diff options
Diffstat (limited to 'server.py')
| -rwxr-xr-x | server.py | 43 |
1 files changed, 29 insertions, 14 deletions
diff --git a/server.py b/server.py index 0f3d94b..804e0fc 100755 --- a/server.py +++ b/server.py @@ -1,5 +1,8 @@ #!/bin/env python3 from flask import Flask, render_template, request, redirect +import tempfile +import random +import string from ratspub import * app=Flask(__name__) @@ -11,43 +14,55 @@ def root(): @app.route("/search") def search(): - global all_sentences + tf_path=tempfile.gettempdir() + tf_name=tf_path+"/tmp"+''.join(random.choice(string.ascii_letters) for x in range(6)) all_sentences=str() genes=request.args.get('query') genes=genes.replace(",", " ") genes=genes.replace(";", " ") genes=genes.split() - if len(genes)>=6: + if len(genes)>=6: return render_template('index.html') nodes=default_nodes edges=str() for gene in genes: - nodes+="{ data: { id: '" + gene + "', nodecolor:'#FADBD8', fontweight:700} },\n" + nodes+="{ data: { id: '" + gene + "', nodecolor:'#FADBD8', fontweight:700, url:'https://www.ncbi.nlm.nih.gov/gene/?term="+gene+"'} },\n" sent0=gene_addiction(gene) - e0=generate_edges(sent0) + e0=generate_edges(sent0, tf_name) sent1=gene_functional(gene) - e1=generate_edges(sent1) + e1=generate_edges(sent1, tf_name) sent2=gene_anatomical(gene) - e2=generate_edges(sent2) + e2=generate_edges(sent2, tf_name) edges+=e0+e1+e2 all_sentences+=sent0+sent1+sent2 - #f=open("all_sentences.tab","w") - #f.write(all_sentences) - #f.close() + #session['tmpfile']={'filename':tf_name} + with open(tf_name,"w") as f: + f.write(all_sentences) + f.close() return render_template('cytoscape.html', elements=nodes+edges) @app.route("/sentences") def sentences(): edge=request.args.get('edgeID') - (gene0, cat0)=edge.split("|") - print (gene0 + cat0) - out="<h3>"+gene0 + " and " + cat0 + "</h3>\n" - for sent in all_sentences.split("\n"): + (tf_name, gene0, cat0)=edge.split("|") + out="<h3>"+gene0 + " and " + cat0 + "</h3><hr>\n" + print(tf_name) + with open(tf_name, "r") as df: + all_sents=df.read() + for sent in all_sents.split("\n"): if len(sent.strip())!=0: - (gene,nouse,cat, pmid, text)=sent.split("\t") + (gene,nouse,cat, pmid, text)=sent.split("\t") if (gene == gene0 and cat == cat0) : out+= "<li> "+ text + " <a href=\"https://www.ncbi.nlm.nih.gov/pubmed/?term=" + pmid +"\" target=_new>PMID:"+pmid+"<br></a>" return render_template('sentences.html', sentences="<ol>"+out+"</ol><p>") +@app.route("/shownode") +def shownode(): + node=request.args.get('node') + allnodes={**brain_d, **drug_d, **function_d, **addiction_d} + out="<p>"+node.upper()+"<hr><li>"+ allnodes[node].replace("|", "<li>") + return render_template('sentences.html', sentences=out+"<p>") + + if __name__ == '__main__': app.run(debug=True) |