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While trying to run the tests of Oceananigans in CI, I'm getting this extremely puzzling error message:
ERROR: `Enzyme=7da242da-08ed-463a-9acd-ee780be4f1d9` depends on `LogExpFunctions=2ab3a3ac-af41-5b50-aa03-7779005ae688`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, project_hash::Base.SHA1, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/manifest.jl:159
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/manifest.jl:230
[4] read_manifest(f_or_io::String)
@ Pkg.Types ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/manifest.jl:253
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Types.jl:421
[6] EnvCache
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Types.jl:388 [inlined]
[7] #show_update#244
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2896 [inlined]
[8] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing)
@ Pkg.Operations ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1908
[9] up
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1880 [inlined]
[10] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:418
[11] up
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:390 [inlined]
[12] up
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:169 [inlined]
[13] #resolve#167
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:424 [inlined]
[14] resolve
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:423 [inlined]
[15] (::Pkg.Operations.var"#189#190"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#204#205"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec})()
@ Pkg.Operations ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2188
[16] with_temp_env(fn::Pkg.Operations.var"#189#190"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#204#205"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec}, temp_env::String)
@ Pkg.Operations ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2062
[17] (::Pkg.Operations.var"#185#186"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#204#205"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String)
@ Pkg.Operations ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2172
[18] mktempdir(fn::Pkg.Operations.var"#185#186"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#204#205"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String)
@ Base.Filesystem ./file.jl:936
[19] mktempdir(fn::Function, parent::String)
@ Base.Filesystem ./file.jl:932
[20] #sandbox#181
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2119 [inlined]
[21] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool)
@ Pkg.Operations ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2371
[22] test
@ ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2281 [inlined]
[23] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}})
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:512
[24] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{})
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:164
[25] test(pkgs::Vector{PackageSpec})
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:153
[26] test(; name::Nothing, uuid::Nothing, version::Nothing, url::Nothing, rev::Nothing, path::Nothing, mode::PackageMode, subdir::Nothing, kwargs::@Kwargs{})
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:179
[27] test()
@ Pkg.API ~/.julia/juliaup/julia-1.12.2+0.x64.linux.gnu/share/julia/stdlib/v1.12/Pkg/src/API.jl:170
[28] top-level scope
@ none:1
[29] eval(m::Module, e::Any)
@ Core ./boot.jl:489
[30] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:283
[31] _start()
@ Base ./client.jl:550
Besides the fact that this error completely blindfolds me, my main complaint here is that the error message says "the manifest" but I have no idea of what manifest this refers to. After quite some remote debugging I came to the conclusion this is the temporary manifest created as part of running the tests, but getting the path of the manifest in the message would make things a lot clearer.
DilumAluthge and IanButterworth
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