Trait bdb::traits::Fasta

source · 
pub trait Fasta: Sized {
    fn to_fasta<T: Write>(&self, writer: &mut T) -> Result<(), Box<dyn StdError>>;
    fn from_fasta<T: BufRead>(reader: &mut T) -> Result<Self, Box<dyn StdError>>;

    fn estimate_fasta_size(&self) -> usize { ... }
    fn to_fasta_string(&self) -> Result<String, Box<dyn StdError>> { ... }
    fn to_fasta_file<P: AsRef<Path>>(
        &self,
        path: P
    ) -> Result<(), Box<dyn StdError>> { ... }
    fn from_fasta_string(text: &str) -> Result<Self, Box<dyn StdError>> { ... }
    fn from_fasta_file<P: AsRef<Path>>(
        path: P
    ) -> Result<Self, Box<dyn StdError>> { ... }
}
Expand description

Serialize to and from FASTA.

Serialized Format

>sp|P46406|G3P_RABIT Glyceraldehyde-3-phosphate dehydrogenase OS=Oryctolagus cuniculus GN=GAPDH PE=1 SV=3
MVKVGVNGFGRIGRLVTRAAFNSGKVDVVAINDPFIDLHYMVYMFQYDSTHGKFHGTVKA
ENGKLVINGKAITIFQERDPANIKWGDAGAEYVVESTGVFTTMEKAGAHLKGGAKRVIIS
APSADAPMFVMGVNHEKYDNSLKIVSNASCTTNCLAPLAKVIHDHFGIVEGLMTTVHAIT
ATQKTVDGPSGKLWRDGRGAAQNIIPASTGAAKAVGKVIPELNGKLTGMAFRVPTPNVSV
VDLTCRLEKAAKYDDIKKVVKQASEGPLKGILGYTEDQVVSCDFNSATHSSTFDAGAGIA
LNDHFVKLISWYDNEFGYSNRVVDLMVHMASKE

Required Methods§

Export model to FASTA.

Note that many small writers are made to the writer, so the writer should be buffered.

Import model from FASTA.

Provided Methods§

Estimate the size of the resulting FASTA output to avoid reallocations.

Export model to FASTA string.

Export model to FASTA output file.

Import model from FASTA string.

Import model from FASTA file.

Implementors§