Dear AFNI experts,
I updated XQuartz today and now SUMA won’t work. This is the error I get:
Error: attempt to add non-widget child “dsm” to parent “[A] SUMA” which supports only widgets.
This is the output of the system_check:
[isabellemacbook:~] Isa% afni_system_check.py -check_all
-------------------------------- general ---------------------------------
architecture: 64bit
system: Darwin
release: 14.5.0
version: Darwin Kernel Version 14.5.0: Sun Sep 25 22:07:15 PDT 2016; root:xnu-2782.50.9~1/RELEASE_X86_64
distribution: 10.10.5 x86_64
number of CPUs: 4
apparent login shell: tcsh
shell RC file: .cshrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /Users/Isa/abin/afni
afni version : Precompiled binary macosx_10.7_Intel_64: Nov 4 2016
AFNI_version.txt : AFNI_16.3.08, macosx_10.7_Intel_64, Nov 04 2016
which python : /usr/bin/python
python version : 2.7.10
which R : /usr/bin/R
R version : R version 3.1.2 (2014-10-31) – “Pumpkin Helmet”
which tcsh : /bin/tcsh
instances of various programs found in PATH:
afni : 1 (/Users/Isa/abin/afni)
R : 1 (/Library/Frameworks/R.framework/Versions/3.1/Resources/bin/R)
python : 2
/usr/bin/python
/Applications/anaconda/bin/python2.7
testing ability to start various programs…
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
checking for R packages…
rPkgsInstall -pkgs ALL -check : FAILURE
oo Warning:
These packages are not installed on the computer: afex!
These packages are not installed on the computer: snow!
These packages are not installed on the computer: paran!
These packages are not installed on the computer: psych!
checking for $HOME files…
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found
------------------------------ python libs -------------------------------
** python module not found: PyQt4
-------------------------------- env vars --------------------------------
PATH = /usr/local/fsl/bin:/Library/Frameworks/Python.framework/Versions/3.5/bin:/Applications/freesurfer/bin:/Applications/freesurfer/fsfast/bin:/Applications/freesurfer/tktools:/usr/local/fsl/bin:/Applications/freesurfer/mni/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/Users/Isa/abin:/Users/Isa/abin:/Applications/anaconda/bin:/Applications/scilpy/scripts:/Users/Isa/mrtrix2/bin:/Users/Isa/antsbin/bin:/Users/Isa/tract_querier/scripts:/Applications/anaconda/lib/python2.7/site-packages/
PYTHONPATH = /Applications/scilpy/
R_LIBS =
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH = /Users/Isa/abin
------------------------------ 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/Isa/abin
------------------------------ OS specific -------------------------------
which brew : /usr/local/bin/brew
brew version : 0.9.5
++ found PyQt4 under /usr/local/lib/python2.7/site-packages
============================ summary comments ============================
- missing R packages (see rPkgsInstall)
- insufficient data for AFNI bootcamp
- consider adding /usr/local/lib/python2.7/site-packages to PYTHONPATH
Any idea what I can do to fix this issue?
Thank you!
Isabelle