Hi Dong
sorry, not sure I understand. Is it the case that recon-all finds 001.mgz
through 009,.mgz but fails to find 010.mgz, 011.mgz etc...?
cheers
Bruce
On Mon, 30 Nov 2015, Dong Haoming wrote:
Dear freesurfer exports,
I still have the problem to recon the surface with more than 10 inputs from
one person with following command:
“recon-all -s ${subjec} -autorecon1 –notal-check -clean-bm -gcut
-no-isrunning -noappend”,
Is there a limit on the number of the inputs?
What is the algorithm applied by “recon-all” to average these images? Is it
viable to average input images with other methods, then apply “recon-all”
to the averaged result?
Thanks very much for your help!
Dong Haoming
发件人: [email protected]
[mailto:[email protected]] 代表 董昊铭
发送时间: 2015年11月26日 13:11
收件人: [email protected]
主题: [Freesurfer] recon-all with more than 10 inputs
Dear freesurfer exports,
I am trying to recon more than 10 T1 scans from a single subject, but
something went wrong.
I have converted all T1 nifti files into mgz format into mri/orig directory
with following names: 001.mgz 002.mgz …. 010.mgz 011.mgz… But when I run
the command:
“recon-all –s ${subjec} –autorecon1 –notal–check –clean-bm –gcut
–no-isrunning -noappend”,
it seems that recon-all only recognizes the files with names 01*.mgz(i.e.
0013.mgz), the 00*.mgz(i.e. 001.mgz) files failed to be processed. Once I
change the files name to “001.mgz 002.mgz …. 0010.mgz 0011.mgz”, the
00*.mgz(i.e. 001.mgz) are able to be recognized, but the 001*.mgz(i.e.
0013.mgz) files failed.
How should I deal with this to make all files recognized?
Sincerely,
Dong Haoming
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