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metadata-schema changelog

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

Unreleased -

[0.11.0] - 2024-03-08

Added

  • License notice to all the files.
  • Acknowledgement to funding and contributors in readme file.

Changed

  • Merged ReferenceableType and ObjectType.
  • Changed the name of ReferenceObjectType to ReferenceType.
  • Added abstract="true" to FileBaseType and ObjectType.

Fixed

  • Removed <xs:choice> from CodeAttributesType.
  • Fixed and improved type annotations.

0.10.0 - 2024-02-06

Changed

  • Changed the name of BPObjectType to ObjectType, BPRefObjectType to ReferenceObjectType, and BPSampleSetType to SampleSetType.

  • The single element BPDATASET in BP.dataset.xsd is renamed to DATASET to be consistent with the DATASET_SET element.

0.9.0 - 2024-01-05

Changed

  • BPObjectType is no longer and extension of SRA ObjectType.
  • Changed alias to be a required attribute for BPObjectType.
  • References to other BpObjectType now through BPRefObjectType with required attribute alias, replacing the SRA RefObjectType with optional attribute refname.
  • StudyRef for ImageType, AnnotationType, and ObervationType is now optional and with maxOccurs=1.
  • AnnotationType can now only have one IMAGE_REF.

0.8.0 - 2023-11-14

Changed

  • Added _REF to the name of all RefObjectType elements and simplified type definition.
  • Removed nesting observed on element in ObservationType.

0.7.0 - 2023-11-09

Changed

  • Changed max occurs of "CREATED_FROM" in SlideType to 1.
  • Split observer definition from observation file to BP.observer.xsd.
  • Renamed BPAttributesType to AttributesType and the contained ATTRIBUTE element to STRING_ATTRIBUTE, the CODED_ATTRIBUTE to CODE_ATTRIBUTE, and the ATTRIBUTE_SET element to SET_ATTRIBUTE.
  • Renamed CodedAttributeType to CodeAttributeType and BPCodedAttributesType to CodeAttributesType.
  • Renamed AttributeSetType to SetAttributeType and moved the contained attribute sequence to a VALUE-element of AttributesType that is nillable.
  • Normalized names for attributes in StatementType.
  • Normalized name for set of datasets to DATASET_SET and element names to DATASET.

0.6.0 - 2023-07-07

Added

  • MeasurementAttributeType for measurements with numeric value and a unit.

Changed

  • NumericAttributeType can no longer have a unit.
  • Renamed CODE in CodedAttributeType to VALUE.

0.5.0 - 2023-06-30

Added

  • OBSERVER_TYPE for OBSERVER

Fixed

  • Min occurs for OBSERVER for ObservationType set to 0 .
  • Max occurs for FILES for ImageType set to 1.

0.4.0 - 2023-06-30

Changed

  • Checksum required for FileBaseType.
  • ImageType now must contain at least one FILES-element.
  • String, Numeric, and Coded AttributeType are now nillable. This is likely a breaking change, especially the changes to CodedAttributeType.
  • The ATTRIBUTES-element for BPObjectType and CODED_ATTRIBUTES_SET, CUSTOM_ATTRIBUTES_SET, FREETEXT, and ATTRIBUTES elements for StatementType and OBSERVER-element on ObservationType now haw a minOccours of 1 and are nillable.

Removed

  • Support for MD5 checksums.

0.3.0 - 2023-01-16

Added

  • BP.submission.xsd derived from SRA.submission.xsd with added BP types.

Changed

  • CaseType is now included in SAMPLE_SET
  • SpecimenType can optionally reference a case with the PART_OF_CASE-element, replacing the RELATED_SPECIMENS-element on CaseType.
  • For ObservationType the item an observation is made on is moved to the OBSERVED_ON-element.
  • Replaced StatementCodedAttributeSetType and StatementCustomAttributeSetType with common types BPCodedAttributesType and BPAttributesType.
  • Replaced Stain with Staining that can contain staining procedure information or stains

0.2.0 - 2022-09-02

Added

  • StainType to describe stains separately from Slide-object.
  • CaseType that can reference BiologicalBeings and Specimens.
  • ObservationType to describe diagnoses, findings, etc on samples.

0.1.1 - 2022-06-02

Changed

  • BP.dataset no longer extends EGA.dataset.

0.1.0 - 2022-06-01

Added

  • Implementation of MSMdad 0.1.0.