TheLocehiliosan_yadm/yadm

#!/bin/sh
# yadm - Yet Another Dotfiles Manager
# Copyright (C) 2015-2019 Tim Byrne

# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program.  If not, see <https://www.gnu.org/licenses/>.

# execute script with bash (shebang line is /bin/sh for portability)
if [ -z "$BASH_VERSION" ]; then
  [ "$YADM_TEST" != 1 ] && exec bash "$0" "$@"
fi

VERSION=1.12.0

YADM_WORK="$HOME"
YADM_DIR="$HOME/.yadm"

YADM_REPO="repo.git"
YADM_CONFIG="config"
YADM_ENCRYPT="encrypt"
YADM_ARCHIVE="files.gpg"
YADM_BOOTSTRAP="bootstrap"

HOOK_COMMAND=""
FULL_COMMAND=""

GPG_PROGRAM="gpg"
GIT_PROGRAM="git"
ENVTPL_PROGRAM="envtpl"
LSB_RELEASE_PROGRAM="lsb_release"

PROC_VERSION="/proc/version"
OPERATING_SYSTEM="Unknown"

ENCRYPT_INCLUDE_FILES="unparsed"

# flag causing path translations with cygpath
USE_CYGPATH=0

# flag when something may have changes (which prompts auto actions to be performed)
CHANGES_POSSIBLE=0

# flag when a bootstrap should be performed after cloning
# 0: skip auto_bootstrap, 1: ask, 2: perform bootstrap, 3: prevent bootstrap
DO_BOOTSTRAP=0

function main() {

  require_git

  # capture full command, for passing to hooks
  FULL_COMMAND="$*"

  # create the YADM_DIR if it doesn't exist yet
  [ -d "$YADM_DIR" ] || mkdir -p "$YADM_DIR"

  # parse command line arguments
  local retval=0
  internal_commands="^(alt|bootstrap|clean|clone|config|decrypt|encrypt|enter|help|init|introspect|list|perms|version)$"
  if [ -z "$*" ] ; then
    # no argumnts will result in help()
    help
  elif [[ "$1" =~ $internal_commands ]] ; then
    # for internal commands, process all of the arguments
    YADM_COMMAND="$1"
    YADM_ARGS=()
    shift

    while [[ $# -gt 0 ]] ; do
      key="$1"
      case $key in
        -a) # used by list()
          LIST_ALL="YES"
        ;;
        -d) # used by all commands
          DEBUG="YES"
        ;;
        -f) # used by init() and clone()
          FORCE="YES"
        ;;
        -l) # used by decrypt()
          DO_LIST="YES"
        ;;
        -w) # used by init() and clone()
          if [[ ! "$2" =~ ^/ ]] ; then
            error_out "You must specify a fully qualified work tree"
          fi
          YADM_WORK="$2"
          shift
        ;;
        *) # any unhandled arguments
          YADM_ARGS+=("$1")
        ;;
      esac
      shift
    done
    [ ! -d "$YADM_WORK" ] && error_out "Work tree does not exist: [$YADM_WORK]"
    HOOK_COMMAND="$YADM_COMMAND"
    invoke_hook "pre"
    $YADM_COMMAND "${YADM_ARGS[@]}"
  else
    # any other commands are simply passed through to git
    HOOK_COMMAND="$1"
    invoke_hook "pre"
    git_command "$@"
    retval="$?"
  fi

  # process automatic events
  auto_alt
  auto_perms
  auto_bootstrap

  exit_with_hook $retval

}

# ****** yadm Commands ******

function alt() {

  require_repo
  parse_encrypt

  local_class="$(config local.class)"
  if [ -z "$local_class" ] ; then
    match_class="%"
  else
    match_class="$local_class"
  fi
  match_class="(%|$match_class)"

  local_system="$(config local.os)"
  if [ -z "$local_system" ] ; then
    local_system="$OPERATING_SYSTEM"
  fi
  match_system="(%|$local_system)"

  local_host="$(config local.hostname)"
  if [ -z "$local_host" ] ; then
    local_host=$(hostname)
    local_host=${local_host%%.*} # trim any domain from hostname
  fi
  match_host="(%|$local_host)"

  local_user="$(config local.user)"
  if [ -z "$local_user" ] ; then
    local_user=$(id -u -n)
  fi
  match_user="(%|$local_user)"

