def view_task(request, uid, return_context=False):
task = Task.get(uid)[0]
# Replace newlines with <br>, etc.
task["definition"] = clean_html(task["definition"])
contrasts = Task.get_contrasts(task["id"])
# Make a lookup dictionary based on concept id
concept_lookup = dict()
for contrast in contrasts:
contrast_concepts = Contrast.get_concepts(contrast["contrast_id"])
for concept in contrast_concepts:
concept_lookup = update_lookup(concept_lookup,
concept["concept_id"], contrast)
# Retrieve conditions, make associations with contrasts
conditions = Task.get_conditions(uid)
context = {
"task": task,
"concepts": concept_lookup,
"contrasts": contrasts,
"conditions": conditions,
"domain": DOMAIN
}
if return_context == True:
return context
return render(request, 'atlas/view_task.html', context)
def task_gist(request, uid, query=None, return_gist=False):
'''task_gist will return a cypher gist for a task, including nodes and relations
:param uid: the uid for the task
:param query: a custom query. If not defined, will show a table of concepts asserted.
:param return_gist: if True, will return the context with all needed variables
'''
task_cypher, lookup = Task.cypher(uid, return_lookup=True)
task_cypher = add_cypher_relations(task_cypher, lookup)
task = Task.get(uid)[0]
if query is None:
query = "MATCH (t:task)-[r:ASSERTS]->(c:concept) RETURN t.name as task_name,c.name as concept_name;"
# Join by newline
task_cypher["links"] = "\n".join(task_cypher["links"])
task_cypher["nodes"] = "\n".join(task_cypher["nodes"])
context = {
"relations": task_cypher["links"],
"nodes": task_cypher["nodes"],
"node_type": "task",
"node_name": task["name"],
"query": query
}
if return_gist is True:
return context
return render(request, 'graph/gist.html', context)
def task_gist(request,uid,query=None,return_gist=False):
'''task_gist will return a cypher gist for a task, including nodes and relations
:param uid: the uid for the task
:param query: a custom query. If not defined, will show a table of concepts asserted.
:param return_gist: if True, will return the context with all needed variables
'''
task_cypher,lookup = Task.cypher(uid,return_lookup=True)
task_cypher = add_cypher_relations(task_cypher,lookup)
task = Task.get(uid)[0]
if query == None:
query = "MATCH (t:task)-[r:ASSERTS]->(c:concept) RETURN t.name as task_name,c.name as concept_name;"
# Join by newline
task_cypher["links"] = "\n".join(task_cypher["links"])
task_cypher["nodes"] = "\n".join(task_cypher["nodes"])
context = {"relations":task_cypher["links"],
"nodes":task_cypher["nodes"],
"node_type":"task",
"node_name":task["name"],
"query":query}
if return_gist == True:
return context
return render(request,'graph/gist.html',context)
def test_add_term_task(self):
self.assertTrue(
self.client.login(username=self.user.username,
password=self.password))
task = Task()
task_name = 'test_add_term_concept'
definition = 'task definition'
response = self.client.post(reverse('add_term'), {
'term_type': 'task',
'term_name': task_name,
'definition_text': definition
},
follow=True)
self.assertEqual(response.status_code, 200)
uid = response.context['task']['id']
tsk = task.get(uid)
self.assertEqual(len(tsk), 1)
tsk = task.graph.find_one('task', 'id', uid)
