Hi I finished downloading AFNI for a Windows system. I am working through ubuntu. I am able to open and run afni but receive this message for please fix:
- just be aware: login shell 'bash', but our code examples use 'tcsh'
- dot file test : want 1 modifications across 3 files:
The full message is:
-------------------------------- general ---------------------------------
architecture: 64bit ELF
cpu type: x86_64
system: Linux
release: 5.15.133.1-microsoft-standard-WSL2
version: #1 SMP Thu Oct 5 21:02:42 UTC 2023
distribution: ubuntu 22.04 Jammy Jellyfish
number of CPUs: 8
apparent login shell: bash
shell RC file: .bashrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /home/idillsaver1/abin/afni
afni version : Precompiled binary linux_ubuntu_16_64: Jan 11 2024
: AFNI_24.0.01 'Caracalla'
AFNI_version.txt : AFNI_24.0.01, linux_ubuntu_16_64, Jan 11 2024, official
which python : /usr/bin/python
python version : 3.10.12
which R : /usr/bin/R
R version : R version 4.3.2 (x86_64-pc-linux-gnu)
instances of various programs found in PATH:
afni : 1 (/home/idillsaver1/abin/afni)
R : 1 (/usr/bin/R)
python : 1 (/usr/bin/python3.10)
python2 : 0
python3 : 1 (/usr/bin/python3.10)
** have python3 but not python2
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success
uber_subject.py : success
3dMVM : success
------------------------ dependent program tests -------------------------
checking for dependent programs...
which tcsh : /usr/bin/tcsh
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/WINDOWS/system32:/mnt/c/WINDOWS:/mnt/c/WINDOWS/System32/Wbem:/mnt/c/WINDOWS/System32/WindowsPowerShell/v1.0/:/mnt/c/WINDOWS/System32/OpenSSH/:/mnt/c/Program Files (x86)/dotnet/:/mnt/c/Program Files/MATLAB/R2023b/bin:/mnt/c/Users/izzed/AppData/Local/Microsoft/WindowsApps:/snap/bin:/home/idillsaver1/abin
PYTHONPATH =
R_LIBS = /home/idillsaver1/R
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =
----------------------------- 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 (1031019M Avail)
top history: ... [gangc]: redo 0.BGA as 1.bga and update run.MSS.txt
data dir : found AFNI_demos under $HOME
top history: ...ct 2020 [taylorp]: updated scripts under FATCAT_DEMO
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/idillsaver1/abin
------------------------------ OS specific -------------------------------
which apt-get : /usr/bin/apt-get
apt-get version : apt 2.4.11 (amd64)
have Ubuntu system: ubuntu 22.04 Jammy Jellyfish
have Ubuntu afni : Precompiled binary linux_ubuntu_16_64: Jan 11 2024
========================= summary, please fix: =========================
- just be aware: login shell 'bash', but our code examples use 'tcsh'
- dot file test : want 1 modifications across 3 files:
Do I need to worry about the dot file test error?