  # regex for matching "<file>##CLASS.SYSTEM.HOSTNAME.USER"
  match1="^(.+)##(()|$match_system|$match_system\.$match_host|$match_system\.$match_host\.$match_user)$"
  match2="^(.+)##($match_class|$match_class\.$match_system|$match_class\.$match_system\.$match_host|$match_class\.$match_system\.$match_host\.$match_user)$"

  cd_work "Alternates" || return

  # only be noisy if the "alt" command was run directly
  [ "$YADM_COMMAND" = "alt" ] && loud="YES"

  # decide if a copy should be done instead of a symbolic link
  local do_copy=0
  if [[ $OPERATING_SYSTEM == CYGWIN* ]] ; then
    if [[ $(config --bool yadm.cygwin-copy) == "true" ]] ; then
      do_copy=1
    fi
  fi

  # process the files tracked by yadm once, this info is used multiple times
  tracked_files=()
  local IFS=$'\n'
  for tracked_file in $("$GIT_PROGRAM" ls-files | LC_ALL=C sort); do
    tracked_files+=("$tracked_file")
  done

  # generate a list of possible alt files
  possible_alts=()
  local IFS=$'\n'
  for possible_alt in "${tracked_files[@]}" "${ENCRYPT_INCLUDE_FILES[@]}"; do
    if [[ $possible_alt =~ .\#\#. ]]; then
      possible_alts+=("$YADM_WORK/${possible_alt%##*}")
    fi
  done
  alt_linked=()

  # loop over all "tracked" files
  # for every file which matches the above regex, create a symlink
  for match in $match1 $match2; do
    last_linked=''
    local IFS=$'\n'
    # the alt_paths looped over here are a unique sorted list of both files and their immediate parent directory
    for alt_path in $(for tracked in "${tracked_files[@]}"; do printf "%s\n" "$tracked" "${tracked%/*}"; done | LC_ALL=C sort -u) "${ENCRYPT_INCLUDE_FILES[@]}"; do
      alt_path="$YADM_WORK/$alt_path"
      if [ -e "$alt_path" ] ; then
        if [[ $alt_path =~ $match ]] ; then
          if [ "$alt_path" != "$last_linked" ] ; then
            new_link="${BASH_REMATCH[1]}"
            debug "Linking $alt_path to $new_link"
            [ -n "$loud" ] && echo "Linking $alt_path to $new_link"
            if [ "$do_copy" -eq 1 ]; then
              if [ -L "$new_link" ]; then
                rm -f "$new_link"
              fi
              cp -f "$alt_path" "$new_link"
            else
              ln -nfs "$alt_path" "$new_link"
              alt_linked+=("$alt_path")
            fi
            last_linked="$alt_path"
          fi
        fi
      fi
    done
  done

  # review alternate candidates for stale links
  # if a possible alt IS linked, but it's target is not part of alt_linked,
  # remove it.
  if readlink_available; then
    for stale_candidate in "${possible_alts[@]}"; do
      if [ -L "$stale_candidate" ]; then
        link_target=$(readlink "$stale_candidate" 2>/dev/null)
        if [ -n "$link_target" ]; then
          removal=yes
          for review_link in "${alt_linked[@]}"; do
            [ "$link_target" = "$review_link" ] && removal=no
          done
          [ "$removal" = "yes" ] && rm -f "$stale_candidate"
        fi
      fi
    done
  fi

  # loop over all "tracked" files
  # for every file which is a *##yadm.j2 create a real file
  local match="^(.+)##yadm\\.j2$"
  for tracked_file in "${tracked_files[@]}" "${ENCRYPT_INCLUDE_FILES[@]}"; do
    tracked_file="$YADM_WORK/$tracked_file"
    if [ -e "$tracked_file" ] ; then
      if [[ $tracked_file =~ $match ]] ; then
        real_file="${BASH_REMATCH[1]}"
        if envtpl_available; then
          debug "Creating $real_file from template $tracked_file"
          [ -n "$loud" ] && echo "Creating $real_file from template $tracked_file"
          YADM_CLASS="$local_class" \
          YADM_OS="$local_system" \
          YADM_HOSTNAME="$local_host" \
          YADM_USER="$local_user" \
          YADM_DISTRO=$(query_distro) \
          "$ENVTPL_PROGRAM" --keep-template "$tracked_file" -o "$real_file"
        else
          debug "envtpl not available, not creating $real_file from template $tracked_file"
          [ -n "$loud" ] && echo "envtpl not available, not creating $real_file from template $tracked_file"
        fi
      fi
    fi
  done

}

function bootstrap() {

  bootstrap_available || error_out "Cannot execute bootstrap\n'$YADM_BOOTSTRAP' is not an executable program."

