AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

|
September 21, 2018 01:32AM
Hi all! I am getting this error when trying to install afni. Do you have any suggestions? Thank you

========================= summary, please fix: =========================
* login shell 'bash', trusting user to translate from 'tcsh'
* shell bash: consider sourcing (non-login) .bashrc from (login) .bash_profile
* missing R packages (see rPkgsInstall)

forsales-Air:~ forsale$ afni_system_check.py -check_all > out.afni_system_check.txt
forsales-Air:~ forsale$
forsales-Air:~ forsale$
forsales-Air:~ forsale$ afni
Precompiled binary macos_10.12_local: Sep 12 2018 (Version AFNI_18.2.16)

Thanks go to N Vanello for much encouragement

Initializing: X11
++ If you are using XQuartz 2.7.10 (or later), and AFNI crashes when
+ opening windows, or you cannot type text into AFNI popup windows,
+ you might need to set an environment variable to solve this problem:
+ setenv DYLD_LIBRARY_PATH /opt/X11/lib/flat_namespace
+ This command is best put in your startup ~/.cshrc file, so that
+ it will be invoked for every (t)csh shell you open.

++ AFNI is detached from terminal.
forsales-Air:~ forsale$ suma[The X.Org Foundation v 11804000].
Fatal Signal 11 (SIGSEGV) received
ISQ_record_button
open_MCW_imseq
SPLASH_popup_image
AFNI_splashup
MAIN_workprocess
AFNI:main
Bottom of Debug Stack
** AFNI version = AFNI_18.2.16 Compile date = Sep 12 2018
** [[Precompiled binary macos_10.12_local: Sep 12 2018]]
** Program Death **
** If you report this crash to the AFNI message board,
** please copy the error messages EXACTLY, and give
** the command line you used to run the program, and
** any other information needed to repeat the problem.
** You may later be asked to upload data to help debug.
** Crash log is appended to file /Users/forsale/.afni.crashlog
DYLD_LIBRARY_PATH /opt/X11/lib/flat_namespace
-bash: sumaDYLD_LIBRARY_PATH: command not found
forsales-Air:~ forsale$ rPkgsInstall -pkgs ALL

oo Warning:
Failed to load R_io.so with this error message:

Error in dyn.load(ll) :
unable to load shared object '/Users/forsale/abin/R_io.so':
dlopen(/Users/forsale/abin/R_io.so, 6): Library not loaded: /sw/lib/libjpeg.9.dylib
Referenced from: /Users/forsale/abin/R_io.so
Reason: image not found
Calls: source ... withVisible -> eval -> eval -> set_R_io -> dyn.load
Execution halted
forsales-Air:~ forsale$ sudo rPkgsInstall -pkgs ALL
Password:

oo Warning:
Failed to load R_io.so with this error message:

Error in dyn.load(ll) :
unable to load shared object '/Users/forsale/abin/R_io.so':
dlopen(/Users/forsale/abin/R_io.so, 6): Library not loaded: /sw/lib/libjpeg.9.dylib
Referenced from: /Users/forsale/abin/R_io.so
Reason: image not found
Calls: source ... withVisible -> eval -> eval -> set_R_io -> dyn.load
Execution halted
forsales-Air:~ forsale$
Subject Author Posted

Error when setting up afni

hml1989 September 21, 2018 01:32AM

Re: Error when setting up afni

rick reynolds September 21, 2018 09:51AM

Re: Error when setting up afni

adleman October 03, 2018 12:32PM

Re: Error when setting up afni

rick reynolds October 04, 2018 10:15AM

Re: Error when setting up afni

adleman October 10, 2018 08:58AM

Re: Error when setting up afni

rick reynolds October 10, 2018 09:08AM

Re: Error when setting up afni

adleman October 19, 2018 03:00PM

Re: Error when setting up afni

rick reynolds October 24, 2018 08:41AM

Re: Error when setting up afni

Cesar Caballero Gaudes November 12, 2018 10:30AM

Re: Error when setting up afni

Pascale September 08, 2020 05:31PM

Re: Error when setting up afni

rick reynolds September 09, 2020 09:23AM

Re: Error when setting up afni

Pascale September 09, 2020 10:54AM

Re: Error when setting up afni

rick reynolds September 10, 2020 10:17AM