rename_params Namespace Reference

Variables
list	char_set
string	usage = "%prog -d path/to/database params_directory"
tuple	parser = OptionParser(usage)
list	param_dir = args[0]
tuple	ligand_names = itertools.product(char_set,repeat=3)
tuple	disallowed_ligands = get_disallowed_ligands(options.database)
tuple	exclude_list = open(options.excluded,'r')
tuple	line = line.rstrip()
string	pdb_path_template = "%(subdir)s/%(param)s.pdb"
string	conformer_path_template = "%(subdir)s/%(param)s_conformers.pdb"
tuple	ligand_name = ligand_names.next()
tuple	params_path = glob.glob(subdir+"/*.params")
tuple	param_name = params_path.split("/")
dictionary	pdb_path = pdb_path_template%{"subdir" : subdir, "param" : param_name}
dictionary	conformer_path = conformer_path_template%{"subdir" : subdir, "param" : param_name}
dictionary	new_pdb_path = pdb_path_template%{"subdir" : subdir, "param" : ligand_name}
dictionary	new_conformer_path = conformer_path_template%{"subdir" : subdir, "param" : ligand_name}
string	new_params_path = subdir+"/"

Variable Documentation

list rename_params.char_set

Initial value:

= ['0','1','2','3','4','5',
                '6','7','8','9','A','B',
                'C','D','E','F','G','H',
                'I','J','K','L','M','N',
                'O','P','Q','R','S','T',
                'U','V','W','X','Y','Z']

dictionary rename_params.conformer_path = conformer_path_template%{"subdir" : subdir, "param" : param_name}

string rename_params.conformer_path_template = "%(subdir)s/%(param)s_conformers.pdb"

tuple rename_params.disallowed_ligands = get_disallowed_ligands(options.database)

tuple rename_params.exclude_list = open(options.excluded,'r')

string rename_params.ligand_name = ligand_names.next()

tuple rename_params.ligand_names = itertools.product(char_set,repeat=3)

tuple rename_params.line = line.rstrip()

dictionary rename_params.new_conformer_path = conformer_path_template%{"subdir" : subdir, "param" : ligand_name}

string rename_params.new_params_path = subdir+"/"

dictionary rename_params.new_pdb_path = pdb_path_template%{"subdir" : subdir, "param" : ligand_name}

list rename_params.param_dir = args[0]

tuple rename_params.param_name = params_path.split("/")

tuple rename_params.params_path = glob.glob(subdir+"/*.params")

tuple rename_params.parser = OptionParser(usage)

dictionary rename_params.pdb_path = pdb_path_template%{"subdir" : subdir, "param" : param_name}

string rename_params.pdb_path_template = "%(subdir)s/%(param)s.pdb"

string rename_params.usage = "%prog -d path/to/database params_directory"