History of AFNI updates  

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July 20, 2020 10:38PM
Thank you! Here you go:

lgrande2@du-hpc ~]$ ssh -X node37
Last login: Sun Jul 19 15:00:27 2020 from du-hpc
[lgrande2@node37 ~]$ module load apps/afni-20.04
[lgrande2@node37 ~]$ module load apps/R-3.6.1
[lgrande2@node37 ~]$
[lgrande2@node37 ~]$ module load tools/netpbm-10.73.32
[lgrande2@node37 ~]$ afni_system_check.py -check_all
-------------------------------- general ---------------------------------
architecture: 64bit ELF
system: Linux
release: 3.10.0-1062.9.1.el7.x86_64
version: #1 SMP Mon Dec 2 08:31:54 EST 2019
distribution: Red Hat Enterprise Linux Server 7.7 Maipo
number of CPUs: 16
apparent login shell: bash
shell RC file: .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni : /usr/local/afni/20.04/afni
afni version : Precompiled binary linux_centos_7_64: Jul 12 2020
: AFNI_20.2.02 'Aulus Vitellius'
AFNI_version.txt : AFNI_20.2.02, linux_centos_7_64, Jul 12 2020
which python : /usr/bin/python
python version : 2.7.5
which R : /usr/local/R/3.6.1/bin/R
R version : R version 3.6.1 (2019-07-05) -- "Action of the Toes"
which tcsh : /usr/bin/tcsh

instances of various programs found in PATH:
afni : 1 (/usr/local/afni/20.04/afni)
R : 1 (/usr/local/R/3.6.1/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 : FAILURE
suma: error while loading shared libraries: libGLw.so.1: cannot open shared object file: No such file or directory
3dSkullStrip : FAILURE
3dSkullStrip: error while loading shared libraries: libGLw.so.1: cannot open shared object file: No such file or directory
uber_subject.py : success
3dAllineate : success
3dRSFC : success
SurfMesh : FAILURE
SurfMesh: error while loading shared libraries: libGLw.so.1: cannot open shared object file: No such file or directory
3dClustSim : success
3dMVM : success

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

R RHOME : /usr/local/R/3.6.1/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 = /usr/local/netpbm/10.73.32/bin:/usr/local/afni/20.04:/usr/local/R/3.6.1/bin:/usr/local/curl/7.64.1/bin:/usr/local/proj/6.0.0/bin:/usr/local/jags/4.3.0/bin:/usr/local/gdal/2.4.1/bin:/usr/local/geos/3.7.1/bin:/usr/local/udunits2/2.2.26/bin:/usr/local/gsl/2.5/bin:/usr/local/openmpi/4.0.1/ib-gcc8.3.0/bin:/usr/local/gcc/8.3.0/bin:/usr/local/Modules/3.2.10/bin:/opt/sge/bin:/opt/sge/bin/lx-amd64:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/home/lgrande2/bin

PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH = /usr/local/netpbm/10.73.32/lib:/usr/local/afni/20.04:/usr/local/R/3.6.1/lib64:/usr/local/curl/7.64.1/lib:/usr/local/proj/6.0.0/lib:/usr/local/jags/4.3.0/lib:/usr/local/gdal/2.4.1/lib:/usr/local/geos/3.7.1/lib:/usr/local/udunits2/2.2.26/lib:/usr/local/gsl/2.5/lib:/usr/local/lapack/3.8.0/lib64:/usr/local/blas/3.8.0/lib:/usr/local/openmpi/4.0.1/ib-gcc8.3.0/lib:/usr/local/gcc/8.3.0/lib64:/opt2/amd-opencl/lib

DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =

------------------------------ data checks -------------------------------
data dir : found AFNI_data6 under $HOME
top history: ... [rickr]: updated FT_white.nii w/out 16 (brain stem)
data dir : found AFNI_demos under $HOME
top history: ... [pault]: remove rank from FATCAT_DEMO, FAT_MVM_DEMO
data dir : found suma_demo under $HOME
top history: .../SUMA_data/Build_tmp on Wed Aug 20 10:04:23 EDT 2014
data dir : found afni_handouts under $HOME
atlas : found TT_N27+tlrc under /usr/local/afni/20.04

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


========================= summary, please fix: =========================
* just be aware: login shell 'bash', but our code examples use 'tcsh'
* AFNI programs show FAILURE

[lgrande2@node37 ~]$
Subject Author Posted

AFNI preprocessing help

leahariana July 02, 2020 05:01PM

Re: AFNI preprocessing help

ptaylor July 06, 2020 07:38AM

Re: AFNI preprocessing help

leahariana July 14, 2020 02:51PM

Re: AFNI preprocessing help

ptaylor July 14, 2020 03:41PM

Re: AFNI preprocessing help

leahariana July 20, 2020 01:27AM

Re: AFNI preprocessing help

ptaylor July 20, 2020 02:36PM

Re: AFNI preprocessing help

leahariana July 20, 2020 10:38PM

Re: AFNI preprocessing help

ptaylor July 22, 2020 09:43AM

Re: AFNI preprocessing help

ptaylor July 24, 2020 02:06PM