def get_read_transfer_config_file():
'''
Get the read transfer config file path.
'''
# assign the read transfer config file
read_transfer_config_file = '{0}/{1}'.format(xlib.get_config_dir(), 'read-transfer-config.txt')
# return the read transfer config file
return read_transfer_config_file
def get_gmap_config_file():
'''
Get the GMAP config file path.
'''
# assign the GMAP config file path
gmap_config_file = '{0}/{1}-config.txt'.format(xlib.get_config_dir(), xlib.get_gmap_code())
# return the GMAP config file path
return gmap_config_file
def get_result_transfer_config_file():
'''
Get the transfer config file path of the results of a run.
'''
# assign the result transfer config file
result_transfer_config_file = '{0}/{1}'.format(xlib.get_config_dir(), 'result-transfer-config.txt')
# return the result transfer config file
return result_transfer_config_file
def get_quast_config_file():
'''
Get the QUAST config file path.
'''
# assign the QUAST config file path
quast_config_file = '{0}/{1}-config.txt'.format(xlib.get_config_dir(), xlib.get_quast_code())
# return the QUAST config file path
return quast_config_file
def get_busco_config_file():
'''
Get the BUSCO config file path.
'''
# assign the BUSCO config file path
busco_config_file = '{0}/{1}-config.txt'.format(xlib.get_config_dir(), xlib.get_busco_code())
# return the BUSCO config file path
return busco_config_file
def get_gzip_config_file(dataset_type):
'''
Get the gzip config file path.
'''
# assign the gzip config file path
name = 'result' if dataset_type == 'whole-result' else dataset_type
gzip_config_file = '{0}/{1}-{2}-config.txt'.format(xlib.get_config_dir(), xlib.get_gzip_code(), name)
# return the gzip config file path
return gzip_config_file
def get_database_transfer_config_file():
'''
Get the database transfer config file path.
'''
# assign the database transfer config file
database_transfer_config_file = '{0}/{1}'.format(
xlib.get_config_dir(), 'database-transfer-config.txt')
# return the database transfer config file
return database_transfer_config_file
def get_fastqc_config_file():
'''
Get the FastQC config file path.
'''
# assign the FastQC config file path
fastqc_config_file = '{0}/{1}-config.txt'.format(xlib.get_config_dir(),
xlib.get_fastqc_code())
# return the FastQC config file path
return fastqc_config_file
def get_cd_hit_est_config_file():
'''
Get the CD-HIT-EST config file path.
'''
# assign the CD-HIT-EST config file path
cd_hit_est_config_file = '{0}/{1}-config.txt'.format(
xlib.get_config_dir(), xlib.get_cd_hit_est_code())
# return the CD-HIT-EST config file path
return cd_hit_est_config_file