Error in matrixFromBam() (no method matching Array{Int8,2})

[Christopher-Peterson]

I've encountered an error when trying to use the matrixFromBam() function.

Input:

matrixFromBam("X5_genome1", "NC_058066.1"; 
                     reference_path = "genomes/A13",
                     bamfile_path="split_bams")

After running for a minute or so, I get this error:

ERROR: MethodError: no method matching Array{Int8,2}(::Array{Int64,1})
Closest candidates are:
  Array{Int8,2}(::AbstractArray{S,N}) where {T, N, S} at array.jl:498
  Array{Int8,2}(::UndefInitializer, ::Int64, ::Int64) where T at boot.jl:406
  Array{Int8,2}(::UndefInitializer, ::Int64...) where {T, N} at boot.jl:410
  ...
Stacktrace:
 [1] (::Base.var"#732#734")(::Task) at ./asyncmap.jl:178
 [2] foreach(::Base.var"#732#734", ::Array{Any,1}) at ./abstractarray.jl:1920
 [3] maptwice(::Function, ::Channel{Any}, ::Array{Any,1}, ::StepRange{Int64,Int64}) at ./asyncmap.jl:178
 [4] wrap_n_exec_twice(::Channel{Any}, ::Array{Any,1}, ::Distributed.var"#208#211"{WorkerPool}, ::Function, ::StepRange{Int64,Int64}) at ./asyncmap.jl:154
 [5] #async_usemap#717(::Function, ::Nothing, ::typeof(Base.async_usemap), ::InformMe.var"#15#16"{Bool,Int64,Int64,Int64,String,String,Array{Int64,1},Bool}, ::StepRange{Int64,Int64}) at ./asyncmap.jl:103
 [6] (::Base.var"#kw##async_usemap")(::NamedTuple{(:ntasks, :batch_size),Tuple{Distributed.var"#208#211"{WorkerPool},Nothing}}, ::typeof(Base.async_usemap), ::Function, ::StepRange{Int64,Int64}) at ./none:0
 [7] #asyncmap#716 at ./asyncmap.jl:81 [inlined]
 [8] #asyncmap at ./none:0 [inlined]
 [9] #pmap#207(::Bool, ::Int64, ::Nothing, ::Array{Any,1}, ::Nothing, ::typeof(pmap), ::Function, ::WorkerPool, ::StepRange{Int64,Int64}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.3/Distributed/src/pmap.jl:126
 [10] pmap(::Function, ::WorkerPool, ::StepRange{Int64,Int64}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.3/Distributed/src/pmap.jl:101
 [11] #pmap#217(::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}, ::typeof(pmap), ::Function, ::StepRange{Int64,Int64}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.3/Distributed/src/pmap.jl:156
 [12] pmap(::Function, ::StepRange{Int64,Int64}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.3/Distributed/src/pmap.jl:156
 [13] #matrixFromBam#14(::String, ::String, ::String, ::Bool, ::Int64, ::Int64, ::Int64, ::Int64, ::typeof(matrixFromBam), ::String, ::String) at /home1/04386/crpeters/.julia/packages/InformMe/5Rkri/src/matrixFromBam.jl:204
 [14] (::InformMe.var"#kw##matrixFromBam")(::NamedTuple{(:reference_path, :bamfile_path),Tuple{String,String}}, ::typeof(matrixFromBam), ::String, ::String) at ./none:0
 [15] top-level scope at REPL[10]:1

This is running on Julia v. 1.3.0; all tests were passed after installation. The relevant fasta files have previously been processed with fastaToCpG(). Changing the bam inputs or the chromosome ID results in no change to the error.