mirror of
https://github.com/MillironX/XAM.jl.git
synced 2024-11-14 22:33:14 +00:00
Add messages to assertions
This commit is contained in:
parent
8424757cc2
commit
5da017052b
4 changed files with 6 additions and 5 deletions
|
@ -50,7 +50,9 @@ function Base.iterate(iter::OverlapIterator)
|
||||||
if refindex === nothing
|
if refindex === nothing
|
||||||
throw(ArgumentError("sequence name $(iter.refname) is not found in the header"))
|
throw(ArgumentError("sequence name $(iter.refname) is not found in the header"))
|
||||||
end
|
end
|
||||||
@assert iter.reader.index !== nothing
|
|
||||||
|
@assert iter.reader.index !== nothing "Reader index cannot be nothing."
|
||||||
|
|
||||||
chunks = Indexes.overlapchunks(iter.reader.index.index, refindex, iter.interval)
|
chunks = Indexes.overlapchunks(iter.reader.index.index, refindex, iter.interval)
|
||||||
if isempty(chunks)
|
if isempty(chunks)
|
||||||
return nothing
|
return nothing
|
||||||
|
|
|
@ -37,7 +37,7 @@ function Base.write(writer::Writer, record::Record)
|
||||||
end
|
end
|
||||||
|
|
||||||
function write_header(stream, header, refseqnames, refseqlens)
|
function write_header(stream, header, refseqnames, refseqlens)
|
||||||
@assert length(refseqnames) == length(refseqlens)
|
@assert length(refseqnames) == length(refseqlens) "Lengths of refseq names and lengths must match."
|
||||||
n = 0
|
n = 0
|
||||||
|
|
||||||
# magic bytes
|
# magic bytes
|
||||||
|
|
|
@ -16,7 +16,7 @@ for (name, bits, doc) in [
|
||||||
(:QCFAIL, UInt16(0x200), "QC failure" ),
|
(:QCFAIL, UInt16(0x200), "QC failure" ),
|
||||||
(:DUP, UInt16(0x400), "optical or PCR duplicate" ),
|
(:DUP, UInt16(0x400), "optical or PCR duplicate" ),
|
||||||
(:SUPPLEMENTARY, UInt16(0x800), "supplementary alignment" ),]
|
(:SUPPLEMENTARY, UInt16(0x800), "supplementary alignment" ),]
|
||||||
@assert bits isa UInt16
|
@assert bits isa UInt16 "The bits must be of type UInt16."
|
||||||
sym = Symbol("FLAG_", name)
|
sym = Symbol("FLAG_", name)
|
||||||
docstring = """ $sym
|
docstring = """ $sym
|
||||||
SAM/BAM flag: $doc
|
SAM/BAM flag: $doc
|
||||||
|
@ -27,4 +27,3 @@ for (name, bits, doc) in [
|
||||||
@doc $(docstring) const $(sym) = $(bits)
|
@doc $(docstring) const $(sym) = $(bits)
|
||||||
end
|
end
|
||||||
end
|
end
|
||||||
|
|
||||||
|
|
|
@ -494,7 +494,7 @@ function Base.getindex(record::Record, tag::AbstractString)
|
||||||
end
|
end
|
||||||
|
|
||||||
if typ == UInt8('A')
|
if typ == UInt8('A')
|
||||||
@assert lo == hi
|
@assert lo == hi "Values lo and hi must be equivalent."
|
||||||
return Char(record.data[lo])
|
return Char(record.data[lo])
|
||||||
end
|
end
|
||||||
if typ == UInt8('i')
|
if typ == UInt8('i')
|
||||||
|
|
Loading…
Reference in a new issue