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

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

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

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

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

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

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

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

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

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