def main(args):
url="http://pubchem.ncbi.nlm.nih.gov/rest/pug/"+args.type+"/"
if args.type == "assay":
url+="aid/"
elif args.type == "compound":
url+="cid/"
elif args.type == "substance":
url+="sid/"
if args.id_file is None:
idstring=str(args.id)
else:
idlist=readfile.getListFromFile(args.id_file)
idstring=",".join(idlist)
url+=idstring+"/"+args.operation+"/"
if args.operation == "property":
url+=args.property_value+"/"
if args.operation in csv_output:
url+="csv"
elif args.operation in txt_output:
url+="txt"
else:
url+="xml"
if args.operation in check_for_id_type and not args.id_type is None:
url+="?"+args.operation+"_type="+args.id_type
print('The constructed REST URL is: %s' % url)
data=readfile.getresult(url)
outfile=args.outfile
outfile.write(data)
outfile.close()
def main(args):
url = "http://pubchem.ncbi.nlm.nih.gov/rest/pug/" + args.type + "/"
if args.type == "assay":
url += "aid/"
elif args.type == "compound":
url += "cid/"
elif args.type == "substance":
url += "sid/"
if args.id_file is None:
idstring = str(args.id)
else:
idlist = readfile.getListFromFile(args.id_file)
idstring = ",".join(idlist)
url += idstring + "/" + args.operation + "/"
if args.operation == "property":
url += args.property_value + "/"
if args.operation in csv_output:
url += "csv"
elif args.operation in txt_output:
url += "txt"
else:
url += "xml"
if args.operation in check_for_id_type and not args.id_type is None:
url += "?" + args.operation + "_type=" + args.id_type
print(url)
data = readfile.getresult(url)
outfile = args.outfile
outfile.write(data)
outfile.close()
def main(args):
if args.aid_file is None:
aidlist = args.aid.split(",")
else:
aidlist = readfile.getListFromFile(args.aid_file)
aidliststring = ",".join(aidlist)
url = "http://pubchem.ncbi.nlm.nih.gov/rest/pug/assay/aid/" + aidliststring + "/cids/xml"
print('The constructed REST URL is: %s' % url)
dic = rest_tool_functions.get_dict_key_value(url, "AID", "CID")
rest_tool_functions.write_to_sf(dic, args.outfile, "\t")
def main(args):
if args.aid_file is None:
aidlist = args.aid.split(",")
else:
aidlist = readfile.getListFromFile(args.aid_file)
aidliststring = ",".join(aidlist)
url = "http://pubchem.ncbi.nlm.nih.gov/rest/pug/assay/aid/"+aidliststring+"/cids/xml"
print('The constructed REST URL is: %s' % url)
dic = rest_tool_functions.get_dict_key_value(url, "AID", "CID")
rest_tool_functions.write_to_sf(dic, args.outfile, "\t")
