def export():
"""Create export data file."""
from biomappings.resources import load_mappings, load_predictions, load_false_mappings
here = os.path.abspath(os.path.dirname(__file__))
path = os.path.join(here, os.pardir, os.pardir, 'docs', '_data', 'summary.yml')
true_mappings = load_mappings()
false_mappings = load_false_mappings()
rv = {
'positive': _get_counter(true_mappings),
'negative': _get_counter(false_mappings),
'predictions': _get_counter(load_predictions()),
'contributors': _get_contributors(itt.chain(true_mappings, false_mappings)),
}
rv.update({
f'{k}_mapping_count': sum(e['count'] for e in rv[k])
for k in ('positive', 'negative', 'predictions')
})
rv.update({
f'{k}_prefix_count': len(set(itt.chain.from_iterable((e['source'], e['target']) for e in rv[k])))
for k in ('positive', 'negative', 'predictions')
})
with open(path, 'w') as file:
yaml.safe_dump(rv, file, indent=2)
def export():
"""Create export data file."""
from biomappings.resources import load_mappings, load_predictions, load_false_mappings
from biomappings.utils import DATA
path = os.path.join(DATA, "summary.yml")
true_mappings = load_mappings()
false_mappings = load_false_mappings()
rv = {
"positive":
_get_counter(true_mappings),
"negative":
_get_counter(false_mappings),
"predictions":
_get_counter(load_predictions()),
"contributors":
_get_contributors(itt.chain(true_mappings, false_mappings)),
}
rv.update({
f"{k}_mapping_count": sum(e["count"] for e in rv[k])
for k in ("positive", "negative", "predictions")
})
rv.update({
f"{k}_prefix_count": len(
set(
itt.chain.from_iterable(
(e["source"], e["target"]) for e in rv[k])))
for k in ("positive", "negative", "predictions")
})
with open(path, "w") as file:
yaml.safe_dump(rv, file, indent=2)
def get_false_graph() -> nx.Graph:
"""Get a graph of the false mappings."""
return _graph_from_mappings(load_false_mappings())
def get_predictions_graph() -> nx.Graph:
"""Get a graph of the predicted mappings."""
return _graph_from_mappings(load_false_mappings())
def get_predictions_graph(include: Optional[Sequence[str]] = None,
exclude: Optional[Sequence[str]] = None) -> nx.Graph:
"""Get a graph of the predicted mappings."""
return _graph_from_mappings(load_false_mappings(),
include=include,
exclude=exclude)