def test_jsonld_is_json(capsys, csv_reader):
"""Test if jsonld output is in JSON."""
outputs.jsonld(csv_reader, None)
stdout, stderr = capsys.readouterr()
assert json.loads(stdout)
assert stderr == ""
def test_jsonld_text_limit_identifier(capsys, csv_reader):
"""Check if required string is in JSON output, limit 2, custom identifier."""
text = "205923-56-4"
n.COLUMNS['identifier'] = "CAS"
outputs.jsonld(csv_reader, 2)
stdout, stderr = capsys.readouterr()
assert stderr == ""
assert text in stdout
def test_multiple_values_jsonld(capsys, csv_reader):
"""Check if multiple values are supported in JSON-LD."""
text = '["Hirudin variant-1", "Lepirudin recombinant"]'
n.COLUMNS['alternateName'] = "Synonyms"
outputs.jsonld(csv_reader, 1)
stdout, stderr = capsys.readouterr()
assert stderr == ""
assert text in stdout
def test_jsonld_bnode(capsys, csv_reader):
"""Check if JSON-LD output have bnode for bdnode subject type."""
text = '_:b1'
n.COLUMNS['name'] = "Common name"
n.SUBJECT_BASE = '_:b'
outputs.jsonld(csv_reader)
stdout, stderr = capsys.readouterr()
assert stderr == ""
assert text in stdout
def test_jsonld_uuid(capsys, csv_reader):
"""Check if JSON-LD output have urn:uuid: for UUID subject type."""
text = '"urn:uuid:'
n.COLUMNS['alternateName'] = "Synonyms"
n.SUBJECT_BASE = False
outputs.jsonld(csv_reader)
stdout, stderr = capsys.readouterr()
assert stderr == ""
assert text in stdout
def test_jsonld_contains_required_strings(capsys, csv_reader):
"""Test if jsonld output contains required strings."""
# set column name
n.COLUMNS['name'] = "Common name"
# list of strings to check
strings = ['@id', '{', '}', ',', 'MolecularEntity', 'name']
outputs.jsonld(csv_reader, None)
stdout, stderr = capsys.readouterr()
assert all(s in stdout for s in strings)
assert stderr == ""
def test_jsonld_iri_no_id(capsys, csv_reader):
"""Check if JSON-LD output have IRI for IRI subject type without id."""
text = 'http://example.com/molecule0'
text2 = 'id="'
n.COLUMNS['identifier'] = "CAS"
n.SUBJECT_BASE = "http://example.com/molecule"
outputs.jsonld(csv_reader)
stdout, stderr = capsys.readouterr()
assert stderr == ""
assert text in stdout
assert text2 not in stdout