1

I created an R environment in Anaconda and launched it using Jupyter Notebook. I am receiving the following error message when I attempt to install the R package "ggbeeswarm."

    install.packages("ggbeeswarm")

also installing the dependencies ‘farver’, ‘isoband’, ‘rlang’, 
‘scales’, ‘vctrs’, ‘cli’, ‘ggplot2’, ‘beeswarm’, ‘lifecycle’

Warning message in install.packages("ggbeeswarm"):
“installation of package ‘farver’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘isoband’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘rlang’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘cli’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘beeswarm’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘lifecycle’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘scales’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘vctrs’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘ggplot2’ had non-zero exit status”Warning message in install.packages("ggbeeswarm"):
“installation of package ‘ggbeeswarm’ had non-zero exit status”Updating HTML index of packages in '.Library'
Making 'packages.html' ... done

My computer was recently wiped without a backup so I've had to reinstall a lot of programs. I have previously been able to easily execute my script in this way-- launching Jupyter Notebook from Anaconda and then running my script in an R kernel. I'm wondering if I made a mistake with some aspect of reinstalling along the way.

After reading some other posts, I also tried:

    install.packages("ggbeeswarm", repos='http://cran.us.r-project.org')

and am receiving the same error message.

I also tried in terminal:

    conda install -c conda-forge r-ggbeeswarm

and received the following error:

Solving environment: / failed with initial frozen solve. Retrying with flexible solve.

I also tried

    conda install r-base

and got the following message:

The environment is inconsistent, please check the package plan carefully The following packages are causing the inconsistency: - conda-forge/osx-64::pystan==3.6.0=py39h6dc771e_0

so uninstalled pystan completely and tried again. Still no luck.

AmyRapp
  • 11
  • 2
  • Apologies for accidentally deleting a helpful comment from a user @wayne. I had tried the suggestion provided previously but forgot to add it to the original post. I've added that now. – AmyRapp Feb 23 '23 at 20:26
  • @Wayne I wonder if my issue is with installation of Anaconda. I tried the following in terminal: conda install r-base The environment is inconsistent, please check the package plan carefully The following packages are causing the inconsistency: - conda-forge/osx-64::pystan==3.6.0=py39h6dc771e_0 Do you have any suggestions for correct re-installation of Anaconda? – AmyRapp Feb 23 '23 at 20:31
  • Yes, I installed Anaconda a few days ago. I can try uninstalling and re-installing. The error message from before was a mistake-- that was from running in the Jupyter Notebook but I meant to run it in terminal. I edited the post with the error message from terminal. – AmyRapp Feb 23 '23 at 20:37
  • Oh okay. Then don't uninstall yet. I'm surprised `conda install -c conda-forge r-ggbeeswarm` fails. Maybe an R person will be able to see the solution. – Wayne Feb 23 '23 at 20:38
  • Thanks! Just added some additional troubleshooting I tried to the original post- hoping someone is able to point me in the right direction! – AmyRapp Feb 23 '23 at 21:03
  • The conda message says it is trying a flexible solve. Did that fail as well? Please share all the output you got – shs Feb 24 '23 at 13:23
  • @shs it was running for almost an hour so I aborted it but I'll try to let it run overnight and see if it just needs more time – AmyRapp Feb 24 '23 at 15:02

0 Answers0