NekUpload.metadata package

class NekUpload.metadata.Identifier(id: str, id_type: IdentifierType)

Bases: object

Metadata object describing a persistent identifier associated with a person or organisation

classmethod from_json(data: dict[str, Any]) → Identifier

Deserialise json object to reconstruct object

Parameters:

• cls (Type[Identifier]) – Class

• data (dict[str,Any]) – JSON serialised object

Raises:

ValueError – _description_

Returns:

Reconstructed object

Return type:

Identifier

get_id() → str

Get the ID

Returns:

ID

Return type:

str

get_id_type() → IdentifierType

Get the id type

Returns:

Identifier type

Return type:

IdentifierType

to_json_serialisable() → dict[str, Any]

Method to serialise object as JSON

Returns:

JSON serialised object

Return type:

dict[str,Any]

class NekUpload.metadata.IdentifierType(*values)

Bases: Enum

Enum denoting persistent identifier types

GND = 'gnd'

ISNI = 'isni'

ORCID = 'orcid'

ROR = 'ror'

class NekUpload.metadata.InvenioMetadata(title: str, publication_date: str, creators: list[InvenioUserInfo], resource_type: ResourceType = ResourceType.DATASET)

Bases: object

Metadata model for handling metadata as prescribed in InvenioRDM. Uses a builder OOP style to allow clients to enhance the metadata description.

add_description(description: str) → None

Add a description of the record to be uploaded

Parameters:

description (str) – Description

add_geometry_domain(min_coord: tuple[int, int, int], max_coord: tuple[int, int, int])

Add domian of goemetyr

Parameters:

• min_coord (tuple[int,int,int]) – _description_

• max_coord (tuple[int,int,int]) – _description_

add_publisher(publisher: str = 'InvenioRDM') → None

Add publisher

Parameters:

publisher (str, optional) – Add publisher name. Defaults to “InvenioRDM”.

add_related_identifier(relation: Relations)

Add related persistent identifiers

Parameters:

relation (Relations) – A related identifier

add_reynolds_number(reynolds: float) → None

Add reynolds number of flow

Parameters:

reynolds (float) – _description_

add_solver_type(solver_type: str)

add_version(version: str) → None

Add the version number (of the software or dataset). Semantic versioning is recommended.

Parameters:

version (str) – Version number

classmethod from_json(data: dict[str, Any]) → InvenioMetadata

Reconstruct object from JSON serialisation

Parameters:

data (dict[str,Any]) – Serialised JSON data

Returns:

Reconstructed object

Return type:

InvenioMetadata

get_metadata_payload() → dict[str, Any]

Get the metadata payload formatted in way InvenioRDM expects

Returns:

Metadata json payload

Return type:

dict[str,Any]

print_ae_metadata_to_file(target_directory: str) → str

Print AE Datastore specific metadata to file

Parameters:

target_directory (str) – directory to store file

Returns:

Path to created file

Return type:

str

to_json_serialisable() → dict[str, Any]

Serialise the object as JSON

Returns:

Serialised json object

Return type:

dict[str,Any]

class NekUpload.metadata.InvenioOrgInfo(name: str)

Bases: InvenioUserInfo

Holds information about an organisation in the format expected from InvenioRDM. Effectively a model for the InvenioRDM Author as an Organisation field.

classmethod from_json(data: dict[str, Any]) → InvenioOrgInfo

Deserialise json serialisable object to reconstruct an object of this class.

Parameters:

data (Dict[str,Any]) – JSON serialisable object

Returns:

Reconstructed object

Return type:

InvenioOrgInfo

get_info() → dict[str, Any]

Return the json payload package, formatted in a way InvenioRDM API expects

Returns:

json payload package, formatted in a way InvenioRDM API expects

Return type:

Dict[str,Any]

to_json_serialisable()

Return a json serialisable object representing this class

Returns:

JSON serialisable object

Return type:

Dict[str,Any]

class NekUpload.metadata.InvenioPersonInfo(given_name: str, family_name: str)

Bases: InvenioUserInfo

Holds information about a person in the format expected from InvenioRDM. Effectively a model for the InvenioRDM Author as a Person field.

classmethod from_json(data: dict[str, Any]) → InvenioPersonInfo

Deserialise json serialisable object to reconstruct an object of this class.

Parameters:

data (Dict[str,Any]) – JSON serialisable object

Returns:

Reconstructed object

Return type:

InvenioPersonInfo

get_info() → dict[str, Any]

Return the json payload package, formatted in a way InvenioRDM API expects

Returns:

json payload package, formatted in a way InvenioRDM API expects

Return type:

Dict[str,Any]

to_json_serialisable() → dict[str, Any]

Return a json serialisable object representing this class

Returns:

JSON serialisable object

Return type:

Dict[str,Any]

class NekUpload.metadata.InvenioUserInfo

Bases: ABC

Base abstract class describing information about a user

add_identifier(identifier: Identifier) → None

Add a persistent identifier related to the user

Parameters:

identifier (Identifier) – Object describing a unique identifier

Raises:

ValueError – _description_

abstractmethod classmethod from_json(data: dict[str, Any]) → InvenioUserInfo

Deserialise json serialisable object to reconstruct an object of this class. Factory method.

