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FastaReader

genomicframe_core::formats::fasta::reader

Struct FastaReader 

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pub struct FastaReader<R: BufRead> { /* private fields */ }
Expand description

FASTA file reader

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impl FastaReader<BufReader<File>>

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pub fn from_path<P: AsRef<Path>>(path: P) -> Result<Self>

Open a FASTA file from a path

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impl<R: BufRead> FastaReader<R>

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pub fn new(reader: R) -> Self

Create a new FASTA reader from a buffered reader

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impl<R: BufRead> GenomicReader for FastaReader<R>

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type Metadata = ()

Metadata type for this reader
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fn metadata(&self) -> &Self::Metadata

Get metadata about the genomic data (headers, contigs, etc.)
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impl<R: BufRead> GenomicRecordIterator for FastaReader<R>

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type Record = FastaRecord

The record type yielded by this iterator
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fn next_raw(&mut self) -> Result<Option<Vec<u8>>>

Advance to the next raw record
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fn next_record(&mut self) -> Result<Option<Self::Record>>

Advance to the next record Read more
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fn collect_all(self) -> Result<Vec<Self::Record>>
where Self: Sized,

Consume the iterator and collect all records into a vector Read more
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fn chunks(self, chunk_size: usize) -> ChunkedIterator<Self> ⓘ
where Self: Sized,

Process records in chunks for memory-efficient batch operations Read more

Auto Trait Implementations§

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impl<R> Freeze for FastaReader<R>
where R: Freeze,

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impl<R> RefUnwindSafe for FastaReader<R>
where R: RefUnwindSafe,

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impl<R> Send for FastaReader<R>
where R: Send,

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impl<R> Sync for FastaReader<R>
where R: Sync,

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impl<R> Unpin for FastaReader<R>
where R: Unpin,

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impl<R> UnsafeUnpin for FastaReader<R>
where R: UnsafeUnpin,

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impl<R> UnwindSafe for FastaReader<R>
where R: UnwindSafe,

Blanket Implementations§

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impl<T> Any for T
where T: 'static + ?Sized,

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fn type_id(&self) -> TypeId

Gets the TypeId of self. Read more
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impl<T> Borrow<T> for T
where T: ?Sized,

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fn borrow(&self) -> &T

Immutably borrows from an owned value. Read more
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impl<T> BorrowMut<T> for T
where T: ?Sized,

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fn borrow_mut(&mut self) -> &mut T

Mutably borrows from an owned value. Read more
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impl<T> From<T> for T

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fn from(t: T) -> T

Returns the argument unchanged.

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impl<T, U> Into<U> for T
where U: From<T>,

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fn into(self) -> U

Calls U::from(self).

That is, this conversion is whatever the implementation of From<T> for U chooses to do.

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impl<T> IntoEither for T

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fn into_either(self, into_left: bool) -> Either<Self, Self>

Converts self into a Left variant of Either<Self, Self> if into_left is true. Converts self into a Right variant of Either<Self, Self> otherwise. Read more
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fn into_either_with<F>(self, into_left: F) -> Either<Self, Self>
where F: FnOnce(&Self) -> bool,

Converts self into a Left variant of Either<Self, Self> if into_left(&self) returns true. Converts self into a Right variant of Either<Self, Self> otherwise. Read more
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impl<T> Pointable for T

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const ALIGN: usize

The alignment of pointer.
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type Init = T

The type for initializers.
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unsafe fn init(init: <T as Pointable>::Init) -> usize

Initializes a with the given initializer. Read more
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unsafe fn deref<'a>(ptr: usize) -> &'a T

Dereferences the given pointer. Read more
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unsafe fn deref_mut<'a>(ptr: usize) -> &'a mut T

Mutably dereferences the given pointer. Read more
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unsafe fn drop(ptr: usize)

Drops the object pointed to by the given pointer. Read more
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impl<T, U> TryFrom<U> for T
where U: Into<T>,

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type Error = Infallible

The type returned in the event of a conversion error.
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fn try_from(value: U) -> Result<T, <T as TryFrom<U>>::Error>

Performs the conversion.
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impl<T, U> TryInto<U> for T
where U: TryFrom<T>,

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type Error = <U as TryFrom<T>>::Error

The type returned in the event of a conversion error.
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fn try_into(self) -> Result<U, <U as TryFrom<T>>::Error>

Performs the conversion.