Struct GenomicInterval 

pub struct GenomicInterval {
    pub chr: BString,
    pub start: usize,
    pub end: usize,
}

A segment is a genomic interval defined by a chromosome, a start position and an end position. The start position is inclusive and the end position is exclusive.

Fields

chr: BString

start: usize

end: usize

Implementations

impl GenomicInterval

pub fn new(chr: &str, start: usize, end: usize) -> Result<Self>

Trait Implementations

impl Clone for GenomicInterval

fn clone(&self) -> GenomicInterval

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.

impl Debug for GenomicInterval

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

Formats the value using the given formatter.

impl FromStr for GenomicInterval

fn from_str(s: &str) -> Result<Self, Self::Err>

Parse a string into a GenomicInterval. The string should be formatted as

Example

use deepbiop_utils::interval::GenomicInterval;
let  value =  "chr1:100-200";
let interval: GenomicInterval = value.parse().unwrap();

type Err = Error

The associated error which can be returned from parsing.

impl<'py> IntoPyObject<'py> for GenomicInterval

type Target = GenomicInterval

The Python output type

type Output = Bound<'py, <GenomicInterval as IntoPyObject<'py>>::Target>

The smart pointer type to use.

type Error = PyErr

The type returned in the event of a conversion error.

fn into_pyobject( self, py: Python<'py>, ) -> Result<<Self as IntoPyObject<'_>>::Output, <Self as IntoPyObject<'_>>::Error>

Performs the conversion.

impl Overlap for GenomicInterval

fn overlap(&self, other: &Self) -> bool

impl PartialEq for GenomicInterval

fn eq(&self, other: &GenomicInterval) -> bool

Tests for self and other values to be equal, and is used by ==.

fn ne(&self, other: &Rhs) -> bool

Tests for !=. The default implementation is almost always sufficient, and should not be overridden without very good reason.

impl PartialOrd for GenomicInterval

fn partial_cmp(&self, other: &Self) -> Option<Ordering>

This method returns an ordering between self and other values if one exists.

fn lt(&self, other: &Rhs) -> bool

Tests less than (for self and other) and is used by the < operator.

fn le(&self, other: &Rhs) -> bool

Tests less than or equal to (for self and other) and is used by the <= operator.

fn gt(&self, other: &Rhs) -> bool

Tests greater than (for self and other) and is used by the > operator.

fn ge(&self, other: &Rhs) -> bool

Tests greater than or equal to (for self and other) and is used by the >= operator.

impl PyClass for GenomicInterval

type Frozen = False

Whether the pyclass is frozen.

impl PyClassImpl for GenomicInterval

const IS_BASETYPE: bool = false

#[pyclass(subclass)]

const IS_SUBCLASS: bool = false

#[pyclass(extends=…)]

const IS_MAPPING: bool = false

#[pyclass(mapping)]

const IS_SEQUENCE: bool = false

#[pyclass(sequence)]

const IS_IMMUTABLE_TYPE: bool = false

#[pyclass(immutable_type)]

const RAW_DOC: &'static CStr = /// A segment is a genomic interval defined by a chromosome, a start position and an end position. /// The start position is inclusive and the end position is exclusive.

Docstring for the class provided on the struct or enum.

const DOC: &'static CStr

Fully rendered class doc, including the text_signature if a constructor is defined.

type BaseType = PyAny

Base class

type ThreadChecker = SendablePyClass<GenomicInterval>

This handles following two situations:

type PyClassMutability = <<PyAny as PyClassBaseType>::PyClassMutability as PyClassMutability>::MutableChild

Immutable or mutable

type Dict = PyClassDummySlot

Specify this class has #[pyclass(dict)] or not.

type WeakRef = PyClassDummySlot

Specify this class has #[pyclass(weakref)] or not.

type BaseNativeType = PyAny

The closest native ancestor. This is PyAny by default, and when you declare #[pyclass(extends=PyDict)], it’s PyDict.

fn items_iter() -> PyClassItemsIter

fn lazy_type_object() -> &'static LazyTypeObject<Self>

fn dict_offset() -> Option<isize>

fn weaklist_offset() -> Option<isize>

impl PyStubType for GenomicInterval

fn type_output() -> TypeInfo

The type to be used in the output signature, i.e. return type of the Python function or methods.

fn type_input() -> TypeInfo

The type to be used in the input signature, i.e. the arguments of the Python function or methods.

impl PyTypeInfo for GenomicInterval

const NAME: &'static str = "GenomicInterval"

Class name.

const MODULE: Option<&'static str>

Module name, if any.

fn type_object_raw(py: Python<'_>) -> *mut PyTypeObject

Returns the PyTypeObject instance for this type.

fn type_object(py: Python<'_>) -> Bound<'_, PyType>

Returns the safe abstraction over the type object.

fn is_type_of(object: &Bound<'_, PyAny>) -> bool

Checks if object is an instance of this type or a subclass of this type.

fn is_exact_type_of(object: &Bound<'_, PyAny>) -> bool

Checks if object is an instance of this type.

impl DerefToPyAny for GenomicInterval

impl ExtractPyClassWithClone for GenomicInterval

impl StructuralPartialEq for GenomicInterval