Finish brew updates

Brewfile

@@ -21,9 +21,11 @@ brew "dfu-util"
 brew "difftastic"
 brew "direnv"
 brew "duck"
+brew "dust"
 brew "earthly"
 brew "esptool"
 brew "fish"
+brew "fq"
 brew "gh"
 brew "ghidra", link: false
 brew "git"
@@ -58,6 +60,7 @@ brew "pkgconf"
 brew "protobuf"
 brew "pwgen"
 brew "pwntools"
+brew "python@3.13"
 brew "qemu"
 brew "restic"
 brew "ripgrep"
@@ -115,11 +118,14 @@ end
 if !is_corp?
   brew "bazelisk"
   brew "openssh"
+  brew "virt-manager"
 
   cask "claude-code"
   cask "cryptomator"
+  cask "keepassxc"
   cask "gcloud-cli"
   cask "google-cloud-sdk"
   cask "keybase"
   cask "orbstack"
+  cask "jordanbaird-ice"
 end

bin/quartz

@@ -0,0 +1,63 @@
+#!/bin/bash
+
+set -euo pipefail
+
+# QUARTZ_DIR search logic
+if [ -z "${QUARTZ_DIR:-}" ]; then
+    if [ -f "quartz.config.ts" ]; then
+        QUARTZ_DIR="$PWD"
+    elif [ -d "$HOME/Personal/notes-quartz" ]; then
+        QUARTZ_DIR="$HOME/Personal/notes-quartz"
+    elif [ -d "$HOME/Projects/notes-quartz" ]; then
+        QUARTZ_DIR="$HOME/Projects/notes-quartz"
+    else
+        echo "Error: QUARTZ_DIR could not be found." >&2
+        exit 1
+    fi
+fi
+
+if [ ! -d "$QUARTZ_DIR" ]; then
+    echo "Error: QUARTZ_DIR '$QUARTZ_DIR' is not a directory." >&2
+    exit 1
+fi
+
+# NOTES_DIR search logic
+PARSE_NOTES_DIR=""
+# Use a copy of args to find -d/--directory
+ARGS=("$@")
+for ((i=0; i<${#ARGS[@]}; i++)); do
+    if [[ "${ARGS[i]}" == "-d" || "${ARGS[i]}" == "--directory" ]]; then
+        if [[ $((i+1)) -lt ${#ARGS[@]} ]]; then
+            PARSE_NOTES_DIR="${ARGS[i+1]}"
+        fi
+        break
+    fi
+done
+
+if [ -n "$PARSE_NOTES_DIR" ]; then
+    NOTES_DIR="$PARSE_NOTES_DIR"
+elif [ -z "${NOTES_DIR:-}" ]; then
+    if [ -d "$HOME/Notes" ]; then
+        NOTES_DIR="$HOME/Notes"
+    elif [ -d "$HOME/Personal/notes" ]; then
+        NOTES_DIR="$HOME/Personal/notes"
+    elif [ -d "$HOME/Projects/notes" ]; then
+        NOTES_DIR="$HOME/Projects/notes"
+    else
+        echo "Error: NOTES_DIR could not be found." >&2
+        exit 1
+    fi
+fi
+
+if [ ! -d "$NOTES_DIR" ]; then
+    echo "Error: NOTES_DIR '$NOTES_DIR' is not a directory." >&2
+    exit 1
+fi
+
+cd "$QUARTZ_DIR"
+
+# Run npx quartz
+# Following the prompt's structure but using NOTES_DIR for the flag
+# npx quartz ${argv[1]} --directory ${NOTES_DIR} "$@"
+# We use ${1:-} for argv[1] to handle cases with no arguments.
+npx quartz "${1:-}" --directory "$NOTES_DIR" "$@"

dotfiles/config/mise/config.toml

@@ -9,9 +9,8 @@ uv_venv_auto = true
 
 [tools]
 age = "latest"
-age-plugin-yubikey = "latest"
 usage = "latest"
-uv = "latest"
+uv = "0.11.8"
 
 [hooks]
 postinstall = "mise sync python --uv"

dotfiles/shenv

@@ -15,6 +15,7 @@ export DEBEMAIL="david@systemoverlord.com"
 export DEBFULLNAME="David Tomaschik"
 export LESS="-MR"
 export QUOTING_STYLE="literal"  # Coreutils quotes
+export HOMEBREW_NO_ENV_HINTS=1
 
 # Fix gnome-terminal
 if [ "$TERM" = "xterm" ] && [ "$COLORTERM" = "gnome-terminal" ] ; then

dotfiles/zshrc

@@ -185,6 +185,9 @@ have_command() {
 if test -d ${HOME}/.local/bin ; then
   export PATH="${HOME}/.local/bin:${PATH}"
 fi
+if test -d ${HOME}/.npm-packages/bin ; then
+  export PATH="${HOME}/.npm-packages/bin:${PATH}"
+fi
 
 # Source extras and aliases if interactive
 if [[ $- == *i* ]] ; then

dotfiles/zshrc.d/skelify.zsh

@@ -3,6 +3,17 @@
 # Skelify -- move a file to my .skel and setup symlinks
 
 function skelify {
+  local -A opts
+  zparseopts -D -A opts -overlay:
+
+  local overlay_name="${opts[--overlay]}"
+  local base_skel_dir="${HOME}/.skel/dotfiles"
+  local extra_args=()
+  if [[ -n "${overlay_name}" ]]; then
+    base_skel_dir="${HOME}/.skel/dotfile_overlays/${overlay_name}"
+    extra_args=(--overlay "${overlay_name}")
+  fi
+
   local target
   local whichdir
   local relhome
@@ -10,16 +21,19 @@ function skelify {
   local fulltarget
   for target in $~@; do
     if test -d ${target} ; then
-      skelify ${target}/* || return 1
+      skelify "${extra_args[@]}" ${target}/* || return 1
     elif test -f ${target} ; then
       if ! whichdir=$(cd $(dirname $target) && pwd); then
         echo Could not find directory for $target >/dev/stderr
         return 1
       fi
       fname=$(basename ${target})
-      relhome=${whichdir#${HOME}/}
       fulltarget="${whichdir}/${fname}"
-      if [[ ${relhome} == ${whichdir} ]] ; then
+      if [[ ${whichdir} == ${HOME} ]] ; then
+        relhome=""
+      elif [[ ${whichdir} == ${HOME}/* ]] ; then
+        relhome=${whichdir#${HOME}/}
+      else
         echo ${whichdir} is not in home >/dev/stderr
         return 1
       fi
@@ -32,7 +46,7 @@ function skelify {
         return 1
       fi
       echo ${target}
-      local skeldir="${HOME}/.skel/dotfiles/${relhome}"
+      local skeldir="${base_skel_dir}/${relhome}"
       mkdir -p "${skeldir}"
       mv ${target} "${skeldir}/${fname}"
       ln -s "${skeldir}/${fname}" "${fulltarget}"