_nicecx.add_metadata_stub(oa)
return my_nicecx
else:
raise Exception('CX is empty')
def create_nice_cx_from_networkx(G):
"""
Constructor that uses a networkx graph to build niceCX
:param G: networkx graph
:type G: networkx graph
:return: none
:rtype: none
"""
my_nicecx = NiceCXNetwork()
if G.graph.get('name'):
my_nicecx.set_name(G.graph.get('name'))
else:
my_nicecx.set_name('created from networkx')
my_nicecx.add_metadata_stub('networkAttributes')
for n, d in G.nodes_iter(data=True):
#=============
# ADD NODES
#=============
if d and d.get('name'):
my_nicecx.create_node(id=n,
node_name=d.get('name'),
node_represents=d.get('name'))
else:
my_nicecx.create_node(id=n, node_name=n, node_represents=n)
#======================
# ADD NODE ATTRIBUTES
#======================
for k, v in d.items():
my_nicecx.set_node_attribute(n, k, v)
index = 0
for u, v, d in G.edges_iter(data=True):
#=============
# ADD EDGES
#=============
my_nicecx.create_edge(id=index,
edge_source=u,
edge_target=v,
edge_interaction=d.get('interaction'))
#==============================
# ADD EDGE ATTRIBUTES
#==============================
for k, v in d.items():
if k != 'interaction':
my_nicecx.set_edge_attribute(index, k, v)
index += 1
#Cartesian aspect
cartesian_aspect = []
#for
my_nicecx.add_metadata_stub('nodes')
my_nicecx.add_metadata_stub('edges')
if my_nicecx.nodeAttributes:
my_nicecx.add_metadata_stub('nodeAttributes')
if my_nicecx.edgeAttributes:
my_nicecx.add_metadata_stub('edgeAttributes')
if hasattr(G, 'pos'):
G_pos = create_cartesian_coordinates_aspect_from_networkx(G)
my_nicecx.set_opaque_aspect('cartesianLayout',
G_pos.get('cartesianLayout'))
my_nicecx.add_metadata_stub('cartesianLayout')
return my_nicecx
def create_nice_cx_from_server(server=None,
username=None,
password=None,
uuid=None):
if server and uuid:
my_nicecx = NiceCXNetwork()
#===================
# METADATA
#===================
available_aspects = []
md_aspect_iter = my_nicecx.get_aspect(uuid, 'metaData', server,
username, password)
if md_aspect_iter:
for ae in (o for o in md_aspect_iter):
available_aspects.append(ae.get(CX_CONSTANTS.METADATA_NAME))
mde = MetaDataElement(cx_fragment=ae)
my_nicecx.add_metadata(mde)
else:
if not username or not password:
raise Exception(
'Network is not available. Username and/or password not supplied'
)
else:
raise Exception('Network not available')
opaque_aspects = set(available_aspects).difference(known_aspects_min)
#====================
# NETWORK ATTRIBUTES
#====================
if 'networkAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'networkAttributes', server,
username, password)
for network_item in objects:
my_nicecx.add_network_attribute(json_obj=network_item)
my_nicecx.add_metadata_stub('networkAttributes')
#===================
# NODES
#===================
if 'nodes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodes', server, username,
password)
for node_item in objects:
my_nicecx.create_node(cx_fragment=node_item)
my_nicecx.add_metadata_stub('nodes')
#===================
# EDGES
#===================
if 'edges' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edges', server, username,
password)
for edge_item in objects:
my_nicecx.create_edge(cx_fragment=edge_item)
my_nicecx.add_metadata_stub('edges')
#===================
# NODE ATTRIBUTES
#===================
if 'nodeAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodeAttributes', server,
username, password)
for att in objects:
#my_nicecx.set_node_attribute(att.get('po'), att.get('n'), att.get('v'), type=att.get('d'))
node_attribute_element = NodeAttributesElement(cx_fragment=att)
my_nicecx.nodeAttributeHeader.add(
node_attribute_element.get_name())
nodeAttrs = my_nicecx.nodeAttributes.get(
node_attribute_element.get_property_of())
if nodeAttrs is None:
nodeAttrs = []
my_nicecx.nodeAttributes[
node_attribute_element.get_property_of()] = nodeAttrs
nodeAttrs.append(node_attribute_element)
my_nicecx.add_metadata_stub('nodeAttributes')
#===================
# EDGE ATTRIBUTES
#===================
if 'edgeAttributes' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeAttributes', server,
username, password)
for att in objects:
edge_attribute_element = EdgeAttributesElement(cx_fragment=att)
my_nicecx.edgeAttributeHeader.add(
edge_attribute_element.get_name())
edge_attrs = my_nicecx.edgeAttributes.get(att.get('po'))
if edge_attrs is None:
edge_attrs = []
my_nicecx.edgeAttributes[
edge_attribute_element.get_property_of()] = edge_attrs
edge_attrs.append(edge_attribute_element)
my_nicecx.add_metadata_stub('edgeAttributes')
#===================
# CITATIONS
#===================
if 'citations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'citations', server, username,
password)
for cit in objects:
aspect_element = AspectElement(cit, 'citations')
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub('citations')
#===================
# SUPPORTS
#===================
if 'supports' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'supports', server, username,
password)
