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  

|
November 05, 2017 08:01AM
Hi Justin,

I get this error at ClustExp_StatParse.py when I go through the tutorial with my data:

Resampling master to subject data.

-- will fix any bad char check errors in /media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_CleanSubjTab.1D
** non-Unix check output file '/media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_CleanSubjTab.1D' exists, will overwrite
-- will fix any non-Unix check errors in /media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_CleanSubjTab.1D
++ 3dmerge: AFNI version=AFNI_17.3.02 (Nov  1 2017) [64-bit]
-- Wrote edited dataset: /media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_p_uncor_0.005.nii.gz
++ 3dclust: AFNI version=AFNI_17.3.02 (Nov  1 2017) [64-bit]
++ Authored by: RW Cox et alii
++ Output dataset /media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_p_uncor_0.005_mask.nii.gz
/bin/sh: 1: Syntax error: "(" unexpected
Traceback (most recent call last):
  File "/home/z/abin/ClustExp_StatParse.py", line 495, in <module>
    subprocess.check_output(afni_cmd,shell=True)
  File "/usr/lib/python2.7/subprocess.py", line 574, in check_output
    raise CalledProcessError(retcode, cmd, output=output)
subprocess.CalledProcessError: Command '3drefit -relabel_all_str (Intercept)_F_p_uncor_0.005 /media/z/data/results/loc/3dMVM/MyOutput_ClustExp_shiny/data/MyOutput_p_uncor_0.005.nii.gz' returned non-zero exit status 2

besides, I have run @afni_R_package_install -shiny, here is the system & afni info:
-------------------------------- general ---------------------------------
architecture:         64bit ELF
system:               Linux
release:              4.10.0-38-generic
version:              #42~16.04.1-Ubuntu SMP Tue Oct 10 16:32:20 UTC 2017
distribution:         Ubuntu 16.04 xenial
number of CPUs:       8
apparent login shell: tcsh
shell RC file:        .cshrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni           : /home/z/abin/afni
afni version         : Precompiled binary linux_ubuntu_16_64: Nov  1 2017 
                     : AFNI_17.3.02
AFNI_version.txt     : AFNI_17.3.02, linux_ubuntu_16_64, Nov 01 2017
which python         : /usr/bin/python
python version       : 2.7.12
which R              : /usr/bin/R
R version            : R version 3.4.2 (2017-09-28) -- "Short Summer"
which tcsh           : /usr/bin/tcsh

instances of various programs found in PATH:
    afni    : 1   (/home/z/abin/afni)
    R       : 1   (/usr/bin/R)
    python  : 1   (/usr/bin/python2.7)
    python2 : 1   (/usr/bin/python2.7)
    python3 : 1   (/usr/bin/python3.5)

Thanks, 2086
Subject Author Posted

Cluster Explorer has arrived!!

discoraj October 17, 2017 12:40PM

Re: Cluster Explorer has arrived!!

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Re: Cluster Explorer has arrived!!

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Re: Cluster Explorer has arrived!!

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Re: Cluster Explorer has arrived!!

discoraj December 12, 2017 01:48PM

Re: Cluster Explorer has arrived!!

ChadwickP January 05, 2018 11:52AM

Re: Cluster Explorer has arrived!!

discoraj January 05, 2018 12:10PM

Re: Cluster Explorer has arrived!!

Ren Po January 12, 2018 04:18PM

Re: Cluster Explorer has arrived!!

discoraj January 15, 2018 01:56PM

Re: Cluster Explorer has arrived!!

Nshin96 July 23, 2019 03:34AM

Re: Cluster Explorer has arrived!!

discoraj July 26, 2019 10:10AM

Re: Cluster Explorer has arrived!!

Nshin96 July 29, 2019 01:17AM

Re: Cluster Explorer has arrived!!

mworden July 31, 2019 10:25AM

Re: Cluster Explorer has arrived!!

discoraj August 09, 2019 11:22AM

Re: Cluster Explorer has arrived!!

Karelo September 04, 2019 07:26AM

Re: Cluster Explorer has arrived!!

discoraj September 05, 2019 11:55PM