CondaPkg.jl
CondaPkg.jl copied to clipboard
JuliaPy
Latest version works in pinned version of MicroMamba v0.1.12 in M1 but breaks in v0.1.13
I need to pin the micromamba version to v0.1.12. Using the latest micromamba breaks condapkg:
Stacktrace:
[1] pipeline_error
@ ./process.jl:565 [inlined]
[2] run(::Cmd; wait::Bool)
@ Base ./process.jl:480
[3] run(::Cmd)
@ Base ./process.jl:477
[4] _run(io::IO, cmd::Cmd, args::Any; flags::Any)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:370
[5] _resolve_conda_install(io::Any, conda_env::Any, specs::Any, channels::Any; create::Any)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:271
[6] resolve(; force::Bool, io::IO, interactive::Bool, dry_run::Bool)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:526
[7] resolve()
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:384
[8] add(pkgs::AbstractVector; resolve::Any, file::Any, kw::Base.Pairs{Symbol, V, Tuple{Vararg{Symbol, N}}, NamedTuple{names, T}} where {V, N, names, T<:Tuple{Vararg{Any, N}}})
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/deps.jl:222
[9] add(pkgs::AbstractVector)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/deps.jl:215
[10] add(args::Vector{String})
@ CondaPkg.PkgREPL ~/.julia/packages/CondaPkg/osUdN/src/PkgREPL.jl:125
[11] do_cmd!(command::Pkg.REPLMode.Command, repl::LineEditREPL)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:412
[12] do_cmd(repl::LineEditREPL, input::String; do_rethrow::Bool)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:390
[13] do_cmd
@ /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:380 [inlined]
[14] (::Pkg.REPLMode.var"#24#27"{LineEditREPL, REPL.LineEdit.Prompt})(s::REPL.LineEdit.MIState, buf::IOBuffer, ok::Bool)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:557
[15] #invokelatest#2
@ ./essentials.jl:816 [inlined]
[16] invokelatest
@ ./essentials.jl:813 [inlined]
[17] run_interface(terminal::REPL.Terminals.TextTerminal, m::REPL.LineEdit.ModalInterface, s::REPL.LineEdit.MIState)
@ REPL.LineEdit /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/REPL/src/LineEdit.jl:2647
[18] run_frontend(repl::LineEditREPL, backend::REPL.REPLBackendRef)
@ REPL /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/REPL/src/REPL.jl:1300
[19] (::REPL.var"#62#68"{LineEditREPL, REPL.REPLBackendRef})()
@ REPL ./task.jl:514
in mac silicon, using latest Julia 1.9.0
julia>
] activate --temp
] add PythonCall
] add CondaPkg
julia> using CondaPkg
] conda add pandas
(jl_XK11xL) pkg> conda add pandas
CondaPkg Found dependencies: /var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/PythonCall/1f5yE/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/PythonCall/1f5yE/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/AutoMLPipeline/iy1ee/CondaPkg.toml
CondaPkg Resolving changes
+ pandas
+ python
+ scikit-learn
CondaPkg Creating environment
│ /Users/ppalmes/.julia/artifacts/7cfea9db5b54ceb7d9109c8728914c9459303a75/bin/micromamba
│ -r /Users/ppalmes/.julia/scratchspaces/0b3b1443-0f03-428d-bdfb-f27f9c1191ea/root
│ create
│ -y
│ -p /var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/.CondaPkg/env
│ --override-channels
│ --no-channel-priority
│ pandas[version='*']
│ python[version='*']
│ python[version='>=3.7,<4',channel='conda-forge',build='*cpython*']
│ scikit-learn[version='*']
│ -c conda-forge
│ -c mkl
└ -c scikit-learn
__
__ ______ ___ ____ _____ ___ / /_ ____ _
/ / / / __ `__ \/ __ `/ __ `__ \/ __ \/ __ `/
/ /_/ / / / / / / /_/ / / / / / / /_/ / /_/ /
/ .___/_/ /_/ /_/\__,_/_/ /_/ /_/_.___/\__,_/
/_/
scikit-learn/osx-arm64 No change
