1  #!/usr/bin/env bash
 2  #
 3  # install neuroimaging software on adminstered macOS
 4  # 
 5  # 20240531WF - init
 6  
 7  ADMIN_ACCOUNT=Oacadmin
 8  USER_ACCOUNT="${1:-$ADMIN_ACCOUNT}"; shift
 9  
10  # packages to get from the internet
11  # 20240531: using arm versions (instead of intel/x64)
12  DMGS=(
13  
14  )
15  
16  # packages to get from homebrew
17  BREWPKGS=(
18    git python
19    gfortran libxml++ openblas lapack # compile R package
20    netpbm # afni
21  )
22  
23  install_dmg(){
24   dmg=${1?-.dmg file}; shift
25   dmg_name=${1?-path inside dmg mount}
26  
27   hdiutil mount "$dmg"
28   # todo: test if already exists
29   cp -r /Volumes/"$dmg_name"/*.app /Applications/
30   hdiutil ymount "$dmg_name"
31  }
32  
33  install_homebrew(){
34     # homebrew. todo must be done as $ADMIN_ACCOUNT
35     /bin/bash -c "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/HEAD/install.sh)"
36     source ~/.zprofile # get brew in path
37     brew install "${BREWPKGS[@]}"
38  }
39  
40  # afni is install into home directory of the main user
41  install_afni(){
42     cd $HOME
43     curl -O https://afni.nimh.nih.gov/pub/dist/bin/misc/@update.afni.binaries
44     tcsh @update.afni.binaries -package macos_10.12_local -do_extras
45  }
46  
47  # export functions so sudo can use them
48  export -f install_homebrew install_dmg install_afni
49  
50  
51  # use 'DRYRUN=1 ./macos-admin.bash' to just show what would happen instead of doing it
52  [ -v DRYRUN ] && DRYRUN=echo || DRYRUN=
53  
54  # need root to run
55  [ $(id -u) -gt 1 ] && echo "run script with sudo! like: 'sudo $0'" && exit 1
56  
57  # passwordless sudo for admin
58  # todo: add -i for inplace mod
59  $DRYRUN sed '$s,$,\n%wheel  ALL=(ALL) NOPASSWD: ALL,' /etc/sudoers
60  
61  $DRYRUN xcode-select --install
62  $DRYRUN sudo -u $ADMIN_ACCOUNT install_homebrew
63  
64  $DRYRUN sudo -u $USER_ACCOUNT install_afni
65  
66  # afni r packages
67  ~$USER_ACCOUNT/abin/rPkgsInstall -pkgs ALL