compbiocore / VariantVisualization.jl

Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
https://compbiocore.github.io/VariantVisualization.jl/stable/
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LoadError: ORCA not installed properly. Please call `Pkg.build("ORCA") #92

Open vmkalbskopf opened 4 years ago

vmkalbskopf commented 4 years ago

Hi there I have never used julia before, so I'm probably missing something obvious. I am getting that error the first time I run sudo viva Here is the full trace:

Welcome to VIVA.

Loading dependency packages:

ERROR: LoadError: ORCA not installed properly. Please call `Pkg.build("ORCA")`
Stacktrace:
 [1] error(::String) at ./error.jl:33
 [2] top-level scope at /root/.julia/packages/ORCA/jdK40/src/ORCA.jl:10
 [3] include(::Module, ::String) at ./Base.jl:377
 [4] top-level scope at none:2
 [5] eval at ./boot.jl:331 [inlined]
 [6] eval(::Expr) at ./client.jl:449
 [7] top-level scope at ./none:3
in expression starting at /root/.julia/packages/ORCA/jdK40/src/ORCA.jl:7
ERROR: LoadError: Failed to precompile ORCA [47be7bcc-f1a6-5447-8b36-7eeeff7534fd] to /root/.julia/compiled/v1.4/ORCA/jvX7k_DX2wd.ji.
Stacktrace:
 [1] error(::String) at ./error.jl:33
 [2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1272
 [3] _require(::Base.PkgId) at ./loading.jl:1029
 [4] require(::Base.PkgId) at ./loading.jl:927
 [5] require(::Module, ::Symbol) at ./loading.jl:922
 [6] include(::Module, ::String) at ./Base.jl:377
 [7] top-level scope at none:2
 [8] eval at ./boot.jl:331 [inlined]
 [9] eval(::Expr) at ./client.jl:449
 [10] top-level scope at ./none:3
in expression starting at /root/.julia/packages/VariantVisualization/1yoNl/src/VariantVisualization.jl:5
ERROR: LoadError: Failed to precompile VariantVisualization [7f8bf45c-0ad5-53b5-97e6-33c1305e0aa4] to /root/.julia/compiled/v1.4/VariantVisualization/v8cR2_DX2wd.ji.
Stacktrace:
 [1] error(::String) at ./error.jl:33
 [2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1272
 [3] _require(::Base.PkgId) at ./loading.jl:1029
 [4] require(::Base.PkgId) at ./loading.jl:927
 [5] require(::Module, ::Symbol) at ./loading.jl:922
 [6] include(::Module, ::String) at ./Base.jl:377
 [7] exec_options(::Base.JLOptions) at ./client.jl:288
 [8] _start() at ./client.jl:484
in expression starting at /usr/local/bin/viva:9

I tried installing Orca manually using the julia prompt. It worked fine, no error. But I still get the error above when I try to run viva.

julia> using Pkg

julia> Pkg.build("ORCA")
   Building ORCA → `~/.julia/packages/ORCA/jdK40/deps/build.log`
gtollefson commented 3 years ago

Hi @vmkalbskopf, I'm sorry for my delayed response. Our research focus was not on development over the summer and missed your issue request. If you open the Julia REPL and then run using ORCA what happens?