  # GIT_DIR should not be set for user's bootstrap code
  unset GIT_DIR

  echo "Executing $YADM_BOOTSTRAP"
  exec "$YADM_BOOTSTRAP"

}

function clean() {

  error_out "\"git clean\" has been disabled for safety. You could end up removing all unmanaged files."

}

function clone() {

  DO_BOOTSTRAP=1

  clone_args=()
  while [[ $# -gt 0 ]] ; do
    key="$1"
    case $key in
      --bootstrap) # force bootstrap, without prompt
        DO_BOOTSTRAP=2
      ;;
      --no-bootstrap) # prevent bootstrap, without prompt
        DO_BOOTSTRAP=3
      ;;
      *) # main arguments are kept intact
        clone_args+=("$1")
      ;;
    esac
    shift
  done

  [ -n "$DEBUG" ] && display_private_perms "initial"

  # clone will begin with a bare repo
  local empty=
  init $empty

  # add the specified remote, and configure the repo to track origin/master
  debug "Adding remote to new repo"
  "$GIT_PROGRAM" remote add origin "${clone_args[@]}"
  debug "Configuring new repo to track origin/master"
  "$GIT_PROGRAM" config branch.master.remote origin
  "$GIT_PROGRAM" config branch.master.merge refs/heads/master

  # fetch / merge (and possibly fallback to reset)
  debug "Doing an initial fetch of the origin"
  "$GIT_PROGRAM" fetch origin || {
    debug "Removing repo after failed clone"
    rm -rf "$YADM_REPO"
    error_out "Unable to fetch origin ${clone_args[0]}"
  }
  debug "Determining if repo tracks private directories"
  for private_dir in .ssh/ .gnupg/; do
    found_log=$("$GIT_PROGRAM" log -n 1 origin/master -- "$private_dir" 2>/dev/null)
    if [ -n "$found_log" ]; then
      debug "Private directory $private_dir is tracked by repo"
      assert_private_dirs "$private_dir"
    fi
  done
  [ -n "$DEBUG" ] && display_private_perms "pre-merge"
  debug "Doing an initial merge of origin/master"
  "$GIT_PROGRAM" merge origin/master || {
    debug "Merge failed, doing a reset and stashing conflicts."
    "$GIT_PROGRAM" reset origin/master
    if cd "$YADM_WORK"; then # necessary because of a bug in Git
      "$GIT_PROGRAM" -c user.name='yadm clone' -c user.email='yadm' stash save Conflicts preserved from yadm clone command 2>&1
      cat <<EOF
**NOTE**
  Merging origin/master failed.

  As a result, yadm did 'reset origin/master', and then
  stashed the conflicting data.

  This likely happened because you had files in \$HOME
  which conflicted with files tracked by origin/master.

  You can review the stashed conflicts with the
  command 'yadm stash show -p' from within your
  \$HOME directory. If you want to restore the
  stashed data, you can run 'yadm stash apply' or
  'yadm stash pop' and then handle the conflicts
  in another way.
EOF
    else
      # skip auto_bootstrap if conflicts could not be stashed
      DO_BOOTSTRAP=0
      cat <<EOF
**NOTE**
  Merging origin/master failed.
  yadm did 'reset origin/master' instead.

  yadm did not stash these conflicts beacuse it was unable
  to change to the $YADM_WORK directory.

  Please review and resolve any differences appropriately
  If you know what you're doing, and want to overwrite the
  tracked files, consider 'yadm reset --hard origin/master'
EOF
    fi
  }

  [ -n "$DEBUG" ] && display_private_perms "post-merge"

  CHANGES_POSSIBLE=1

}

function config() {

  use_repo_config=0
  local_options="^local\.(class|os|hostname|user)$"
  for option in "$@"; do
    [[ "$option" =~ $local_options ]] && use_repo_config=1
  done

  if [ -z "$*" ] ; then
    # with no parameters, provide some helpful documentation
    echo "yadm supports the following configurations:"
    echo
    for supported_config in $(introspect_configs); do
      echo "  ${supported_config}"
    done
    echo
    cat << EOF
Please read the CONFIGURATION section in the man
page for more details about configurations, and
how to adjust them.
EOF
  elif [ "$use_repo_config" -eq 1 ]; then

    require_repo

    # operate on the yadm repo's configuration file
    # this is always local to the machine
    "$GIT_PROGRAM" config --local "$@"

