Hi Marcus,

yes, I guess you could download and build the MNI tools directly. It is a bit of a scary warning.

Bruce On Thu, 21 Apr 2005, wilms wrote:

Please help a freesurfer beginner:

I am just trying to get the FreeSurfer software running on my local (and later on the cluster) machine (debian sarge, P4). When running

...

recon-all -stage1 -s bert

on the bert example data, the script runs smoothly except for lots of "consider relinking" warnings (see below). I sense this might be related to compiler version issues?

My question: Are these errors harmful?- If yes, what can I do? - Build the minc-tools on my machine?

Help is greatly appreciated,

Marcus

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Nu Intensity Correction Wed Apr 20 16:49:30 CEST 2005 mri_convert orig nu/nu0.mnc mri_convert orig nu/nu0.mnc reading from orig... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, -0) j_ras = (0, 0, -1) k_ras = (-0, 1, -0) writing to nu/nu0.mnc... nu_correct -clobber nu/nu0.mnc nu/nu1.mnc [wilms@medpc32:/data/Wilms/projects/freesurfer_data/newbert/mri/] [2005-04-20 16:49:39] running: /usr/pubsw/packages/mni/current/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir /usr/tmp/nu_correct_2638/ nu/nu0.mnc nu/nu1.imp

/usr/pubsw/packages/mni/current/bin/volume_stats: Symbol `__vt_8iostream.3ios' has different size in shared object, consider re-linking /usr/pubsw/packages/mni/current/bin/volume_stats: Symbol `__vt_3ios' has different size in shared object, consider re-linking /usr/pubsw/packages/mni/current/bin/volume_stats: Symbol `__vt_7istream.3ios' has different size in shared object, consider re-linking /usr/pubsw/packages/mni/current/bin/volume_stats: Symbol `__vt_7fstream.3ios' has different size in shared object, consider re-linking

(...)

############ snip.