Bio.Bam.Rec

Parsers and Printers for BAM and SAM. We employ an Iteratee interface, and we strive to support everything possible in BAM. So far, the implementation of the nucleotides is somewhat lacking: we do not have support for ambiguity codes, and the "=" symbol is not understood.

Documentation

data BamRaw

Bam record in its native encoding along with virtual address.

Instances

IsBamRec BamRaw

Defined in Bio.Bam.Writer

Methods

pushBam :: BamRaw -> BgzfTokens -> BgzfTokens

bamRaw :: FileOffset -> Bytes -> BamRaw

Smart constructor. Makes sure we got a at least a full record.

virt_offset :: BamRaw -> FileOffset

raw_data :: BamRaw -> Bytes

data BamRec

internal representation of a BAM record

Constructors

BamRec

Fields

• b_qname :: Seqid
• b_flag :: Int
• b_rname :: Refseq
• b_pos :: Int
• b_mapq :: Qual
• b_cigar :: Vector Cigar
• b_mrnm :: Refseq
• b_mpos :: Int
• b_isize :: Int
• b_seq :: Vector_Nucs_half Nucleotides
• b_qual :: Vector Qual
• b_exts :: Extensions
• b_virtual_offset :: FileOffset

  virtual offset for indexing purposes

Instances

Show BamRec

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> BamRec -> ShowS

show :: BamRec -> String

showList :: [BamRec] -> ShowS

IsBamRec BamRec

Defined in Bio.Bam.Writer

Methods

pushBam :: BamRec -> BgzfTokens -> BgzfTokens

unpackBam :: BamRaw -> BamRec

nullBamRec :: BamRec

getMd :: BamRec -> Maybe [MdOp]

data Cigar

Cigar line in BAM coding Bam encodes an operation and a length into a single integer, we keep those integers in an array.

Constructors

!CigOp :* !Int infix 9

Instances

Eq Cigar

Defined in Bio.Bam.Rec

Methods

(==) :: Cigar -> Cigar -> Bool

(/=) :: Cigar -> Cigar -> Bool

Ord Cigar

Defined in Bio.Bam.Rec

Methods

compare :: Cigar -> Cigar -> Ordering

(<) :: Cigar -> Cigar -> Bool

(<=) :: Cigar -> Cigar -> Bool

(>) :: Cigar -> Cigar -> Bool

(>=) :: Cigar -> Cigar -> Bool

max :: Cigar -> Cigar -> Cigar

min :: Cigar -> Cigar -> Cigar

Show Cigar

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> Cigar -> ShowS

show :: Cigar -> String

showList :: [Cigar] -> ShowS

Storable Cigar

Defined in Bio.Bam.Rec

Methods

sizeOf :: Cigar -> Int

alignment :: Cigar -> Int

peekElemOff :: Ptr Cigar -> Int -> IO Cigar

pokeElemOff :: Ptr Cigar -> Int -> Cigar -> IO ()

peekByteOff :: Ptr b -> Int -> IO Cigar

pokeByteOff :: Ptr b -> Int -> Cigar -> IO ()

peek :: Ptr Cigar -> IO Cigar

poke :: Ptr Cigar -> Cigar -> IO ()

data CigOp

Constructors

Mat

Ins

Del

Nop

SMa

HMa

Pad

Instances

Bounded CigOp

Defined in Bio.Bam.Rec

Methods

minBound :: CigOp

maxBound :: CigOp

Enum CigOp

Defined in Bio.Bam.Rec

Methods

succ :: CigOp -> CigOp

pred :: CigOp -> CigOp

toEnum :: Int -> CigOp

fromEnum :: CigOp -> Int

enumFrom :: CigOp -> [CigOp]

enumFromThen :: CigOp -> CigOp -> [CigOp]

enumFromTo :: CigOp -> CigOp -> [CigOp]

enumFromThenTo :: CigOp -> CigOp -> CigOp -> [CigOp]