    CHANGES_POSSIBLE=1

  else
    # operate on the yadm configuration file
    "$GIT_PROGRAM" config --file="$(mixed_path "$YADM_CONFIG")" "$@"

  fi

}

function decrypt() {

  require_gpg
  require_archive

  YADM_WORK=$(unix_path "$("$GIT_PROGRAM" config core.worktree)")

  if [ "$DO_LIST" = "YES" ] ; then
    tar_option="t"
  else
    tar_option="x"
  fi

  # decrypt the archive
  if ($GPG_PROGRAM -d "$YADM_ARCHIVE" || echo 1) | tar v${tar_option}f - -C "$YADM_WORK"; then
    [ ! "$DO_LIST" = "YES" ] && echo "All files decrypted."
  else
    error_out "Unable to extract encrypted files."
  fi

  CHANGES_POSSIBLE=1

}

function encrypt() {

  require_gpg
  require_encrypt
  parse_encrypt

  cd_work "Encryption" || return

  # Build gpg options for gpg
  GPG_KEY="$(config yadm.gpg-recipient)"
  if [ "$GPG_KEY" = "ASK" ]; then
    GPG_OPTS=("--no-default-recipient" "-e")
  elif [ "$GPG_KEY" != "" ]; then
    GPG_OPTS=("-e" "-r $GPG_KEY")
  else
    GPG_OPTS=("-c")
  fi

  # report which files will be encrypted
  echo "Encrypting the following files:"
  printf '%s\n' "${ENCRYPT_INCLUDE_FILES[@]}"
  echo

  # encrypt all files which match the globs
  if tar -f - -c "${ENCRYPT_INCLUDE_FILES[@]}" | $GPG_PROGRAM --yes "${GPG_OPTS[@]}" --output "$YADM_ARCHIVE"; then
    echo "Wrote new file: $YADM_ARCHIVE"
  else
    error_out "Unable to write $YADM_ARCHIVE"
  fi

  # offer to add YADM_ARCHIVE if untracked
  archive_status=$("$GIT_PROGRAM" status --porcelain -uall "$(mixed_path "$YADM_ARCHIVE")" 2>/dev/null)
  archive_regex="^\?\?"
  if [[ $archive_status =~ $archive_regex ]] ; then
    echo "It appears that $YADM_ARCHIVE is not tracked by yadm's repository."
    echo "Would you like to add it now? (y/n)"
    read -r answer < /dev/tty
    if [[ $answer =~ ^[yY]$ ]] ; then
      "$GIT_PROGRAM" add "$(mixed_path "$YADM_ARCHIVE")"
    fi
  fi

  CHANGES_POSSIBLE=1

}

function enter() {
  require_shell
  require_repo

  shell_opts=""
  shell_path=""
  if [[ "$SHELL" =~ bash$ ]]; then
    shell_opts="--norc"
    shell_path="\w"
  elif [[ "$SHELL" =~ [cz]sh$ ]]; then
    shell_opts="-f"
    shell_path="%~"
  fi

  echo "Entering yadm repo"

  yadm_prompt="yadm shell ($YADM_REPO) $shell_path > "
  PROMPT="$yadm_prompt" PS1="$yadm_prompt" "$SHELL" $shell_opts

  echo "Leaving yadm repo"
}

function git_command() {

  require_repo

  # translate 'gitconfig' to 'config' -- 'config' is reserved for yadm
  if [ "$1" = "gitconfig" ] ; then
    set -- "config" "${@:2}"
  fi

  # ensure private .ssh and .gnupg directories exist first
  # TODO: consider restricting this to only commands which modify the work-tree

  auto_private_dirs=$(config --bool yadm.auto-private-dirs)
  if [ "$auto_private_dirs" != "false" ] ; then
    assert_private_dirs .gnupg/ .ssh/
  fi

  CHANGES_POSSIBLE=1

  # pass commands through to git
  debug "Running git command $GIT_PROGRAM $*"
  "$GIT_PROGRAM" "$@"
  return "$?"
}

function help() {

  cat << EOF
Usage: yadm <command> [options...]

