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Subtype from XAMRecord
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6 changed files with 8 additions and 5 deletions
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@ -13,6 +13,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
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### Changed
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- Subtype from XAMReader and XAMWriter from common abstract types.
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- Subtype from XAMRecord.
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- Unified flag queries.
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## [0.3.1]
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@ -5,7 +5,8 @@ using BioGenerics
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export
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SAM,
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BAM
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abstract type XAMRecord end
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abstract type XAMReader <: BioGenerics.IO.AbstractReader end
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abstract type XAMWriter <: BioGenerics.IO.AbstractWriter end
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@ -6,7 +6,7 @@ module BAM
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using BioGenerics
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using GenomicFeatures
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using XAM.SAM
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import ..XAM: flag, XAMReader, XAMWriter
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import ..XAM: flag, XAMRecord, XAMReader, XAMWriter
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import BGZFStreams
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import BioAlignments
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@ -6,7 +6,7 @@
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Create an unfilled BAM record.
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"""
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mutable struct Record
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mutable struct Record <: XAMRecord
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# fixed-length fields (see BMA specs for the details)
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block_size::Int32
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refid::Int32
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@ -1,7 +1,7 @@
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# SAM Record
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# ==========
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mutable struct Record
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mutable struct Record <: XAMRecord
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# Data and filled range.
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data::Vector{UInt8}
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filled::UnitRange{Int} # Note: Specifies the data in use.
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@ -11,7 +11,7 @@ import BioGenerics.Exceptions: missingerror
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import BioGenerics.Automa: State
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import BioSequences
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import TranscodingStreams: TranscodingStreams, TranscodingStream
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import ..XAM: flag, XAMReader, XAMWriter
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import ..XAM: flag, XAMRecord, XAMReader, XAMWriter
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using Printf: @sprintf
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