I was having the same problem, but gunzip didn't resolve things.  I'm using Ubuntu 24.04.2 LTS.

~/nifti $ ./run_mri_reface_docker.sh PGBM-020-1.3.6.1.4.1.14519.5.2.1.4429.7055.247305732462907069875129639452.nii ./mri-reface-output -imType T2
cp: cannot stat 'PGBM-020-1.3.6.1.4.1.14519.5.2.1.4429.7055.247305732462907069875129639452.nii': No such file or directory
Error using ADIR_ReFace
File not found:
/tmp/tmp.GS09StOInV/inputs/PGBM-020-1.3.6.1.4.1.14519.5.2.1.4429.7055.247305732462907069875129639452.nii

cp: cannot stat '/tmp/tmp.GS09StOInV/outputs/*': No such file or directory