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  

|
August 12, 2020 04:33PM
Looks like I'm missing 'brms' in my installation of R. I'll have to fix that I guess.

Here's the whole output in case you're curious:

-------------------------------- general ---------------------------------
architecture: 64bit ELF
system: Linux
release: 3.10.0-957.56.1.el7.x86_64
version: #1 SMP Fri Jun 19 05:28:11 EDT 2020
distribution: Red Hat Enterprise Linux Server 7.6 Maipo
number of CPUs: 40
apparent login shell: bash
shell RC file: .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni : /fslhome/ben88/abin/afni
afni version : Precompiled binary linux_openmp_64: Aug 4 2020
: AFNI_20.2.09 'Aulus Vitellius'
AFNI_version.txt : AFNI_20.2.09, linux_openmp_64, Aug 04 2020
which python : /bin/python
python version : 2.7.5
which R : /apps/r/4.0.0/gcc-9.2.0_intel-mkl-2020.0.166/bin/R
R version : R version 4.0.0 (2020-04-24) -- "Arbor Day"
which tcsh : /usr/local/bin/tcsh

instances of various programs found in PATH:
afni : 1 (/zhome/ben88/abin/afni)
R : 1 (/zapps7/r/4.0.0/gcc-9.2.0_intel-mkl-2020.0.166/bin/R)
python : 1 (/usr/bin/python2.7)
python2 : 1 (/usr/bin/python2.7)
python3 : 1 (/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
3dMVM : success

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

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


R RHOME : /apps/r/4.0.0/gcc-9.2.0_intel-mkl-2020.0.166/lib64/R

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

------------------------------ python libs -------------------------------
++ module loaded: PyQt4
module file : /usr/lib64/python2.7/site-packages/PyQt4/__init__.pyc

** failed to load module matplotlib.pyplot
-- matplotlib.pyplot is not required, but is desirable

-------------------------------- env vars --------------------------------
PATH = /apps/r/4.0.0/gcc-9.2.0_intel-mkl-2020.0.166/bin:/fslhome/ben88/apps/fsl/bin:/fslhome/ben88/apps/freesurfer/bin:/fslhome/ben88/apps/freesurfer/fsfast/bin:/fslhome/ben88/apps/freesurfer/tktools:/fslhome/ben88/apps/freesurfer/mni/bin:/fslhome/ben88/apps/install/bin:/apps/lmod/lmod/libexec:/usr/lib64/qt-3.3/bin:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/dell/srvadmin/bin:/bin:/fslhome/ben88/abin:/fslhome/ben88/abin

PYTHONPATH =
R_LIBS = /fslhome/ben88/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 /fslhome/ben88/abin

------------------------------ OS specific -------------------------------
which yum : /bin/yum
yum version : 3.4.3


========================= summary, please fix: =========================
* just be aware: login shell 'bash', but our code examples use 'tcsh'
* missing R packages (see rPkgsInstall)
* insufficient data for AFNI bootcamp
Subject Author Posted

New program 3dLMEr for linear mixed-effects modeling

gang December 30, 2019 10:58AM

Re: New program 3dLMEr for linear mixed-effects modeling

Yue January 08, 2020 05:22PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang January 09, 2020 12:01PM

Re: New program 3dLMEr for linear mixed-effects modeling

Yue January 14, 2020 11:15AM

Re: New program 3dLMEr for linear mixed-effects modeling

Andrew Davis April 24, 2020 01:11PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang April 24, 2020 02:39PM

Re: New program 3dLMEr for linear mixed-effects modeling

Andrew Davis April 25, 2020 11:46AM

Re: New program 3dLMEr for linear mixed-effects modeling

Andrew Davis April 30, 2020 04:02PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang April 30, 2020 05:53PM

Re: New program 3dLMEr for linear mixed-effects modeling

Andrew Davis April 30, 2020 09:07PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang May 01, 2020 02:42PM

Re: New program 3dLMEr for linear mixed-effects modeling

Andrew Davis May 02, 2020 12:12PM

Re: New program 3dLMEr for linear mixed-effects modeling

ben88 August 03, 2020 07:53PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang August 04, 2020 07:53AM

Re: New program 3dLMEr for linear mixed-effects modeling

ben88 August 04, 2020 08:14AM

Re: New program 3dLMEr for linear mixed-effects modeling

gang August 04, 2020 08:59AM

Re: New program 3dLMEr for linear mixed-effects modeling

ben88 August 12, 2020 04:33PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang August 13, 2020 02:36PM

Re: New program 3dLMEr for linear mixed-effects modeling

aojha17 September 14, 2020 10:56AM

Re: New program 3dLMEr for linear mixed-effects modeling

gang September 14, 2020 02:13PM

Re: New program 3dLMEr for linear mixed-effects modeling

aojha17 September 18, 2020 07:32PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang September 21, 2020 08:31PM

Re: New program 3dLMEr for linear mixed-effects modeling

aojha17 September 22, 2020 03:41PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang September 22, 2020 04:00PM

Re: New program 3dLMEr for linear mixed-effects modeling

aojha17 September 22, 2020 09:01PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang September 23, 2020 10:09AM

Re: New program 3dLMEr for linear mixed-effects modeling

aojha17 September 23, 2020 11:21AM

Re: New program 3dLMEr for linear mixed-effects modeling

henrybrice October 20, 2020 09:06AM

Re: New program 3dLMEr for linear mixed-effects modeling

gang October 20, 2020 12:31PM

Re: New program 3dLMEr for linear mixed-effects modeling

henrybrice October 20, 2020 03:22PM

Re: New program 3dLMEr for linear mixed-effects modeling

gang October 20, 2020 09:05PM

Re: New program 3dLMEr for linear mixed-effects modeling

henrybrice October 21, 2020 05:43AM



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