From 26bafcff7ab0a5ebbc33a67d7d479f94c9e2cf12 Mon Sep 17 00:00:00 2001 From: muddymudskipper Date: Tue, 25 Jun 2024 09:40:58 +0100 Subject: [PATCH] update dependencies --- cmem_plugin_robotreason/plugin_robotreason.py | 14 +- poetry.lock | 132 +++++++++--------- 2 files changed, 77 insertions(+), 69 deletions(-) diff --git a/cmem_plugin_robotreason/plugin_robotreason.py b/cmem_plugin_robotreason/plugin_robotreason.py index 3a11af4..5b17d53 100644 --- a/cmem_plugin_robotreason/plugin_robotreason.py +++ b/cmem_plugin_robotreason/plugin_robotreason.py @@ -253,6 +253,11 @@ def __init__( # noqa: PLR0913 self.object_property_range = object_property_range self.object_property_domain = object_property_domain + if result_iri == data_graph_iri: + raise ValueError("Result graph IRI cannot be the same as the data graph IRI.") + if result_iri == ontology_graph_iri: + raise ValueError("Result graph IRI cannot be the same as the ontology graph IRI.") + def create_xml_catalog_file(self, graphs: dict) -> None: """Create XML catalog file""" file_name = Path(self.temp) / "catalog-v001.xml" @@ -320,10 +325,12 @@ def set_axioms(self) -> str: def reason(self, graphs: dict) -> None: """Reason""" - inputs = f'--input "{self.temp}/{graphs[self.data_graph_iri]}"' + data_location = f"{self.temp}/{graphs[self.data_graph_iri]}" + vocab_location = f"{self.temp}/{graphs[self.ontology_graph_iri]}" utctime = str(datetime.fromtimestamp(int(time()), tz=UTC))[:-6].replace(" ", "T") + "Z" cmd = ( - f"java -jar {ROBOT} merge {inputs} --collapse-import-closure false " + f'java -jar {ROBOT} merge --input "{data_location}" ' + "--collapse-import-closure false " f"reason --reasoner {self.reasoner} " f'--axiom-generators "{self.set_axioms()}" ' f"--include-indirect true " @@ -332,7 +339,7 @@ def reason(self, graphs: dict) -> None: f"--exclude-tautologies all " f"--exclude-external-entities " f"reduce --reasoner {self.reasoner} " - f"unmerge {inputs} " + f'unmerge --input "{data_location}" --input "{vocab_location}" ' f'annotate --ontology-iri "{self.result_iri}" ' f"--remove-annotations " f'--language-annotation rdfs:label "Eccenca Reasoning Result {utctime}" en ' @@ -347,6 +354,7 @@ def reason(self, graphs: dict) -> None: f'--typed-annotation dc:created "{utctime}" xsd:dateTime ' f'--output "{self.temp}/result.ttl"' ) + run(shlex.split(cmd), check=False) # noqa: S603 def send_result(self) -> None: diff --git a/poetry.lock b/poetry.lock index 2467081..6f25017 100644 --- a/poetry.lock +++ b/poetry.lock @@ -485,48 +485,48 @@ files = [ [[package]] name = "memray" -version = "1.13.0" +version = "1.13.1" description = "A memory profiler for Python applications" optional = false python-versions = ">=3.7.0" files = [ - {file = "memray-1.13.0-cp310-cp310-macosx_10_14_x86_64.whl", hash = "sha256:49846666a01cf73425fef58a0830515398f5ce5e1425ac4aaf207adf08141ff4"}, - {file = "memray-1.13.0-cp310-cp310-macosx_11_0_arm64.whl", hash = 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