hs-samtools-0.10.0.0: src/Data/SAM/Version1_6/Alignment/OptionalFields/BOPT.hs
{-# LANGUAGE DeriveDataTypeable #-}
{-# LANGUAGE DeriveGeneric #-}
{-# LANGUAGE FlexibleContexts #-}
{-# LANGUAGE FlexibleInstances #-}
{-# LANGUAGE MultiParamTypeClasses #-}
{-# LANGUAGE OverloadedStrings #-}
{-# LANGUAGE StrictData #-}
{-# LANGUAGE TypeFamilies #-}
-- |
-- Module : Data.SAM.Version1_6.Alignment.OptionalFields.BOPT
-- Copyright : (c) Matthew Mosior 2024
-- License : BSD-style
-- Maintainer : mattm.github@gmail.com
-- Portability : portable
--
-- = WARNING
--
-- This module is considered __internal__.
--
-- The Package Versioning Policy __does not apply__.
--
-- The contents of this module may change __in any way whatsoever__
-- and __without any warning__ between minor versions of this package.
--
-- Authors importing this library are expected to track development
-- closely.
--
-- All credit goes to the author(s)/maintainer(s) of the
-- [containers](https://hackage.haskell.org/package/containers) library
-- for the above warning text.
--
-- = Description
--
-- This library enables the decoding/encoding of SAM, BAM and CRAM file formats.
module Data.SAM.Version1_6.Alignment.OptionalFields.BOPT ( -- * SAM version 1.6 alignment optional fields data type
SAM_V1_6_Alignment_OptionalFields_BOPT(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Int8(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Word8(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Int16(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Word16(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Int32(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Word32(..),
SAM_V1_6_Alignment_OptionalFields_BOPT_Float(..)
) where
import Data.Data
import Data.Int
import Data.Sequence
import Data.Word
import Generics.Deriving.Base
-- | Custom SAM (version 1.6) @"SAM_V1_6_Alignment_OptionalFields_BOPT"@ data type.
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT = SAM_V1_6_Alignment_OptionalFields_BOPT
{ sam_v1_6_alignment_optionalfields_bopt_int8 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Int8
, sam_v1_6_alignment_optionalfields_bopt_word8 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Word8
, sam_v1_6_alignment_optionalfields_bopt_int16 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Int16
, sam_v1_6_alignment_optionalfields_bopt_word16 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Word16
, sam_v1_6_alignment_optionalfields_bopt_int32 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Int32
, sam_v1_6_alignment_optionalfields_bopt_word32 :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Word32
, sam_v1_6_alignment_optionalfields_bopt_float :: Maybe SAM_V1_6_Alignment_OptionalFields_BOPT_Float
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT where
SAM_V1_6_Alignment_OptionalFields_BOPT sam_v1_6_alignment_optionalfields_bopt_int81
sam_v1_6_alignment_optionalfields_bopt_word81
sam_v1_6_alignment_optionalfields_bopt_int161
sam_v1_6_alignment_optionalfields_bopt_word161
sam_v1_6_alignment_optionalfields_bopt_int321
sam_v1_6_alignment_optionalfields_bopt_word321
sam_v1_6_alignment_optionalfields_bopt_float1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT sam_v1_6_alignment_optionalfields_bopt_int82
sam_v1_6_alignment_optionalfields_bopt_word82
sam_v1_6_alignment_optionalfields_bopt_int162
sam_v1_6_alignment_optionalfields_bopt_word162
sam_v1_6_alignment_optionalfields_bopt_int322
sam_v1_6_alignment_optionalfields_bopt_word322
sam_v1_6_alignment_optionalfields_bopt_float2 =
sam_v1_6_alignment_optionalfields_bopt_int81 == sam_v1_6_alignment_optionalfields_bopt_int82 &&
sam_v1_6_alignment_optionalfields_bopt_word81 == sam_v1_6_alignment_optionalfields_bopt_word82 &&
sam_v1_6_alignment_optionalfields_bopt_int161 == sam_v1_6_alignment_optionalfields_bopt_int162 &&
sam_v1_6_alignment_optionalfields_bopt_word161 == sam_v1_6_alignment_optionalfields_bopt_word162 &&
sam_v1_6_alignment_optionalfields_bopt_int321 == sam_v1_6_alignment_optionalfields_bopt_int322 &&
sam_v1_6_alignment_optionalfields_bopt_word321 == sam_v1_6_alignment_optionalfields_bopt_word322 &&
sam_v1_6_alignment_optionalfields_bopt_float1 == sam_v1_6_alignment_optionalfields_bopt_float2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT where
show (SAM_V1_6_Alignment_OptionalFields_BOPT int8
word8
int16
word16
int32
word32
float
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT { " ++
"sam_v1_6_alignment_optionalfields_bopt_int8 = " ++
(show int8) ++
" , sam_v1_6_alignment_optionalfields_bopt_word8 = " ++
(show word8) ++
" , sam_v1_6_alignment_optionalfields_bopt_int16 = " ++
(show int16) ++
" , sam_v1_6_alignment_optionalfields_bopt_word16 = " ++
(show word16) ++
" , sam_v1_6_alignment_optionalfields_bopt_int32 = " ++
(show int32) ++
" , sam_v1_6_alignment_optionalfields_bopt_word32 = " ++
