Temporary gist of a handful of system setup stuff I do

Notes.txt

# Install CUDA
# https://developer.nvidia.com/cuda-downloads?target_os=Linux&target_arch=x86_64&Distribution=Ubuntu&target_version=22.04&target_type=deb_network
wget https://developer.download.nvidia.com/compute/cuda/repos/ubuntu2204/x86_64/cuda-keyring_1.1-1_all.deb
sudo apt install ./cuda-keyring_1.1-1_all.deb
sudo apt-get update
sudo apt-get -y install cuda
rm cuda-keyring_1.1-1_all.deb

### Into ~/.bashrc
# Add NVCC to path
export PATH=/usr/local/cuda/bin${PATH:+:${PATH}}

# Add local bin to path
export PATH=$HOME/.local/bin${PATH:+:${PATH}}

# Install Docker
# https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/install-guide.html#installing-on-ubuntu-and-debian
curl https://get.docker.com | sh && sudo systemctl --now enable docker

# Add docker user so you don't have to sudo everytime
# https://explainshell.com/
sudo usermod -aG docker adamli

# Install nvidia-docker2
# Based on the following, but install nvidia-docker2 instead of nvidia-container-toolkit
# https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/latest/install-guide.html#installing-with-apt
# For linux mint, change the first line to the respective ubuntu distribution (ubuntu22.04 for lm21.2)
distribution=$(. /etc/os-release;echo $ID$VERSION_ID) \
      && curl -fsSL https://nvidia.github.io/libnvidia-container/gpgkey | sudo gpg --dearmor -o /usr/share/keyrings/nvidia-container-toolkit-keyring.gpg \
      && curl -s -L https://nvidia.github.io/libnvidia-container/$distribution/libnvidia-container.list | \
            sed 's#deb https://#deb [signed-by=/usr/share/keyrings/nvidia-container-toolkit-keyring.gpg] https://#g' | \
            sudo tee /etc/apt/sources.list.d/nvidia-container-toolkit.list
sudo apt-get update
sudo apt-get install -y nvidia-docker2

# Restart docker
sudo systemctl restart docker

# Install VS code with apt
# Download the following and just install with the software package manager
# It will install the repo for you
# https://code.visualstudio.com/docs/?dv=linux64_deb
# *I recommend using apt/deb to install most things instead of snap

# I expanded your swapfile to 32GiB already
# If you want to setup hibernate, you can follow:
# https://askubuntu.com/a/1321773

# If you want to make windows default
# https://askubuntu.com/questions/100232/how-do-i-change-the-grub-boot-order#comment280266_110738

# For the fans, I did the first step here and made the sensor module detectable
# https://askubuntu.com/a/1094617
# That means I also installed the lm-sensors package
# I didn't do anything after inside of or after the `To take over control of your fans` header

# Miniconda
# Don't setup to permanently initialize
# https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh

### The below all go into ~/conda_source
# Reset all source
source /etc/bash.bashrc
source ~/.bashrc

# Setup conda
eval "$(/home/adamli/miniconda3/bin/conda shell.bash hook)"
###

### The below goes into vscode User settings
{
    "[python]": {
        "editor.formatOnType": true
    },
    "python.condaPath": "/home/adamli/miniconda3/bin/conda",
    "terminal.integrated.profiles.linux": {
        "conda-bash": {
            "path": "bash",
            "icon": "terminal-bash",
            "args": ["--rcfile", "~/conda_source"]
        }
    },
}
###

### The below goes in the .vscode/settings.json for any python project
{
    "terminal.integrated.defaultProfile.linux": "conda-bash"
}
###

## MKL Workaround
## in ~/.bashrc, from https://danieldk.eu/Posts/2020-08-31-MKL-Zen.html
export LD_PRELOAD=/home/adam/mkl_intel_test/libfakeintel.so${LD_PRELOAD:+:${LD_PRELOAD}}

