diff rest_tool_assay_by_activity_or_target.py @ 6:9ee84d9fd3a7 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rest_tool_assay_by_activity_or_target.py	Thu Apr 03 06:50:57 2014 -0400
@@ -0,0 +1,36 @@
+#!/usr/bin/env python
+
+import sys, os
+import argparse
+import readfile
+
+def main(args):
+    #search for acitivity or target
+    url="http://pubchem.ncbi.nlm.nih.gov/rest/pug/assay/"
+    if args.activity is None:
+        #target
+        url+="target/"+args.targettype+"/"+args.targetid
+    else:
+        url+="activity/"+args.activity
+    url+="/aids/txt"
+    data=readfile.getresult(url)
+    args.outfile.write(data)
+    args.outfile.close()
+    
+    
+if __name__ == "__main__":
+    parser = argparse.ArgumentParser()
+    parser.add_argument('--activity', type=str,
+        help="Activities you are looking for")
+    parser.add_argument('--target-type', dest="target_type", type=str,
+        help="The target identifier type")
+    parser.add_argument('--target-id', dest="target_id", type=str,
+        help="The specific target")
+    parser.add_argument('--outfile', type=argparse.FileType('w'), required=True,
+        help="Specify output file")
+    if len(sys.argv) < 2:
+        print "Too few arguments..."
+        parser.print_help()
+        exit(1)
+    args = parser.parse_args()
+    main( args )