Install script updates (#1281)

* Remove custom gphoto2 install

* Install from apt, which is at the current version. This should save a lot of time compared to the compiling needed for the custom install.

* * Source micromamba properly

* * Fixing up more of the conda/mamba init on install.

* * Removing install shell function for udev entries, which are handled by `pocs mount setup`.

* * Small change to writing of dev entry.

* * Remove gphoto2 dev install.

* Moving script file location.

* Split each install function into a separate file.

* Small script fixes.

* Passwordless sudo on machine.

* Default POCS dir to uppercase.

* More consistency with the PANUSER and PANDIR.

* Remove from functions so just scripts run.

* Setup user and do passwordless, all the good stuff.

* Handle pocs clone

* Change default shell with sudo

* Updating the script install order.

* Fix conda install.

* Make scripts executable.

* Check for zsh dir

* Explicit ohmyzsh

* Python 3.12 for now.

* Add a base script that can be fetched and installed.

README.md

@@ -38,15 +38,15 @@ folks even report that it works on a Mac.
 To install POCS via the script, open a terminal and enter (you may be prompted for your `sudo` password):
 
 ```bash
-curl -fsSL https://install.projectpanoptes.org > install-pocs.sh
-bash install-pocs.sh
+curl -fsSL https://install.projectpanoptes.org > install.sh
+bash install.sh
 ```
 
 Or using `wget`:
 
 ```bash
-wget -qO- https://install.projectpanoptes.org > install-pocs.sh
-bash install-pocs.sh
+wget -qO- https://install.projectpanoptes.org > install.sh
+bash install.sh
 ```
 
 The install script will ask a few questions at the beginning of the process. If you are unsure of 

resources/arduino/install-arduino-cli.sh

@@ -0,0 +1,25 @@
+#!/usr/bin/env bash
+
+# Check for arduino-cli tool first.
+if command -v arduino-cli &> /dev/null; then
+  echo "arduino-cli is already installed."
+  exit 0
+fi
+
+# Make sure we are at home.
+cd
+
+# Get the arduino-cli tool and install.
+curl -fsSL https://raw.githubusercontent.com/arduino/arduino-cli/master/install.sh | sh
+
+"${HOME}/bin/arduino-cli" config init
+"${HOME}/bin/arduino-cli" core update-index
+"${HOME}/bin/arduino-cli" core install arduino:avr
+"${HOME}/bin/arduino-cli" lib install ArduinoJson
+
+# Ask if the user wants to install the power board software.
+read -p "Do you want to install the power board software? [y/N] " -n 1 -r
+echo
+if [[ $REPLY =~ ^[Yy]$ ]]; then
+  source ./install-power-board.sh
+fi

resources/arduino/install-arduino.sh → resources/arduino/install-power-board.sh

@@ -4,9 +4,5 @@ FQBN="${FQBN:-arduino:avr:uno}"
 SKETCH_LOCATION="${SKETCH_LOCATION:-PowerBoard}"
 ARDUINO_PORT="${ARDUINO_PORT:-/dev/ttyACM0}"
 
-arduino-cli config init
-arduino-cli core update-index
-arduino-cli core install arduino:avr
-arduino-cli lib install ArduinoJson
 arduino-cli compile -b "${FQBN}" "${SKETCH_LOCATION}"
 arduino-cli upload -p "${ARDUINO_PORT}" -b "${FQBN}" "${SKETCH_LOCATION}"

resources/scripts/fix-time.sh

@@ -0,0 +1,27 @@
+#!/usr/bin/env bash
+
+# We use htpdate below so this just needs to be a public url w/ trusted time.
+TIME_SERVER="${TIME_SERVER:-google.com}"
+
+function fix_time() {
+  echo "Syncing time."
+  DEBIAN_FRONTEND=noninteractive sudo apt-get install -y -qq htpdate
+  sudo timedatectl set-ntp false
+  sudo /usr/sbin/htpdate -as "${TIME_SERVER}"
+  sudo timedatectl set-ntp true
+
+  # Add crontab entries for reboot and every hour.
+  (
+    sudo crontab -l
+    echo "@reboot /usr/sbin/htpdate -as ${TIME_SERVER}"
+  ) | sudo crontab -
+  (
+    sudo crontab -l
+    echo "13 * * * * /usr/sbin/htpdate -s ${TIME_SERVER}"
+  ) | sudo crontab -
+
+  # Show updated time.
+  timedatectl
+}
+
+fix_time

