36 lines
965 B
Python
Executable file
36 lines
965 B
Python
Executable file
#!/usr/bin/python3
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# Initialise a blank 'Data' directory and drug subdirs etc.
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# TODO:
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# - Read base dir from config file
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# - Create eg: '~/git/Data/{original,processed}
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# - Create eg: '~/git/Data/processed/' + drug (for each drug)
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# - Create eg: '~/git/Data/output/' + drug + '{plots, structure}'
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#%% specify homedir as python doesn't recognise tilde
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homedir = os.path.expanduser('~')
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#%% variable assignment: input and output paths & filenames
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drug = 'pyrazinamide'
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gene = 'pncA'
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gene_match = gene + '_p.'
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#==========
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# data dir
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#==========
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#indir = 'git/Data/pyrazinamide/input/original'
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datadir = homedir + '/' + 'git/Data'
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#==========
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# input dir
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#==========
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indir = datadir + '/' + drug + '/' + 'input'
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#============
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# output dir
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#============
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# several output files
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outdir = datadir + '/' + drug + '/' + 'output'
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#%%end of variable assignment for input and output files
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#==============================================================================
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