Parameters:

data (Dict[str,Any]) – JSON serialisable object

Returns:

Object

Return type:

InvenioUserInfo

abstractmethod get_info() → dict[str, Any]

Return the json payload package

Returns:

JSON representation of the information, formatted for an API call

Return type:

Dict[str,Any]

abstractmethod to_json_serialisable() → dict[str, Any]

Return a json serialisable object representing this class

Returns:

JSON serialisable object

Return type:

Dict[str,Any]

class NekUpload.metadata.InvenioUserInfoFactory

Bases: object

classmethod create_from_json(json_data: dict[str, Any]) → InvenioUserInfo

Create suitable object from json. Note that to figure out which object to create, “type” is used as unique identifier

Parameters:

json_data (dict[str,Any]) – JSON serialised data

Raises:

ValueError – _description_

Returns:

An object of this class or subclass

Return type:

InvenioUserInfo

class NekUpload.metadata.RelationType(*values)

Bases: Enum

CONTINUES = 'continues'

class NekUpload.metadata.Relations(id: str, scheme: RelationsSchemes, relation: RelationType, resource: ResourceType)

Bases: object

Metadata model for handling the Relations field in InvenioRDM. Describes any links between records with each other and/or external resources

classmethod from_json(data: dict[str, Any]) → Relations

to_json()

class NekUpload.metadata.RelationsSchemes(*values)

Bases: Enum

DOI = 'doi'

URL = 'url'

class NekUpload.metadata.ResourceType(*values)

Bases: Enum

DATASET = 'dataset'

MODEL = 'model'

PHYSICAL_OBJECT = 'physicalobject'

Submodules

• NekUpload.metadata.data_types module
  • RelationType
    • RelationType.CONTINUES
  • RelationsSchemes
    • RelationsSchemes.DOI
    • RelationsSchemes.URL
  • ResourceType
    • ResourceType.DATASET
    • ResourceType.MODEL
    • ResourceType.PHYSICAL_OBJECT
• NekUpload.metadata.extractor module
  • HDF5Extractor
    • HDF5Extractor.extract_attribute()
    • HDF5Extractor.extract_min_max_coords()
  • NekAutoExtractData
    • NekAutoExtractData.gitsha
    • NekAutoExtractData.max_coord
    • NekAutoExtractData.min_coord
    • NekAutoExtractData.nektar_version
    • NekAutoExtractData.reynolds
  • NekAutoExtractor
    • NekAutoExtractor.extract_data()
    • NekAutoExtractor.extract_data_old()
• NekUpload.metadata.identifier module
  • Identifier
    • Identifier.from_json()
    • Identifier.get_id()
    • Identifier.get_id_type()
    • Identifier.to_json_serialisable()
  • IdentifierType
    • IdentifierType.GND
    • IdentifierType.ISNI
    • IdentifierType.ORCID
    • IdentifierType.ROR
• NekUpload.metadata.metadata module
  • InvenioMetadata
    • InvenioMetadata.add_description()
    • InvenioMetadata.add_geometry_domain()
    • InvenioMetadata.add_publisher()
    • InvenioMetadata.add_related_identifier()
    • InvenioMetadata.add_reynolds_number()
    • InvenioMetadata.add_solver_type()
    • InvenioMetadata.add_version()
    • InvenioMetadata.from_json()
    • InvenioMetadata.get_metadata_payload()
    • InvenioMetadata.print_ae_metadata_to_file()
    • InvenioMetadata.to_json_serialisable()
• NekUpload.metadata.relations module
  • Relations
    • Relations.from_json()
    • Relations.to_json()
• NekUpload.metadata.user module
  • InvenioOrgInfo
    • InvenioOrgInfo.from_json()
    • InvenioOrgInfo.get_info()
    • InvenioOrgInfo.to_json_serialisable()
  • InvenioPersonInfo
    • InvenioPersonInfo.from_json()
    • InvenioPersonInfo.get_info()
    • InvenioPersonInfo.to_json_serialisable()
  • InvenioUserInfo
    • InvenioUserInfo.add_identifier()
    • InvenioUserInfo.from_json()
    • InvenioUserInfo.get_info()
    • InvenioUserInfo.to_json_serialisable()
  • InvenioUserInfoFactory
    • InvenioUserInfoFactory.create_from_json()