Eq CigOp

Defined in Bio.Bam.Rec

Methods

(==) :: CigOp -> CigOp -> Bool

(/=) :: CigOp -> CigOp -> Bool

Ord CigOp

Defined in Bio.Bam.Rec

Methods

compare :: CigOp -> CigOp -> Ordering

(<) :: CigOp -> CigOp -> Bool

(<=) :: CigOp -> CigOp -> Bool

(>) :: CigOp -> CigOp -> Bool

(>=) :: CigOp -> CigOp -> Bool

max :: CigOp -> CigOp -> CigOp

min :: CigOp -> CigOp -> CigOp

Show CigOp

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> CigOp -> ShowS

show :: CigOp -> String

showList :: [CigOp] -> ShowS

Ix CigOp

Defined in Bio.Bam.Rec

Methods

range :: (CigOp, CigOp) -> [CigOp]

index :: (CigOp, CigOp) -> CigOp -> Int

unsafeIndex :: (CigOp, CigOp) -> CigOp -> Int

inRange :: (CigOp, CigOp) -> CigOp -> Bool

rangeSize :: (CigOp, CigOp) -> Int

unsafeRangeSize :: (CigOp, CigOp) -> Int

alignedLength :: Vector v Cigar => v Cigar -> Int

Extracts the aligned length from a cigar line. This gives the length of an alignment as measured on the reference, which is different from the length on the query or the length of the alignment.

newtype Nucleotides

A nucleotide base in an alignment. Experience says we're dealing with Ns and gaps all the type, so purity be damned, they are included as if they were real bases.

To allow Nucleotidess to be unpacked and incorporated into containers, we choose to represent them the same way as the BAM file format: as a 4 bit wide field. Gaps are encoded as 0 where they make sense, N is 15. The contained Word8 is guaranteed to be 0..15.

Constructors

Ns

Fields

• unNs :: Word8

Instances

Bounded Nucleotides

Defined in Bio.Base

Methods

minBound :: Nucleotides

maxBound :: Nucleotides

Enum Nucleotides

Defined in Bio.Base

Methods

succ :: Nucleotides -> Nucleotides

pred :: Nucleotides -> Nucleotides

toEnum :: Int -> Nucleotides

fromEnum :: Nucleotides -> Int

enumFrom :: Nucleotides -> [Nucleotides]

enumFromThen :: Nucleotides -> Nucleotides -> [Nucleotides]

enumFromTo :: Nucleotides -> Nucleotides -> [Nucleotides]

enumFromThenTo :: Nucleotides -> Nucleotides -> Nucleotides -> [Nucleotides]

Eq Nucleotides

Defined in Bio.Base

Methods

(==) :: Nucleotides -> Nucleotides -> Bool

(/=) :: Nucleotides -> Nucleotides -> Bool

Ord Nucleotides

Defined in Bio.Base

Methods

compare :: Nucleotides -> Nucleotides -> Ordering

(<) :: Nucleotides -> Nucleotides -> Bool

(<=) :: Nucleotides -> Nucleotides -> Bool

(>) :: Nucleotides -> Nucleotides -> Bool

(>=) :: Nucleotides -> Nucleotides -> Bool

max :: Nucleotides -> Nucleotides -> Nucleotides

min :: Nucleotides -> Nucleotides -> Nucleotides

Read Nucleotides

Defined in Bio.Base

Methods

readsPrec :: Int -> ReadS Nucleotides

readList :: ReadS [Nucleotides]

readPrec :: ReadPrec Nucleotides

readListPrec :: ReadPrec [Nucleotides]