resources/scripts/get-pocs.sh

@@ -0,0 +1,11 @@
+#!/usr/bin/env bash
+
+BRANCH="${BRANCH:-develop}"
+
+git clone https://github.com/panoptes/POCS
+cd POCS
+git checkout "${BRANCH}"
+cd resources/scripts
+./install.sh
+
+echo "POCS installed, please reboot."

resources/scripts/install-conda.sh

@@ -0,0 +1,22 @@
+#!/usr/bin/env bash
+
+CONDA_URL="https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-Linux-$(uname -m).sh"
+PANDIR="${PANDIR:-${HOME}/POCS}"
+CONDA_ENV_NAME=conda-pocs
+
+echo "Installing miniforge conda"
+
+wget -q "${CONDA_URL}" -O install-miniforge.sh
+/bin/sh install-miniforge.sh -b -f -p "${HOME}/conda"
+rm install-miniforge.sh
+
+source "${HOME}/conda/etc/profile.d/conda.sh"
+
+# Initialize conda for the shells.
+"${HOME}/conda/bin/conda" init bash zsh
+
+echo "Creating POCS conda environment"
+"${HOME}/conda/bin/conda" create -y -q -n "${CONDA_ENV_NAME}" python=3.12
+
+# Activate by default
+echo "conda activate ${CONDA_ENV_NAME}" >>"${HOME}/.zshrc"

resources/scripts/install-pocs.sh

@@ -0,0 +1,30 @@
+#!/usr/bin/env bash
+
+CODE_BRANCH=${CODE_BRANCH:-"develop"}
+CONDA_ENV_NAME=conda-pocs
+PANDIR="${PANDIR:-${HOME}/POCS}"
+
+# Check if PANDIR exists and if not, clone.
+if [ -d "${PANDIR}" ]; then
+  echo "POCS repo already exists."
+else
+  echo "Cloning POCS repo."
+  git clone https://github.com/panoptes/POCS "${PANDIR}"
+  cd "${PANDIR}"
+  git checkout "${CODE_BRANCH}"
+  cd
+fi
+
+echo "Installing POCS into ${CONDA_ENV_NAME} environment."
+"${HOME}/conda/bin/conda" env update -p "${HOME}/conda/envs/${CONDA_ENV_NAME}" -f "${PANDIR}/environment.yaml"
+
+echo "Creating POCS directories."
+mkdir -p "${HOME}/logs"
+mkdir -p "${HOME}/images"
+mkdir -p "${HOME}/json_store"
+mkdir -p "${HOME}/keys"
+
+# Link the needed POCS folders.
+ln -s "${PANDIR}/conf_files" "${HOME}"
+ln -s "${PANDIR}/resources" "${HOME}"
+ln -s "${PANDIR}/notebooks" "${HOME}"

resources/scripts/install-services.sh

@@ -0,0 +1,17 @@
+#!/usr/bin/env bash
+
+PANUSER="${PANUSER:-panoptes}"
+
+echo "Installing supervisor services."
+
+# Make supervisor read our conf file at its current location.
+echo "files = ${HOME}/conf_files/pocs-supervisord.conf" | sudo tee -a /etc/supervisor/supervisord.conf
+
+# Change the user and home directory.
+sed -i "s/chown=panoptes:panoptes/chown=${PANUSER}:${PANUSER}/g" "${HOME}/conf_files/pocs-supervisord.conf"
+sed -i "s/user=panoptes/user=${PANUSER}/g" "${HOME}/conf_files/pocs-supervisord.conf"
+sed -i "s|/home/panoptes|${HOME}|g" "${HOME}/conf_files/pocs-supervisord.conf"
+
+# Reread the supervisord conf and restart.
+sudo supervisorctl reread
+sudo supervisorctl update