(show word32) ++
" , sam_v1_6_alignment_optionalfields_bopt_float = " ++
(show float) ++
" }"
-- | __c__CsSiIf of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 = SAM_V1_6_Alignment_OptionalFields_BOPT_Int8
{ sam_v1_6_alignment_optionalfields_bopt_int8_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_int8_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_int8_value :: Seq Int8
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 sam_v1_6_alignment_optionalfields_bopt_int8_tag1
sam_v1_6_alignment_optionalfields_bopt_int8_type1
sam_v1_6_alignment_optionalfields_bopt_int8_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 sam_v1_6_alignment_optionalfields_bopt_int8_tag2
sam_v1_6_alignment_optionalfields_bopt_int8_type2
sam_v1_6_alignment_optionalfields_bopt_int8_value2 =
sam_v1_6_alignment_optionalfields_bopt_int8_tag1 == sam_v1_6_alignment_optionalfields_bopt_int8_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_int8_type1 == sam_v1_6_alignment_optionalfields_bopt_int8_type2 &&
sam_v1_6_alignment_optionalfields_bopt_int8_value1 == sam_v1_6_alignment_optionalfields_bopt_int8_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Int8 { " ++
"sam_v1_6_alignment_optionalfields_bopt_int8_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_int8_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_int8_value = " ++
(show value) ++
" }"
-- | c__C__sSiIf of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 = SAM_V1_6_Alignment_OptionalFields_BOPT_Word8
{ sam_v1_6_alignment_optionalfields_bopt_word8_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_word8_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_word8_value :: Seq Word8
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 sam_v1_6_alignment_optionalfields_bopt_word8_tag1
sam_v1_6_alignment_optionalfields_bopt_word8_type1
sam_v1_6_alignment_optionalfields_bopt_word8_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 sam_v1_6_alignment_optionalfields_bopt_word8_tag2
sam_v1_6_alignment_optionalfields_bopt_word8_type2
sam_v1_6_alignment_optionalfields_bopt_word8_value2 =
sam_v1_6_alignment_optionalfields_bopt_word8_tag1 == sam_v1_6_alignment_optionalfields_bopt_word8_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_word8_type1 == sam_v1_6_alignment_optionalfields_bopt_word8_type2 &&
sam_v1_6_alignment_optionalfields_bopt_word8_value1 == sam_v1_6_alignment_optionalfields_bopt_word8_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Word8 { " ++
"sam_v1_6_alignment_optionalfields_bopt_word8_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_word8_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_word8_value = " ++
(show value) ++
" }"
-- | cC__s__SiIf of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 = SAM_V1_6_Alignment_OptionalFields_BOPT_Int16
{ sam_v1_6_alignment_optionalfields_bopt_int16_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_int16_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_int16_value :: Seq Int16
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 sam_v1_6_alignment_optionalfields_bopt_int16_tag1
sam_v1_6_alignment_optionalfields_bopt_int16_type1
sam_v1_6_alignment_optionalfields_bopt_int16_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 sam_v1_6_alignment_optionalfields_bopt_int16_tag2
sam_v1_6_alignment_optionalfields_bopt_int16_type2
sam_v1_6_alignment_optionalfields_bopt_int16_value2 =
sam_v1_6_alignment_optionalfields_bopt_int16_tag1 == sam_v1_6_alignment_optionalfields_bopt_int16_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_int16_type1 == sam_v1_6_alignment_optionalfields_bopt_int16_type2 &&
sam_v1_6_alignment_optionalfields_bopt_int16_value1 == sam_v1_6_alignment_optionalfields_bopt_int16_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Int16 { " ++
"sam_v1_6_alignment_optionalfields_bopt_int16_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_int16_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_int16_value = " ++
(show value) ++
" }"
-- | cCs__S__iIf of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 = SAM_V1_6_Alignment_OptionalFields_BOPT_Word16
{ sam_v1_6_alignment_optionalfields_bopt_word16_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_word16_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_word16_value :: Seq Word16
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 sam_v1_6_alignment_optionalfields_bopt_word16_tag1
sam_v1_6_alignment_optionalfields_bopt_word16_type1
sam_v1_6_alignment_optionalfields_bopt_word16_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 sam_v1_6_alignment_optionalfields_bopt_word16_tag2
sam_v1_6_alignment_optionalfields_bopt_word16_type2
sam_v1_6_alignment_optionalfields_bopt_word16_value2 =
