Maybe it is running out of memory? Can you try it reducing the number of
inputs?
On 6/29/2022 2:42 PM, Benjamin Deck wrote:
External Email - Use Caution
Hi there,
I am attempting to concat a number of volume files that are filled
cortical ribbons from a series of label files.
My workflow is to take the following steps:
*Convert overlay file to label file*
mri_vol2label --i
${inDir}/Indi_Matched_ROIs/${net}/${sub}/${hemi}.${netMaskName}_native.mgh
\
--id 1 \
--l
${inDir}/Indi_Matched_ROIs/${net}/${sub}/${hemi}.${netMaskName}_native.label
\
--surf ${sub} ${hemi} white \
--dilate 2
mri_label2label --srclabel
${inDir}/Indi_Matched_ROIs/${net}/${sub}/${hemi}.${netMaskName}_native.label
\
--s ${sub} \
--hemi ${hemi} \
--trglabel
/${subDir}/${sub}/label/li2019/${hemi}.${netMaskName}_native.label \
--regmethod surface
*Convert label to volume
*
mri_label2vol --label
/${subDir}/${sub}/label/li2019/${hemi}.${netMaskName}_native.label \
--identity \
--fill-ribbon \
--subject ${sub} \
--hemi ${hemi} \
--o /${subDir}/${sub}/mri/li2019_vols/${hemi}.${netMaskName}_native.mgz
*Finally concatenate the vols together*
mri_concat --f rois.txt --o yeo2011_nat.mgz --sum
ninputs = 104
Checking inputs
nframestot = 104
Allocing output
Done allocing
Killed
Not sure why this is being killed.
OS: WSL2 Ubuntu
FS version: freesurfer-linux-ubuntu18_x86_64-7.2.0-20210721-aa8f76b
Thanks for your help!
--
*Benjamin L. Deck*
/Doctoral Student/
/Applied Cognitive and Brain Sciences/
/Department of Psychological and Brain Sciences/
/Drexel University/
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