resources/scripts/install-system-deps.sh

@@ -0,0 +1,35 @@
+#!/usr/bin/env bash
+
+echo "Installing system dependencies."
+
+# Clean up problems.
+sudo apt-get update --fix-missing -y
+
+# Upgrade.
+sudo apt-get -y full-upgrade
+
+sudo apt-get -y install \
+  ack \
+  astrometry.net \
+  astrometry-data-tycho2-10-19 \
+  byobu \
+  curl \
+  dcraw \
+  exiftool \
+  fonts-powerline \
+  gcc \
+  git \
+  gphoto2 \
+  htop \
+  httpie \
+  jo \
+  jq \
+  libcfitsio-bin \
+  make \
+  nano \
+  supervisor \
+  vim-nox \
+  wget \
+  zsh
+
+sudo apt-get -y autoremove

resources/scripts/install-zsh.sh

@@ -0,0 +1,43 @@
+#!/usr/bin/env bash
+
+PANUSER="${PANUSER:-panoptes}"
+PANDIR="${PANDIR:-${HOME}/POCS}"
+
+function install_zsh() {
+  if [ ! -d "${HOME}/.oh-my-zsh" ]; then
+    echo "Using zsh for a better shell experience."
+
+    sudo chsh --shell /usr/bin/zsh "${PANUSER}"
+
+    # Oh my zsh
+    wget -q https://raw.githubusercontent.com/ohmyzsh/ohmyzsh/master/tools/install.sh -O /tmp/install-ohmyzsh.sh
+    bash /tmp/install-ohmyzsh.sh --unattended
+
+    export ZSH_CUSTOM="$HOME/.oh-my-zsh"
+
+    # Autosuggestions plugin
+    git clone https://github.com/zsh-users/zsh-autosuggestions "${ZSH_CUSTOM:-~/.oh-my-zsh/custom}"/plugins/zsh-autosuggestions
+
+    write_zshrc
+  fi
+}
+
+function write_zshrc() {
+  cat >"${HOME}/.zshrc" <<EOT
+
+zstyle ':omz:update' mode disabled
+
+export PATH="\$HOME/bin:\$HOME/.local/bin:/usr/local/bin:\$PATH"
+export ZSH="/home/${PANUSER}/.oh-my-zsh"
+export PANDIR="${PANDIR}"
+
+ZSH_THEME="agnoster"
+
+plugins=(git sudo zsh-autosuggestions docker docker-compose python)
+source \$ZSH/oh-my-zsh.sh
+unsetopt share_history
+
+EOT
+}
+
+install_zsh

resources/scripts/install.sh

@@ -0,0 +1,25 @@
+#!/usr/bin/env bash
+set -e
+
+echo "Installing POCS"
+
+echo "Setting up user."
+source ./setup-user.sh > install.log 2>&1
+
+echo "Fixing system time."
+source ./fix-time.sh >> install.log 2>&1
+
+echo "Installing system dependencies."
+source ./install-system-deps.sh >> install.log 2>&1
+
+echo "Installing ZSH for a better shell."
+source ./install-zsh.sh >> install.log 2>&1
+
+echo "Installing conda python."
+source ./install-conda.sh >> install.log 2>&1
+
+echo "Installing POCS software."
+source ./install-pocs.sh >> install.log 2>&1
+
+echo "Installing services so things run at startup."
+source ./install-services.sh >> install.log 2>&1

resources/scripts/setup-user.sh

@@ -0,0 +1,10 @@
+#!/usr/bin/env bash
+
+# Set up passwordless sudo for all sudo group.
+echo "%sudo ALL=(ALL) NOPASSWD: ALL" | sudo tee /etc/sudoers.d/panoptes
+
+# Add an SSH key if one doesn't exist.
+if [[ ! -f "${HOME}/.ssh/id_rsa" ]]; then
+  echo "Adding ssh key"
+  ssh-keygen -t rsa -N "" -f "${HOME}/.ssh/id_rsa"
+fi