Manage dotfiles maintained in a Git repository. Manage alternate files
for specific systems or hosts. Encrypt/decrypt private files.

Git Commands:
Any Git command or alias can be used as a <command>. It will operate
on yadm's repository and files in the work tree (usually \$HOME).

Commands:
  yadm init [-f]             - Initialize an empty repository
  yadm clone <url> [-f]      - Clone an existing repository
  yadm config <name> <value> - Configure a setting
  yadm list [-a]             - List tracked files
  yadm alt                   - Create links for alternates
  yadm bootstrap             - Execute \$HOME/.yadm/bootstrap
  yadm encrypt               - Encrypt files
  yadm decrypt [-l]          - Decrypt files
  yadm perms                 - Fix perms for private files

Files:
  \$HOME/.yadm/config    - yadm's configuration file
  \$HOME/.yadm/repo.git  - yadm's Git repository
  \$HOME/.yadm/encrypt   - List of globs used for encrypt/decrypt
  \$HOME/.yadm/files.gpg - Encrypted data stored here

Use "man yadm" for complete documentation.
EOF

  exit_with_hook 1

}

function init() {

  # safety check, don't attempt to init when the repo is already present
  [ -d "$YADM_REPO" ] && [ -z "$FORCE" ] && \
    error_out "Git repo already exists. [$YADM_REPO]\nUse '-f' if you want to force it to be overwritten."

  # remove existing if forcing the init to happen anyway
  [ -d "$YADM_REPO" ] && {
    debug "Removing existing repo prior to init"
    rm -rf "$YADM_REPO"
  }

  # init a new bare repo
  debug "Init new repo"
  "$GIT_PROGRAM" init --shared=0600 --bare "$(mixed_path "$YADM_REPO")" "$@"
  configure_repo

  CHANGES_POSSIBLE=1

}

function introspect() {
  case "$1" in
    commands|configs|repo|switches)
      "introspect_$1"
    ;;
  esac
}

function introspect_commands() {
  cat <<-EOF
alt
bootstrap
clean
clone
config
decrypt
encrypt
enter
gitconfig
help
init
introspect
list
perms
version
EOF
}

function introspect_configs() {
  cat << EOF
local.class
local.hostname
local.os
local.user
yadm.auto-alt
yadm.auto-perms
yadm.auto-private-dirs
yadm.cygwin-copy
yadm.git-program
yadm.gpg-perms
yadm.gpg-program
yadm.gpg-recipient
yadm.ssh-perms
EOF
}

function introspect_repo() {
  echo "$YADM_REPO"
}

function introspect_switches() {
  cat <<-EOF
--yadm-archive
--yadm-bootstrap
--yadm-config
--yadm-dir
--yadm-encrypt
--yadm-repo
-Y
EOF
}

function list() {

  require_repo

  # process relative to YADM_WORK when --all is specified
  if [ -n "$LIST_ALL" ] ; then
    cd_work "List" || return
  fi

  # list tracked files
  "$GIT_PROGRAM" ls-files

}

function perms() {

  parse_encrypt

  # TODO: prevent repeats in the files changed

  cd_work "Perms" || return

  GLOBS=()

  # include the archive created by "encrypt"
  [ -f "$YADM_ARCHIVE" ] && GLOBS+=("$YADM_ARCHIVE")

  # include all .ssh files (unless disabled)
  if [[ $(config --bool yadm.ssh-perms) != "false" ]] ; then
    GLOBS+=(".ssh" ".ssh/*")
  fi

  # include all gpg files (unless disabled)
  if [[ $(config --bool yadm.gpg-perms) != "false" ]] ; then
    GLOBS+=(".gnupg" ".gnupg/*")
  fi

  # include any files we encrypt
  GLOBS+=("${ENCRYPT_INCLUDE_FILES[@]}")

  # remove group/other permissions from collected globs
  #shellcheck disable=SC2068
  #(SC2068 is disabled because in this case, we desire globbing)
  chmod -f go-rwx ${GLOBS[@]} >/dev/null 2>&1
  # TODO: detect and report changing permissions in a portable way

