From 5a264b6d58fa55714b5c844830dc7d42d8d303b1 Mon Sep 17 00:00:00 2001
From: Hao Chen
Date: Mon, 13 May 2019 22:01:25 -0500
Subject: addiction terms must present together with drug terms

---
 ratspub.py | 3 ++-
 server.py  | 9 ++++++---
 2 files changed, 8 insertions(+), 4 deletions(-)

diff --git a/ratspub.py b/ratspub.py
index c82c9b8..eca554c 100755
--- a/ratspub.py
+++ b/ratspub.py
@@ -30,6 +30,7 @@ def getSentences(query, gene):
 def gene_category(gene, cat_d, query, cat):
     #e.g. BDNF, addiction_d, undic(addiction_d) "addiction"
     q="\"(" + query.replace("|", " OR ")  + ") AND " + gene + "\""
+    print (">>>>>>>>>>" + q)
     sents=getSentences(q, gene)
     out=str()
     for sent in sents.split("\n"):
@@ -75,7 +76,7 @@ addiction=undic(addiction_d)
 drug_d = {"alcohol":"alcohol|alcoholism|alcoholic|alcoholics",
         "nicotine":"smoking|nicotine|tobacco|smoker|smokers",
         "cocaine":"cocaine",
-        "opioid":"opioid|opioids|fentanyl|oxycodone|oxycontin|heroin|morphine|methadone|buprenorphine|vicodin|hydrocodone|hycodan|kadian|percoset|hydromorphone|naloxone|codeine|suboxone|tramadol|kratom",
+        "opioid":"opioid|opioids|fentanyl|oxycodone|oxycontin|heroin|morphine|methadone|buprenorphine|vicodin|hydrocodone|hycodan|kadian|percoset|hydromorphone|naloxone|codeine|suboxone|tramadol|kratom|ultram",
         "amphetamine":"methamphetamine|amphetamine|METH|AMPH",
         "cannabinoid":"endocannabinoid|cannabinoids|cannabis|endocannabinoids|marijuana|cannabidiol|cannabinoid|tetrahydrocannabinol|thc|thc 9|Oleoylethanolamide|palmitoylethanolamide|acylethanolamides"
         }
diff --git a/server.py b/server.py
index b71e6bb..90b2e51 100755
--- a/server.py
+++ b/server.py
@@ -25,7 +25,7 @@ def progress():
     genes=genes.replace(",", " ")
     genes=genes.replace(";", " ")
     genes=genes.split()
-    if len(genes)>=6:
+    if len(genes)>=60:
         message="<span class='text-danger'>Up to five terms can be searched at a time</span>"
         return render_template('index.html', message=message)
     elif len(genes)==0:
@@ -50,13 +50,15 @@ def search():
         edges=str()
         nodes=default_nodes
         progress=0
+        searchCnt=0
         for  gene in genes:
             gene=gene.replace("-"," ")
             nodes+="{ data: { id: '" + gene +  "', nodecolor:'#E74C3C', fontweight:700, url:'/gene_gene?gene="+gene+"'} },\n"
             # report progress immediately
             progress+=percent
             yield "data:"+str(progress)+"\n\n"
-            addiction=undic(addiction_d)
+            #addiction terms must present with at least one drug
+            addiction=undic(addiction_d) +") AND ("+undic(drug_d)
             sent0=gene_category(gene, addiction_d, addiction, "addiction")
             e0=generate_edges(sent0, tf_name)
             #  
@@ -78,7 +80,8 @@ def search():
             edges+=e0+e1+e2+e3
             sentences+=sent0+sent1+sent2+sent3
             #save data before the last yield
-            if (progress>99):
+            searchCnt+=1
+            if (searchCnt==len(genes)):
                 progress=100
                 sntdata.write(sentences)
                 sntdata.close()
-- 
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