.juliahistory

using GenomicVectors
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exit()
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using GenomicVectors
using GenomicVectors
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exit()

function GenomicRanges(genome_name, reader::BioAlignments.BAM.Reader)
    info = GenomeInfo(genome_name, reader)
    chr = String[]
    left_pos = Int64[]
    right_pos = Int64[]
    str::Vector{Strand}
    record = BAM.Record()
    ## FIXME: convert to genopos in the loop?
    while !eof(reader)
        read!(reader, record)
        if BAM.ismapped(record)
            push!(chr, BAM.refname(record))
            push!(left_pos, leftposition(record))
            push!(right_pos, rightposition(record))
            push!(strand, strand(record))
        end
    end
    GenomicRanges(chr, left_pos, right_pos, strands, info)
end


function GenomicRanges(genome_name, reader::BioAlignments.BAM.Reader)
    info = GenomeInfo(genome_name, reader)
    chr = String[]
    left_pos = Int64[]
    right_pos = Int64[]
    str::Vector{Strand}
    record = BAM.Record()
    ## FIXME: convert to genopos in the loop?
    while !eof(reader)
        read!(reader, record)
        if BAM.ismapped(record)
            push!(chr, BAM.refname(record))
            push!(left_pos, leftposition(record))
            push!(right_pos, rightposition(record))
            push!(str, strand(record))
        end
    end
    GenomicRanges(chr, left_pos, right_pos, strands, info)
end


function GenomicRanges(genome_name, reader::BioAlignments.BAM.Reader)
    info = GenomeInfo(genome_name, reader)
    chr = String[]
    left_pos = Int64[]
    right_pos = Int64[]
    strand_pos::Vector{Strand}
    record = BAM.Record()
    ## FIXME: convert to genopos in the loop?
    while !eof(reader)
        read!(reader, record)
        if BAM.ismapped(record)
            push!(chr, BAM.refname(record))
            push!(left_pos, leftposition(record))
            push!(right_pos, rightposition(record))
            push!(strand_pos, strand(record))
        end
    end
    GenomicRanges(chr, left_pos, right_pos, strand_pos, info)
end

exit()
Pkg.test("GenomicVectors")
methods(strand)
exit()