sam_v1_6_alignment_optionalfields_bopt_word16_tag1 == sam_v1_6_alignment_optionalfields_bopt_word16_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_word16_type1 == sam_v1_6_alignment_optionalfields_bopt_word16_type2 &&
sam_v1_6_alignment_optionalfields_bopt_word16_value1 == sam_v1_6_alignment_optionalfields_bopt_word16_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Word16 { " ++
"sam_v1_6_alignment_optionalfields_bopt_word16_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_word16_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_word16_value = " ++
(show value) ++
" }"
-- | cCsS__i__If of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 = SAM_V1_6_Alignment_OptionalFields_BOPT_Int32
{ sam_v1_6_alignment_optionalfields_bopt_int32_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_int32_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_int32_value :: Seq Int32
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 sam_v1_6_alignment_optionalfields_bopt_int32_tag1
sam_v1_6_alignment_optionalfields_bopt_int32_type1
sam_v1_6_alignment_optionalfields_bopt_int32_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 sam_v1_6_alignment_optionalfields_bopt_int32_tag2
sam_v1_6_alignment_optionalfields_bopt_int32_type2
sam_v1_6_alignment_optionalfields_bopt_int32_value2 =
sam_v1_6_alignment_optionalfields_bopt_int32_tag1 == sam_v1_6_alignment_optionalfields_bopt_int32_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_int32_type1 == sam_v1_6_alignment_optionalfields_bopt_int32_type2 &&
sam_v1_6_alignment_optionalfields_bopt_int32_value1 == sam_v1_6_alignment_optionalfields_bopt_int32_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Int32 { " ++
"sam_v1_6_alignment_optionalfields_bopt_int32_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_int32_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_int32_value = " ++
(show value) ++
" }"
-- | cCsSi__I__f of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 = SAM_V1_6_Alignment_OptionalFields_BOPT_Word32
{ sam_v1_6_alignment_optionalfields_bopt_word32_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_word32_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_word32_value :: Seq Word32
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 where
SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 sam_v1_6_alignment_optionalfields_bopt_word32_tag1
sam_v1_6_alignment_optionalfields_bopt_word32_type1
sam_v1_6_alignment_optionalfields_bopt_word32_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 sam_v1_6_alignment_optionalfields_bopt_word32_tag2
sam_v1_6_alignment_optionalfields_bopt_word32_type2
sam_v1_6_alignment_optionalfields_bopt_word32_value2 =
sam_v1_6_alignment_optionalfields_bopt_word32_tag1 == sam_v1_6_alignment_optionalfields_bopt_word32_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_word32_type1 == sam_v1_6_alignment_optionalfields_bopt_word32_type2 &&
sam_v1_6_alignment_optionalfields_bopt_word32_value1 == sam_v1_6_alignment_optionalfields_bopt_word32_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Word32 { " ++
"sam_v1_6_alignment_optionalfields_bopt_word32_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_word32_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_word32_value = " ++
(show value) ++
" }"
-- | cCsSiI__f__ of the last optional field (type B).
--
-- See section 1.5 of the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Alignment_OptionalFields_BOPT_Float = SAM_V1_6_Alignment_OptionalFields_BOPT_Float
{ sam_v1_6_alignment_optionalfields_bopt_float_tag :: Seq Word8
, sam_v1_6_alignment_optionalfields_bopt_float_type :: Word8
, sam_v1_6_alignment_optionalfields_bopt_float_value :: Seq Float
} deriving (Generic,Typeable)
instance Eq SAM_V1_6_Alignment_OptionalFields_BOPT_Float where
SAM_V1_6_Alignment_OptionalFields_BOPT_Float sam_v1_6_alignment_optionalfields_bopt_float_tag1
sam_v1_6_alignment_optionalfields_bopt_float_type1
sam_v1_6_alignment_optionalfields_bopt_float_value1 ==
SAM_V1_6_Alignment_OptionalFields_BOPT_Float sam_v1_6_alignment_optionalfields_bopt_float_tag2
sam_v1_6_alignment_optionalfields_bopt_float_type2
sam_v1_6_alignment_optionalfields_bopt_float_value2 =
sam_v1_6_alignment_optionalfields_bopt_float_tag1 == sam_v1_6_alignment_optionalfields_bopt_float_tag2 &&
sam_v1_6_alignment_optionalfields_bopt_float_type1 == sam_v1_6_alignment_optionalfields_bopt_float_type2 &&
sam_v1_6_alignment_optionalfields_bopt_float_value1 == sam_v1_6_alignment_optionalfields_bopt_float_value2
instance Show SAM_V1_6_Alignment_OptionalFields_BOPT_Float where
show (SAM_V1_6_Alignment_OptionalFields_BOPT_Float tag
bopttype
value
) =
"SAM_V1_6_Alignment_OptionalFields_BOPT_Float { " ++
"sam_v1_6_alignment_optionalfields_bopt_float_tag = " ++
(show tag) ++
" , sam_v1_6_alignment_optionalfields_bopt_float_type = " ++
(show bopttype) ++
" , sam_v1_6_alignment_optionalfields_bopt_float_value = " ++
(show value) ++
" }"