Show Nucleotides

Defined in Bio.Base

Methods

showsPrec :: Int -> Nucleotides -> ShowS

show :: Nucleotides -> String

showList :: [Nucleotides] -> ShowS

Ix Nucleotides

Defined in Bio.Base

Methods

range :: (Nucleotides, Nucleotides) -> [Nucleotides]

index :: (Nucleotides, Nucleotides) -> Nucleotides -> Int

unsafeIndex :: (Nucleotides, Nucleotides) -> Nucleotides -> Int

inRange :: (Nucleotides, Nucleotides) -> Nucleotides -> Bool

rangeSize :: (Nucleotides, Nucleotides) -> Int

unsafeRangeSize :: (Nucleotides, Nucleotides) -> Int

Storable Nucleotides

Defined in Bio.Base

Methods

sizeOf :: Nucleotides -> Int

alignment :: Nucleotides -> Int

peekElemOff :: Ptr Nucleotides -> Int -> IO Nucleotides

pokeElemOff :: Ptr Nucleotides -> Int -> Nucleotides -> IO ()

peekByteOff :: Ptr b -> Int -> IO Nucleotides

pokeByteOff :: Ptr b -> Int -> Nucleotides -> IO ()

peek :: Ptr Nucleotides -> IO Nucleotides

poke :: Ptr Nucleotides -> Nucleotides -> IO ()

Unbox Nucleotides

Defined in Bio.Base

Vector Vector Nucleotides

Defined in Bio.Base

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector (PrimState m) Nucleotides -> m (Vector Nucleotides)

basicUnsafeThaw :: PrimMonad m => Vector Nucleotides -> m (Mutable Vector (PrimState m) Nucleotides)

basicLength :: Vector Nucleotides -> Int

basicUnsafeSlice :: Int -> Int -> Vector Nucleotides -> Vector Nucleotides

basicUnsafeIndexM :: Monad m => Vector Nucleotides -> Int -> m Nucleotides

basicUnsafeCopy :: PrimMonad m => Mutable Vector (PrimState m) Nucleotides -> Vector Nucleotides -> m ()

elemseq :: Vector Nucleotides -> Nucleotides -> b -> b

Vector Vector_Nucs_half Nucleotides

Defined in Bio.Bam.Rec

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector_Nucs_half (PrimState m) Nucleotides -> m (Vector_Nucs_half Nucleotides)

basicUnsafeThaw :: PrimMonad m => Vector_Nucs_half Nucleotides -> m (Mutable Vector_Nucs_half (PrimState m) Nucleotides)

basicLength :: Vector_Nucs_half Nucleotides -> Int

basicUnsafeSlice :: Int -> Int -> Vector_Nucs_half Nucleotides -> Vector_Nucs_half Nucleotides

basicUnsafeIndexM :: Monad m => Vector_Nucs_half Nucleotides -> Int -> m Nucleotides

basicUnsafeCopy :: PrimMonad m => Mutable Vector_Nucs_half (PrimState m) Nucleotides -> Vector_Nucs_half Nucleotides -> m ()

elemseq :: Vector_Nucs_half Nucleotides -> Nucleotides -> b -> b

MVector MVector Nucleotides

Defined in Bio.Base

Methods

basicLength :: MVector s Nucleotides -> Int

basicUnsafeSlice :: Int -> Int -> MVector s Nucleotides -> MVector s Nucleotides

basicOverlaps :: MVector s Nucleotides -> MVector s Nucleotides -> Bool

basicUnsafeNew :: PrimMonad m => Int -> m (MVector (PrimState m) Nucleotides)

basicInitialize :: PrimMonad m => MVector (PrimState m) Nucleotides -> m ()

basicUnsafeReplicate :: PrimMonad m => Int -> Nucleotides -> m (MVector (PrimState m) Nucleotides)

basicUnsafeRead :: PrimMonad m => MVector (PrimState m) Nucleotides -> Int -> m Nucleotides

basicUnsafeWrite :: PrimMonad m => MVector (PrimState m) Nucleotides -> Int -> Nucleotides -> m ()

basicClear :: PrimMonad m => MVector (PrimState m) Nucleotides -> m ()

basicSet :: PrimMonad m => MVector (PrimState m) Nucleotides -> Nucleotides -> m ()

basicUnsafeCopy :: PrimMonad m => MVector (PrimState m) Nucleotides -> MVector (PrimState m) Nucleotides -> m ()

basicUnsafeMove :: PrimMonad m => MVector (PrimState m) Nucleotides -> MVector (PrimState m) Nucleotides -> m ()

basicUnsafeGrow :: PrimMonad m => MVector (PrimState m) Nucleotides -> Int -> m (MVector (PrimState m) Nucleotides)

