# Packages imported in IJulia throw errors that are missing when imported in REPL

**URL:** <https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683>\
**Category:** General Usage\
**Tags:** package, ijulia\
**Created:** [July 7, 2020, 5:35pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683 "2020-07-07T17:35:12Z")\
**Posts on this page:** 10\
**Page:** 1

<div class="post-metadata">

**Author:** ![Qfl3x](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/qfl3x/32/16227_2.png) [@Qfl3x](https://discourse.julialang.org/u/Qfl3x)\
**Post date:** [July 7, 2020, 5:35pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/1 "2020-07-07T17:35:12Z")

</div>

Hello. When `using` packages from within IJulia, I get error messages of the type:

```julia
┌ Info: Precompiling Zygote [e88e6eb3-aa80-5325-afca-941959d7151f]
└ @ Base loading.jl:1260
┌ Warning: Package Zygote does not have ArrayLayouts in its dependencies:
│ - If you have Zygote checked out for development and have
│ added ArrayLayouts 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 Zygote
└ Loading ArrayLayouts into Zygote from project dependency, future warnings for Zygote are suppressed.
ERROR: LoadError: LoadError: ArgumentError: Package Zygote does not have AbstractFFTs in its dependencies:
- If you have Zygote checked out for development and have
  added AbstractFFTs 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 Zygote
Stacktrace:
 [1] require(::Module, ::Symbol) at ./loading.jl:905
 [2] include(::Module, ::String) at ./Base.jl:377
 [3] include(::String) at /home/qfl3x/.julia/packages/Zygote/1GXzF/src/Zygote.jl:1
 [4] top-level scope at /home/qfl3x/.julia/packages/Zygote/1GXzF/src/Zygote.jl:29
 [5] include(::Module, ::String) at ./Base.jl:377
 [6] top-level scope at none:2
 [7] eval at ./boot.jl:331 [inlined]
 [8] eval(::Expr) at ./client.jl:449
 [9] top-level scope at ./none:3
in expression starting at /home/qfl3x/.julia/packages/Zygote/1GXzF/src/lib/array.jl:1
in expression starting at /home/qfl3x/.julia/packages/Zygote/1GXzF/src/Zygote.jl:29

```

Another example for DiffEq:

```julia
┌ Info: Precompiling DifferentialEquations [0c46a032-eb83-5123-abaf-570d42b7fbaa]
└ @ Base loading.jl:1260
┌ Warning: Package RecursiveArrayTools does not have LinearAlgebra in its dependencies:
│ - If you have RecursiveArrayTools checked out for development and have
│ added LinearAlgebra 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 RecursiveArrayTools
└ Loading LinearAlgebra into RecursiveArrayTools from project dependency, future warnings for RecursiveArrayTools are suppressed.
ERROR: LoadError: LoadError: ArgumentError: Package RecursiveFactorization does not have LoopVectorization in its dependencies:
- If you have RecursiveFactorization checked out for development and have
  added LoopVectorization 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 RecursiveFactorization
Stacktrace:
 [1] require(::Module, ::Symbol) at ./loading.jl:905
 [2] include(::Module, ::String) at ./Base.jl:377
 [3] include(::String) at /home/qfl3x/.julia/packages/RecursiveFactorization/wAEz3/src/RecursiveFactorization.jl:1
 [4] top-level scope at /home/qfl3x/.julia/packages/RecursiveFactorization/wAEz3/src/RecursiveFactorization.jl:3
 [5] include(::Module, ::String) at ./Base.jl:377
 [6] top-level scope at none:2
 [7] eval at ./boot.jl:331 [inlined]
 [8] eval(::Expr) at ./client.jl:449
 [9] top-level scope at ./none:3
in expression starting at /home/qfl3x/.julia/packages/RecursiveFactorization/wAEz3/src/lu.jl:1
in expression starting at /home/qfl3x/.julia/packages/RecursiveFactorization/wAEz3/src/RecursiveFactorization.jl:3
ERROR: LoadError: Failed to precompile RecursiveFactorization [f2c3362d-daeb-58d1-803e-2bc74f2840b4] to /home/qfl3x/.julia/compiled/v1.4/RecursiveFactorization/tEwl6_4K85o.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 /home/qfl3x/.julia/packages/DiffEqBase/uSSHl/src/DiffEqBase.jl:3
ERROR: LoadError: Failed to precompile DiffEqBase [2b5f629d-d688-5b77-993f-72d75c75574e] to /home/qfl3x/.julia/compiled/v1.4/DiffEqBase/oaevG_4K85o.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 /home/qfl3x/.julia/packages/DifferentialEquations/fpohE/src/DifferentialEquations.jl:5

```

These messages only go away if I painstakingly `Pkg.add` every package that’s written in there. However, this does not occure in the REPL, where only Precompilation messages appear. And yes, I am using the good version of Julia for IJulia, otherwise installing those packages won’t make the errors disappear.

This is happening for me on two machines. An Arch Linux machine with the distro’s julia and the other a Solus machine with a binary.

