nmdc-schema

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There is code from https://github.com/microbiomedata/nmdc-schema/blob/28823618de2c17189934cdae0ca291d14fda0c08/nmdc_schema/connect_napa_mongo.py#L454 , lines 454 to 490, which based on a list of gold projects deletes workflow execution activities and data objects. These won't have a study...

aclum

Find elements whose names contain white-space

2

## In the berkeley-schema-fy24

turbomam

@cmungall and @sierra-moxon ```shell linkml-sqldb dump --db credit-example.db \ --target-class CreditAssociation \ --schema src/schema/basic_classes.yaml src/data/valid/CreditAssociation-1.yaml ``` > ``` > ERROR:root:UNKNOWN range base: None for emsl_project_identifiers = external_identifier > ERROR:root:UNKNOWN range...

turbomam

Provide a facility to: - run a series of mongodb shell commands found in `assets/mongodb_queries/data_qc` - provide an alert if errors are found - produce a report detailing data QC...

mbthornton-lbl

Review slots that aren't used in any classes

5

## In the berkeley-schema-fy24 Some of these may be the parents of some sub-property that is associated with a class ```python from linkml_runtime import SchemaView from linkml_runtime.utils.schemaview import OrderedBy schema_file...

turbomam

Review enums that aren't used by any slot

1

## In the berkeley-schema-fy24 - No slots for DeviceEnum - MAM and Tessmer 2023-11-17 - No slots for ProteolyticEnzymeEnum - Anastasiya "V" 2023-12-15 ### MIxS: - No slots for freq_clean_enum...

turbomam

Review types that aren't used in any slot

1

## In the berkeley-schema-fy24 ### In use - bytes - used **only** by `file_size_bytes` - external_identifier - used **only** by `external_database_identifiers` - language code - used **only** by `language` -...

turbomam

ensure that each src/schema YAML file can be re-generated in isoloation

1

`gen-linkml 1>/dev/null` next step: `gen-owl` see also #1886

turbomam

do this in berkeley-schema-fy24

turbomam

nmdc:sty-11-5tgfr349 nmdc:sty-11-r2h77870

mbthornton-lbl