Show (Vector_Nucs_half Nucleotides)

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> Vector_Nucs_half Nucleotides -> ShowS

show :: Vector_Nucs_half Nucleotides -> String

showList :: [Vector_Nucs_half Nucleotides] -> ShowS

data Vector Nucleotides

Defined in Bio.Base

data Vector Nucleotides = V_Nucleotides (Vector Word8)

data MVector s Nucleotides

Defined in Bio.Base

data MVector s Nucleotides = MV_Nucleotides (MVector s Word8)

data Vector_Nucs_half a

A vector that packs two Nucleotides into one byte, just like Bam does.

Instances

Vector Vector_Nucs_half Nucleotides

Defined in Bio.Bam.Rec

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector_Nucs_half (PrimState m) Nucleotides -> m (Vector_Nucs_half Nucleotides)

basicUnsafeThaw :: PrimMonad m => Vector_Nucs_half Nucleotides -> m (Mutable Vector_Nucs_half (PrimState m) Nucleotides)

basicLength :: Vector_Nucs_half Nucleotides -> Int

basicUnsafeSlice :: Int -> Int -> Vector_Nucs_half Nucleotides -> Vector_Nucs_half Nucleotides

basicUnsafeIndexM :: Monad m => Vector_Nucs_half Nucleotides -> Int -> m Nucleotides

basicUnsafeCopy :: PrimMonad m => Mutable Vector_Nucs_half (PrimState m) Nucleotides -> Vector_Nucs_half Nucleotides -> m ()

elemseq :: Vector_Nucs_half Nucleotides -> Nucleotides -> b -> b

Show (Vector_Nucs_half Nucleotides)

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> Vector_Nucs_half Nucleotides -> ShowS

show :: Vector_Nucs_half Nucleotides -> String

showList :: [Vector_Nucs_half Nucleotides] -> ShowS

type Mutable Vector_Nucs_half

Defined in Bio.Bam.Rec

type Mutable Vector_Nucs_half

type Extensions = [(BamKey, Ext)]

A collection of extension fields. A BamKey is actually two ASCII characters.

data Ext

Constructors

Int Int

Float Float

Text Bytes

Bin Bytes

Char Word8

IntArr (Vector Int)

FloatArr (Vector Float)

Instances

Eq Ext

Defined in Bio.Bam.Rec

Methods

(==) :: Ext -> Ext -> Bool

(/=) :: Ext -> Ext -> Bool

Ord Ext

Defined in Bio.Bam.Rec

Methods

compare :: Ext -> Ext -> Ordering

(<) :: Ext -> Ext -> Bool

(<=) :: Ext -> Ext -> Bool

(>) :: Ext -> Ext -> Bool

(>=) :: Ext -> Ext -> Bool

max :: Ext -> Ext -> Ext

min :: Ext -> Ext -> Ext

Show Ext

Defined in Bio.Bam.Rec

Methods

showsPrec :: Int -> Ext -> ShowS

show :: Ext -> String

showList :: [Ext] -> ShowS

extAsInt :: Int -> BamKey -> BamRec -> Int

extAsString :: BamKey -> BamRec -> Bytes

setQualFlag :: Char -> BamRec -> BamRec

deleteE :: BamKey -> Extensions -> Extensions

Deletes all occurences of some extension field.

insertE :: BamKey -> Ext -> Extensions -> Extensions

Blindly inserts an extension field. This can create duplicates (and there is no telling how other tools react to that).

