Enum FetchDefinition

pub enum FetchDefinition<'a> {
    Region(i32, i64, i64),
    RegionString(&'a [u8], i64, i64),
    CompleteTid(i32),
    String(&'a [u8]),
    All,
    Unmapped,
}

Enum for IndexdReader.fetch() arguments.

tids may be converted From<>:

• i32 (correct as per spec)
• u32 (because of header.tid. Will panic if above 2^31-1).

Coordinates may be (via FetchCoordinate)

• i32 (as of the sam v1 spec)
• i64 (as of the htslib ‘large coordinate’ extension (even though they are not supported in BAM)
• u32 (because that’s what rust literals will default to)
• u64 (because of header.target_len(). Will panic if above 2^^63-1).

Variants

Region(i32, i64, i64)

tid, start, stop,

RegionString(&'a [u8], i64, i64)

‘named-reference’, start, stop tuple.

CompleteTid(i32)

complete reference. May be i32 or u32 (which panics if above 2^31-’)

String(&'a [u8])

complete reference by name (&u8 or &str)

All

Every read

Unmapped

Only reads with the BAM flag BAM_FUNMAP (which might not be all reads with reference = -1)

Trait Implementations

impl<'a> Debug for FetchDefinition<'a>

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

Formats the value using the given formatter.

impl<'a> From<&'a [u8]> for FetchDefinition<'a>

fn from(s: &'a [u8]) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, T: AsRef<[u8]>> From<&'a T> for FetchDefinition<'a>

fn from(s: &'a T) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a> From<&'a str> for FetchDefinition<'a>

fn from(s: &'a str) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, X: Into<FetchCoordinate>, Y: Into<FetchCoordinate>> From<(&'a [u8], X, Y)> for FetchDefinition<'a>

fn from(tup: (&'a [u8], X, Y)) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, T: AsRef<[u8]>, X: Into<FetchCoordinate>, Y: Into<FetchCoordinate>> From<(&'a T, X, Y)> for FetchDefinition<'a>

fn from(tup: (&'a T, X, Y)) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, X: Into<FetchCoordinate>, Y: Into<FetchCoordinate>> From<(&'a str, X, Y)> for FetchDefinition<'a>

fn from(tup: (&'a str, X, Y)) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, X: Into<FetchCoordinate>, Y: Into<FetchCoordinate>> From<(i32, X, Y)> for FetchDefinition<'a>

fn from(tup: (i32, X, Y)) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a, X: Into<FetchCoordinate>, Y: Into<FetchCoordinate>> From<(u32, X, Y)> for FetchDefinition<'a>

fn from(tup: (u32, X, Y)) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a> From<i32> for FetchDefinition<'a>

fn from(tid: i32) -> FetchDefinition<'a>

Converts to this type from the input type.

impl<'a> From<u32> for FetchDefinition<'a>

fn from(tid: u32) -> FetchDefinition<'a>

Converts to this type from the input type.