First of all, I would like to thank everyone for even reading this topic.
I am an university student trying to install and learn to use AFNI. I have done everything exactly as the Ubuntu version 22.04 installation instructions say and can run sudo ls.
The version I am using is AFNI_25.1.00.
Whenever I try to use afni, I get a message like
Precompiled binary linux_ubuntu_16_64: Apr 6 2025 (Version AFNI_25.1.00 'Maximinus')
** Version check disabled: AFNI_VERSION_CHECK forbids
Thanks go to M Huerta for much encouragement
Initializing: X11Error: Can't open display: :0.0
++ AFNI is detached from terminal.
The full log when I do a system check is as follows:
-------------------------------- general ---------------------------------
architecture: 64bit ELF
cpu type: x86_64
system: Linux
release: 5.10.16.3-microsoft-standard-WSL2
version: #1 SMP Fri Apr 2 22:23:49 UTC 2021
distribution: ubuntu 22.04 Jammy Jellyfish
number of CPUs: 8
user: jan_czarnecki
apparent login shell: bash
shell RC file: .bashrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /home/jan_czarnecki/abin/afni
afni version : Precompiled binary linux_ubuntu_16_64: Apr 6 2025
: AFNI_25.1.00 'Maximinus'
AFNI_version.txt : AFNI_25.1.00, linux_ubuntu_16_64, Apr 06 2025, official
which python : /usr/bin/python
python version : 3.10.12
which R : /usr/bin/R
R version : R version 4.4.3 (x86_64-pc-linux-gnu)
instances of various programs found in PATH:
afni : 1 (/home/jan_czarnecki/abin/afni)
R : 1 (/usr/bin/R)
python : 1 (/usr/bin/python3.10)
python2 : 0
python3 : 1 (/usr/bin/python3.10)
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success
build_afni.py : success
uber_subject.py : success
3dMVM : success
rPkgsInstall : success
------------------------ dependent program tests -------------------------
checking for dependent programs...
which tcsh : /usr/bin/tcsh
tcsh version : 6.21.00
which Xvfb : /usr/bin/Xvfb
checking for R packages...
rPkgsInstall -pkgs ALL -check : success
R RHOME : /usr/lib/R
------------------------------ python libs -------------------------------
++ module loaded: matplotlib.pyplot
module file : /usr/lib/python3/dist-packages/matplotlib/pyplot.py
matplotlib version : 3.5.1
++ module loaded: flask
module file : /usr/lib/python3/dist-packages/flask/__init__.py
flask version : 2.0.1
++ module loaded: flask_cors
module file : /usr/lib/python3/dist-packages/flask_cors/__init__.py
flask_cors version : 3.0.9
-------------------------------- env vars --------------------------------
PATH = /usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/usr/lib/wsl/lib:/mnt/c/Program Files/WindowsApps/CanonicalGroupLimited.Ubuntu22.04LTS_2204.5.10021.0_x64__79rhkp1fndgsc:/mnt/c/Program Files (x86)/Common Files/Oracle/Java/java8path:/mnt/c/Program Files (x86)/Common Files/Oracle/Java/javapath:/mnt/c/Windows/system32:/mnt/c/Windows:/mnt/c/Windows/System32/Wbem:/mnt/c/Windows/System32/WindowsPowerShell/v1.0/:/mnt/c/Windows/System32/OpenSSH/:/mnt/c/Users/pilec/AppData/Local/Programs/Python/Python39/Scripts/:/mnt/c/Users/pilec/AppData/Local/Programs/Python/Python39/:/mnt/c/Users/pilec/AppData/Local/Microsoft/WindowsApps:/mnt/c/Users/pilec/AppData/Local/atom/bin:/mnt/c/Program Files/PsychoPy:/mnt/c/Program Files/PsychoPy/DLLs:/snap/bin:/home/jan_czarnecki/abin
PYTHONPATH =
R_LIBS = /home/jan_czarnecki/R
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =
CONDA_SHLVL =
CONDA_DEFAULT_ENV =
CC =
HOMEBREW_PREFIX =
----------------------------- eval dot files -----------------------------
----------- AFNI $HOME files -----------
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found
--------- shell startup files ----------
-- good: .tcshrc seems to contain 'source .cshrc'
-- considered operations: path, apsearch
-- note: followers should not need edits, so edit flags should be 0
(have 1 follower(s), which can be ignored)
dot file test : want 1 modifications across 3 files:
file path flatdir apsearch follower
--------------- ---- ------- -------- --------
.cshrc 0 0 1 0
.tcshrc 0 0 0 1
.bashrc 0 0 0 0
------------------------------ data checks -------------------------------
data dir : found AFNI_data6 under $HOME (257007M Avail)
top history: 22 Jan 2025 [rickr]: add AV2_aud_AM2.txt
data dir : found AFNI_demos under $HOME
top history: ...aylorp]: remove gzip from FATCAT_DEMO/Do_1[34]*.tcsh
data dir : found suma_demo under $HOME
top history: ...s_New/data/Build_tmp on Mon Mar 4 11:56:45 EST 2013
data dir : found afni_handouts under $HOME
atlas : found TT_N27+tlrc under /home/jan_czarnecki/abin
------------------------------ OS specific -------------------------------
which apt-get : /usr/bin/apt-get
apt-get version : apt 2.4.9 (amd64)
which git : /usr/bin/git
git version : git version 2.34.1
which gcc : /usr/bin/gcc
gcc version : gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
have Ubuntu system: ubuntu 22.04 Jammy Jellyfish
have Ubuntu afni : Precompiled binary linux_ubuntu_16_64: Apr 6 2025
========================= summary, please fix: =========================
* just be aware: login shell 'bash', but our code examples use 'tcsh'
* dot file test : want 1 modifications across 3 files:
Unfortunately, when I attempt to open one of the files to modify it, I get:
(gedit:21438): Gtk-WARNING **: 04:12:20.134: cannot open display: :0.0
Which does not provide much explanation.
I am running the Linux Subsystem for Windows as an administrator, but to no avail. I am somehow unable to use AFNI.
I would greatly appreciate any help with my problems above. I thank you for any advice in advance.