diff --git a/scripts/makePGDNet.py b/scripts/makePGDNet.py index 7ff82d6..48d7dd7 100755 --- a/scripts/makePGDNet.py +++ b/scripts/makePGDNet.py @@ -11,9 +11,9 @@ """ def main(): #Parse Arguments - parser = argparse.ArgumentParser(description="This script converts a sif or edgelist network file into a format interpretable by the pgd library. Released under the MIT license") - parser.add_argument("networkFile", help="Network sif or edgelist network file to be converted to a format interpretable by pgd. Must be in format readable by networkx.read_edgelist") - parser.add_argument("--delim", help="Node delimiter in network file to be passed to the \"delimiter\" argument in networkx.read_edgelist. Default is none.", default="") + parser = argparse.ArgumentParser(description="This script converts a sif or edgelist network file into a format interpretable by the pgd library. The network will be converted to be undirected and have sequential integer node names. Released under the MIT license") + parser.add_argument("networkFile", help="Network sif or edgelist network file to be converted to a format interpretable by pgd. Must be in format readable by networkx.read_edgelist and have at least 4 nodes.") + parser.add_argument("--delim", help="Node delimiter in network file to be passed to the \"delimiter\" argument in networkx.read_edgelist. Default is none, which will use the default whitespace delimeter in networkx.read_edgelist.", default="") parser.add_argument("--outFile", help="File to store formatted network in. Default is to store the network as NETWORKFILE in a new directory named graphlets.", default="") args = parser.parse_args() networkFile = args.networkFile @@ -34,7 +34,7 @@ def main(): pathway = nx.read_edgelist(networkFile.strip(), delimiter=delim) pathway = pathway.to_undirected() if len(pathway) < 4: - print(networkFile, "too short at ",len(pathway)) + print(networkFile, "too short at ",len(pathway),". Network must contain at least 4 nodes.") return #Write Output