batpigandme/mac-setup-links.md Secret

## mac-setup-links.md

      
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              mac-setup-links.md
            
          
    zsh stuff

Gist, Oh my zsh with autosuggestions & syntax-highlighting, by @dogrocker that does all the stuff I actually ended up doing.

Moving to zsh by Armin Briegel
zsh-completions
zsh-autcomplete
zsh-autosuggestions

Installing with Oh My Zsh


zsh autosuggestions: A beginner's guide for setting up autocomplete on OhMyZsh & Hyper with plugins & themes by Kumar Abhirup
Apple M1 – Installing HomeBrew and ZSH by Narlei Moreira
powerlevel10k
iTerm2 + Oh My Zsh + Powerlevel9k + Monaco Nerd Complete Font by Luis Puerto
iTerm2 + Oh My Zsh! + Powerlevel10K best terminal combination for Geeks! by Camilo Martinez
How to install custom plugins and themes with Oh-My-ZSH by Lars Behrenberg

homebrew stuff


For R users using homebrew, your .Renviron needs PATH="/opt/homebrew/bin:${PATH}" in it.


Install fonts on your mac from the command line with homebrew by M. Scott Ford on Corgibytes

n.b. re. above, replace all instances of brew cask install with brew install --cask (the syntax has changed)


You can install fonts with homebrew?! by Jerod Santo


From How to migrate to native Homebrew on an M1 Mac by Tony Smith:

Multiple Homebrews on multiple Macs

If, like me, you have multiple Macs with different CPU architectures, you can add something like this to your .bash_profile or .zshrc file:
# Handle Mac platforms
CPU=$(uname -p)
if [[ "$CPU" == "arm" ]]; then
    export PATH="/opt/homebrew/bin:$PATH"
    export EDITOR=/opt/homebrew/bin/nano
    alias nano=/opt/homebrew/bin/nano
    alias oldbrew=/usr/local/bin/brew
else
    export PATH="/usr/local/bin:$PATH"
    export EDITOR=/usr/local/bin/nano
    alias nano=/usr/local/bin/nano
fi


git


Ch 7 Introduce yourself to Git | Happy Git and GitHub for the useR by Jenny Bryan
n.b. If you haven't already, you'll need to install {usethis} and {gitcreds} for the following:


Connect Git, GitHub, RStudio >> Personal access token for HTTPS:

from R, do:
usethis::create_github_token()
...
Click “Generate token”.
Copy the generated PAT to your clipboard.
...
[S]tore the PAT explicitly right now. In R, call gitcreds::gitcreds_set() to get a prompt where you can paste your PAT:
gitcreds::gitcreds_set()


gpg, etc.


{gpg}: GNU Privacy Guard for R
Using GPG in R by Jeroen Ooms
GitKraken: Commit signing with GPG
Setup Git Keybase.io PGP signed/verified commit by Michael Hirsch on SciVision
Verify Commit Signatures | GitHub Docs

Telling Git about your signing key (you need the rest of the steps, too, but I came back to this one when I borked something later on)


If you run into problems (more on this later) check out How to understand the gpg failed to sign the data problem in git—TL;DR: if you have problems after running echo "test" | gpg --clearsign, the issue is with your gpg setup, not git.

Incomplete but possibly important Python stuff


brew install miniconda
You can brew install python* (where * = 3 or nothing sometimes), too
Find all your homebrew pythons with ls -l /opt/homebrew/bin/python*
If you get very annoyed by the fact that python --version returns Python 2.7.16 by default (I sure did) there are probably a lot of ways to deal with it (several of them mentioned in this SO response to How to install multiple Python versions on Mac M1...I went the pyenv route
Python versions with pyenv


Set Python 3 as default on Mac OS by Syed Shariefi
The right and wrong way to set Python 3 as default on a Mac by Matthew Broberg
How to Install Python 3 on Mac – Brew Install Update Tutorial by Quincy Larson

The crux of what I did


Install pyenv: brew install pyenv
Install python version(s): pyenv install 3.9.1 (or whatever version of Python you want—see them on the Active Python releases page)
Set your global default with pyenv global 3.9.1 (or your chosen Python version)
Check it with pyenv version
Add the info to your shell profile (for me .zshrc) with echo -e 'if command -v pyenv 1>/dev/null 2>&1; then\n  eval "$(pyenv init -)"\nfi' >> ~/.zshrc
Reload your profile (e.g. source ~/.zshrc, or omz reload)
Check your python --version now...it should return the version you set with pyenv global
I didn't have to do this, but if you're having problems, you might mess with your path? PATH=$(pyenv root)/shims:$PATH


❌ Plot twist! Turns out I'm still using the Python from miniconda (which python) returns /opt/homebrew/Caskroom/miniconda/base/bin/python. But, before I did all the pyenv stuff python --version was returning Python 2.7.16 and now it's returning Python 3.8.11, so I'm happy enough. That, and most of the solutions suggested are in the "wrong-way" sections of The right and wrong way to set Python 3 as default on a Mac.
Using pyenv with miniconda works, but you need to install miniconda3-* versions when installing with pyenv. For example, as of this writing, running pyenv install miniconda3-latest works. And, when I run python --version I get Python 3.8.19 back.
I'm not 100% sure the previous two bullets are causally related. If I want to deep dive into this, see Python, The System Path and how conda and pyenv manipulate it by Mark Jamison.

assorted


Yet Another Dotfiles Manager (yadm) Install with brew install yadm. Seriously, I am a total yadm convert. It's amazing.
Setting up yadm led me to realize I hadn't properly configured gpg stuff for command-line git, which begat Troubleshooting gpg commit signing, which led me to this answer on SO for "gpg: signing failed: Inappropriate ioctl for device"

brew install pinentry-mac
Create or edit ~/.gnupg/gpg-agent.conf if it doesn't already exist, and add pinentry-program /usr/local/bin/pinentry-mac to it
Run killall gpg-agent in terminal
Proceed as you meant to (in my case, succesfully yadm commit -m "Message about what I just added.")


Mac dev setup: A macOS setup guide specific to front-end development by Michael Schwobe (Not R-related, but cool guided setup)
Alfred GitHub repos
Workaround for Alfred permissions error(s) (xxx cannot be opened because the developer cannot be verified)
thefuck because I am bad at typing
Node stuff with nvm: How to Install Node on a MacOS, Linux, or Windows Machine Using NVM by Adeel Imran