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Tests for in-place-reading pattern

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This commit is contained in:
Ciarán O'Mara 2020-04-17 15:51:11 +10:00
parent bb13a38cf7
commit 5fa8c5bd2e
1 changed files with 44 additions and 0 deletions
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test/runtests.jl
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@ -196,6 +196,29 @@ end
end
end
end
@testset "In-Place-Reading Pattern" begin
file_sam = joinpath(samdir, "ce#5b.sam")
records = open(collect, SAM.Reader, file_sam)
reader = open(SAM.Reader, file_sam)
record = SAM.Record()
i = 0
while !eof(reader)
empty!(record) # Reset the record.
read!(reader, record)
i = i + 1
@test records[i] == record
end
close(reader)
end
end
@testset "BAM" begin
@ -414,6 +437,27 @@ end
end
end
@testset "In-Place-Reading Pattern" begin
file_bam = joinpath(bamdir, "ce#5b.bam")
records = open(collect, BAM.Reader, file_bam)
reader = open(BAM.Reader, file_bam)
record = BAM.Record()
i = 0
while !eof(reader)
empty!(record) # Reset the record.
read!(reader, record)
i = i + 1
@test records[i] == record
end
close(reader)
end
@testset "Random access" begin
filepath = joinpath(bamdir, "GSE25840_GSM424320_GM06985_gencode_spliced.head.bam")
reader = open(BAM.Reader, filepath, index=filepath * ".bai")