Apologies for being confused and not very constructive.
This issue was discussed on this forum before. I thought I had this fixed after updating conda. It was working. But then inadvertly I broke it again.
I am trying to add PyPlot as package. The precompile however fails.
(@v1.10) pkg> precompile
Precompiling project...
✗ PyPlot
0 dependencies successfully precompiled in 1 seconds. 69 already precompiled.
ERROR: The following 1 direct dependency failed to precompile
PyPlot [d330b81b-6aea-500a-939a-2ce795aea3ee]
Failed to precompile PyPlot [d330b81b-6aea-500a-939a-2ce795aea3ee] to "/Users/djplahaye/.julia/compiled/v1.10/PyPlot/jl_rmUvog".
ImportError: No module named sit
and status is
(@v1.10) pkg> st
Status `~/.julia/environments/v1.10/Project.toml`
[c87230d0] FFMPEG v0.4.2 `https://github.com/JuliaIO/FFMPEG.jl#master`
[7073ff75] IJulia v1.26.0
[d330b81b] PyPlot v2.11.5
Help is much appreciated.
This indicates a broken Python environment. I’m guessing ENV["PYTHON"] is set to the name of a broken python?
If you make sure ENV["PYTHON"]="" when you build PyPlot/PyCall, it will install its own Conda distro which should work.
Apologies for being confused.
Here is output of ENV in the REPL
julia> ENV
Base.EnvDict with 31 entries:
"TERM_PROGRAM" => "Apple_Terminal"
"SHELL" => "/bin/zsh"
"TERM" => "xterm-256color"
"TMPDIR" => "/var/folders/01/8xpmjxp12q191smq8y_d32p0…
"TERM_PROGRAM_VERSION" => "440"
"TERM_SESSION_ID" => "6DBB1EDD-EC3A-4709-BD48-62E998E7BE3A"
"USER" => "djplahaye"
"SSH_AUTH_SOCK" => "/private/tmp/com.apple.launchd.jYmmV99Uq…
"PATH" => "/Users/djplahaye/.juliaup/bin:/opt/anaco…
"__CFBundleIdentifier" => "com.apple.Terminal"
"PWD" => "/Users/djplahaye/.julia/packages/Harmoni…
"XPC_FLAGS" => "0x0"
"XPC_SERVICE_NAME" => "0"
"SHLVL" => "1"
"HOME" => "/Users/djplahaye"
"LOGNAME" => "djplahaye"
"DISPLAY" => "/private/tmp/com.apple.launchd.7qyiQZt2w…
"OLDPWD" => "/Users/djplahaye/.julia/packages/Harmoni…
"CONDA_EXE" => "/opt/anaconda3/bin/conda"
"_CE_M" => ""
"_CE_CONDA" => ""
"CONDA_PYTHON_EXE" => "/opt/anaconda3/bin/python"
"CONDA_SHLVL" => "1"
"CONDA_PREFIX" => "/opt/anaconda3"
"CONDA_DEFAULT_ENV" => "base"
"CONDA_PROMPT_MODIFIER" => "(base) "
"LC_CTYPE" => "UTF-8"
"_" => "/Users/djplahaye/.juliaup/bin/julia"
"__CF_USER_TEXT_ENCODING" => "0x1F5:0x0:0x0"
"OPENBLAS_MAIN_FREE" => "1"
"OPENBLAS_DEFAULT_NUM_THREADS" => "1"
What could I check from here on?
Thanks.
What happens if you do ENV["PYTHON"]="" followed by add PyCall and build PyCall at the pkg> prompt? If that works, does using PyCall then work?
Thanks!
I proceeded in three steps.
