From 7ca139dfe40b70db4f553d09b7010712c33207fe Mon Sep 17 00:00:00 2001
From: Hao Chen
Date: Thu, 16 May 2019 12:24:37 -0500
Subject: pubmed location

---
 server.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/server.py b/server.py
index 2ce8720..d9e3551 100755
--- a/server.py
+++ b/server.py
@@ -162,7 +162,7 @@ def gene_gene():
     query=request.args.get("gene")
     tmp_ggPMID=session['path']+"_ggPMID"
     os.system("esearch -db pubmed -query \"" +  query + "\" | efetch -format uid |sort >" + tmp_ggPMID)
-    abstracts=os.popen("comm -1 -2 top_150_addiction_genes_uniq.pmid " + tmp_ggPMID + " |fetch-pubmed -path /run/media/hao/PubMed/Archive/ | xtract -pattern PubmedArticle -element MedlineCitation/PMID,ArticleTitle,AbstractText|sed \"s/-/ /g\"").read()
+    abstracts=os.popen("comm -1 -2 top_150_addiction_genes_uniq.pmid " + tmp_ggPMID + " |fetch-pubmed -path "+pubmed_path+ " | xtract -pattern PubmedArticle -element MedlineCitation/PMID,ArticleTitle,AbstractText|sed \"s/-/ /g\"").read()
     os.system("rm "+tmp_ggPMID)
     topGenes=dict()
     out=str()
-- 
cgit 1.4.1