Problem with typing numbers and keys on Mac version

AFNI Message Board
1

Hello,
I have noticed on the mac version of AFNI I am unable to type numbers and also unable to use certain or all keyboard quick commands such as inputting number values for or using v for video mode. AFNI was also set up correctly so I am wondering what the solution to this will be.

Thanks,
Jared

2

Hi Jared,

My guess is that DYLD_LIBRARY_PATH is not set correctly.

  1. Do you have a num-lock key? If so try toggling it.

  2. If you run "suma’, does it display a surface or crash?

  • rick
3

I received this after typing suma:
No input specified, loading some toy surfaces…
Use ‘.’ and ‘,’ to cycle between them.
See suma -help for assistance.

Error: attempt to add non-widget child “dsm” to parent “[A] SUMA” which supports only widgets

jared

4

Hi Jared,

So you just need that variable set, probably for both
bash and tcsh. Would you please copy-and-paste the
following commands?

What is the output of the first one, ‘ls’?

ls -l ~/.cshrc ~/.bashrc ~/.bash_profile

touch ~/.cshrc
echo ‘setenv DYLD_LIBRARY_PATH /opt/X11/lib/flat_namespace’ >> ~/.cshrc
touch ~/.bashrc
echo ‘export DYLD_LIBRARY_PATH=/opt/X11/lib/flat_namespace’ >> ~/.bashrc

  • rick
5

ok the message I received from the first command was "l2195:~ atsuchiyagaito$ ls: /Users/atsuchiyagaito/.bash_profile: No such file or directory
-bash: ls:: command not found
l2195:~ atsuchiyagaito$ ls: /Users/atsuchiyagaito/.bashrc: No such file or directory
-bash: ls:: command not found
l2195:~ atsuchiyagaito$ ls: /Users/atsuchiyagaito/.cshrc: No such file or directory
-bash: ls:: command not found "

And after inputting the rest of the commands I am now able to use digits in the AFNI module, thank you very much.

6

Hi Rick,
I am in the process of installing afni and suma on a new mac (version 10.13.1). When I run just the suma command I get the following error:

Error: attempt to add non-widget child “dsm” to parent “[A] SUMA” which supports only widgets

Same error as Jared, and when I run the code you provided to him, I get the following output:

-rw-r–r-- 1 patrickrollo staff 59 May 8 10:57 /Users/patrickrollo/.bash_profile
-rw-r–r–@ 1 patrickrollo staff 149 May 8 11:37 /Users/patrickrollo/.bashrc
-rw-r–r-- 1 patrickrollo staff 252 May 8 11:36 /Users/patrickrollo/.cshrc

Running the additional lines of code you posted did not fix the error.

Thanks,
Patrick

7

Hi Patrick,

It seems likely that you are running bash and using the
Terminal program, in which case, since you have .bash_profile,
bash will use that.

So within .bash_profile you should either ‘.’ or ‘source’ ~/.bashrc,
or you should directly export DYLD_LIBRARY_PATH as was given
with the other commands.

Give that a try.

  • rick
8

Rick,
I should be using tcsh, I’ve attached the .tcshrc file below that I’ve used to set the terminal environment.

#! /bin/csh

set path = (/usr/bin /bin /usr/sbin /sbin /sw/bin /usr/local/bin /Applications/abin /Applications/MRICRON /Applications/MATLAB_R2014a.app/bin/)
setenv CODE_PATH /Volumes/Sector4/grad_code/cihan_code/

alias matlab /Applications/MATLAB_R2014a.app/bin/matlab
alias load_afni ${CODE_PATH}/useful_cmk/./load_pt_afni
alias load_local_afni ${CODE_PATH}/useful_cmk/./load_pt_afni_local
alias load_std_afni ${CODE_PATH}/useful_cmk/./load_std_pt_afni
alias load_std_local_afni /${CODE_PATH}/useful_cmk/./load_std_pt_afni_local
alias load_suma ${CODE_PATH}/useful_cmk/./load_pt_suma
alias load_local_suma ${CODE_PATH}/useful_cmk/./load_pt_suma_local
alias load_std_suma ${CODE_PATH}/useful_cmk/./load_std_pt_suma
alias load_std_local_suma ${CODE_PATH}/useful_cmk/./load_std_pt_suma_local
alias load_vatche ${CODE_PATH}/useful_cmk/./load_pt_afni_vatche
alias organize_elec ${CODE_PATH}/Afni_cmk/./Auto_Elec_Organize_Script.sh
alias praat /Applications/Praat.app/Contents/MacOS/Praat

alias localize_matt /Volumes/Sector4/grad_code/Matthew_code/./sEEG_Auto_Localize_And_Organize
alias edit_matt /Volumes/Sector4/grad_code/Matthew_code/./sEEG_edit
alias mont_matt /Volumes/Sector4/grad_code/Matthew_code/./Coords_mont_maker
alias CT_matt /Volumes/Sector4/grad_code/Matthew_code/./CT_Align
alias elec_viewer /Volumes/Sector4/grad_code/Matthew_code/./Elec_viewer

setenv AFNI_PLUGINPATH /Applications/abin/
setenv AFNI_GLOBAL_SESSION /Applications/CA_EZ_v1.5-July3107
setenv FREESURFER_HOME /Applications/freesurfer/
setenv SUBJECTS_DIR /Volumes/Sector2/surfaces/TandonLang/
setenv LM_LICENSE_FILE /Applications/MatLab_LicenseManager/MATLAB_R2014a.app/etc/license.dat
source $FREESURFER_HOME/SetUpFreeSurfer.csh

setenv FSLDIR /usr/local/fsl

setenv AFNI_DICOM_RESCALE YES
setenv DYLD_FALLBACK_LIBRARY_PATH /Applications/abin/
setenv AFNI_NIFTI_TYPE_WARN YES

Setting PATH for MacPython 2.6

The orginal version is saved in .cshrc.pysave

set path=(/Library/Frameworks/Python.framework/Versions/2.6/bin $path)

Setting PATH for Python 3.2

The orginal version is saved in .cshrc.pysave

set path=(/Library/Frameworks/Python.framework/Versions/3.2/bin $path)

MacPorts Installer addition on 2012-11-19_at_15:29:04: adding an appropriate PATH variable for use with MacPorts.

setenv PATH /opt/local/bin:/opt/local/sbin:$PATH

Setting PATH for Python 2.7

The orginal version is saved in .cshrc.pysave

set path=(/Library/Frameworks/Python.framework/Versions/2.7/bin $path)

setenv DYLD_LIBRARY_PATH “”
setenv DYLD_FALLBACK_LIBRARY_PATH /Applications/abin/

set path=(/Applications/Slicer.app/Contents/cli-modules/ $path)

Setting up environment to use Fink

source /sw/bin/init.csh
alias freeview /Applications/freesurfer/bin/Freeview.app/Contents/MacOS/Freeview

if ( -f $HOME/.afni/help/all_progs.COMP ) then
source $HOME/.afni/help/all_progs.COMP
endif

9

Hi Patrick,

In there, DYLD_LIBRARY_PATH is explicitly being set to “”.
It needs to point to /opt/X11/lib/flat_namespace. Even when
using tcsh, there might be cases where it will be needed in
bash.

  • rick
10

That got it working, thanks!