updateE :: BamKey -> Ext -> Extensions -> Extensions

Deletes all occurences of an extension field, then inserts it with a new value. This is safer than insertE, but also more expensive.

adjustE :: (Ext -> Ext) -> BamKey -> Extensions -> Extensions

Adjusts a named extension by applying a function.

isPaired :: BamRec -> Bool

isProperlyPaired :: BamRec -> Bool

isUnmapped :: BamRec -> Bool

isMateUnmapped :: BamRec -> Bool

isReversed :: BamRec -> Bool

isMateReversed :: BamRec -> Bool

isFirstMate :: BamRec -> Bool

isSecondMate :: BamRec -> Bool

isAuxillary :: BamRec -> Bool

isSecondary :: BamRec -> Bool

isFailsQC :: BamRec -> Bool

isDuplicate :: BamRec -> Bool

isSupplementary :: BamRec -> Bool

isTrimmed :: BamRec -> Bool

isMerged :: BamRec -> Bool

isAlternative :: BamRec -> Bool

isExactIndex :: BamRec -> Bool

type_mask :: Int

progressBam :: MonadIO m => String -> Refs -> Int -> (String -> IO ()) -> Enumeratee [BamRaw] [BamRaw] m a

A simple progress indicator that prints sequence id and position.

data Word32

32-bit unsigned integer type

Instances

Bounded Word32

Since: base-2.1

Defined in GHC.Word

Methods

minBound :: Word32

maxBound :: Word32

Enum Word32

Since: base-2.1

Defined in GHC.Word

Methods

succ :: Word32 -> Word32

pred :: Word32 -> Word32

toEnum :: Int -> Word32

fromEnum :: Word32 -> Int

enumFrom :: Word32 -> [Word32]

enumFromThen :: Word32 -> Word32 -> [Word32]

enumFromTo :: Word32 -> Word32 -> [Word32]

enumFromThenTo :: Word32 -> Word32 -> Word32 -> [Word32]

Eq Word32

Since: base-2.1

Defined in GHC.Word

Methods

(==) :: Word32 -> Word32 -> Bool

(/=) :: Word32 -> Word32 -> Bool

Integral Word32

Since: base-2.1

Defined in GHC.Word

Methods

quot :: Word32 -> Word32 -> Word32

rem :: Word32 -> Word32 -> Word32

div :: Word32 -> Word32 -> Word32

mod :: Word32 -> Word32 -> Word32

quotRem :: Word32 -> Word32 -> (Word32, Word32)

divMod :: Word32 -> Word32 -> (Word32, Word32)

toInteger :: Word32 -> Integer

Data Word32

Since: base-4.0.0.0

Defined in Data.Data

Methods

gfoldl :: (forall d b. Data d => c (d -> b) -> d -> c b) -> (forall g. g -> c g) -> Word32 -> c Word32

gunfold :: (forall b r. Data b => c (b -> r) -> c r) -> (forall r. r -> c r) -> Constr -> c Word32

toConstr :: Word32 -> Constr

dataTypeOf :: Word32 -> DataType

dataCast1 :: Typeable t => (forall d. Data d => c (t d)) -> Maybe (c Word32)

dataCast2 :: Typeable t => (forall d e. (Data d, Data e) => c (t d e)) -> Maybe (c Word32)

gmapT :: (forall b. Data b => b -> b) -> Word32 -> Word32

gmapQl :: (r -> r' -> r) -> r -> (forall d. Data d => d -> r') -> Word32 -> r

gmapQr :: (r' -> r -> r) -> r -> (forall d. Data d => d -> r') -> Word32 -> r

gmapQ :: (forall d. Data d => d -> u) -> Word32 -> [u]

