added script to submit jobs

dynamut/dynamut_reading_muts.py

@@ -0,0 +1,36 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+"""
+Created on Wed Aug 19 14:33:51 2020
+
+@author: tanu
+"""
+
+
+#%% load packages
+import os,sys
+import subprocess
+import argparse
+import requests
+import re
+import time
+from bs4 import BeautifulSoup
+import pandas as pd
+import numpy as np
+from pandas.api.types import is_string_dtype
+from pandas.api.types import is_numeric_dtype
+#%%============================================================================
+# read mutation file
+
+all_muts = pd.read_csv("/home/tanu/git/Data/streptomycin/output/snp_batches/snps_batch_00", header=None)
+#https://gist.github.com/jrivero/1085501
+n = 20
+chunks = [all_muts[i:i+n] for i in range(0,all_muts.shape[0],n)]
+#%%
+
+muts_list = all_muts[0].values.tolist()
+
+host_dynamut = 'http://biosig.unimelb.edu.au/dynamut'
+mut_prediction = '/prediction'
+
+submit_url = host_dynamut + mut_prediction