Fix script modes, shebang lines

README.md

@@ -53,7 +53,7 @@ See [`paper/paper_commands.sh`](https://github.com/raphael-group/hotnet2/blob/ma
 
 After generating a heat file and the network files using the scripts above, use the `HotNet2.py` script to run HotNet2. The minimum arguments required for `HotNet2.py` are as follows:
 
-    python HotNet2.py -nf <network_file> -pnp <permuted_networks_path> -hf <heat_file> -o <output_directory>
+    ./HotNet2.py -nf <network_file> -pnp <permuted_networks_path> -hf <heat_file> -o <output_directory>
 
 See [`paper/paper_commands.sh`](https://github.com/raphael-group/hotnet2/blob/master/paper/paper_commands.sh) for an example of using the `HotNet2.py` scripts with outputs of the `makeHeatFile.py` and `makeNetworkFiles.py` scripts.
 

makeHeatFile.py

@@ -1,3 +1,5 @@
+#!/usr/bin/env python
+
 import argparse
 import json
 import sys

makeNetworkFiles.py

@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 # Load required modules
 import os, sys, multiprocessing as mp

scripts/createDendrogram.py

@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 # Load the required modules
 import sys, os, json, pickle, os.path, scipy.io

scripts/createInfluenceMatrix.py

@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 # Load required modules
 import sys, os, numpy as np, networkx as nx, scipy as sp, scipy.io

scripts/permuteNetwork.py

@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 # Load required modules
 import sys, os, networkx as nx, multiprocessing as mp