Description:
I am using the latest version of the Singularity container (version 0.99.3) and I am getting an error when running preprocess_conc in the container. I am providing an example call below.
Call:
qunex preprocess_conc
–batchfile=“/Studies/fMRI_fNIRS_rerun2/processing/fMRI_fNIRS_batch_rerun.txt”
–sessionsfolder=“/Studies/fMRI_fNIRS_rerun2/sessions”
–sessions=“${SESSIONS}”
–overwrite=“yes”
–parsessions=10
–bolds=“langmath”
–event_file=“langmath”
–glm_name=-“_task_langmath”
–bold_actions=“s,r,c”
–bold_nuisance=“e”
–mov_bad=“none”
–event_string=“lang:boynton|math:boynton”
–glm_matrix=“both”
–glm_residuals=“save”
–nprocess=“0”
–pignore=“hipass=keep|regress=keep|lopass=keep”
Log:
Generated by QuNex 0.99.3 on 2024-04-09_18.23.22.927758#
Running external command via QuNex:
octave -q --no-init-file --eval “try fc_preprocess_conc(‘/Studies/fMRI_fNIRS_rerun2/sessions/D42AAB7FTASK’, [2 3], ‘s,r,c’, 0.800, 0, ‘e’, , ‘langmath.fidl’, ‘lang:boynton|math:boynton’, ‘’, true, ‘.dtseries.nii’, ‘radius:50|fdt:0.50|dvarsmt:3.00|dvarsmet:1.60|after:0|before:0|reject:none’, ‘hipass=keep|regress=keep|lopass=keep’, ‘boldname=bold|fidlname=langmath|concname=langmath|surface_smooth=2.000000|volume_smooth=2.000000|voxel_smooth=1.000000|hipass_filter=0.008000|lopass_filter=0.090000|framework_path=|wb_command_path=|smooth_mask=nonzero|dilate_mask=/opt/qunex/library/data/atlases/MNITemplates/MNI152_T1_2mm_brain_mask.nii.gz|glm_matrix=both|glm_residuals=save|glm_results=c,r|glm_name=-_task_langmath|bold_tail=_Atlas|ref_bold_tail=|bold_variant=|img_suffix=’, ‘/Studies/fMRI_fNIRS_rerun2/sessions/D42AAB7FTASK/images/functional/concs/bold_Atlas_dtseries_langmath_langmath_s_res-e-_task_langmath.conc.ok’); catch ME, general_report_crash(ME); exit(1), end; exit;”
Running preproces conc script v0.9.16 [.dtseries.nii]
Parameters:
sessionf: /Studies/fMRI_fNIRS_rerun2/sessions/D42AAB7FTASK
bolds: [2 3]
doIt: s,r,c
tr: 0.80
omit: 0
rgss: e
task: [0 0]
efile: langmath.fidl
eventrstring: lang:boynton|math:boynton
variant:
overwrite: 1
tail: .dtseries.nii
scrub: radius:50|fdt:0.50|dvarsmt:3.00|dvarsmet:1.60|after:0|before:0|reject:none
ignores: hipass=keep|regress=keep|lopass=keep
done: /Studies/fMRI_fNIRS_rerun2/sessions/D42AAB7FTASK/images/functional/concs/bold_Atlas_dtseries_langmath_langmath_s_res-e-_task_langmath.conc.ok
options: boldname=bold|fidlname=langmath|concname=langmath|surface_smooth=2.000000|volume_smooth=2.000000|voxel_smooth=1.000000|hipass_filter=0.008000|lopass_filter=0.090000|framework_path=|wb_command_path=|smooth_mask=nonzero|dilate_mask=/opt/qunex/library/data/atlases/MNITemplates/MNI152_T1_2mm_brain_mask.nii.gz|glm_matrix=both|glm_residuals=save|glm_results=c,r|glm_name=-_task_langmath|bold_tail=_Atlas|ref_bold_tail=|bold_variant=|img_suffix=
Options used:
boldname: bold
concname: langmath
fidlname: langmath
surface_smooth: 2
volume_smooth: 2
voxel_smooth: 1
lopass_filter: 0.09
hipass_filter: 0.008
hipass_do: nuisance
lopass_do: nuisance,movement,events,task
framework_path:
wb_command_path:
omp_threads: 0
smooth_mask: nonzero
dilate_mask: /opt/qunex/library/data/atlases/MNITemplates/MNI152_T1_2mm_brain_mask.nii.gz
glm_matrix: both
glm_residuals: save
glm_results: c,r
glm_name: -_task_langmath
bold_tail: _Atlas
ref_bold_tail:
bold_variant:
img_suffix:
=========================================
Execution error! Processing failed!
Please check arguments and/or try running the command in Matlab or Octave directly.
The exact error reported:
Error identifier:
Error message: /opt/qunex/matlab/qx_mri/img/@nimage/img_read_nifti_mx.mex: failed to load: liboctinterp.so.4: cannot open shared object file: No such file or directory
Error stack: /opt/qunex/matlab/qx_mri/img/@nimage/img_read_nifti.m → img_read_nifti [line: 41]
/opt/qunex/matlab/qx_mri/img/@nimage/nimage.m → img_readimage [line: 463]
/opt/qunex/matlab/qx_mri/img/@nimage/nimage.m → nimage [line: 283]
/opt/qunex/matlab/qx_mri/general/general_get_image_length.m → general_get_image_length [line: 25]
/opt/qunex/matlab/qx_mri/fc/fc_preprocess_conc.m → fc_preprocess_conc [line: 870]
=========================================