### IPOPT
sudo apt-get update
sudo apt-get install libgomp1 liblapack3 libblas3 libmetis5
sudo apt-get install build-essential gcc g++ gfortran git patch wget \
       pkg-config liblapack-dev libblas-dev libmetis-dev \
       apt-utils
cd /tmp
wget https://github.com/coin-or/Ipopt/archive/refs/tags/releases/3.14.10.tar.gz
tar xvf ./3.14.10.tar.gz && mv Ipopt-releases-3.14.10 /tmp/ipopt
cd /tmp/ipopt
#HSL
git clone --depth 1 --branch releases/2.2.1 https://github.com/coin-or-tools/ThirdParty-HSL.git
cd /tmp/ipopt/ThirdParty-HSL
tar xvf ./coinhsl.tar.gz
mv $(ls -d coinhsl*/) coinhsl
./configure --prefix=/opt/hsl
make -j$(nproc)
sudo make install
find /opt/hsl/lib/libcoinhsl.* | xargs -I{} echo {} {} | sed "s/coin//2" | sudo xargs -n 2 ln -s
sudo ln -s /opt/hsl/lib/pkgconfig/coinhsl.pc /opt/hsl/lib/pkgconfig/hsl.pc
#IPOPT
cd /tmp/ipopt
mkdir build
cd build
../configure --prefix=/opt/ipopt
make -j$(nproc)
sudo make install
    
## In ~/.bashrc
export IPOPT_HOME=/opt/ipopt
export LD_LIBRARY_PATH=${IPOPT_HOME}/lib${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}
export PKG_CONFIG_PATH=${IPOPT_HOME}/lib/pkgconfig${PKG_CONFIG_PATH:+:${PKG_CONFIG_PATH}}
export C_INCLUDE_PATH=${IPOPT_HOME}/include/coin-or${C_INCLUDE_PATH:+:${C_INCLUDE_PATH}}
export HSL_HOME=/opt/hsl
export LD_LIBRARY_PATH=${HSL_HOME}/lib${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}
export PKG_CONFIG_PATH=${HSL_HOME}/lib/pkgconfig${PKG_CONFIG_PATH:+:${PKG_CONFIG_PATH}}
export C_INCLUDE_PATH=${HSL_HOME}/include/coin-or${C_INCLUDE_PATH:+:${C_INCLUDE_PATH}}

# Managing multiple ssh keys for github
# ~/.ssh/config
# Default Account
Host github.com
  ...
  IdentityFile ~/.ssh/github_user1

# Account 1
Host user1.github.com
  HostName github.com
  ...
  IdentityFile ~/.ssh/github_user1

# Account 2
Host user2.github.com
  HostName github.com
  ...
  IdentityFile ~/.ssh/github_user2

# If adding to ssh-agent, need this to prevent using preloaded keys
Host *
  IdentitiesOnly=yes
##
# when cloning, use git@user1.github.com instead of git@github.com
# otherwise note from https://docs.github.com/en/authentication/connecting-to-github-with-ssh/generating-a-new-ssh-key-and-adding-it-to-the-ssh-agent

### Fusion 360
# Force the user-agent to use windows and download from https://www.autodesk.com/products/fusion-360/appstream
# install steam and proton-caller
sudo apt-get install steam proton-caller
### Configure -> ~/.config/proton.conf
data = "/home/adam/proton-data/"
steam = "/home/adam/.steam/steam/"

# optional
common = "/home/adam/.steam/steam/steamapps/common/"
### Create the folder
mkdir ~/proton-data
# then launch steam to install proton-experimental
proton-call -p Experimental -r Fusion\ Client\ Downloader.exe
# make shortcut or desktop with the following non-terminal launch
proton-call -p Experimental -r /home/adam/proton-data/Proton\ Experimental/pfx/drive_c/users/steamuser/Desktop/Autodesk\ Fusion\ 360.lnk

