def convert_to_annotation(file, output):
"""Convert a namespace file to an annotation file."""
resource = parse_bel_resource(file)
write_annotation(
keyword=resource['Namespace']['Keyword'],
values={k: ''
for k in resource['Values']},
citation_name=resource['Citation']['NameString'],
description=resource['Namespace']['DescriptionString'],
file=output,
)
def write_annotation(self, file: Optional[TextIO] = None) -> None:
"""Serialize this ontology as a BEL annotation."""
write_annotation(
keyword=self.preferred_prefix,
values={x: '' for x in self._get_values()},
citation_name=self.title,
description=self.description,
version=self.version,
author_name='Charles Tapley Hoyt',
author_contact='*****@*****.**',
author_copyright='Creative Commons by 4.0',
file=file
)
def write_bel_annotation(self, file: TextIO) -> None:
"""Write as a BEL annotation file."""
if not self.is_populated():
self.populate()
values = self._get_namespace_name_to_encoding(desc='writing names')
write_annotation(
keyword=self._get_namespace_keyword(),
citation_name=self._get_namespace_name(),
description='',
values=values,
file=file,
)