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