######## MAC OS stuff
# Note that anything that's LD_LIBRARY_PATH is DYLD_[FALLBACK]_LIBRARY_PATH
# Also note that it has security restrictions & env is a security restricted thingy
# see https://github.com/Homebrew/brew/issues/13481

# For basic xcode command line compiler
xcode-select --install # Install Command Line Tools
sudo xcode-select --switch /Library/Developer/CommandLineTools # Enable Command Line Tools
# After, if using the full xcode compiler
sudo xcode-select -s /Applications/Xcode.app/Contents/Developer

## Things to install
firefox
spotify
homebrew
discord
slack
vs code
matlab (min 2023b)

# Discord ptb package uses osx not mac

## To make sure brew packages can be found during compilation, in .zshrc
eval "$(/opt/homebrew/bin/brew shellenv)"
export CPATH="/opt/homebrew/include${CPATH:+:${CPATH}}"
export LIBRARY_PATH="/opt/homebrew/lib${LIBRARY_PATH:+:${LIBRARY_PATH}}"
##

## If installing eigen, add link for packages which use Eigen directly. So do either of the following (first may be better)
# add to .zshrc
export CPLUS_INCLUDE_PATH="${CPATH:+${CPATH}:}/opt/homebrew/include/eigen3"
# run
sudo ln -s /opt/homebrew/include/eigen3/Eigen /opt/homebrew/include/Eigen
##

# Add MATLAB to the path as a command line option
export PATH=/Applications/MATLAB_R2023b.app/bin/${PATH:+:${PATH}}

# Brew packages useful
wget # download crap
battery # battery charge limiter to 80%
cmake # cmake
eigen # if eigen is needed, see above
metis # for ipopt, others aren't needed
boost # as always
###
use `make -j$(sysctl -n hw.physicalcpu)`

### The below go into ~/conda_source
# Get current terminal
CUR_SHELL=$(echo $SHELL | sed 's/.*\///')
#CUR_SHELL=$(echo $0 | sed 's/.*\///')
if [ "x$CUR_SHELL" = "x" ]; then
  CUR_SHELL=$(ps -cp $$ | awk 'END{print $NF}')
fi

# Reset all source
source /etc/${CUR_SHELL}rc
source ~/.${CUR_SHELL}rc 2>/dev/null

# Setup conda
eval "$(/Users/adam/miniconda3/bin/conda shell.${CUR_SHELL} hook)"
###

## Also make a folder for the new zshrc for code
~/miniconda/zshrc
|__ .zshrc
|__ .zshenv
|__ .zsh_history -> ~/.zsh_history
\__ .zsh_sessions/ -> ~/.zsh_sessions/

### .zshrc
source ~/conda_source
### .zshenv
source ~/.zshenv 2>/dev/null
###

### The below go into vs code user settings
{
    "terminal.integrated.defaultProfile.osx": "zsh",
    "python.condaPath": "/Users/adam/miniconda3/bin/conda",
    "python.defaultInterpreterPath": "/Users/adam/miniconda3/bin/python",
    "terminal.integrated.profiles.osx": {
        "conda-zsh": {
            "path": "zsh",
            "args": ["-c", "ZDOTDIR=~/miniconda3/zshrc zsh"],
            "icon": "terminal-bash"
        },
        "conda-bash": {
            "path": "bash",
            "args": ["--rcfile", "~/conda_source"],
            "icon": "terminal-bash"
        },
    }
}
###

### The below goes in the .vscode/settings.json for any python project
{
    "terminal.integrated.defaultProfile.osx": "conda-zsh"
}
###

# Easier docker on Mac using Lima
# References https://itnext.io/replace-docker-desktop-with-lima-88ec6f9d6a19
# https://gist.github.com/akrylysov/7c1ea3bac409da2758e525f2f82e6373
brew install lima docker docker-buildx docker-credential-helper docker-compose #(if wanted)

