Struct HierarchicalCatalog 

pub struct HierarchicalCatalog {
    pub version: String,
    pub created_at: String,
    pub assemblies: Vec<HierarchicalAssembly>,
    pub standalone_distributions: Vec<FastaDistribution>,
}

Hierarchical catalog with assemblies, versions, and distributions

Fields

version: String

Catalog schema version

created_at: String

Creation timestamp

assemblies: Vec<HierarchicalAssembly>

All assemblies in the catalog

standalone_distributions: Vec<FastaDistribution>

Standalone distributions without assembly reports

Implementations

impl HierarchicalCatalog

pub fn new() -> Self

pub fn with_standalone_distribution(self, dist: FastaDistribution) -> Self

Add a standalone distribution (no assembly report)

pub fn build_index(&self) -> CatalogIndex

Build indexes for fast matching

pub fn get_distribution(&self, id: &str) -> Option<DistributionRef<'_>>

Get a distribution by ID

pub fn load(path: &Path) -> Result<Self, Error>

Load from JSON file

Errors

Returns an error if the file cannot be read or contains invalid JSON.

pub fn save(&self, path: &Path) -> Result<(), Error>

Save to JSON file

Errors

Returns an error if the file cannot be created or written.

pub fn infer_base_assembly( &self, contigs: &[FastaContig], min_match_rate: f64, ) -> Option<InferredAssembly>

Infer the base assembly version for a set of contigs by MD5 matching.

This method compares MD5 checksums from the input contigs against all known distributions in the catalog. Returns the best matching assembly version if the match rate exceeds the threshold.

Arguments

• contigs - The contigs to match (must have MD5 checksums)
• min_match_rate - Minimum fraction of contigs that must match (0.0 - 1.0)

Returns

• Some(InferredAssembly) if a match is found above the threshold
• None if no assembly matches well enough

pub fn infer_base_assembly_default( &self, contigs: &[FastaContig], ) -> Option<InferredAssembly>

Infer base assembly with default threshold (90%)

Trait Implementations

impl Clone for HierarchicalCatalog

fn clone(&self) -> HierarchicalCatalog

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for HierarchicalCatalog

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.

impl Default for HierarchicalCatalog

fn default() -> Self

Returns the “default value” for a type.

impl<'de> Deserialize<'de> for HierarchicalCatalog

fn deserialize<__D>(__deserializer: __D) -> Result<Self, __D::Error>

where __D: Deserializer<'de>,

Deserialize this value from the given Serde deserializer.

impl Serialize for HierarchicalCatalog

fn serialize<__S>(&self, __serializer: __S) -> Result<__S::Ok, __S::Error>

where __S: Serializer,

Serialize this value into the given Serde serializer.