First, I made sure to have ENV[“PYTHON”]=“”
julia> ENV
Base.EnvDict with 32 entries:
"TERM_PROGRAM" => "Apple_Terminal"
"SHELL" => "/bin/zsh"
"TERM" => "xterm-256color"
"TMPDIR" => "/var/folders/01/8xpmjxp12q191smq8y_d32p0…
"TERM_PROGRAM_VERSION" => "440"
"TERM_SESSION_ID" => "6DBB1EDD-EC3A-4709-BD48-62E998E7BE3A"
"USER" => "djplahaye"
"SSH_AUTH_SOCK" => "/private/tmp/com.apple.launchd.jYmmV99Uq…
"PATH" => "/Users/djplahaye/.juliaup/bin:/opt/anaco…
"__CFBundleIdentifier" => "com.apple.Terminal"
"PWD" => "/Users/djplahaye/.julia/packages/Harmoni…
"XPC_FLAGS" => "0x0"
"XPC_SERVICE_NAME" => "0"
"SHLVL" => "1"
"HOME" => "/Users/djplahaye"
"LOGNAME" => "djplahaye"
"DISPLAY" => "/private/tmp/com.apple.launchd.7qyiQZt2w…
"OLDPWD" => "/Users/djplahaye/.julia/packages/Harmoni…
"CONDA_EXE" => "/opt/anaconda3/bin/conda"
"_CE_M" => ""
"_CE_CONDA" => ""
"CONDA_PYTHON_EXE" => "/opt/anaconda3/bin/python"
"CONDA_SHLVL" => "1"
"CONDA_PREFIX" => "/opt/anaconda3"
"CONDA_DEFAULT_ENV" => "base"
"CONDA_PROMPT_MODIFIER" => "(base) "
"LC_CTYPE" => "UTF-8"
"_" => "/Users/djplahaye/.juliaup/bin/julia"
"__CF_USER_TEXT_ENCODING" => "0x1F5:0x0:0x0"
"OPENBLAS_MAIN_FREE" => "1"
"OPENBLAS_DEFAULT_NUM_THREADS" => "1"
"PYTHON" => ""
Second, at the pkg> prompt, I added and build PyCall
(@v1.10) pkg> add PyCall
Resolving package versions...
Updating `~/.julia/environments/v1.10/Project.toml`
[438e738f] + PyCall v1.96.4
No Changes to `~/.julia/environments/v1.10/Manifest.toml`
(@v1.10) pkg> build PyCall
Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b19db3927f0db4151cb86d073689f2428e524576/build.log`
Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log`
Precompiling project...
1 dependency successfully precompiled in 5 seconds. 68 already precompiled. 1 skipped during auto due to previous errors.
At this stage, using Pycall in the REPL works
using PyCall
Third, I repeated Step-2 above PyPlot
(@v1.10) pkg> add PyPlot
Resolving package versions...
No Changes to `~/.julia/environments/v1.10/Project.toml`
No Changes to `~/.julia/environments/v1.10/Manifest.toml`
(@v1.10) pkg> build PyPlot
Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b19db3927f0db4151cb86d073689f2428e524576/build.log`
Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log`
Interestingly, with this, using PyPlot in the REPL then results in output I had not seen before
julia> using PyPlot
Precompiling PyPlot
1 dependency successfully precompiled in 2 seconds. 17 already precompiled.
[ Info: Installing matplotlib via the Conda matplotlib package...
