Set up appropiate setup.py

[JFsanchezherrero]

Along the process and before pip release setup file setup.py appropiately.

Also, check how to add several authors:

BacDup/code/setup.py

Lines 13 to 14 in a2a23a6

	## TODO: check add several authors
	author="Jose F. Sanchez-Herrero and Alba Moya Garces",

Add python packages directly from requirements.txt file and avoid setting the code in setup.py:

BacDup/code/setup.py

Lines 32 to 40 in a2a23a6

	## TODO: check
	install_requires=[
	'pandas', 'patool', 'termcolor',
	#'pysam', 'pybedtools', 'multiqc',
	'bcbio-gff',
	'biopython', 'HCGB',
	'ftputil', 'numpy', 'python-dateutil', 'pytz', 'six', 'wget'
	],
	)

Set VERSION to be retrieved from VERSION file

BacDup/code/setup.py

Line 10 in a2a23a6

version="0.1",

[JFsanchezherrero]

Check examples on how to add VERSION and requierements in BacterialTyper setup.py

def get_require_modules():
    """
    Get main python requirements modules
    """
    with open("./BacterialTyper/config/python/python_requirements_summary.csv", 'r') as f:
        myModules = [line.strip().split(',')[0] for line in f]
    
    return myModules

def get_version():
    """
    Original code: PhiSpy setup.py 
    https://github.com/linsalrob/PhiSpy/blob/master/setup.py
    """
    with open("VERSION", 'r') as f:
        v = f.readline().strip()
    return v

Then in setup()

setup(
    version=get_version(),
    install_requires=get_require_modules()
    ....
)