def validate(self):
"""Should be called before processing"""
# Just path validation for now.
util.check_folder_exists(self.base_path)
self.alignment_path = os.path.join(self.base_path, self.alignment)
log.info("Looking for alignment file '%s'...", self.alignment_path)
util.check_file_exists(self.alignment_path)
if self.user_tree is None:
self.user_tree_topology_path = None
else:
self.user_tree_topology_path = os.path.join(self.base_path, self.user_tree)
log.info("Looking for tree file '%s'...", self.user_tree_topology_path)
util.check_file_exists(self.user_tree_topology_path)
def validate(self):
"""Should be called before processing"""
# Just path validation for now.
util.check_folder_exists(self.base_path)
self.alignment_path = os.path.join(self.base_path, self.alignment)
log.info("Looking for alignment file '%s'...", self.alignment_path)
util.check_file_exists(self.alignment_path)
if self.user_tree is None:
self.user_tree_topology_path = None
else:
self.user_tree_topology_path = \
os.path.join(self.base_path, self.user_tree)
log.info("Looking for tree file '{}'...".format(
self.user_tree_topology_path))
util.check_file_exists(self.user_tree_topology_path)
def find_config_file(self, pth):
"""Try and get the base folder and config file from the path"""
if os.path.isfile(pth):
# Is it a config file
pth, ext = os.path.splitext(pth)
folder, filename = os.path.split(pth)
filename += ext
if ext == ".cfg":
return folder, filename
# We still need a filename
else:
folder = pth
util.check_folder_exists(folder)
# Now let's find the filename. Just return the first hit.
for filename in os.listdir(folder):
if fnmatch.fnmatch(filename, "*.cfg"):
return folder, filename
log.error("Cannot find a configuration file in " "working folder '%s'", folder)
raise ConfigurationError
def find_config_file(self, pth):
"""Try and get the base folder and config file from the path"""
if os.path.isfile(pth):
# Is it a config file
pth, ext = os.path.splitext(pth)
folder, filename = os.path.split(pth)
filename += ext
if ext == '.cfg':
return folder, filename
# We still need a filename
else:
folder = pth
util.check_folder_exists(folder)
# Now let's find the filename. Just return the first hit.
for filename in os.listdir(folder):
if fnmatch.fnmatch(filename, '*.cfg'):
return folder, filename
log.error("Cannot find a configuration file in "
"working folder '%s'", folder)
raise ConfigurationError