mkl/osx-arm64 No change
mkl/noarch No change
scikit-learn/noarch No change
conda-forge/osx-arm64 @ 3.0MB/s 2.3s
conda-forge/noarch @ 3.5MB/s 3.8s
ERROR: failed process: Process(`/Users/ppalmes/.julia/artifacts/7cfea9db5b54ceb7d9109c8728914c9459303a75/bin/micromamba -r /Users/ppalmes/.julia/scratchspaces/0b3b1443-0f03-428d-bdfb-f27f9c1191ea/root create -y -p /var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/.CondaPkg/env --override-channels --no-channel-priority "pandas[version='*']" "python[version='*']" "python[version='>=3.7,<4',channel='conda-forge',build='*cpython*']" "scikit-learn[version='*']" -c conda-forge -c mkl -c scikit-learn`, ProcessSignaled(11)) [0]
Stacktrace:
[1] pipeline_error
@ ./process.jl:565 [inlined]
[2] run(::Cmd; wait::Bool)
@ Base ./process.jl:480
[3] run(::Cmd)
@ Base ./process.jl:477
[4] _run(io::IO, cmd::Cmd, args::Any; flags::Any)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:370
[5] _resolve_conda_install(io::Any, conda_env::Any, specs::Any, channels::Any; create::Any)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:271
[6] resolve(; force::Bool, io::IO, interactive::Bool, dry_run::Bool)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:526
[7] resolve()
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/resolve.jl:384
[8] add(pkgs::AbstractVector; resolve::Any, file::Any, kw::Base.Pairs{Symbol, V, Tuple{Vararg{Symbol, N}}, NamedTuple{names, T}} where {V, N, names, T<:Tuple{Vararg{Any, N}}})
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/deps.jl:222
[9] add(pkgs::AbstractVector)
@ CondaPkg ~/.julia/packages/CondaPkg/osUdN/src/deps.jl:215
[10] add(args::Vector{String})
@ CondaPkg.PkgREPL ~/.julia/packages/CondaPkg/osUdN/src/PkgREPL.jl:125
[11] do_cmd!(command::Pkg.REPLMode.Command, repl::LineEditREPL)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:412
[12] do_cmd(repl::LineEditREPL, input::String; do_rethrow::Bool)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:390
[13] do_cmd
@ /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:380 [inlined]
[14] (::Pkg.REPLMode.var"#24#27"{LineEditREPL, REPL.LineEdit.Prompt})(s::REPL.LineEdit.MIState, buf::IOBuffer, ok::Bool)
@ Pkg.REPLMode /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/Pkg/src/REPLMode/REPLMode.jl:557
[15] #invokelatest#2
@ ./essentials.jl:816 [inlined]
[16] invokelatest
@ ./essentials.jl:813 [inlined]
[17] run_interface(terminal::REPL.Terminals.TextTerminal, m::REPL.LineEdit.ModalInterface, s::REPL.LineEdit.MIState)
@ REPL.LineEdit /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/REPL/src/LineEdit.jl:2647
[18] run_frontend(repl::LineEditREPL, backend::REPL.REPLBackendRef)
@ REPL /Applications/Julia-1.9.app/Contents/Resources/julia/share/julia/stdlib/v1.9/REPL/src/REPL.jl:1300
[19] (::REPL.var"#62#68"{LineEditREPL, REPL.REPLBackendRef})()
@ REPL ./task.jl:514
(jl_XK11xL) pkg>
it is basically the micromamba_jll v1.4.4+0 installed by MicroMamba v0.1.13.
If i pin Micromamba to v0.1.12, the problem is resolved.
(jl_XK11xL) pkg> add MicroMamba#v0.1.12
Resolving package versions...
Updating `/private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/Project.toml`
[0b3b1443] + MicroMamba v0.1.12 `https://github.com/cjdoris/MicroMamba.jl.git#v0.1.12`
Updating `/private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/Manifest.toml`
[0b3b1443] ~ MicroMamba v0.1.13 ⇒ v0.1.12 `https://github.com/cjdoris/MicroMamba.jl.git#v0.1.12`
(jl_XK11xL) pkg> update
Updating registry at `~/.julia/registries/General.toml`
No Changes to `/private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/Project.toml`
