Hi AFNI experts -
We're trying to skull strip mouse and rat brains from T2 anatomicals. We noticed that, in 3dSkullStrip, there is a '-rat' option in the code. We tried the following command:
3dSkullStrip -input T2.nii.gz -rat
but received the error:
oo Warning 3dSkullStrip (SUMA_3dSkullStrip.c:1565):
Input dataset has a very low value range.
If stripping fails, repeat with option -fac 1000
So, we tried:
3dSkullStrip -input T2.nii.gz -rat -fac 1000
And received:
Fatal Signal 11 (SIGSEGV) received
THD_dset_scale
3dSkullStrip
Bottom of Debug Stack
** AFNI version = AFNI_17.1.12 Compile date = Jun 24 2017
** [[Precompiled binary linux_ubuntu_16_64: Jun 24 2017]]
** Program Death **
** If you report this crash to the AFNI message board,
** please copy the error messages EXACTLY, and give
** the command line you used to run the program, and
** any other information needed to repeat the problem.
** You may later be asked to upload data to help debug.
** Memory usage: chunks=94 bytes=345102
** Crash log is appended to file /home/shah/.afni.crashlog
We're not sure what this erorr means and where to go from here. Your help would be much appreciated!
Cheers,
John and Shahab