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Merge pull request #128 from rcsb/RO-3979-FE
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 Frontend related schema updates to support searching sequence coverage data
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@brindakv
brindakv authored Sep 7, 2023
2 parents cad28a5 + 471f100 commit 870a13c
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Showing 5 changed files with 89 additions and 10 deletions.
19 changes: 9 additions & 10 deletions config/exdb-config-schema.yml
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# RO-4002: Improve indexing for pdbx_initial_refinement_model
# 26-Jul-2023 bv RO-3979: Add support for reference sequence and entity sequence coverage information for polymer entities
# 08-Aug-2023 dwp RO-4015: Remove GO and InterPro context values from rcsb_nested_indexing_context.context_attributes in pdbx_core_polymer_entity
# 07-Sep-2023 bv RO-3979: Frontend related schema updates to support search of sequence coverage data
#
---
database_catalog_configuration:
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- rcsb_polymer_entity_feature_summary.count
- rcsb_polymer_entity_feature_summary.coverage
#
# BV: To be uncommented when data is populated in the documents for reference sequence and entity sequence coverage
#- rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_reference_sequence_coverage
#- rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_entity_sequence_coverage
- rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_reference_sequence_coverage
- rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_entity_sequence_coverage
#
#- rcsb_entity_source_organism.ncbi_scientific_name
#- rcsb_entity_source_organism.ncbi_common_names
Expand Down Expand Up @@ -5985,13 +5985,12 @@ document_helper_configuration:
- ATTRIBUTE_NAME: rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_database_name
TYPE: brief
TEXT: Database Name
# BV: To be uncommented when the data is populated in the documents for reference sequence and entity sequence coverage
#- ATTRIBUTE_NAME: rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_reference_sequence_coverage
# TYPE: brief
# TEXT: Reference Sequence Coverage
#- ATTRIBUTE_NAME: rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_entity_sequence_coverage
# TYPE: brief
# TEXT: Entity Sequence Coverage
- ATTRIBUTE_NAME: rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_reference_sequence_coverage
TYPE: brief
TEXT: Reference Sequence Coverage
- ATTRIBUTE_NAME: rcsb_polymer_entity_container_identifiers.reference_sequence_identifiers_entity_sequence_coverage
TYPE: brief
TEXT: Entity Sequence Coverage
- ATTRIBUTE_NAME: struct_keywords.pdbx_keywords
TYPE: brief
TEXT: Structure Keywords
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20 changes: 20 additions & 0 deletions ...efinitions/json-full-db-pdbx_comp_model_core-col-pdbx_comp_model_core_polymer_entity.json
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Expand Up @@ -3398,6 +3398,16 @@
{
"text": "Indicates what fraction of this polymer entity sequence is covered by the reference sequence.",
"context": "dictionary"
},
{
"text": "Entity Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 135
}
]
},
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{
"text": "Indicates what fraction of the reference sequence is covered by this polymer entity sequence.",
"context": "dictionary"
},
{
"text": "Reference Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 130
}
]
}
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20 changes: 20 additions & 0 deletions json_schema_definitions/json-full-db-pdbx_core-col-pdbx_core_polymer_entity.json
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Expand Up @@ -3398,6 +3398,16 @@
{
"text": "Indicates what fraction of this polymer entity sequence is covered by the reference sequence.",
"context": "dictionary"
},
{
"text": "Entity Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 135
}
]
},
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{
"text": "Indicates what fraction of the reference sequence is covered by this polymer entity sequence.",
"context": "dictionary"
},
{
"text": "Reference Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 130
}
]
}
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20 changes: 20 additions & 0 deletions ...definitions/json-min-db-pdbx_comp_model_core-col-pdbx_comp_model_core_polymer_entity.json
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Expand Up @@ -3386,6 +3386,16 @@
{
"text": "Indicates what fraction of this polymer entity sequence is covered by the reference sequence.",
"context": "dictionary"
},
{
"text": "Entity Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 135
}
]
},
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{
"text": "Indicates what fraction of the reference sequence is covered by this polymer entity sequence.",
"context": "dictionary"
},
{
"text": "Reference Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 130
}
]
}
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20 changes: 20 additions & 0 deletions json_schema_definitions/json-min-db-pdbx_core-col-pdbx_core_polymer_entity.json
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Expand Up @@ -3386,6 +3386,16 @@
{
"text": "Indicates what fraction of this polymer entity sequence is covered by the reference sequence.",
"context": "dictionary"
},
{
"text": "Entity Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 135
}
]
},
Expand Down Expand Up @@ -3423,6 +3433,16 @@
{
"text": "Indicates what fraction of the reference sequence is covered by this polymer entity sequence.",
"context": "dictionary"
},
{
"text": "Reference Sequence Coverage",
"context": "brief"
}
],
"rcsb_search_group": [
{
"group_name": "Polymer Molecular Features",
"priority_order": 130
}
]
}
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