noodles_fasta::io::reader::sequence

Struct Reader

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pub struct Reader<'r, R> { /* private fields */ }
Expand description

A sequence reader.

This is used for lower-level reading of the sequence. It implements Read and BufRead to return raw bases sans newlines. It reads up to the next record definition or EOF.

This is created by calling super::Reader::sequence_reader.

Trait Implementations§

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impl<'r, R> BufRead for Reader<'r, R>
where R: BufRead,

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fn fill_buf(&mut self) -> Result<&[u8]>

Returns the contents of the internal buffer, filling it with more data from the inner reader if it is empty. Read more
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fn consume(&mut self, amt: usize)

Tells this buffer that amt bytes have been consumed from the buffer, so they should no longer be returned in calls to read. Read more
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fn has_data_left(&mut self) -> Result<bool, Error>

🔬This is a nightly-only experimental API. (buf_read_has_data_left)
Checks if the underlying Read has any data left to be read. Read more
1.0.0 · source§

fn read_until(&mut self, byte: u8, buf: &mut Vec<u8>) -> Result<usize, Error>

Reads all bytes into buf until the delimiter byte or EOF is reached. Read more
1.83.0 · source§

fn skip_until(&mut self, byte: u8) -> Result<usize, Error>

Skips all bytes until the delimiter byte or EOF is reached. Read more
1.0.0 · source§

fn read_line(&mut self, buf: &mut String) -> Result<usize, Error>

Reads all bytes until a newline (the 0xA byte) is reached, and append them to the provided String buffer. Read more
1.0.0 · source§

fn split(self, byte: u8) -> Split<Self>
where Self: Sized,

Returns an iterator over the contents of this reader split on the byte byte. Read more
1.0.0 · source§

fn lines(self) -> Lines<Self>
where Self: Sized,

Returns an iterator over the lines of this reader. Read more
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impl<'r, R> Read for Reader<'r, R>
where R: BufRead,

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fn read(&mut self, buf: &mut [u8]) -> Result<usize>

Pull some bytes from this source into the specified buffer, returning how many bytes were read. Read more
1.36.0 · source§

fn read_vectored(&mut self, bufs: &mut [IoSliceMut<'_>]) -> Result<usize, Error>

Like read, except that it reads into a slice of buffers. Read more
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fn is_read_vectored(&self) -> bool

🔬This is a nightly-only experimental API. (can_vector)
Determines if this Reader has an efficient read_vectored implementation. Read more
1.0.0 · source§

fn read_to_end(&mut self, buf: &mut Vec<u8>) -> Result<usize, Error>

Reads all bytes until EOF in this source, placing them into buf. Read more
1.0.0 · source§

fn read_to_string(&mut self, buf: &mut String) -> Result<usize, Error>

Reads all bytes until EOF in this source, appending them to buf. Read more
1.6.0 · source§

fn read_exact(&mut self, buf: &mut [u8]) -> Result<(), Error>

Reads the exact number of bytes required to fill buf. Read more
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fn read_buf(&mut self, buf: BorrowedCursor<'_>) -> Result<(), Error>

🔬This is a nightly-only experimental API. (read_buf)
Pull some bytes from this source into the specified buffer. Read more
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fn read_buf_exact(&mut self, cursor: BorrowedCursor<'_>) -> Result<(), Error>

🔬This is a nightly-only experimental API. (read_buf)
Reads the exact number of bytes required to fill cursor. Read more
1.0.0 · source§

fn by_ref(&mut self) -> &mut Self
where Self: Sized,

Creates a “by reference” adaptor for this instance of Read. Read more
1.0.0 · source§

fn bytes(self) -> Bytes<Self>
where Self: Sized,

Transforms this Read instance to an Iterator over its bytes. Read more
1.0.0 · source§

fn chain<R>(self, next: R) -> Chain<Self, R>
where R: Read, Self: Sized,

Creates an adapter which will chain this stream with another. Read more
1.0.0 · source§

fn take(self, limit: u64) -> Take<Self>
where Self: Sized,

Creates an adapter which will read at most limit bytes from it. Read more

Auto Trait Implementations§

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impl<'r, R> Freeze for Reader<'r, R>

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impl<'r, R> RefUnwindSafe for Reader<'r, R>
where R: RefUnwindSafe,

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impl<'r, R> Send for Reader<'r, R>
where R: Send,

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impl<'r, R> Sync for Reader<'r, R>
where R: Sync,

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impl<'r, R> Unpin for Reader<'r, R>

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impl<'r, R> !UnwindSafe for Reader<'r, R>

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<B> BufReadExt for B
where B: BufRead,

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fn byte_lines(self) -> ByteLines<Self>
where Self: Sized,

Returns an iterator over the lines of this reader, where each line is represented as a byte string. Read more
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fn byte_records(self, terminator: u8) -> ByteRecords<Self>
where Self: Sized,

Returns an iterator over byte-terminated records of this reader, where each record is represented as a byte string. Read more
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fn for_byte_line<F>(&mut self, for_each_line: F) -> Result<(), Error>
where Self: Sized, F: FnMut(&[u8]) -> Result<bool, Error>,

Executes the given closure on each line in the underlying reader. Read more
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fn for_byte_record<F>( &mut self, terminator: u8, for_each_record: F, ) -> Result<(), Error>
where Self: Sized, F: FnMut(&[u8]) -> Result<bool, Error>,

Executes the given closure on each byte-terminated record in the underlying reader. Read more
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fn for_byte_line_with_terminator<F>( &mut self, for_each_line: F, ) -> Result<(), Error>
where Self: Sized, F: FnMut(&[u8]) -> Result<bool, Error>,

