Rick - thanks for instantaneous response. Yes, I installed Homebrew after installing Sierra. Here is the full output of afni_system_check.py -check_all
-------------------------------- general ---------------------------------
architecture: 64bit
system: Darwin
release: 16.0.0
version: Darwin Kernel Version 16.0.0: Mon Aug 29 17:56:20 PDT 2016; root:xnu-3789.1.32~3/RELEASE_X86_64
distribution: 10.12 x86_64
number of CPUs: 8
apparent login shell: tcsh
shell RC file: .cshrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /Users/gkalamangalam/abin/afni
afni version : Precompiled binary macosx_10.7_Intel_64: Oct 31 2016
AFNI_version.txt : AFNI_16.3.06, macosx_10.7_Intel_64, Oct 31 2016
which python : /usr/bin/python
python version : 2.7.10
which R : /usr/local/bin/R
R version : R version 3.3.2 (2016-10-31) -- "Sincere Pumpkin Patch"
which tcsh : /bin/tcsh
instances of various programs found in PATH:
afni : 1 (/Users/gkalamangalam/abin/afni)
R : 1 (/Library/Frameworks/R.framework/Versions/3.3/Resources/bin/R)
python : 1 (/usr/bin/python)
testing ability to start various programs...
afni : success
suma : FAILURE
dyld: Library not loaded: /sw/lib/libglib-2.0.0.dylib
Referenced from: /Users/gkalamangalam/abin/suma
Reason: image not found
3dSkullStrip : FAILURE
dyld: Library not loaded: /sw/lib/libglib-2.0.0.dylib
Referenced from: /Users/gkalamangalam/abin/3dSkullStrip
Reason: image not found
uber_subject.py : success
3dAllineate : FAILURE
dyld: Library not loaded: /usr/local/lib/libgomp.1.dylib
Referenced from: /Users/gkalamangalam/abin/3dAllineate
Reason: image not found
3dRSFC : success
SurfMesh : FAILURE
dyld: Library not loaded: /sw/lib/libglib-2.0.0.dylib
Referenced from: /Users/gkalamangalam/abin/SurfMesh
Reason: image not found
checking for R packages...
rPkgsInstall -pkgs ALL -check : success
checking for $HOME files...
.afnirc : found
.sumarc : missing
.afni/help/all_progs.COMP : found
------------------------------ python libs -------------------------------
** python module not found: PyQt4
-------------------------------- env vars --------------------------------
PATH = /usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/local/fsl/bin:/Users/gkalamangalam/freesurfer/bin:/Users/gkalamangalam/freesurfer/fsfast/bin:/Users/gkalamangalam/freesurfer/tktools:/Users/gkalamangalam/freesurfer/bin/freeview.app/Contents/MacOS/:/Users/gkalamangalam/freesurfer/mni/bin:/Users/gkalamangalam/AFNIbin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin:/Users/gkalamangalam/abin
PYTHONPATH = /usr/local/lib/python2.7/site_packages
R_LIBS =
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =
------------------------------ data checks -------------------------------
data dir : missing AFNI_data6
data dir : missing suma_demo
data dir : missing FATCAT_DEMO
data dir : missing afni_handouts
atlas : found TT_N27+tlrc under /Users/gkalamangalam/abin
------------------------------ OS specific -------------------------------
which brew : /usr/local/bin/brew
brew version : Homebrew 1.0.9
============================ summary comments ============================
* AFNI programs show FAILURE
* consider running "suma -update_env" for .sumarc
* insufficient data for AFNI bootcamp
* OS X version might be old
* consider running: brew install pyqt
