Adjust LinkML schema#5
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Pull Request Overview
This PR introduces a meta-module schema and updates example metadata templates for REMBI and ISA by integrating the new module schema and reformatting annotations and slot definitions.
- Adds a new module_schema.yaml defining the core structure for bioimage metadata modules.
- Updates REMBI and ISA metadata templates to import and utilize the new module schema with adjusted slot values and standardized annotations.
- Provides a corresponding JSON schema for REMBI and a detailed YAML schema for ISA high-content screening assays.
Reviewed Changes
Copilot reviewed 5 out of 5 changed files in this pull request and generated 2 comments.
| File | Description |
|---|---|
| module_schema.yaml | Adds a new meta-module schema for structuring module-level metadata. |
| REMBI-BioSample/REMBI_Biosample_LightMicroscopy_CStrambio-JLacoste_v1-2-0.yaml | Updates the REMBI Biosample template to import the module schema and adjusts annotation values. |
| REMBI-BioSample/REMBI_Biosample_LightMicroscopy_CStrambio-JLacoste_v1-2-0.json | Provides a JSON representation of the REMBI Biosample metadata schema. |
| ISA-Assay/ISA_Assay_High-contentScreening_KatyWolstencroft_v1.0.0.yaml | Updates the ISA Assay template with detailed slot definitions and annotations in accordance with the new module schema. |
| the characteristics of a Biosample used for Light Microscopy observation | ||
| module_template_version: v1.2.0 | ||
| module_scope: Light Microscopy | ||
| module_scope_term_accession: edam:topic_3385 |
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The 'module_scope_term_accession' field is defined with a range of type 'uri' in the module schema, so providing a CURIE (e.g. 'edam:topic_3385') may lead to type inconsistencies. Consider using the full URI (e.g. 'http://edamontology.org/topic_3385') to remain consistent with the schema's expected format.
…0.0.yaml Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
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Propose a meta-moduleschema (module_schema.yaml)
Adjust example REMBI and ISA module schema