def test_ttl_simple(self):
# this fails when
# test_integration.py is run
# AND
# test_roundtrip_py is run
# but NOT when either is run independently
from neurondm import Config, Neuron, Phenotype, NegPhenotype
config = Config('test-ttl', ttl_export_dir=tel, py_export_dir=pyel)
Neuron(Phenotype('TEMP:turtle-phenotype'))
Neuron(NegPhenotype('TEMP:turtle-phenotype'))
config.write()
a = config.neurons()
config2 = Config('test-ttl', ttl_export_dir=tel, py_export_dir=pyel)
config2.load_existing()
config2.write_python()
b = config2.neurons()
config3 = Config('test-ttl', ttl_export_dir=tel, py_export_dir=pyel)
config3.load_python()
c = config3.neurons()
print(a, b, c)
assert config.existing_pes is not config2.existing_pes is not config3.existing_pes
assert a == b == c
def main():
from pyontutils.utils import relative_path
config = Config('keast-2020',
source_file=relative_path(__file__, no_wd_value=__file__))
with Keast2020:
needs_keast_namespace()
config.write()
config.write_python()
return config
def test_py_simple(self):
from neurondm import Config, Neuron, Phenotype, NegPhenotype
config = Config('test-py', ttl_export_dir=tel, py_export_dir=pyel)
n1 = Neuron(Phenotype('TEMP:python-phenotype'))
n2 = Neuron(NegPhenotype('TEMP:python-phenotype'))
assert n1 != n2
config.write_python()
config2 = Config('test-py', ttl_export_dir=tel, py_export_dir=pyel)
config2.load_python() # FIXME load existing python ...
config2.write()
config3 = Config('test-py', ttl_export_dir=tel, py_export_dir=pyel)
config3.load_existing()
assert config.existing_pes is not config2.existing_pes is not config3.existing_pes
assert config.neurons() == config2.neurons() == config3.neurons()
def main():
from pyontutils.utils import relative_path
config = Config('keast-2020',
source_file=relative_path(__file__, no_wd_value=__file__))
with Keast2020:
needs_keast_namespace(config)
config.write()
labels = (
rdfs.label,
#ilxtr.genLabel, ilxtr.localLabel, ilxtr.simpleLabel,
#ilxtr.simpleLocalLabel, skos.prefLabel
)
to_remove = [t for t in config._written_graph
if t[1] in labels and '/neuron-type-keast-' in t[0]]
[config._written_graph.remove(t) for t in to_remove]
config._written_graph.write()
config.write_python()
return config,