gmapQi :: Int -> (forall d. Data d => d -> u) -> Word32 -> u

gmapM :: Monad m => (forall d. Data d => d -> m d) -> Word32 -> m Word32

gmapMp :: MonadPlus m => (forall d. Data d => d -> m d) -> Word32 -> m Word32

gmapMo :: MonadPlus m => (forall d. Data d => d -> m d) -> Word32 -> m Word32

Num Word32

Since: base-2.1

Defined in GHC.Word

Methods

(+) :: Word32 -> Word32 -> Word32

(-) :: Word32 -> Word32 -> Word32

(*) :: Word32 -> Word32 -> Word32

negate :: Word32 -> Word32

abs :: Word32 -> Word32

signum :: Word32 -> Word32

fromInteger :: Integer -> Word32

Ord Word32

Since: base-2.1

Defined in GHC.Word

Methods

compare :: Word32 -> Word32 -> Ordering

(<) :: Word32 -> Word32 -> Bool

(<=) :: Word32 -> Word32 -> Bool

(>) :: Word32 -> Word32 -> Bool

(>=) :: Word32 -> Word32 -> Bool

max :: Word32 -> Word32 -> Word32

min :: Word32 -> Word32 -> Word32

Read Word32

Since: base-2.1

Defined in GHC.Read

Methods

readsPrec :: Int -> ReadS Word32

readList :: ReadS [Word32]

readPrec :: ReadPrec Word32

readListPrec :: ReadPrec [Word32]

Real Word32

Since: base-2.1

Defined in GHC.Word

Methods

toRational :: Word32 -> Rational

Show Word32

Since: base-2.1

Defined in GHC.Word

Methods

showsPrec :: Int -> Word32 -> ShowS

show :: Word32 -> String

showList :: [Word32] -> ShowS

Ix Word32

Since: base-2.1

Defined in GHC.Word

Methods

range :: (Word32, Word32) -> [Word32]

index :: (Word32, Word32) -> Word32 -> Int

unsafeIndex :: (Word32, Word32) -> Word32 -> Int

inRange :: (Word32, Word32) -> Word32 -> Bool

rangeSize :: (Word32, Word32) -> Int

unsafeRangeSize :: (Word32, Word32) -> Int

Lift Word32

Defined in Language.Haskell.TH.Syntax

Methods

lift :: Word32 -> Q Exp

PrintfArg Word32

Since: base-2.1

Defined in Text.Printf

Methods

formatArg :: Word32 -> FieldFormatter

parseFormat :: Word32 -> ModifierParser

Storable Word32

Since: base-2.1

Defined in Foreign.Storable

Methods

sizeOf :: Word32 -> Int

alignment :: Word32 -> Int

peekElemOff :: Ptr Word32 -> Int -> IO Word32

pokeElemOff :: Ptr Word32 -> Int -> Word32 -> IO ()

peekByteOff :: Ptr b -> Int -> IO Word32

pokeByteOff :: Ptr b -> Int -> Word32 -> IO ()

peek :: Ptr Word32 -> IO Word32

poke :: Ptr Word32 -> Word32 -> IO ()

