def visualize_fba_analysis(username, analysis_id):
"""
main endpoint to visualize flux balance analysis
"""
analysis = Analysis.query.filter(Analysis.id == analysis_id).first_or_404()
# retrieve file data from s3
filename = '{}/{}/{}'.format(username, analysis.project_id, analysis_id)
resp = requests.get(S3_URL + filename)
# return error code if request failed
if resp.status_code != 200:
return render_template('errors/server_error.html'), 500
orgs = Organism.query.order_by(Organism.tax).all()
model = analysis.model
model_name = model.name
pathways = Kegg.get_pathways_list(org=model.kegg_org)
return render_template('user/fba_analysis.html',
analysis=analysis, organisms=orgs,
model_name=model_name, pathways=pathways,
display_sidebar=False)
def get_pathways():
org = request.args.get("org", "hsa") # the default will be the human.
pathways = Kegg.get_pathways_list(org)
data = json.dumps(pathways)
return data
def get_kegg_pathways(username):
org = request.args.get('org', 'hsa') # the default will be the human.
pathways = Kegg.get_pathways_list(org)
data = json.dumps(pathways)
return data