Hi,
I am constantly getting the same error when running recon-all on different subjects:
#@# Cortical ribbon mask Sat May 29 15:08:06 EST 2010 /home/houman/Desktop/freesurfer/subjects/PS2038/mri
mris_volmask --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon --save_distance PS2038
mris_volmaskbin: error while loading shared libraries: libtiff.so.3: cannot open shared object file: No such file or directory Linux ubuntu 2.6.32-22-generic #33-Ubuntu SMP Wed Apr 28 13:28:05 UTC 2010 x86_64 GNU/Linux
recon-all exited with ERRORS at Sat May 29 15:08:07 EST 2010
I am running:
freesurfer-Linux-centos4_x86_64-stable-pub-v.4.5.0-full.tar.gz i7 processor - Ubuntu 10.04 (Kernel Linux 2.6.32-22-generic, GNOME 2.30.0) I have referred to the suggested solutions at the following post: http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg07975.html but neither seem to correct the problem.
I am interested mainly in the data in the stats/aseg.stats file (which is generate on the step before the error). Is this error likely to affect the data in that file?
Thanks!
Houman
I have /usr/lib64/libtiff.so.3 linked to /usr/lib64/libtiff.so.4 which is linked to /usr/lib64/libtiff.so.4.3.2 in my Lucid 64bit install. See if libtiff.so.4.3.2 exists on your system in /usr/lib64 and if so:
sudo ln -s /usr/lib64/libtiff.so.4.3.2 /usr/lib64/libtiff.so.3
If not, find which libtiff you have installed and link to it:
find /usr -name libtiff.so.*
Peace,
Matt.
_____
From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of houman.ebrahimi Sent: Saturday, May 29, 2010 6:04 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] shared library error
Hi,
I am constantly getting the same error when running recon-all on different subjects:
#@# Cortical ribbon mask Sat May 29 15:08:06 EST 2010 /home/houman/Desktop/freesurfer/subjects/PS2038/mri
mris_volmask --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon --save_distance PS2038
mris_volmask.bin: error while loading shared libraries: libtiff.so.3: cannot open shared object file: No such file or directory Linux ubuntu 2.6.32-22-generic #33-Ubuntu SMP Wed Apr 28 13:28:05 UTC 2010 x86_64 GNU/Linux
recon-all exited with ERRORS at Sat May 29 15:08:07 EST 2010
I am running:
freesurfer-Linux-centos4_x86_64-stable-pub-v.4.5.0-full.tar.gz i7 processor - Ubuntu 10.04 (Kernel Linux 2.6.32-22-generic, GNOME 2.30.0)
I have referred to the suggested solutions at the following post: http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg07975.html but neither seem to correct the problem.
I am interested mainly in the data in the stats/aseg.stats file (which is generate on the step before the error). Is this error likely to affect the data in that file?
Thanks!
Houman
Hi,
Regarding motion correction at 1.5T, we are using a Siemens Magnetom Avanto 1.5T with:
12 channel coil iPAT 2 (GRAPPA, matrix coil mode: triple) Base resolution 256
Is a single run sufficient for FS without motion correction? The images don't display any obvious motion artifact.
it's really an empirical question. If you had enough subjects you could look at test/retest (across session) stability using 1 vs. 2, but that doesn't get at accuracy. For accuracy the only thing to do is reconstruct the single runs and the average and see which looks better to you.
cheers Bruce
On Fri, 4 Jun 2010, houman.ebrahimi wrote:
Hi,
Regarding motion correction at 1.5T, we are using a Siemens Magnetom Avanto 1.5T with:
12 channel coil iPAT 2 (GRAPPA, matrix coil mode: triple) Base resolution 256
Is a single run sufficient for FS without motion correction? The images don't display any obvious motion artifact.
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
houman.ebrahimi -
Matt Glasser