Updating `/private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_XK11xL/Manifest.toml`
[0f8b85d8] ↑ JSON3 v1.12.0 ⇒ v1.13.0
[aea7be01] ↑ PrecompileTools v1.1.1 ⇒ v1.1.2
[66db9d55] - SnoopPrecompile v1.0.3
[f8abcde7] ↑ micromamba_jll v1.4.1+0 ⇒ v1.4.3+0
(jl_XK11xL) pkg> conda add pandas
CondaPkg Found dependencies: /var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_6OwvA5/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/PythonCall/1f5yE/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/PythonCall/1f5yE/CondaPkg.toml
CondaPkg Found dependencies: /Users/ppalmes/.julia/packages/AutoMLPipeline/iy1ee/CondaPkg.toml
CondaPkg Resolving changes
+ pandas
+ python
+ scikit-learn
CondaPkg Creating environment
│ /Users/ppalmes/.julia/artifacts/7f0773ec03c61dc0b4217f99234c20426df480dd/bin/micromamba
│ -r /Users/ppalmes/.julia/scratchspaces/0b3b1443-0f03-428d-bdfb-f27f9c1191ea/root
│ create
│ -y
│ -p /var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_6OwvA5/.CondaPkg/env
│ --override-channels
│ --no-channel-priority
│ pandas[version='*']
│ python[version='*']
│ python[version='>=3.7,<4',channel='conda-forge',build='*cpython*']
│ scikit-learn[version='*']
│ -c conda-forge
│ -c mkl
└ -c scikit-learn
__
__ ______ ___ ____ _____ ___ / /_ ____ _
/ / / / __ `__ \/ __ `/ __ `__ \/ __ \/ __ `/
/ /_/ / / / / / / /_/ / / / / / / /_/ / /_/ /
/ .___/_/ /_/ /_/\__,_/_/ /_/ /_/_.___/\__,_/
/_/
conda-forge/osx-arm64 Using cache
conda-forge/noarch Using cache
scikit-learn/osx-arm64 No change
scikit-learn/noarch No change
mkl/noarch No change
mkl/osx-arm64 No change
Transaction
Prefix: /private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_6OwvA5/.CondaPkg/env
Updating specs:
- pandas=*
- python=*
- conda-forge::python[version='>=3.7,<4',build=*cpython*]
- scikit-learn=*
Package Version Build Channel Size
────────────────────────────────────────────────────────────────────────────────
Install:
────────────────────────────────────────────────────────────────────────────────
+ brotli 1.0.9 h1a8c8d9_8 conda-forge Cached
+ brotli-bin 1.0.9 h1a8c8d9_8 conda-forge Cached
+ bzip2 1.0.8 h3422bc3_4 conda-forge Cached
+ ca-certificates 2023.5.7 hf0a4a13_0 conda-forge Cached
+ certifi 2023.5.7 pyhd8ed1ab_0 conda-forge Cached
+ charset-normalizer 3.1.0 pyhd8ed1ab_0 conda-forge Cached
+ idna 3.4 pyhd8ed1ab_0 conda-forge Cached
+ joblib 1.2.0 pyhd8ed1ab_0 conda-forge Cached
+ libblas 3.9.0 16_osxarm64_openblas conda-forge Cached
+ libbrotlicommon 1.0.9 h1a8c8d9_8 conda-forge Cached
+ libbrotlidec 1.0.9 h1a8c8d9_8 conda-forge Cached
+ libbrotlienc 1.0.9 h1a8c8d9_8 conda-forge Cached
+ libcblas 3.9.0 16_osxarm64_openblas conda-forge Cached
+ libcxx 16.0.4 h4653b0c_0 conda-forge Cached
+ libexpat 2.5.0 hb7217d7_1 conda-forge Cached
+ libffi 3.4.2 h3422bc3_5 conda-forge Cached
+ libgfortran 5.0.0 12_2_0_hd922786_31 conda-forge Cached
+ libgfortran5 12.2.0 h0eea778_31 conda-forge Cached
+ liblapack 3.9.0 16_osxarm64_openblas conda-forge Cached
+ libopenblas 0.3.21 openmp_hc731615_3 conda-forge Cached
+ libsqlite 3.42.0 hb31c410_0 conda-forge Cached
+ libzlib 1.2.13 h03a7124_4 conda-forge Cached
+ llvm-openmp 16.0.4 h1c12783_0 conda-forge Cached
+ ncurses 6.3 h07bb92c_1 conda-forge Cached
+ numpy 1.24.3 py311hb8f3215_0 conda-forge Cached
+ openssl 3.1.1 h53f4e23_1 conda-forge Cached
+ packaging 23.1 pyhd8ed1ab_0 conda-forge Cached
+ pandas 2.0.2 py311h9e438b8_0 conda-forge Cached
+ pip 23.1.2 pyhd8ed1ab_0 conda-forge Cached
+ platformdirs 3.5.1 pyhd8ed1ab_0 conda-forge Cached