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<div class="post-metadata">

**Author:** ![kristoffer.carlsson](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/kristoffer.carlsson/32/22_2.png) [@kristoffer.carlsson](https://discourse.julialang.org/u/kristoffer.carlsson)\
**Post date:** [July 7, 2020, 5:41pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/2 "2020-07-07T17:41:49Z")

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Stuff that are good to know:

- What Julia version?
- How did you install Julia?
- Do you have multiple registries installed (in e.g. `.julia/registries`)?
- How does your Manifest.toml file look like after adding `Zygote`.

---

<div class="post-metadata">

**Author:** ![Henrique\_Becker](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/henrique_becker/32/15443_2.png) [@Henrique\_Becker](https://discourse.julialang.org/u/Henrique_Becker)\
**Post date:** [July 7, 2020, 5:50pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/3 "2020-07-07T17:50:59Z")

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This is strange. I see this kind of error only when I am executing tests or generating documentation for a package I have written, and the `Manifest.toml` inside `test` or `docs` is old, so I already have added new dependencies to my package, but did not update the environment of `test` or `docs` to know this.

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<div class="post-metadata">

**Author:** ![Qfl3x](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/qfl3x/32/16227_2.png) [@Qfl3x](https://discourse.julialang.org/u/Qfl3x)\
**Post date:** [July 7, 2020, 5:53pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/4 "2020-07-07T17:53:04Z")

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```julia
julia> versioninfo()
Julia Version 1.4.2
Commit 44fa15b150* (2020-05-23 18:35 UTC)
Platform Info:
  OS: Linux (x86_64-pc-linux-gnu)
  CPU: Intel(R) Core(TM) i5-6500 CPU @ 3.20GHz
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-8.0.1 (ORCJIT, skylake)

```

The version I’m currently working with is the binary version.

Only one registry. ( General )

Zygote entry:

```julia
[[Zygote]]
deps = ["AbstractFFTs", "ArrayLayouts", "ChainRules", "FillArrays", "ForwardDiff", "Future", "IRTools", "InteractiveUtils", "LinearAlgebra", "MacroTools", "NNlib", "Random", "Requires", "Statistics", "ZygoteRules"]
git-tree-sha1 = "2e2c82549fb0414df10469082fd001e2ede8547c"
uuid = "e88e6eb3-aa80-5325-afca-941959d7151f"
version = "0.4.22"

```

---

<div class="post-metadata">

**Author:** ![Qfl3x](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/qfl3x/32/16227_2.png) [@Qfl3x](https://discourse.julialang.org/u/Qfl3x)\
**Post date:** [July 7, 2020, 8:46pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/5 "2020-07-07T20:46:55Z")

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UPDATE: I reset my julia install (`rm -r ~/.julia`) and it still happens. However, this only happens in the notebooks that I `git clone`’d from [here](https://github.com/crstnbr/juliaoulu20)

---

<div class="post-metadata">

**Author:** ![kristoffer.carlsson](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/kristoffer.carlsson/32/22_2.png) [@kristoffer.carlsson](https://discourse.julialang.org/u/kristoffer.carlsson)\
**Post date:** [July 7, 2020, 8:53pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/6 "2020-07-07T20:53:31Z")

</div>

In the Manifest there, Zygote does not have ArrayLayouts as a dependency.

---

<div class="post-metadata">

**Author:** ![Qfl3x](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/qfl3x/32/16227_2.png) [@Qfl3x](https://discourse.julialang.org/u/Qfl3x)\
**Post date:** [July 7, 2020, 8:54pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/7 "2020-07-07T20:54:36Z")

</div>

Isn’t it in deps ? After `AbstractFFTs`

---

<div class="post-metadata">

**Author:** ![kristoffer.carlsson](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/kristoffer.carlsson/32/22_2.png) [@kristoffer.carlsson](https://discourse.julialang.org/u/kristoffer.carlsson)\
**Post date:** [July 7, 2020, 9:00pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/8 "2020-07-07T21:00:34Z")

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I meant here:

[https://github.com/crstnbr/JuliaOulu20/blob/1479195808f2bb4898f20007196ba4919332443e/Manifest.toml#L880](https://github.com/crstnbr/JuliaOulu20/blob/1479195808f2bb4898f20007196ba4919332443e/Manifest.toml#L880)

It seems it is loading a new version of Zygote but the one in the manifest has dependencies for an older one.

---

<div class="post-metadata">

**Author:** ![kristoffer.carlsson](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/kristoffer.carlsson/32/22_2.png) [@kristoffer.carlsson](https://discourse.julialang.org/u/kristoffer.carlsson)\
**Post date:** [July 7, 2020, 9:08pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/9 "2020-07-07T21:08:25Z")

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It works to load Zygote for me in that notebook:

 ![bild](https://global.discourse-cdn.com/julialang/original/3X/3/9/398a4ba32a6eebe7b51f2f5320789ae5371d1b25.png)

---

<div class="post-metadata">

**Author:** ![Qfl3x](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/qfl3x/32/16227_2.png) [@Qfl3x](https://discourse.julialang.org/u/Qfl3x)\
**Post date:** [July 7, 2020, 9:09pm UTC](https://discourse.julialang.org/t/packages-imported-in-ijulia-throw-errors-that-are-missing-when-imported-in-repl/42683/10 "2020-07-07T21:09:27Z")

</div>

Oh. I did not know about the environment. I just went in and loaded the notebooks. So now I just deleted the environment files (manifest, project, environment) and everything is working fine!