}

function version() {

  echo "yadm $VERSION"
  exit_with_hook 0

}

# ****** Utility Functions ******

function query_distro() {
  distro=""
  if command -v "$LSB_RELEASE_PROGRAM" >/dev/null 2>&1; then
    distro=$($LSB_RELEASE_PROGRAM -si 2>/dev/null)
  fi
  echo "$distro"
}

function process_global_args() {

  # global arguments are removed before the main processing is done
  MAIN_ARGS=()
  while [[ $# -gt 0 ]] ; do
    key="$1"
    case $key in
      -Y|--yadm-dir) # override the standard YADM_DIR
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified yadm directory"
        fi
        YADM_DIR="$2"
        shift
      ;;
      --yadm-repo) # override the standard YADM_REPO
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified repo path"
        fi
        YADM_OVERRIDE_REPO="$2"
        shift
      ;;
      --yadm-config) # override the standard YADM_CONFIG
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified config path"
        fi
        YADM_OVERRIDE_CONFIG="$2"
        shift
      ;;
      --yadm-encrypt) # override the standard YADM_ENCRYPT
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified encrypt path"
        fi
        YADM_OVERRIDE_ENCRYPT="$2"
        shift
      ;;
      --yadm-archive) # override the standard YADM_ARCHIVE
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified archive path"
        fi
        YADM_OVERRIDE_ARCHIVE="$2"
        shift
      ;;
      --yadm-bootstrap) # override the standard YADM_BOOTSTRAP
        if [[ ! "$2" =~ ^/ ]] ; then
          error_out "You must specify a fully qualified bootstrap path"
        fi
        YADM_OVERRIDE_BOOTSTRAP="$2"
        shift
      ;;
      *) # main arguments are kept intact
        MAIN_ARGS+=("$1")
      ;;
    esac
    shift
  done

}

function configure_paths() {

  # change all paths to be relative to YADM_DIR
  YADM_REPO="$YADM_DIR/$YADM_REPO"
  YADM_CONFIG="$YADM_DIR/$YADM_CONFIG"
  YADM_ENCRYPT="$YADM_DIR/$YADM_ENCRYPT"
  YADM_ARCHIVE="$YADM_DIR/$YADM_ARCHIVE"
  YADM_BOOTSTRAP="$YADM_DIR/$YADM_BOOTSTRAP"

  # independent overrides for paths
  if [ -n "$YADM_OVERRIDE_REPO" ]; then
    YADM_REPO="$YADM_OVERRIDE_REPO"
  fi
  if [ -n "$YADM_OVERRIDE_CONFIG" ]; then
    YADM_CONFIG="$YADM_OVERRIDE_CONFIG"
  fi
  if [ -n "$YADM_OVERRIDE_ENCRYPT" ]; then
    YADM_ENCRYPT="$YADM_OVERRIDE_ENCRYPT"
  fi
  if [ -n "$YADM_OVERRIDE_ARCHIVE" ]; then
    YADM_ARCHIVE="$YADM_OVERRIDE_ARCHIVE"
  fi
  if [ -n "$YADM_OVERRIDE_BOOTSTRAP" ]; then
    YADM_BOOTSTRAP="$YADM_OVERRIDE_BOOTSTRAP"
  fi

  # use the yadm repo for all git operations
  GIT_DIR=$(mixed_path "$YADM_REPO")
  export GIT_DIR

}

function configure_repo() {

  debug "Configuring new repo"

  # change bare to false (there is a working directory)
  "$GIT_PROGRAM" config core.bare 'false'

  # set the worktree for the yadm repo
  "$GIT_PROGRAM" config core.worktree "$(mixed_path "$YADM_WORK")"

  # by default, do not show untracked files and directories
  "$GIT_PROGRAM" config status.showUntrackedFiles no

  # possibly used later to ensure we're working on the yadm repo
  "$GIT_PROGRAM" config yadm.managed 'true'

}

function set_operating_system() {

  # special detection of WSL (windows subsystem for linux)
  local proc_version
  proc_version=$(cat "$PROC_VERSION" 2>/dev/null)
  if [[ "$proc_version" =~ Microsoft ]]; then
    OPERATING_SYSTEM="WSL"
  else
    OPERATING_SYSTEM=$(uname -s)
  fi

  case "$OPERATING_SYSTEM" in
    CYGWIN*)
      git_version="$("$GIT_PROGRAM" --version 2>/dev/null)"
      if [[ "$git_version" =~ windows ]] ; then
          USE_CYGPATH=1
      fi
      ;;
    *)
      ;;
  esac

}

function debug() {

  [ -n "$DEBUG" ] && echo_e "DEBUG: $*"