+ pooch 1.7.0 pyha770c72_3 conda-forge Cached
+ pysocks 1.7.1 pyha2e5f31_6 conda-forge Cached
+ python 3.11.3 h1456518_0_cpython conda-forge Cached
+ python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge Cached
+ python-tzdata 2023.3 pyhd8ed1ab_0 conda-forge Cached
+ python_abi 3.11 3_cp311 conda-forge Cached
+ pytz 2023.3 pyhd8ed1ab_0 conda-forge Cached
+ readline 8.2 h92ec313_1 conda-forge Cached
+ requests 2.31.0 pyhd8ed1ab_0 conda-forge Cached
+ scikit-learn 1.2.2 py311hf0b18b8_2 conda-forge Cached
+ scipy 1.10.1 py311h93d07a4_3 conda-forge Cached
+ setuptools 67.7.2 pyhd8ed1ab_0 conda-forge Cached
+ six 1.16.0 pyh6c4a22f_0 conda-forge Cached
+ threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge Cached
+ tk 8.6.12 he1e0b03_0 conda-forge Cached
+ typing-extensions 4.6.3 hd8ed1ab_0 conda-forge 10kB
+ typing_extensions 4.6.3 pyha770c72_0 conda-forge 35kB
+ tzdata 2023c h71feb2d_0 conda-forge Cached
+ urllib3 2.0.2 pyhd8ed1ab_0 conda-forge Cached
+ wheel 0.40.0 pyhd8ed1ab_0 conda-forge Cached
+ xz 5.2.6 h57fd34a_0 conda-forge Cached
Summary:
Install: 51 packages
Total download: 45kB
────────────────────────────────────────────────────────────────────────────────
Transaction starting
typing_extensions 34.9kB @ 309.3kB/s 0.1s
typing-extensions 10.0kB @ 63.2kB/s 0.2s
Linking libzlib-1.2.13-h03a7124_4
Linking xz-5.2.6-h57fd34a_0
Linking libexpat-2.5.0-hb7217d7_1
Linking python_abi-3.11-3_cp311
Linking libcxx-16.0.4-h4653b0c_0
Linking llvm-openmp-16.0.4-h1c12783_0
Linking ncurses-6.3-h07bb92c_1
Linking libffi-3.4.2-h3422bc3_5
Linking ca-certificates-2023.5.7-hf0a4a13_0
Linking libbrotlicommon-1.0.9-h1a8c8d9_8
Linking bzip2-1.0.8-h3422bc3_4
Linking libsqlite-3.42.0-hb31c410_0
Linking tk-8.6.12-he1e0b03_0
Linking libgfortran5-12.2.0-h0eea778_31
Linking readline-8.2-h92ec313_1
Linking openssl-3.1.1-h53f4e23_1
Linking libbrotlienc-1.0.9-h1a8c8d9_8
Linking libbrotlidec-1.0.9-h1a8c8d9_8
Linking libgfortran-5.0.0-12_2_0_hd922786_31
Linking brotli-bin-1.0.9-h1a8c8d9_8
Linking libopenblas-0.3.21-openmp_hc731615_3
Linking brotli-1.0.9-h1a8c8d9_8
Linking libblas-3.9.0-16_osxarm64_openblas
Linking libcblas-3.9.0-16_osxarm64_openblas
Linking liblapack-3.9.0-16_osxarm64_openblas
Linking tzdata-2023c-h71feb2d_0
Linking python-3.11.3-h1456518_0_cpython
Linking wheel-0.40.0-pyhd8ed1ab_0
Linking setuptools-67.7.2-pyhd8ed1ab_0
Linking pip-23.1.2-pyhd8ed1ab_0
Linking pysocks-1.7.1-pyha2e5f31_6
Linking idna-3.4-pyhd8ed1ab_0
Linking charset-normalizer-3.1.0-pyhd8ed1ab_0
Linking certifi-2023.5.7-pyhd8ed1ab_0
Linking typing_extensions-4.6.3-pyha770c72_0
Linking packaging-23.1-pyhd8ed1ab_0
Linking six-1.16.0-pyh6c4a22f_0
Linking pytz-2023.3-pyhd8ed1ab_0
Linking python-tzdata-2023.3-pyhd8ed1ab_0
Linking threadpoolctl-3.1.0-pyh8a188c0_0
Linking joblib-1.2.0-pyhd8ed1ab_0
Linking urllib3-2.0.2-pyhd8ed1ab_0
Linking typing-extensions-4.6.3-hd8ed1ab_0
Linking python-dateutil-2.8.2-pyhd8ed1ab_0
Linking requests-2.31.0-pyhd8ed1ab_0
Linking platformdirs-3.5.1-pyhd8ed1ab_0
Linking pooch-1.7.0-pyha770c72_3
Linking numpy-1.24.3-py311hb8f3215_0
Linking scipy-1.10.1-py311h93d07a4_3
Linking pandas-2.0.2-py311h9e438b8_0
Linking scikit-learn-1.2.2-py311hf0b18b8_2
Transaction finished
To activate this environment, use:
micromamba activate /private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_6OwvA5/.CondaPkg/env
Or to execute a single command in this environment, use:
micromamba run -p /private/var/folders/9p/_7pkfc6j0871mx05hy51v6lh0000gn/T/jl_6OwvA5/.CondaPkg/env mycommand
it seems that the latest MicroMamba blocks updating to the latest PrecompileTools?