49 lines
1.6 KiB
Python
Executable file
49 lines
1.6 KiB
Python
Executable file
#!/usr/bin/env python3
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# -*- coding: utf-8 -*-
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"""
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Created on Wed Aug 19 14:33:51 2020
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@author: tanu
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"""
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#%% load packages
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import os
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homedir = os.path.expanduser('~')
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os.chdir (homedir + '/git/LSHTM_analysis/dynamut')
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from get_results_dynamut import *
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########################################################################
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# variables
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my_host = 'http://biosig.unimelb.edu.au'
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# Needed if things try to block the 'requests' user agent
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#headers = {"User-Agent":"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_15_4) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/83.0.4103.97 Safari/537.36"}
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# TODO: add cmd line args
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#gene = 'gid'
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drug = 'streptomycin'
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datadir = homedir + '/git/Data/'
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indir = datadir + drug + '/input/'
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outdir = datadir + drug + '/output/'
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outdir_dynamut_temp = datadir + drug + '/output/dynamut_results/dynamut_temp/'
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#==============================================================================
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# batch 8: 08.txt, # RETRIEVED 23 Feb 08:54
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#my_url_file = outdir + '/dynamut_temp/dynamut_result_url_gid_b8.txt'
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#my_suffix = 'gid_b7'
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#b09 and b10 failed!
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# batch 9: 09.txt,
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my_url_file = outdir_dynamut_temp + 'dynamut_result_url_gid_b10_ab.txt'
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my_suffix = 'gid_b10_ab'
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#==============================================================================
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#==========================
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# CALL: get_results()
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# Data: gid+streptomycin
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#==========================
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print(my_url_file, 'suffix:', my_suffix)
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get_results(url_file = my_url_file
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, host_url = my_host
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, output_dir = outdir
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, outfile_suffix = my_suffix)
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########################################################################
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