History of AFNI updates  

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April 26, 2021 11:44AM
Hey Paul,

I've run the suggested lines of code you sent and this is the updated output of "afni_system_check.py -check_all"

I didn't realize you could update binaries in my home directory! That helps a ton!

Carissa

-------------------------------- general ---------------------------------
architecture:         64bit ELF
system:               Linux
release:              3.10.0-1160.24.1.el7.x86_64
version:              #1 SMP Thu Apr 8 19:51:47 UTC 2021
distribution:         CentOS Linux 7.9.2009 Core
number of CPUs:       16
apparent login shell: bash
shell RC file:        .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni           : /sharedapps/LS/psych_imaging/afni/07.17.2019/afni
afni version         : Precompiled binary linux_openmp_64: Jul  3 2019
                     : AFNI_19.2.01 'Claudius'
AFNI_version.txt     : AFNI_19.2.01, linux_openmp_64, Jul 03 2019
which python         : /usr/bin/python
python version       : 2.7.15
which R              : which: no R in (/sharedapps/LS/psych_imaging/afni/07.17.2019/:/usr/pkg/bin:/usr/pkg/sbin:/usr/bin:/usr/sbin:/bin:/sbin:/home/cnweis/.local/bin:/home/cnweis/bin)

which tcsh           : /usr/pkg/bin/tcsh

instances of various programs found in PATH:
    afni    : 1   (/raid-07/sharedapps/LS/psych_imaging/afni/07.17.2019/afni)
    R       : 0
    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

checking for R packages...
    rPkgsInstall -pkgs ALL -check : FAILURE
        R: Command not found.

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 = /sharedapps/LS/psych_imaging/afni/07.17.2019/:/usr/pkg/bin:/usr/pkg/sbin:/usr/bin:/usr/sbin:/bin:/sbin:/home/cnweis/.local/bin:/home/cnweis/bin

PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH = /sharedapps/LS/psych_imaging/afni/07.17.2019/lib:/sharedapps/pkg-2018Q2/lib

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 /sharedapps/LS/psych_imaging/afni/07.17.2019/

------------------------------ OS specific -------------------------------
which yum            : /usr/bin/yum
yum version          : There was a problem importing one of the Python modules


=========================  summary, please fix:  =========================
*  login shell 'bash', trusting user to translate code examples from 'tcsh'
*  failure under initial "AFNI and related program tests"
*  missing R packages (see rPkgsInstall)
*  insufficient data for AFNI bootcamp
*  consider running: yum install PyQt4

Subject Author Posted

Low voxel significance but large clusters?

cnweis April 19, 2021 12:36PM

Re: Low voxel significance but large clusters?

ptaylor April 19, 2021 06:23PM

Re: Low voxel significance but large clusters?

cnweis April 19, 2021 07:12PM

Re: Low voxel significance but large clusters?

ptaylor April 19, 2021 07:40PM

Re: Low voxel significance but large clusters?

cnweis April 21, 2021 09:58AM

Re: Low voxel significance but large clusters?

ptaylor April 21, 2021 10:45AM

Re: Low voxel significance but large clusters?

cnweis April 21, 2021 11:49AM

Re: Low voxel significance but large clusters?

ptaylor April 21, 2021 12:01PM

Re: Low voxel significance but large clusters?

cnweis April 26, 2021 11:44AM

Re: Low voxel significance but large clusters?

ptaylor April 26, 2021 01:32PM

Re: Low voxel significance but large clusters?

cnweis April 26, 2021 03:36PM

Re: Low voxel significance but large clusters?

ptaylor April 26, 2021 04:24PM

Re: Low voxel significance but large clusters?

cnweis May 19, 2021 11:45AM



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