Executes the given closure on each line in the underlying reader. Read more
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fn for_byte_record_with_terminator<F>( &mut self, terminator: u8, for_each_record: F, ) -> Result<(), Error>
where Self: Sized, F: FnMut(&[u8]) -> Result<bool, Error>,

Executes the given closure on each byte-terminated record in the underlying reader. 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<R> ReadBytesExt for R
where R: Read + ?Sized,

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fn read_u8(&mut self) -> Result<u8, Error>

Reads an unsigned 8 bit integer from the underlying reader. Read more
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fn read_i8(&mut self) -> Result<i8, Error>

Reads a signed 8 bit integer from the underlying reader. Read more
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fn read_u16<T>(&mut self) -> Result<u16, Error>
where T: ByteOrder,

Reads an unsigned 16 bit integer from the underlying reader. Read more
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fn read_i16<T>(&mut self) -> Result<i16, Error>
where T: ByteOrder,

Reads a signed 16 bit integer from the underlying reader. Read more
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fn read_u24<T>(&mut self) -> Result<u32, Error>
where T: ByteOrder,

Reads an unsigned 24 bit integer from the underlying reader. Read more
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fn read_i24<T>(&mut self) -> Result<i32, Error>
where T: ByteOrder,

Reads a signed 24 bit integer from the underlying reader. Read more
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fn read_u32<T>(&mut self) -> Result<u32, Error>
where T: ByteOrder,

Reads an unsigned 32 bit integer from the underlying reader. Read more
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fn read_i32<T>(&mut self) -> Result<i32, Error>
where T: ByteOrder,

Reads a signed 32 bit integer from the underlying reader. Read more
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fn read_u48<T>(&mut self) -> Result<u64, Error>
where T: ByteOrder,

Reads an unsigned 48 bit integer from the underlying reader. Read more
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fn read_i48<T>(&mut self) -> Result<i64, Error>
where T: ByteOrder,

Reads a signed 48 bit integer from the underlying reader. Read more
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fn read_u64<T>(&mut self) -> Result<u64, Error>
where T: ByteOrder,

Reads an unsigned 64 bit integer from the underlying reader. Read more
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fn read_i64<T>(&mut self) -> Result<i64, Error>
where T: ByteOrder,

Reads a signed 64 bit integer from the underlying reader. Read more
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fn read_u128<T>(&mut self) -> Result<u128, Error>
where T: ByteOrder,

Reads an unsigned 128 bit integer from the underlying reader. Read more
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fn read_i128<T>(&mut self) -> Result<i128, Error>
where T: ByteOrder,

Reads a signed 128 bit integer from the underlying reader. Read more
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fn read_uint<T>(&mut self, nbytes: usize) -> Result<u64, Error>
where T: ByteOrder,

Reads an unsigned n-bytes integer from the underlying reader. Read more
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fn read_int<T>(&mut self, nbytes: usize) -> Result<i64, Error>
where T: ByteOrder,

Reads a signed n-bytes integer from the underlying reader. Read more
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fn read_uint128<T>(&mut self, nbytes: usize) -> Result<u128, Error>
where T: ByteOrder,

Reads an unsigned n-bytes integer from the underlying reader.
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fn read_int128<T>(&mut self, nbytes: usize) -> Result<i128, Error>
where T: ByteOrder,

Reads a signed n-bytes integer from the underlying reader.
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fn read_f32<T>(&mut self) -> Result<f32, Error>
where T: ByteOrder,

Reads a IEEE754 single-precision (4 bytes) floating point number from the underlying reader. Read more
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fn read_f64<T>(&mut self) -> Result<f64, Error>
where T: ByteOrder,

Reads a IEEE754 double-precision (8 bytes) floating point number from the underlying reader. Read more
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fn read_u16_into<T>(&mut self, dst: &mut [u16]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of unsigned 16 bit integers from the underlying reader. Read more
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fn read_u32_into<T>(&mut self, dst: &mut [u32]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of unsigned 32 bit integers from the underlying reader. Read more
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fn read_u64_into<T>(&mut self, dst: &mut [u64]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of unsigned 64 bit integers from the underlying reader. Read more
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fn read_u128_into<T>(&mut self, dst: &mut [u128]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of unsigned 128 bit integers from the underlying reader. Read more
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fn read_i8_into(&mut self, dst: &mut [i8]) -> Result<(), Error>

Reads a sequence of signed 8 bit integers from the underlying reader. Read more
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fn read_i16_into<T>(&mut self, dst: &mut [i16]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of signed 16 bit integers from the underlying reader. Read more
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fn read_i32_into<T>(&mut self, dst: &mut [i32]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of signed 32 bit integers from the underlying reader. Read more
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fn read_i64_into<T>(&mut self, dst: &mut [i64]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of signed 64 bit integers from the underlying reader. Read more
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fn read_i128_into<T>(&mut self, dst: &mut [i128]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of signed 128 bit integers from the underlying reader. Read more
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fn read_f32_into<T>(&mut self, dst: &mut [f32]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of IEEE754 single-precision (4 bytes) floating point numbers from the underlying reader. Read more
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fn read_f32_into_unchecked<T>(&mut self, dst: &mut [f32]) -> Result<(), Error>
where T: ByteOrder,

👎Deprecated since 1.2.0: please use read_f32_into instead
DEPRECATED. Read more
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fn read_f64_into<T>(&mut self, dst: &mut [f64]) -> Result<(), Error>
where T: ByteOrder,

Reads a sequence of IEEE754 double-precision (8 bytes) floating point numbers from the underlying reader. Read more
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fn read_f64_into_unchecked<T>(&mut self, dst: &mut [f64]) -> Result<(), Error>
where T: ByteOrder,

👎Deprecated since 1.2.0: please use read_f64_into instead
DEPRECATED. 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.