Not all files are downloaded on Pkg.add("BioSeq")

[jprider63]

Only the following files are downloaded on Pkg.add("BioSeq"):

BioSeq.jl alphabetsfunc.jl dna2.jl stringlike.jl
alphabets.jl biounits.jl functions.jl

Do we need to wait for a new version to use translate.jl, etc? Can I use the current version by cloning and running Pkg.new()?

[diegozea]

Hi! I can't reproduce it.
Have you tried with Pkg.update() ?

[mattm401]

I am having the same issue and I've tried Pkg.update(), which runs fine. I also tried directly copying the missing files into the packages folder but that did not have any effect.

[diegozea]

Works fine for Julia 0.2.0 but version of BioSeq is not update on METADATA for Julia 0.1.2

[mattm401]

Alright, that probably will solve the issue for me. Thanks!

[jprider63]

Hmm ok I'll try building Julia 0.2.0 and see if that works. There's no binary available for OS X, correct?

[diegozea]

Julia 0.2.0 is still in development and I doesn't sure about binaries for OS X. Maybe, for Julia package development is good to have installed the two Julia versions. BioSeq is going to be updated soon on 0.1.2.

[diegozea]

Is this problem solved ?

[jprider63]

I'm checking this now.

[diegozea]

Working on Julia 0.1.2

julia> Pkg.add("BioSeq")
MESSAGE: Installing BioSeq v0.1.0
Clonar en «BioSeq»...
remote: Counting objects: 253, done.
remote: Compressing objects: 100% (105/105), done.
remote: Total 253 (delta 128), reused 247 (delta 125)
Receiving objects: 100% (253/253), 59.05 KiB | 62 KiB/s, done.
Resolving deltas: 100% (128/128), done.

julia> using BioSeq
Warning: New definition convert(Type{Array{Tout<:Union(Uint8,BioUnit),1}},Array{Tin<:Union(Uint8,BioUnit),1}) is ambiguous with convert(Type{Array{T,n}},Array{T,n}) at array.jl:235.
         Make sure convert(Type{Array{Tout<:Union(Uint8,BioUnit),1}},Array{Tin<:Union(Uint8,BioUnit),1}) is defined first.
Warning: New definition convert(Type{Array{Tout<:Union(Uint8,BioUnit),2}},Array{Tin<:Union(Uint8,BioUnit),2}) is ambiguous with convert(Type{Array{T,n}},Array{T,n}) at array.jl:235.
         Make sure convert(Type{Array{Tout<:Union(Uint8,BioUnit),2}},Array{Tin<:Union(Uint8,BioUnit),2}) is defined first.

julia> translate( nt"TGA" , 1 )
1-element AminoAcid Array:
 *