}

function error_out() {

  echo_e "ERROR: $*"
  exit_with_hook 1

}

function exit_with_hook() {

  invoke_hook "post" "$1"
  exit "$1"

}

function invoke_hook() {

  mode="$1"
  exit_status="$2"
  hook_command="$YADM_DIR/hooks/${mode}_$HOOK_COMMAND"

  if [ -x "$hook_command" ] ; then
    debug "Invoking hook: $hook_command"

    # expose some internal data to all hooks
    work=$(unix_path "$("$GIT_PROGRAM" config core.worktree)")
    YADM_HOOK_COMMAND=$HOOK_COMMAND
    YADM_HOOK_EXIT=$exit_status
    YADM_HOOK_FULL_COMMAND=$FULL_COMMAND
    YADM_HOOK_REPO=$YADM_REPO
    YADM_HOOK_WORK=$work
    export YADM_HOOK_COMMAND
    export YADM_HOOK_EXIT
    export YADM_HOOK_FULL_COMMAND
    export YADM_HOOK_REPO
    export YADM_HOOK_WORK

    "$hook_command"
    hook_status=$?

    # failing "pre" hooks will prevent commands from being run
    if [ "$mode" = "pre" ] && [ "$hook_status" -ne 0 ]; then
      echo "Hook $hook_command was not successful"
      echo "$HOOK_COMMAND will not be run"
      exit "$hook_status"
    fi

  fi

}

function assert_private_dirs() {
  work=$(unix_path "$("$GIT_PROGRAM" config core.worktree)")
  for private_dir in "$@"; do
    if [ ! -d "$work/$private_dir" ]; then
      debug "Creating $work/$private_dir"
      #shellcheck disable=SC2174
      mkdir -m 0700 -p "$work/$private_dir" >/dev/null 2>&1
    fi
  done
}

function display_private_perms() {
  when="$1"
  for private_dir in .ssh .gnupg; do
    if [ -d "$YADM_WORK/$private_dir" ]; then
      private_perms=$(ls -ld "$YADM_WORK/$private_dir")
      debug "$when" private dir perms "$private_perms"
    fi
  done
}

function cd_work() {
  YADM_WORK=$(unix_path "$("$GIT_PROGRAM" config core.worktree)")
  cd "$YADM_WORK" || {
    debug "$1 not processed, unable to cd to $YADM_WORK"
    return 1
  }
  return 0
}

function parse_encrypt() {
  if [ "$ENCRYPT_INCLUDE_FILES" != "unparsed" ]; then
    #shellcheck disable=SC2034
    PARSE_ENCRYPT_SHORT="parse_encrypt() not reprocessed"
    return
  fi

  ENCRYPT_INCLUDE_FILES=()
  ENCRYPT_EXCLUDE_FILES=()

  cd_work "Parsing encrypt" || return

  exclude_pattern="^!(.+)"
  if [ -f "$YADM_ENCRYPT" ] ; then
    # parse both included/excluded
    while IFS='' read -r line || [ -n "$line" ]; do
      if [[ ! $line =~ ^# && ! $line =~ ^[[:space:]]*$ ]] ; then
        local IFS=$'\n'
        for pattern in $line; do
          if [[ "$pattern" =~ $exclude_pattern ]]; then
            for ex_file in ${BASH_REMATCH[1]}; do
              if [ -e "$ex_file" ]; then
                ENCRYPT_EXCLUDE_FILES+=("$ex_file")
              fi
            done
          else
            for in_file in $pattern; do
              if [ -e "$in_file" ]; then
                ENCRYPT_INCLUDE_FILES+=("$in_file")
              fi
            done
          fi
        done
      fi
    done < "$YADM_ENCRYPT"

    # remove excludes from the includes
    #(SC2068 is disabled because in this case, we desire globbing)
    FINAL_INCLUDE=()
    #shellcheck disable=SC2068
    for included in "${ENCRYPT_INCLUDE_FILES[@]}"; do
      skip=
      #shellcheck disable=SC2068
      for ex_file in ${ENCRYPT_EXCLUDE_FILES[@]}; do
        [ "$included" == "$ex_file" ] && { skip=1; break; }
      done
      [ -n "$skip" ] || FINAL_INCLUDE+=("$included")
    done

    # sort the encrypted files
    #shellcheck disable=SC2207
    IFS=$'\n' ENCRYPT_INCLUDE_FILES=($(LC_ALL=C sort <<<"${FINAL_INCLUDE[*]}"))
    unset IFS
  fi

