hotfix skipND

CHANGELOG.md

@@ -2,6 +2,9 @@
 
 Log of changes in the versions
 
+## v1.6.1
+- hotfix `skipND` when calling `dump_jsonld()`. Option was not passed correctly to underlying function.
+
 ## v1.6.0
 - `rootgroup` as alias for `rootparent`
 - `ZenodoRecord` has new property `env_name_for_token` to define the environment variable name to be used for the Zenodo token

CITATION.cff

@@ -11,7 +11,7 @@ authors:
     given-names: "Lucas"
     orcid: "https://orcid.org/0000-0002-4116-0065"
 title: "h5rdmtoolbox - HDF5 Research Data Management Toolbox"
-version: 1.6.0
+version: 1.6.1
 doi: 10.5281/zenodo.14473697
-date-released: 2024-14-12
+date-released: 2024-14-27
 url: "https://github.com/matthiasprobst/h5rdmtoolbox"

codemeta.json

@@ -4,7 +4,7 @@
     "license": "https://spdx.org/licenses/MIT",
     "codeRepository": "git+https://github.com/matthiasprobst/h5RDMtoolbox.git",
     "name": "h5RDMtoolbox",
-    "version": "1.6.0",
+    "version": "1.6.1",
     "description": "Supporting a FAIR Research Data lifecycle using Python and HDF5.",
     "applicationCategory": "Engineering",
     "programmingLanguage": [

docs/colab/quickstart.ipynb

@@ -8,7 +8,7 @@
    },
    "outputs": [],
    "source": [
-    "# !pip install h5rdmtoolbox==1.6.0"
+    "# !pip install h5rdmtoolbox==1.6.1"
    ]
   },
   {
@@ -19,7 +19,7 @@
     {
      "data": {
       "text/plain": [
-       "'1.5.3'"
+       "'1.6.1'"
       ]
      },
      "execution_count": 2,

h5rdmtoolbox/__init__.py

@@ -167,8 +167,15 @@ def dump_jsonld(hdf_filename: Union[str, pathlib.Path],
     if structural and not semantic:
         return jsonld.dump_file(hdf_filename, skipND=skipND)
     with File(hdf_filename) as h5:
-        return jsonld.dumps(h5, structural=structural, resolve_keys=resolve_keys, context=context,
-                            blank_node_iri_base=blank_node_iri_base, **kwargs)
+        return jsonld.dumps(
+            h5,
+            structural=structural,
+            resolve_keys=resolve_keys,
+            context=context,
+            blank_node_iri_base=blank_node_iri_base,
+            skipND=skipND,
+            **kwargs
+        )
 
 
 def get_filesize(hdf_filename: Union[str, pathlib.Path]) -> int:

h5rdmtoolbox/wrapper/jsonld.py

@@ -620,7 +620,6 @@ def _add_hdf_node(name, obj, ctx) -> Dict:
                         _context.update({ns_prefix: ns_iri})
                     _add_node(g, (file_node, RDF.type, rdflib.URIRef(_type)))
 
-
             # now go through all predicates
             for ak, av in obj.attrs.items():
                 attr_predicate = obj.frdf.predicate.get(ak, None)
@@ -933,7 +932,8 @@ def dumpd(grp,
           context: Dict = None,
           blank_node_iri_base: Optional[HttpUrl] = None,
           structural: bool = True,
-          resolve_keys: bool = False
+          resolve_keys: bool = False,
+          skipND: Optional[int] = None
           ) -> Union[List, Dict]:
     """If context is missing, return will be a List"""
     s = serialize(grp,
@@ -943,7 +943,8 @@ def dumpd(grp,
                   context=context,
                   blank_node_iri_base=blank_node_iri_base,
                   structural=structural,
-                  resolve_keys=resolve_keys)
+                  resolve_keys=resolve_keys,
+                  skipND=skipND)
     if context:
         for k, v in context.items():
             CONTEXT_PREFIXES_INV[v] = k
@@ -960,13 +961,15 @@ def dumpd(grp,
     return jsonld_dict
 
 
-def dumps(grp, iri_only=False,
+def dumps(grp,
+          iri_only=False,
           recursive: bool = True,
           compact: bool = True,
           context: Optional[Dict] = None,
           blank_node_iri_base: Optional[HttpUrl] = None,
           structural: bool = True,
           resolve_keys: bool = False,
+          skipND: Optional[int] = None,
           **kwargs) -> str:
     """Dump a group or a dataset to string."""
     return json.dumps(dumpd(
@@ -977,7 +980,8 @@ def dumps(grp, iri_only=False,
         context=context,
         blank_node_iri_base=blank_node_iri_base,
         structural=structural,
-        resolve_keys=resolve_keys),
+        resolve_keys=resolve_keys,
+        skipND=skipND),
         **kwargs
     )
 

requirements.txt

@@ -23,4 +23,4 @@ python-gitlab
 pypandoc>=1.11
 pydantic>=2.8.2
 # other:
-ontolutils >= 0.12.2
+ontolutils >= 0.12.4

setup.cfg

@@ -1,6 +1,6 @@
 [metadata]
 name = h5rdmtoolbox
-version = 1.6.0
+version = 1.6.1
 author = Matthias Probst
 author_email = matth.probst@gmail.com
 description = Supporting a FAIR Research Data lifecycle using Python and HDF5.
@@ -35,7 +35,7 @@ install_requires =
     pint_xarray >= 0.2.1
     regex>=2020.7.9
     packaging>=24.1
-    ontolutils>=0.12.2
+    ontolutils>=0.12.4
     python-forge==18.6.0
     requests>=2.32.3
     pydantic>=2.8.2