Unable to use CSV in Julia 1.6

[bluesmoon]

I'm using julia 1.6.3 and trying to add CSV to a clean environment:

(v1.6) pkg> activate Foo
  Activating new environment at `/staging/SOASTA/DSWB/datascienceworkbench/lib/Modules-1.0/Foo/Project.toml`

(Foo) pkg> st
      Status `/staging/SOASTA/DSWB/datascienceworkbench/lib/Modules-1.0/Foo/Project.toml` (empty project)

(Foo) pkg> add CSV
   Resolving package versions...
    Updating `/staging/SOASTA/DSWB/datascienceworkbench/lib/Modules-1.0/Foo/Project.toml`
  [336ed68f] + CSV v0.9.4
    Updating `/staging/SOASTA/DSWB/datascienceworkbench/lib/Modules-1.0/Foo/Manifest.toml`
  [336ed68f] + CSV v0.9.4
  [944b1d66] + CodecZlib v0.7.0
  [9a962f9c] + DataAPI v1.9.0
  [e2d170a0] + DataValueInterfaces v1.0.0
  [48062228] + FilePathsBase v0.9.11
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [69de0a69] + Parsers v2.0.4
  [2dfb63ee] + PooledArrays v1.3.0
  [91c51154] + SentinelArrays v1.3.7
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.5.2
  [3bb67fe8] + TranscodingStreams v0.9.6
  [ea10d353] + WeakRefStrings v1.3.0
  [2a0f44e3] + Base64
  [ade2ca70] + Dates
  [9fa8497b] + Future
  [b77e0a4c] + InteractiveUtils
  [8f399da3] + Libdl
  [37e2e46d] + LinearAlgebra
  [56ddb016] + Logging
  [d6f4376e] + Markdown
  [a63ad114] + Mmap
  [de0858da] + Printf
  [9a3f8284] + Random
  [ea8e919c] + SHA
  [9e88b42a] + Serialization
  [8dfed614] + Test
  [cf7118a7] + UUIDs
  [4ec0a83e] + Unicode
  [83775a58] + Zlib_jll
Precompiling project...
  ✗ Zlib_jll
  0 dependencies successfully precompiled in 1 seconds (13 already precompiled)
  1 dependency errored. To see a full report either run `import Pkg; Pkg.precompile()` or load the package

It reports a compilation error with Zlib_jll:

julia> import CSV
[ Info: Precompiling CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b]
ERROR: LoadError: ArgumentError: Package Zlib_jll does not have JLLWrappers in its dependencies:
- If you have Zlib_jll checked out for development and have
  added JLLWrappers as a dependency but haven't updated your primary
  environment's manifest file, try `Pkg.resolve()`.
- Otherwise you may need to report an issue with Zlib_jll
Stacktrace:
 [1] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:906
 [2] include
   @ ./Base.jl:386 [inlined]
 [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::String)
   @ Base ./loading.jl:1235
 [4] top-level scope
   @ none:1
 [5] eval
   @ ./boot.jl:360 [inlined]
 [6] eval(x::Expr)
   @ Base.MainInclude ./client.jl:446
 [7] top-level scope
   @ none:1
in expression starting at /home/ubuntu/.julia/packages/Zlib_jll/BGVLi/src/Zlib_jll.jl:2
ERROR: LoadError: Failed to precompile Zlib_jll [83775a58-1f1d-513f-b197-d71354ab007a] to /home/ubuntu/.julia/compiled/v1.6/Zlib_jll/jl_TQuAML.
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:33
  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::Base.TTY, internal_stdout::Base.TTY, ignore_loaded_modules::Bool)
    @ Base ./loading.jl:1385
  [3] compilecache(pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1329
  [4] _require(pkg::Base.PkgId)
    @ Base ./loading.jl:1043
  [5] require(uuidkey::Base.PkgId)
    @ Base ./loading.jl:936
  [6] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:923
  [7] include
    @ ./Base.jl:386 [inlined]
  [8] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::String)
    @ Base ./loading.jl:1235
  [9] top-level scope
    @ none:1
 [10] eval
    @ ./boot.jl:360 [inlined]
 [11] eval(x::Expr)
    @ Base.MainInclude ./client.jl:446
 [12] top-level scope
    @ none:1
in expression starting at /home/ubuntu/.julia/packages/CodecZlib/ruMLE/src/CodecZlib.jl:1
ERROR: LoadError: Failed to precompile CodecZlib [944b1d66-785c-5afd-91f1-9de20f533193] to /home/ubuntu/.julia/compiled/v1.6/CodecZlib/jl_HMJCUw.
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:33
  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::Base.TTY, internal_stdout::Base.TTY, ignore_loaded_modules::Bool)
    @ Base ./loading.jl:1385
  [3] compilecache(pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1329
  [4] _require(pkg::Base.PkgId)
    @ Base ./loading.jl:1043
  [5] require(uuidkey::Base.PkgId)
    @ Base ./loading.jl:936
  [6] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:923
  [7] include
    @ ./Base.jl:386 [inlined]
  [8] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::Nothing)
    @ Base ./loading.jl:1235
  [9] top-level scope
    @ none:1
 [10] eval
    @ ./boot.jl:360 [inlined]
 [11] eval(x::Expr)
    @ Base.MainInclude ./client.jl:446
 [12] top-level scope
    @ none:1
in expression starting at /home/ubuntu/.julia/packages/CSV/b4GfC/src/CSV.jl:1
ERROR: Failed to precompile CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b] to /home/ubuntu/.julia/compiled/v1.6/CSV/jl_EJN4p1.
Stacktrace:
 [1] error(s::String)
   @ Base ./error.jl:33
 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::Base.TTY, internal_stdout::Base.TTY, ignore_loaded_modules::Bool)
   @ Base ./loading.jl:1385
 [3] compilecache(pkg::Base.PkgId, path::String)
   @ Base ./loading.jl:1329
 [4] _require(pkg::Base.PkgId)
   @ Base ./loading.jl:1043
 [5] require(uuidkey::Base.PkgId)
   @ Base ./loading.jl:936
 [6] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:923

I don't understand why the error happens since Zlib_jll is supposed to be compiled into julia 1.6

[KristofferC]

This has nothing to do with CSV.jl. I think this happens when you have a manifest from 1.5 that you use in 1.6.

[bluesmoon]

It wasn't the Manifest (I'd deleted the Manifest files). The problem was that there was a Zlib_jll folder in packages, and for some reason julia was trying to use that instead of the version in the sys image.

[KristofferC]

That should not happen unless there is a manifest pointing to that package.