}

# ****** Auto Functions ******

function auto_alt() {

  # process alternates if there are possible changes
  if [ "$CHANGES_POSSIBLE" = "1" ] ; then
    auto_alt=$(config --bool yadm.auto-alt)
    if [ "$auto_alt" != "false" ] ; then
      [ -d "$YADM_REPO" ] && alt
    fi
  fi

}

function auto_perms() {

  # process permissions if there are possible changes
  if [ "$CHANGES_POSSIBLE" = "1" ] ; then
    auto_perms=$(config --bool yadm.auto-perms)
    if [ "$auto_perms" != "false" ] ; then
      [ -d "$YADM_REPO" ] && perms
    fi
  fi

}

function auto_bootstrap() {

  bootstrap_available || return

  [ "$DO_BOOTSTRAP" -eq 0 ] && return
  [ "$DO_BOOTSTRAP" -eq 3 ] && return
  [ "$DO_BOOTSTRAP" -eq 2 ] && bootstrap
  if [ "$DO_BOOTSTRAP" -eq 1 ] ; then
    echo "Found $YADM_BOOTSTRAP"
    echo "It appears that a bootstrap program exists."
    echo "Would you like to execute it now? (y/n)"
    read -r answer < /dev/tty
    if [[ $answer =~ ^[yY]$ ]] ; then
      bootstrap
    fi
  fi

}

# ****** Prerequisites Functions ******

function require_archive() {
  [ -f "$YADM_ARCHIVE" ] || error_out "$YADM_ARCHIVE does not exist. did you forget to create it?"
}
function require_encrypt() {
  [ -f "$YADM_ENCRYPT" ] || error_out "$YADM_ENCRYPT does not exist. did you forget to create it?"
}
function require_git() {
  local alt_git
  alt_git="$(config yadm.git-program)"

  local more_info
  more_info=""

  if [ "$alt_git" != "" ] ; then
    GIT_PROGRAM="$alt_git"
    more_info="\nThis command has been set via the yadm.git-program configuration."
  fi
  command -v "$GIT_PROGRAM" >/dev/null 2>&1 || \
    error_out "This functionality requires Git to be installed, but the command '$GIT_PROGRAM' cannot be located.$more_info"
}
function require_gpg() {
  local alt_gpg
  alt_gpg="$(config yadm.gpg-program)"

  local more_info
  more_info=""

  if [ "$alt_gpg" != "" ] ; then
    GPG_PROGRAM="$alt_gpg"
    more_info="\nThis command has been set via the yadm.gpg-program configuration."
  fi
  command -v "$GPG_PROGRAM" >/dev/null 2>&1 || \
    error_out "This functionality requires GPG to be installed, but the command '$GPG_PROGRAM' cannot be located.$more_info"
}
function require_repo() {
  [ -d "$YADM_REPO" ] || error_out "Git repo does not exist. did you forget to run 'init' or 'clone'?"
}
function require_shell() {
  [ -x "$SHELL" ] || error_out "\$SHELL does not refer to an executable."
}
function bootstrap_available() {
  [ -f "$YADM_BOOTSTRAP" ] && [ -x "$YADM_BOOTSTRAP" ] && return
  return 1
}
function envtpl_available() {
  command -v "$ENVTPL_PROGRAM" >/dev/null 2>&1 && return
  return 1
}
function readlink_available() {
  command -v "readlink" >/dev/null 2>&1 && return
  return 1
}

# ****** Directory tranlations ******

function unix_path() {
  # for paths used by bash/yadm
  if [ "$USE_CYGPATH" = "1" ] ; then
    cygpath -u "$1"
  else
    echo "$1"
  fi
}
function mixed_path() {
  # for paths used by Git
  if [ "$USE_CYGPATH" = "1" ] ; then
    cygpath -m "$1"
  else
    echo "$1"
  fi
}

# ****** echo replacements ******
function echo() {
  IFS=' '
  printf '%s\n' "$*"
}
function echo_n() {
  IFS=' '
  printf '%s' "$*"
}
function echo_e() {
  IFS=' '
  printf '%b\n' "$*"
}

# ****** Main processing (when not unit testing) ******

if [ "$YADM_TEST" != 1 ] ; then
  process_global_args "$@"
  set_operating_system
  configure_paths
  main "${MAIN_ARGS[@]}"
fi