Update according to StringDB changes

SCRIPTS/make_html.py

@@ -305,11 +305,12 @@ for c in conditionVS:
 			g = dict()
 			g["category"] = ls[0]
 			term = ls[1]
-			id = ls[1].split('.')
+			id = ls[1].split(':')
 			category = id[0]
 			uid = '.'.join(id[1:])
+			taxa = ls[4]
 			if  g["category"] in ["Component", "Process", "Function"]:
-				term =  '<a href="http://amigo.geneontology.org/amigo/term/GO:{}" target="_blank">{}</a>'.format(uid, term)
+				term =  '<a href="http://amigo.geneontology.org/amigo/term/{}" target="_blank">{}</a>'.format(term, term)
 			if g["category"] == "InterPro":
 				term =  '<a href="https://www.ebi.ac.uk/interpro/entry/{}" target="_blank">{}</a>'.format(term, term)
 			if g["category"] == 'KEGG':
@@ -324,11 +325,13 @@ for c in conditionVS:
 				term =  '<a href="https://reactome.org/content/detail/R-{}" target="_blank">{}</a>'.format(term, term)
 			if g["category"] == 'SMART':
 				term =  '<a href="http://smart.embl-heidelberg.de/smart/do_annotation.pl?DOMAIN={}" target="_blank">{}</a>'.format(term, term)
+			if g["category"] == 'NetworkNeighborAL':
+				term =  '<a href="https://string-db.org/cgi/network?network_cluster_id={}&input_query_species={}" target="_blank">{}</a>'.format(term, taxa, term)
 			g["term"] = term
 			g["number_of_genes"] = ls[2]
 			g["number_of_genes_in_background"] = ls[3]
 			g["gene_ratio"] = str("%.2f" % (int(ls[2]) / int(ls[3])))
-			g["ncbiTaxonId"] = ls[4]
+			g["ncbiTaxonId"] = taxa
 			gc = []
 			for g1, g2 in zip(ls[5].split(','), ls[6].split(',')):
 				fc = templateVars["deseqres"][c["condition1"]+"__vs__"+c["condition2"]]["fc"][g1]

TEMPLATE/index_SA.html

@@ -419,7 +419,8 @@
 								UniProt Keywords (Keyword),
 								PFAM Protein Domains (Pfam),
 								INTERPRO Protein Domains and Features (InterPro),
-								SMART Protein Domains (SMART).
+								SMART Protein Domains (SMART),
+								String Local Network Cluster (NetworkNeighborAL).
 							</p>
 
 							{% if stringParams[i.condition1+"__vs__"+i.condition2].counts == 0 %}