# if docker compose
# Link docker-compose plugin
mkdir -p ~/.docker/cli-plugins
ln -sfn /opt/homebrew/opt/docker-compose/bin/docker-compose ~/.docker/cli-plugins/docker-compose

# Continue later

### UTM VM's
# Install UTM
# Download Ubuntu Server for ARM
# Create a new VM -> User Apple Virtualization & Enable Rosetta
# 32G and 8 cores
# 64G disk
# Share "~/VM Shared Folder"
# Install as normal
# add clipboard, cinnamon
sudo apt install spice-vdagent cinnamon gdebi binfmt-support
# configure lightdm
wget https://raw.githubusercontent.com/canonical/lightdm/main/data/lightdm.conf
sudo mv lightdm.conf /etc/lightdm/lightdm.conf
# In the [Seat:*] section, set user-session=cinnamon
# make sure to delete ~/.dmrc (if login was attempted before this to reset the user-session config)
# uninstall all snaps (has to be done in order)
sudo snap remove lxd && sudo snap remove core20 && sudo snap remove snapd
sudo apt-get remove --purge snapd
rm -rf ~/s
sudo rm -rf /snap
sudo rm -rf /var/snap
sudo rm -rf /var/lib/snapd
# Block snap
#### in /etc/apt/preferences.d/nosnap.pref
# To prevent repository packages from triggering the installation of Snap,
# this file forbids snapd from being installed by APT.
# For more information: https://linuxmint-user-guide.readthedocs.io/en/latest/snap.html

Package: snapd
Pin: release a=*
Pin-Priority: -10
####
# and get firefox back
sudo add-apt-repository ppa:mozillateam/ppa
### in /etc/apt/preferences.d/mozilla-firefox.pref
Package: *
Pin: release o=LP-PPA-mozillateam
Pin-Priority: 1001
###
sudo apt-get update
sudo apt-get install firefox
# get the debs from http://packages.linuxmint.com/list.php?release=victoria
# * update the release name to match the latest
# and install mint-x-icons mint-y-icons mint-themes mint-cursor-themes
# in fstab, remove swap, add share & rosetta, and symlink subfolder of share
# Also delete /swap.img
# enable rosetta from here https://docs.getutm.app/advanced/rosetta/
# add multiarch
sudo dpkg --add-architecture amd64
sudo cp /etc/apt/sources.list /etc/apt/sources.list.d/amd64-ubuntu.list
# edit file to remove all comments, change the uri, and add [arch=amd64] like follows
deb [arch=amd64] http://us.archive.ubuntu.com/ubuntu/ focal main restricted
# do the same thing back to the regular sources.list, but for arm64 and without changing the URL
# disable suspend in the vm
sudo systemctl mask sleep.target suspend.target hibernate.target hybrid-sleep.target

### Making homebrew apps accessible by spotlight
# Automator -> Application -> Run Shell Script
## eval "$(/opt/homebrew/bin/brew shellenv)"
## command-of-choice-to-launch
# Save to Applications & drag in appropriate icon

## DESTROY DS_STORE
# This thing leaves annoying files and stuff on external filesystems
# disable for network shares
# https://support.apple.com/en-us/HT208209
defaults write com.apple.desktopservices DSDontWriteNetworkStores -bool TRUE
# disable for usb drives
# https://ss64.com/osx/syntax-defaults.html
defaults write com.apple.desktopservices DSDontWriteUSBStores -bool TRUE
# FIGURE OUT HOW TO DISABLE FOR ZIPS
# restart system / log off then back on for the above to take effect

# Show hidden files in Finder
# https://macos-defaults.com/finder/appleshowallfiles.html
defaults write com.apple.finder "AppleShowAllFiles" -bool "true"
# Show all extensions in Finder
defaults write NSGlobalDomain "AppleShowAllExtensions" -bool "true"
# restart Finder for the above to take effect
killall Finder

# keep spotlight out of volumes
# https://apple.stackexchange.com/a/37701