Thank you for your advice. I posted both of what you suggested.
1. The output from running afni is as follows:
stlee@cerberus ~/Desktop/stlee/AFNI/Patients_all_in_one/115 $ afni
Thanks go to RM Birn for "quick" questions
Initializing: X11.. Widgets...... Input files:ONLY ATLASES** AFNI converts NIFTI_datatype=4 (INT16) in file /home/stlee/Desktop/stlee/AFNI/Patients_all_in_one/115/20110304_072400AXT2SENSEs701a1007.nii to FLOAT32
Warnings of this type will be muted for this session.
Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
session # 1 = /home/stlee/Desktop/stlee/AFNI/Patients_all_in_one/115/ ==> 39 datasets
dataset count = 39
Time series = 2 files read
NLfit & NLerr= Optimizer (AFNI_NLFIM_METHOD) is SIMPLEX
NLfit & NLerr= Found no models!
Plugins = 51 libraries read
++ AFNI is detached from terminal.
stlee@cerberus ~/Desktop/stlee/AFNI/Patients_all_in_one/115 $
++ NOTE: This version of AFNI was built Dec 5 2013 ++
++ NOTE: 'Define Markers' is hidden: right-click 'DataDir' to see it
++ NOTE: you may want to consider creating a '.afnirc' file in your home
directory, to control AFNI's setup. For more details, see
[afni.nimh.nih.gov]
And this is the error messages when I tried running Draw Dataset Plugin:
** ERROR: No atlas named CA_ML_18_MNIA found in global atlas list
** ERROR: No atlas named CA_MPM_18_MNIA found in global atlas list
** ERROR: No atlas named CA_PM_18_MNIA found in global atlas list
** ERROR: No atlas named CA_LR_18_MNIA found in global atlas list
** ERROR: No atlas named CA_GW_18_MNIA found in global atlas list
** ERROR: No atlas named DD_Desai_MPM found in global atlas list
** ERROR: No atlas named DKD_Desai_MPM found in global atlas list
*+ WARNING: Reverting to old name nonesense. This option should be turned off. Use atlas_name directly
++ OBsoLETE, do NOT use anymore
Fatal Signal 11 (SIGSEGV) received
Atlas_Dset_Name_to_Atlas_Code
Atlas_Name
PLUG_startup_plugin_CB
AFNI:main
Bottom of Debug Stack
** AFNI version = AFNI_2011_12_21_1014 Compile date = Dec 5 2013
** [[Precompiled binary =Debian-x86_64-1-gnu: Dec 5 2013]]
** Program Abort **
** 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.
*** MCW_malloc pre-corruption! serial=0 size=43208160 source=Left/Right (N27) line#0
[[ Called from source=/tmp/buildd/afni-0.20131204~dfsg.1/debugtrace.h line#148 ]]
2. The following is the output from 'afni_system_check.py -check_all'
=========== afni_system_check.py version 0.5, August 26, 2013 ============
-------------------------------- general ---------------------------------
architecture: 64bit ELF
system: Linux
release: 3.2.0-23-generic
version: #36-Ubuntu SMP Tue Apr 10 20:39:51 UTC 2012
distribution: LinuxMint 13 maya
number of CPUs: 24
apparent login shell: bash
--------------------- AFNI and related program tests ---------------------
which afni : /usr/lib/afni/bin/afni
afni version : Precompiled binary =Debian-x86_64-1-gnu: Dec 5 2013
which python : /usr/bin/python
python version : 2.7.3
which R : /usr/bin/R
R version : R version 2.14.1 (2011-12-22)
which tcsh : /usr/bin/tcsh
instances of various programs found in PATH:
afni : 2
/usr/lib/afni/bin/afni
/usr/lib/afni/bin/afni_wrapper
R : 1 (/usr/bin/R)
python : 1 (/usr/bin/python2.7)
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : success
------------------------------ python libs -------------------------------
++ module 'PyQt4' found at /usr/lib/python2.7/dist-packages/PyQt4
++ module loaded: PyQt4
------------------------------- path vars --------------------------------
PATH = /usr/lib/afni/plugins:/usr/lib/afni/bin:/usr/local/epd/bin:/usr/local/scirun/bin:/usr/share/fsl/5.0/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/rick/Documents/ShortcutLinks/:/usr/local/afni/:/usr/local/mricron/:/usr/local/mricrogl/:/usr/local/cuda/bin:/home/rick/bin:/usr/lib/fsl/5.0:/usr/share/fsl/5.0/lib:/usr/share/fsl/5.0
PYTHONPATH = /usr/local/epd/bin
LD_LIBRARY_PATH = /usr/local/cuda/lib64:/usr/local/cuda/lib
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =
Thank you very much for helping me out!
Edited 1 time(s). Last edit at 04/04/2014 04:20PM by lst715.
