Python packages are not available after successful install macOS

[adamhsparks]

This seems like #572 but it's on macOS.

Installing or reinstalling greta deps still does not result in a usable state for me. This is the start of a new session as per the suggested workflow.

[ins] r$> reinstall_greta_deps()
ℹ removing 'greta-env-tf2' conda environment
+ /Users/283204f/Library/r-miniconda-arm64/bin/conda remove --yes --name greta-env-tf2 --all

Remove all packages in environment /Users/283204f/Library/r-miniconda-arm64/envs/greta-env-tf2:


## Package Plan ##

  environment location: /Users/283204f/Library/r-miniconda-arm64/envs/greta-env-tf2


The following packages will be REMOVED:

  bzip2-1.0.8-h99b78c6_7
  ca-certificates-2024.12.14-hf0a4a13_0
  libffi-3.4.2-h3422bc3_5
  liblzma-5.6.3-h39f12f2_1
  libsqlite-3.47.2-h3f77e49_0
  libzlib-1.3.1-h8359307_2
  ncurses-6.5-h7bae524_1
  openssl-3.4.0-h39f12f2_0
  pip-24.3.1-pyh8b19718_2
  python-3.10.16-h870587a_1_cpython
  readline-8.2-h92ec313_1
  setuptools-75.6.0-pyhff2d567_1
  tk-8.6.13-h5083fa2_1
  tzdata-2024b-hc8b5060_0
  wheel-0.45.1-pyhd8ed1ab_1



Downloading and Extracting Packages:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
✔ greta-env-tf2 environment removed!
Are you sure you want to delete miniconda from /Users/283204f/Library/r-miniconda-arm64?
1: Nope
2: Yes
3: I forget


[ins] Selection: 2
ℹ removing 'miniconda' installation
✔ 'miniconda' successfully removed!
✔ miniconda installed!
✔ greta-env-tf2 environment created!
✔ Python modules installed!
✔ Logfile written to /Users/283204f/Library/Application Support/org.R-project.R…
✔ Open with: `open_greta_install_log()` [24ms]
✔ Installation of greta dependencies is complete!
[ins] r$> q()

Start new session.

[ins] r$> library(mgcv)
Loading required package: nlme
This is mgcv 1.9-1. For overview type 'help("mgcv-package")'.

[ins] r$> dat <- gamSim(1, n = 400, dist = "normal", scale = 0.3)
Gu & Wahba 4 term additive model

[ins] r$> library(greta.gam)
          #> Loading required package: greta
          #>
          #> Attaching package: 'greta'
          #> The following objects are masked from 'package:stats':
          #>
          #>     binomial, cov2cor, poisson
          #> The following objects are masked from 'package:base':
          #>
          #>     %*%, apply, backsolve, beta, chol2inv, colMeans, colSums, diag,

          #>     eigen, forwardsolve, gamma, identity, rowMeans, rowSums, sweep,

          #>     tapply
          set.seed(2024 - 02 - 09)
          # setup the linear predictor for the smooth
          linear_predictor <- smooths(~ s(x2), data = dat)
Loading required package: greta

Attaching package: 'greta'

The following objects are masked from 'package:stats':

    binomial, cov2cor, poisson

The following objects are masked from 'package:base':

    %*%, apply, backsolve, beta, chol2inv, colMeans, colSums, diag,
    eigen, forwardsolve, gamma, identity, rowMeans, rowSums, sweep,
    tapply

✖ Initialising python and checking dependencies, this may take a moment. ... fa…
Error in `check_tf_version()`:
! ✖ The expected python packages are not available
ℹ We recommend installing them (in a fresh R session) with:
`install_greta_deps()`
or
`reinstall_greta_deps()`
(Note: Your R session should not have initialised Tensorflow yet.)
ℹ For more information, see `?install_greta_deps`
Run `rlang::last_trace()` to see where the error occurred.

[ins] r$>

macOS 15.2, R 4.4.2

[njtierney]

Thanks for posting this, Adam! Are you able to share the logfile that is written out - perhaps via slack? You should be able to open it with:

greta::open_greta_install_log()

Also are you running this in RStudio / Positron / CLI ? Just out of curiousity!

[adamhsparks]

This was radian. I'll try just an R console and share the outputs with you via Slack.

[adamhsparks]

Heh, well, there you go. It appears that radian interferes here!

In just a regular R session it works.

edit also works in my RStudio as well. 😎

[njtierney]

OK glad to hear it works! That's a bit spooky with Radian, but perhaps there's something going on there with using Radian as it uses Python?

[adamhsparks]

this was my thinking as well about radian being a Python package as well.