for sup in objects:
aspect_element = AspectElement(sup, 'supports')
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub('supports')
#===================
# EDGE SUPPORTS
#===================
if 'edgeSupports' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeSupports', server,
username, password)
for add_this_edge_sup in objects:
aspect_element = AspectElement(add_this_edge_sup,
'edgeSupports')
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub('edgeSupports')
#===================
# NODE CITATIONS
#===================
if 'nodeCitations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'nodeCitations', server,
username, password)
for node_cit in objects:
aspect_element = AspectElement(node_cit, 'nodeCitations')
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub('nodeCitations')
#===================
# EDGE CITATIONS
#===================
if 'edgeCitations' in available_aspects:
objects = my_nicecx.get_aspect(uuid, 'edgeCitations', server,
username, password)
for edge_cit in objects:
aspect_element = AspectElement(edge_cit, 'edgeCitations')
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub('edgeCitations')
#===================
# OPAQUE ASPECTS
#===================
for oa in opaque_aspects:
objects = my_nicecx.get_aspect(uuid, oa, server, username,
password)
for oa_item in objects:
aspect_element = AspectElement(oa_item, oa)
my_nicecx.add_opaque_aspect(aspect_element)
my_nicecx.add_metadata_stub(oa)
else:
raise Exception('Server and uuid not specified')
return my_nicecx
def create_nice_cx_from_pandas(df,
source_field=None,
target_field=None,
source_node_attr=[],
target_node_attr=[],
edge_attr=[],
edge_interaction=None):
"""
Constructor that uses a pandas dataframe to build niceCX
:param df: dataframe
:type df: Pandas Dataframe
:param headers:
:type headers:
:return: none
:rtype: n/a
"""
my_nicecx = NiceCXNetwork()
#====================================================
# IF NODE FIELD NAME (SOURCE AND TARGET) IS PROVIDED
# THEN USE THOSE FIELDS OTHERWISE USE INDEX 0 & 1
#====================================================
my_nicecx.set_name('Pandas Upload')
my_nicecx.add_metadata_stub('networkAttributes')
count = 0
if source_field and target_field:
for index, row in df.iterrows():
if count % 10000 == 0:
print(count)
count += 1
#=============
# ADD NODES
#=============
my_nicecx.create_node(id=row[source_field],
node_name=row[source_field],
node_represents=row[source_field])
my_nicecx.create_node(id=row[target_field],
node_name=row[target_field],
node_represents=row[target_field])
#=============
# ADD EDGES
#=============
if edge_interaction:
if row.get(edge_interaction):
my_nicecx.create_edge(
id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction=row[edge_interaction])
else:
my_nicecx.create_edge(id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction=edge_interaction)
else:
my_nicecx.create_edge(id=index,
edge_source=row[source_field],
edge_target=row[target_field],
edge_interaction='neighbor-of')
#==============================
# ADD SOURCE NODE ATTRIBUTES
#==============================
for sp in source_node_attr:
attr_type = None
if type(row[sp]) is float and math.isnan(row[sp]):
row[sp] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[sp]) is float and math.isinf(row[sp]):
row[sp] = 'Inf'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
my_nicecx.set_node_attribute(row[source_field],
sp,
row[sp],
type=attr_type)
#==============================
# ADD TARGET NODE ATTRIBUTES
#==============================
for tp in target_node_attr:
attr_type = None
if type(row[tp]) is float and math.isnan(row[tp]):
row[tp] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[tp]) is float and math.isinf(row[tp]):
row[tp] = 'Inf'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
my_nicecx.set_node_attribute(row[target_field],
tp,
row[tp],
type=attr_type)
#==============================
# ADD EDGE ATTRIBUTES
#==============================
for ep in edge_attr:
attr_type = None
if type(row[ep]) is float and math.isnan(row[ep]):
row[ep] = ''
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
elif type(row[ep]) is float and math.isinf(row[ep]):
row[ep] = 'INFINITY'
attr_type = ATTRIBUTE_DATA_TYPE.FLOAT
my_nicecx.set_edge_attribute(index,
ep,
row[ep],
type=attr_type)
else:
for index, row in df.iterrows():
#=============
# ADD NODES
#=============
my_nicecx.create_node(id=row[0],
node_name=row[0],
node_represents=row[0])
my_nicecx.create_node(id=row[1],
node_name=row[1],
node_represents=row[1])
#=============
# ADD EDGES
#=============
if len(row) > 2:
my_nicecx.create_edge(id=index,
edge_source=row[0],
edge_target=row[1],
edge_interaction=row[2])
else:
my_nicecx.create_edge(id=index,
edge_source=row[0],
edge_target=row[1],
edge_interaction='interacts-with')
my_nicecx.add_metadata_stub('nodes')
my_nicecx.add_metadata_stub('edges')
if source_node_attr or target_node_attr:
my_nicecx.add_metadata_stub('nodeAttributes')
if edge_attr:
my_nicecx.add_metadata_stub('edgeAttributes')
return my_nicecx
