Subtype from XAMRecord

BioJulia · Jan 9, 2023 · 37bb5d2 · 37bb5d2
1 parent 77a6f6a
commit 37bb5d2
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Showing 5 changed files with 6 additions and 5 deletions.
diff --git a/src/XAM.jl b/src/XAM.jl
@@ -5,7 +5,8 @@ using BioGenerics
 export
     SAM,
     BAM
-
+
+abstract type XAMRecord end
 abstract type XAMReader <: BioGenerics.IO.AbstractReader end
 abstract type XAMWriter <: BioGenerics.IO.AbstractWriter end
 

diff --git a/src/bam/bam.jl b/src/bam/bam.jl
@@ -6,7 +6,7 @@ module BAM
 using BioGenerics
 using GenomicFeatures
 using XAM.SAM
-import ..XAM: flag, XAMReader, XAMWriter
+import ..XAM: flag, XAMRecord, XAMReader, XAMWriter
 
 import BGZFStreams
 import BioAlignments

diff --git a/src/bam/record.jl b/src/bam/record.jl
@@ -6,7 +6,7 @@
 
 Create an unfilled BAM record.
 """
-mutable struct Record
+mutable struct Record <: XAMRecord
     # fixed-length fields (see BMA specs for the details)
     block_size::Int32
     refid::Int32

diff --git a/src/sam/record.jl b/src/sam/record.jl
@@ -1,7 +1,7 @@
 # SAM Record
 # ==========
 
-mutable struct Record
+mutable struct Record <: XAMRecord
     # Data and filled range.
     data::Vector{UInt8}
     filled::UnitRange{Int} # Note: Specifies the data in use.

diff --git a/src/sam/sam.jl b/src/sam/sam.jl
@@ -11,7 +11,7 @@ import BioGenerics.Exceptions: missingerror
 import BioGenerics.Automa: State
 import BioSequences
 import TranscodingStreams: TranscodingStreams, TranscodingStream
-import ..XAM: flag, XAMReader, XAMWriter
+import ..XAM: flag, XAMRecord, XAMReader, XAMWriter
 
 using Printf: @sprintf