I realize that my script never read the mask.nii file, but I corrected for that and still got the same error. Thanks

On Mon, Apr 2, 2018 at 9:49 PM, Chirag Limbachia <[log in to unmask]> wrote:

Hi Anderson, 

I keep getting the following error when I try to run palm. 

Running PALM alpha110b using Octave 3.8.2 with the following options:

-i CI_vs_NBV.dr/dr_stage2_ic0000.nii

-i CI_vs_NBV.dr/dr_stage2_ic0004.nii

-i CI_vs_NBV.dr/dr_stage2_ic0012.nii

-i CI_vs_NBV.dr/dr_stage2_ic0029.nii

-i CI_vs_NBV.dr/dr_stage2_ic0005.nii

-i CI_vs_NBV.dr/dr_stage2_ic0006.nii

-i CI_vs_NBV.dr/dr_stage2_ic0015.nii

-i CI_vs_NBV.dr/dr_stage2_ic0013.nii

-i CI_vs_NBV.dr/dr_stage2_ic0017.nii

-i CI_vs_NBV.dr/dr_stage2_ic0019.nii

-i CI_vs_NBV.dr/dr_stage2_ic0033.nii

-i CI_vs_NBV.dr/dr_stage2_ic0037.nii

-d /home/lce/Desktop/Chirag/proc/CI_vs_NBV/design.mat

-t /home/lce/Desktop/Chirag/proc/CI_vs_NBV/design.con

-m

-T

-n 5000

-accel tail

-nouncorrected

-corrcon

-corrmod

-logp

-o CI_vs_NBV_palm

Found FSL in /usr/local/fsl

which: no wb_command in (/home/lce/Desktop/Chirag/new_scripts/palm-alpha110b:/usr/local/fsl/ICA-AROMA-master:/usr/local/fsl/bin:/usr/local/fsl/bin:/usr/local/fsl/bin:/usr/lib64/qt-3.3/bin:/sbin:/bin:/usr/bin:/usr/local/bin:/usr/local/sbin:/usr/sbin:/home/lce/abin:/usr/local/fsl/bin:/home/lce/.local/bin:/home/lce/bin:/home/lce/abin:/home/lce/abin:/usr/local/fsl/bin:/home/lce/.local/bin:/home/lce/bin:/home/lce/abin:/home/lce/abin:/usr/local/fsl/bin:/home/lce/.local/bin:/home/lce/bin:/home/lce/abin:/home/lce/abin:/usr/local/fsl/bin:/usr/libexec/octave/3.8.2/site/exec/x86_64-redhat-linux-gnu:/usr/libexec/octave/api-v49+/site/exec/x86_64-redhat-linux-gnu:/usr/libexec/octave/site/exec/x86_64-redhat-linux-gnu:/usr/libexec/octave/3.8.2/exec/x86_64-redhat-linux-gnu:/usr/bin)

error: structure has no member 'stack'

error: evaluating argument list element number 2

error: called from:

error:   /home/lce/Desktop/Chirag/new_scripts/palm-alpha110b/palm_error.m at line 37, column 1

What could those errors be?

Thank you,

Chirag 

On Wed, Oct 25, 2017 at 1:42 PM, Anderson M. Winkler <[log in to unmask]> wrote:

Hi Chirag,

Do you have writing permissions to the output directory? If yes and the error persists, could you show the full command line used to invoke PALM?

Thanks.

All the best,

Anderson

On 20 October 2017 at 19:03, Chirag Limbachia <[log in to unmask]> wrote:

FSL Experts,

I trying to run palm, but it gives me following errors,

error: fprintf: invalid stream number = -1
error: called from:
error:   /storage/AFMC-tinnitus/Chirag/scripts/palm-alpha109/palm_configrw.m at line 61, column 5
error:   /storage/AFMC-tinnitus/Chirag/scripts/palm-alpha109/palm_takeargs.m at line 54, column 5
error:   /storage/AFMC-tinnitus/Chirag/scripts/palm-alpha109/palm_core.m at line 33, column 13
error:   /storage/AFMC-tinnitus/Chirag/scripts/palm-alpha109/palm.m at line 81, column 1

Can anyone please help?

Thank you in advance!

Chirag