Trait ConnectionMethods

pub trait ConnectionMethods {
    // Required methods
    fn genomicsqlite_version(&self) -> String;
    fn genomicsqlite_attach_sql<P: AsRef<Path>>(
        &self,
        path: P,
        schema_name: &str,
        config: &Object,
    ) -> Result<String>;
    fn genomicsqlite_vacuum_into_sql<P: AsRef<Path>>(
        &self,
        path: P,
        config: &Object,
    ) -> Result<String>;
    fn create_genomic_range_index_sql(
        &self,
        table_name: &str,
        chromosome: &str,
        begin_pos: &str,
        end_pos: &str,
    ) -> Result<String>;
    fn create_genomic_range_index_sql_with_floor(
        &self,
        table_name: &str,
        chromosome: &str,
        begin_pos: &str,
        end_pos: &str,
        floor: i64,
    ) -> Result<String>;
    fn put_reference_assembly_sql(&self, assembly: &str) -> Result<String>;
    fn put_reference_assembly_sql_with_schema(
        &self,
        assembly: &str,
        schema: &str,
    ) -> Result<String>;
    fn put_reference_sequence_sql(&self, refseq: &RefSeq) -> Result<String>;
    fn put_reference_sequence_sql_with_schema(
        &self,
        refseq: &RefSeq,
        schema: &str,
    ) -> Result<String>;
    fn get_reference_sequences_by_rid(&self) -> Result<HashMap<i64, RefSeq>>;
    fn get_reference_sequences_by_rid_with_options(
        &self,
        assembly: Option<&str>,
        schema: Option<&str>,
    ) -> Result<HashMap<i64, RefSeq>>;
    fn get_reference_sequences_by_name(&self) -> Result<HashMap<String, RefSeq>>;
    fn get_reference_sequences_by_name_with_options(
        &self,
        assembly: Option<&str>,
        schema: Option<&str>,
    ) -> Result<HashMap<String, RefSeq>>;
}

Methods for GenomicSQLite rusqlite::Connections; see Programming Guide for each method’s semantics. The methods can also be invoked on an open rusqlite::Transaction, via its implicit Deref<Target=Connection>.

Required Methods

fn genomicsqlite_version(&self) -> String

Get Genomics Extension version

fn genomicsqlite_attach_sql<P: AsRef<Path>>( &self, path: P, schema_name: &str, config: &Object, ) -> Result<String>

Generate SQL command to attach another GenomicSQLite database to an existing connection

fn genomicsqlite_vacuum_into_sql<P: AsRef<Path>>( &self, path: P, config: &Object, ) -> Result<String>

Generate SQL command to VACUUM INTO the database into a new file

fn create_genomic_range_index_sql( &self, table_name: &str, chromosome: &str, begin_pos: &str, end_pos: &str, ) -> Result<String>

Generate SQL script to create Genomic Range Index for a table

fn create_genomic_range_index_sql_with_floor( &self, table_name: &str, chromosome: &str, begin_pos: &str, end_pos: &str, floor: i64, ) -> Result<String>

fn put_reference_assembly_sql(&self, assembly: &str) -> Result<String>

Generate SQL script to add a reference assembly to the stored metadata

fn put_reference_assembly_sql_with_schema( &self, assembly: &str, schema: &str, ) -> Result<String>

fn put_reference_sequence_sql(&self, refseq: &RefSeq) -> Result<String>

Generate SQL script to add one reference sequence to the stored metadata. Set rid: -1 to let the database generate a value.

fn put_reference_sequence_sql_with_schema( &self, refseq: &RefSeq, schema: &str, ) -> Result<String>

fn get_reference_sequences_by_rid(&self) -> Result<HashMap<i64, RefSeq>>

Read the stored reference sequence metadata into a lookup table keyed by rid

fn get_reference_sequences_by_rid_with_options( &self, assembly: Option<&str>, schema: Option<&str>, ) -> Result<HashMap<i64, RefSeq>>

fn get_reference_sequences_by_name(&self) -> Result<HashMap<String, RefSeq>>

Read the stored reference sequence metadata into a lookup table keyed by name

fn get_reference_sequences_by_name_with_options( &self, assembly: Option<&str>, schema: Option<&str>, ) -> Result<HashMap<String, RefSeq>>

Dyn Compatibility

This trait is not dyn compatible.

In older versions of Rust, dyn compatibility was called "object safety", so this trait is not object safe.

Implementations on Foreign Types

impl ConnectionMethods for Connection

fn genomicsqlite_version(&self) -> String

fn genomicsqlite_attach_sql<P: AsRef<Path>>( &self, path: P, schema_name: &str, config: &Object, ) -> Result<String>

fn genomicsqlite_vacuum_into_sql<P: AsRef<Path>>( &self, path: P, config: &Object, ) -> Result<String>

fn create_genomic_range_index_sql( &self, table_name: &str, chromosome: &str, begin_pos: &str, end_pos: &str, ) -> Result<String>

fn create_genomic_range_index_sql_with_floor( &self, table_name: &str, chromosome: &str, begin_pos: &str, end_pos: &str, floor: i64, ) -> Result<String>

fn put_reference_assembly_sql(&self, assembly: &str) -> Result<String>

fn put_reference_assembly_sql_with_schema( &self, assembly: &str, schema: &str, ) -> Result<String>

fn put_reference_sequence_sql(&self, refseq: &RefSeq) -> Result<String>

fn put_reference_sequence_sql_with_schema( &self, refseq: &RefSeq, schema: &str, ) -> Result<String>

fn get_reference_sequences_by_rid(&self) -> Result<HashMap<i64, RefSeq>>

fn get_reference_sequences_by_rid_with_options( &self, assembly: Option<&str>, schema: Option<&str>, ) -> Result<HashMap<i64, RefSeq>>

fn get_reference_sequences_by_name(&self) -> Result<HashMap<String, RefSeq>>

fn get_reference_sequences_by_name_with_options( &self, assembly: Option<&str>, schema: Option<&str>, ) -> Result<HashMap<String, RefSeq>>

Implementors