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#[cfg(any(feature = "python", feature = "python_test"))]
extern crate pyo3;
use std::fmt;
use std::result::Result as StdResult;
pub type Result<T> = StdResult<T, TaxonomyError>;
#[derive(Debug)]
pub enum TaxonomyError {
NoSuchKey {
key: String,
},
NoSuchName {
name: String,
},
UnrecognizedRank {
rank: String,
},
ImportError {
line: usize,
msg: String,
},
MalformedTree {
tax_id: String,
},
CreationFailed {
field: String,
},
}
impl fmt::Display for TaxonomyError {
fn fmt(&self, f: &mut fmt::Formatter<'_>) -> fmt::Result {
match self {
TaxonomyError::NoSuchKey { key } => write!(f, "Key is not valid: {}", key),
TaxonomyError::NoSuchName { name } => write!(f, "Name is not valid: {}", name),
TaxonomyError::UnrecognizedRank { rank } => {
write!(f, "Rank is not supported: {}", rank)
}
TaxonomyError::ImportError { line, msg } => {
if *line != 0 {
write!(f, "Error importing at line {}: {}", line, msg)
} else {
write!(f, "Error importing: {}", msg)
}
}
TaxonomyError::MalformedTree { tax_id } => {
write!(f, "Taxonomy is not a tree; broken at {}", tax_id)
}
TaxonomyError::CreationFailed { field } => {
write!(f, "Each taxa must have only one {}", field)
}
}
}
}
impl From<serde_json::error::Error> for TaxonomyError {
fn from(error: serde_json::error::Error) -> Self {
TaxonomyError::ImportError {
line: error.line(),
msg: error.to_string(),
}
}
}
impl From<quick_xml::Error> for TaxonomyError {
fn from(error: quick_xml::Error) -> Self {
TaxonomyError::ImportError {
line: 0,
msg: error.to_string(),
}
}
}
impl From<std::io::Error> for TaxonomyError {
fn from(error: std::io::Error) -> Self {
TaxonomyError::ImportError {
line: 0,
msg: error.to_string(),
}
}
}
mod base;
pub mod edit;
pub mod formats;
#[cfg(any(feature = "python", feature = "python_test"))]
pub mod python;
mod rank;
mod taxonomy;
pub mod weights;
pub use crate::base::GeneralTaxonomy;
pub use crate::rank::TaxRank;
pub use crate::taxonomy::Taxonomy;