[ Info: Running `conda install -y matplotlib` in root environment
Channels:
- defaults
Platform: osx-arm64
Collecting package metadata (repodata.json): done
Solving environment: done
## Package Plan ##
environment location: /Users/djplahaye/.julia/conda/3
added / updated specs:
- matplotlib
The following packages will be downloaded:
package | build
---------------------------|-----------------
brotli-1.0.9 | h80987f9_8 20 KB
brotli-bin-1.0.9 | h80987f9_8 18 KB
contourpy-1.3.1 | py312h48ca7d4_0 264 KB
cycler-0.11.0 | pyhd3eb1b0_0 12 KB
fonttools-4.51.0 | py312h80987f9_0 2.8 MB
freetype-2.12.1 | h1192e45_0 570 KB
jpeg-9e | h80987f9_3 245 KB
kiwisolver-1.4.4 | py312h313beb8_0 54 KB
lcms2-2.12 | hba8e193_0 273 KB
lerc-3.0 | hc377ac9_0 115 KB
libbrotlicommon-1.0.9 | h80987f9_8 70 KB
libbrotlidec-1.0.9 | h80987f9_8 29 KB
libbrotlienc-1.0.9 | h80987f9_8 291 KB
libdeflate-1.17 | h80987f9_1 55 KB
libpng-1.6.39 | h80987f9_0 283 KB
libtiff-4.5.1 | h313beb8_0 496 KB
libwebp-base-1.3.2 | h80987f9_1 303 KB
matplotlib-3.9.2 | py312hca03da5_1 8 KB
matplotlib-base-3.9.2 | py312h7ef442a_1 7.8 MB
openjpeg-2.5.2 | h54b8e55_0 324 KB
pillow-11.0.0 | py312hfaf4e14_0 893 KB
pyparsing-3.2.0 | py312hca03da5_0 473 KB
python-dateutil-2.9.0post0 | py312hca03da5_2 320 KB
six-1.16.0 | pyhd3eb1b0_1 18 KB
tornado-6.4.1 | py312h80987f9_0 866 KB
unicodedata2-15.1.0 | py312h80987f9_0 532 KB
------------------------------------------------------------
Total: 17.0 MB
The following NEW packages will be INSTALLED:
brotli pkgs/main/osx-arm64::brotli-1.0.9-h80987f9_8
brotli-bin pkgs/main/osx-arm64::brotli-bin-1.0.9-h80987f9_8
contourpy pkgs/main/osx-arm64::contourpy-1.3.1-py312h48ca7d4_0
cycler pkgs/main/noarch::cycler-0.11.0-pyhd3eb1b0_0
fonttools pkgs/main/osx-arm64::fonttools-4.51.0-py312h80987f9_0
freetype pkgs/main/osx-arm64::freetype-2.12.1-h1192e45_0
jpeg pkgs/main/osx-arm64::jpeg-9e-h80987f9_3
kiwisolver pkgs/main/osx-arm64::kiwisolver-1.4.4-py312h313beb8_0
lcms2 pkgs/main/osx-arm64::lcms2-2.12-hba8e193_0
lerc pkgs/main/osx-arm64::lerc-3.0-hc377ac9_0
libbrotlicommon pkgs/main/osx-arm64::libbrotlicommon-1.0.9-h80987f9_8
libbrotlidec pkgs/main/osx-arm64::libbrotlidec-1.0.9-h80987f9_8
libbrotlienc pkgs/main/osx-arm64::libbrotlienc-1.0.9-h80987f9_8
libdeflate pkgs/main/osx-arm64::libdeflate-1.17-h80987f9_1
libpng pkgs/main/osx-arm64::libpng-1.6.39-h80987f9_0
libtiff pkgs/main/osx-arm64::libtiff-4.5.1-h313beb8_0
libwebp-base pkgs/main/osx-arm64::libwebp-base-1.3.2-h80987f9_1
matplotlib pkgs/main/osx-arm64::matplotlib-3.9.2-py312hca03da5_1
matplotlib-base pkgs/main/osx-arm64::matplotlib-base-3.9.2-py312h7ef442a_1
openjpeg pkgs/main/osx-arm64::openjpeg-2.5.2-h54b8e55_0
pillow pkgs/main/osx-arm64::pillow-11.0.0-py312hfaf4e14_0
pyparsing pkgs/main/osx-arm64::pyparsing-3.2.0-py312hca03da5_0
python-dateutil pkgs/main/osx-arm64::python-dateutil-2.9.0post0-py312hca03da5_2
six pkgs/main/noarch::six-1.16.0-pyhd3eb1b0_1
tornado pkgs/main/osx-arm64::tornado-6.4.1-py312h80987f9_0
unicodedata2 pkgs/main/osx-arm64::unicodedata2-15.1.0-py312h80987f9_0
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
Fontconfig warning: ignoring UTF-8: not a valid region tag
Matplotlib is building the font cache; this may take a moment.
That happens the first time you load it — since it’s using it’s own Conda installation, the very first time you load PyPlot it installs Matplotlib.
Sounds like you had previously configured PyCall to use some other Python installation on your system, one that is currently broken. Glad it is working for you now.