Struct OntologyRepository 

pub struct OntologyRepository { /* private fields */ }

Implementations

impl OntologyRepository

pub fn new(pool: PgPool) -> Self

pub async fn load_from_url( &self, prefix: &str, name: &str, source_url: &str, ) -> Result<OntologyLoadReport, DomainError>

Fetch an OBO file from source_url, parse it, and persist the ontology + terms + closure in a single transaction. prefix (e.g. “SO”, “SBO”) drives IRI generation and is the row key in sbol_ontologies.

pub async fn load_from_text( &self, prefix: &str, name: &str, source_url: Option<&str>, text: &str, ) -> Result<OntologyLoadReport, DomainError>

Same as [load_from_url] but takes already-fetched OBO text. The OBO parse, canonical-IRI/alias generation, and closure are derived by the shared build_ontology_plan; this method only persists the plan.

pub async fn list_ontologies(&self) -> Result<Vec<OntologyRecord>, DomainError>

pub async fn canonicalize( &self, iri: &str, ) -> Result<Option<String>, DomainError>

Resolve any input IRI (canonical or alias) to a canonical term IRI.

pub async fn descendants( &self, iri: &str, ) -> Result<Vec<(String, i16)>, DomainError>

Return the term plus every descendant IRI under it (transitively). The root itself is included with depth 0.

pub async fn list_terms( &self, prefix: &str, limit: i64, offset: i64, search: Option<&str>, ) -> Result<(Vec<OntologyTermRecord>, i64), DomainError>

Page through every term that belongs to prefix, sorted by curie. search (when non-empty) restricts by case-insensitive substring match on either the curie or the name. Returns the page rows plus the total matching count so that callers can render a paginated UI without a second round-trip.

pub async fn get_term( &self, iri: &str, ) -> Result<Option<OntologyTermRecord>, DomainError>

Trait Implementations

impl Clone for OntologyRepository

fn clone(&self) -> Self

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.