Bits Word32

Since: base-2.1

Defined in GHC.Word

Methods

(.&.) :: Word32 -> Word32 -> Word32

(.|.) :: Word32 -> Word32 -> Word32

xor :: Word32 -> Word32 -> Word32

complement :: Word32 -> Word32

shift :: Word32 -> Int -> Word32

rotate :: Word32 -> Int -> Word32

zeroBits :: Word32

bit :: Int -> Word32

setBit :: Word32 -> Int -> Word32

clearBit :: Word32 -> Int -> Word32

complementBit :: Word32 -> Int -> Word32

testBit :: Word32 -> Int -> Bool

bitSizeMaybe :: Word32 -> Maybe Int

bitSize :: Word32 -> Int

isSigned :: Word32 -> Bool

shiftL :: Word32 -> Int -> Word32

unsafeShiftL :: Word32 -> Int -> Word32

shiftR :: Word32 -> Int -> Word32

unsafeShiftR :: Word32 -> Int -> Word32

rotateL :: Word32 -> Int -> Word32

rotateR :: Word32 -> Int -> Word32

popCount :: Word32 -> Int

FiniteBits Word32

Since: base-4.6.0.0

Defined in GHC.Word

Methods

finiteBitSize :: Word32 -> Int

countLeadingZeros :: Word32 -> Int

countTrailingZeros :: Word32 -> Int

Unbox Word32

Defined in Data.Vector.Unboxed.Base

Prim Word32

Defined in Data.Primitive.Types

Methods

sizeOf# :: Word32 -> Int#

alignment# :: Word32 -> Int#

indexByteArray# :: ByteArray# -> Int# -> Word32

readByteArray# :: MutableByteArray# s -> Int# -> State# s -> (#State# s, Word32#)

writeByteArray# :: MutableByteArray# s -> Int# -> Word32 -> State# s -> State# s

setByteArray# :: MutableByteArray# s -> Int# -> Int# -> Word32 -> State# s -> State# s

indexOffAddr# :: Addr# -> Int# -> Word32

readOffAddr# :: Addr# -> Int# -> State# s -> (#State# s, Word32#)

writeOffAddr# :: Addr# -> Int# -> Word32 -> State# s -> State# s

setOffAddr# :: Addr# -> Int# -> Int# -> Word32 -> State# s -> State# s

Hashable Word32

Defined in Data.Hashable.Class

Methods

hashWithSalt :: Int -> Word32 -> Int

hash :: Word32 -> Int

Vector Vector Word32

Defined in Data.Vector.Unboxed.Base

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector (PrimState m) Word32 -> m (Vector Word32)

basicUnsafeThaw :: PrimMonad m => Vector Word32 -> m (Mutable Vector (PrimState m) Word32)

basicLength :: Vector Word32 -> Int

basicUnsafeSlice :: Int -> Int -> Vector Word32 -> Vector Word32

basicUnsafeIndexM :: Monad m => Vector Word32 -> Int -> m Word32

basicUnsafeCopy :: PrimMonad m => Mutable Vector (PrimState m) Word32 -> Vector Word32 -> m ()

elemseq :: Vector Word32 -> Word32 -> b -> b

MVector MVector Word32

Defined in Data.Vector.Unboxed.Base

Methods

basicLength :: MVector s Word32 -> Int

basicUnsafeSlice :: Int -> Int -> MVector s Word32 -> MVector s Word32

basicOverlaps :: MVector s Word32 -> MVector s Word32 -> Bool

basicUnsafeNew :: PrimMonad m => Int -> m (MVector (PrimState m) Word32)

basicInitialize :: PrimMonad m => MVector (PrimState m) Word32 -> m ()

basicUnsafeReplicate :: PrimMonad m => Int -> Word32 -> m (MVector (PrimState m) Word32)

basicUnsafeRead :: PrimMonad m => MVector (PrimState m) Word32 -> Int -> m Word32

basicUnsafeWrite :: PrimMonad m => MVector (PrimState m) Word32 -> Int -> Word32 -> m ()

basicClear :: PrimMonad m => MVector (PrimState m) Word32 -> m ()

basicSet :: PrimMonad m => MVector (PrimState m) Word32 -> Word32 -> m ()

basicUnsafeCopy :: PrimMonad m => MVector (PrimState m) Word32 -> MVector (PrimState m) Word32 -> m ()

basicUnsafeMove :: PrimMonad m => MVector (PrimState m) Word32 -> MVector (PrimState m) Word32 -> m ()

basicUnsafeGrow :: PrimMonad m => MVector (PrimState m) Word32 -> Int -> m (MVector (PrimState m) Word32)

data Vector Word32

Defined in Data.Vector.Unboxed.Base

data Vector Word32 = V_Word32 (Vector Word32)

data MVector s Word32

Defined in Data.Vector.Unboxed.Base

data MVector s Word32 = MV_Word32 (MVector s Word32)