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  

|
April 01, 2019 01:04PM
Paul,

please find attached the output

-------------------------------- general ---------------------------------
architecture: 64bit
system: Linux
release: 4.15.0-46-generic
version: #49-Ubuntu SMP Wed Feb 6 09:33:07 UTC 2019
distribution: debian buster/sid
number of CPUs: 24
apparent login shell: bash
shell RC file: .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni : /home/davide/abin/afni
afni version : Precompiled binary linux_ubuntu_16_64: Mar 20 2019
: AFNI_19.0.26 'Tiberius'
AFNI_version.txt : AFNI_19.0.26, linux_ubuntu_16_64, Mar 20 2019
which python : /home/davide/anaconda3/bin/python
python version : 3.7.1
which R : /usr/bin/R
R version : R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
which tcsh : /usr/bin/tcsh

instances of various programs found in PATH:
afni : 1 (/home/davide/abin/afni)
R : 1 (/usr/bin/R)
python : 2
/home/davide/anaconda3/bin/python3.7
/usr/bin/python2.7
python2 : 1 (/usr/bin/python2.7)
python3 : 2
/home/davide/anaconda3/bin/python3.7
/usr/bin/python3.6


testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success

checking for R packages...
rPkgsInstall -pkgs ALL -check : FAILURE

oo Warning:
These packages are not installed on the computer: brms!


checking for $HOME files...
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found

------------------------------ python libs -------------------------------
** python module not found: PyQt4
-- PyQt4 is no longer needed for an AFNI bootcamp

-------------------------------- env vars --------------------------------
PATH = /home/davide/anaconda3/bin:/usr/lib/afni/bin:/usr/local/fsl/bin:/usr/local/MATLAB/R2017a/bin:/home/davide/mrtrix3/bin:/usr/local/freesurfer/bin:/usr/local/freesurfer/fsfast/bin:/usr/local/freesurfer/tktools:/usr/local/fsl/bin:/usr/local/freesurfer/mni/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/home/davide/abin:/home/davide/abin

PYTHONPATH =
R_LIBS = /home/davide/R

LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =

------------------------------ data checks -------------------------------
data dir : missing AFNI_data6
data dir : missing AFNI_demos
data dir : missing suma_demo
data dir : missing afni_handouts
atlas : found TT_N27+tlrc under /home/davide/abin

------------------------------ OS specific -------------------------------
which apt-get : /usr/bin/apt-get
apt-get version : apt 1.6.10 (amd64)


========================= summary, please fix: =========================
* login shell 'bash', trusting user to translate code examples from 'tcsh'
* have python version 3.7.1, some programs need 2.7.x
* missing R packages (see rPkgsInstall)
* insufficient data for AFNI bootcamp
* consider running: apt-get install python-qt4
Subject Author Posted

AFNI R packages installation issue

dmomi April 01, 2019 07:34AM

Re: AFNI R packages installation issue

ptaylor April 01, 2019 09:54AM

Re: AFNI R packages installation issue

dmomi April 01, 2019 11:50AM

Re: AFNI R packages installation issue

ptaylor April 01, 2019 12:11PM

Re: AFNI R packages installation issue

dmomi April 01, 2019 12:38PM

Re: AFNI R packages installation issue

ptaylor April 01, 2019 12:59PM

Re: AFNI R packages installation issue

dmomi April 01, 2019 01:04PM

Re: AFNI R packages installation issue

ptaylor April 01, 2019 01:12PM

Re: AFNI R packages installation issue

dmomi April 01, 2019 01:21PM

Re: AFNI R packages installation issue

ptaylor April 01, 2019 01:33PM

Re: AFNI R packages installation issue

ptaylor April 23, 2019 05:48PM

Re: AFNI R packages installation issue

dmomi April 29, 2019 03:50AM