Kenta,
The error message says:
3dvolreg: error while loading shared libraries: libXp.so.6
so either libXp.so.6 needs to installed on your system, or symlinked to an existing libXp, or AFNI needs to be installed.
The freesurfer distribution includes 3dvolreg, the only AFNI binary copied from the AFNI distribution. That binary may not work on all Linux variants, so if installing libXp doesnt work, then a separate installation and test of the AFNI package is necessary to get a working 3dvolreg.
Nick
On Thu, 2009-09-03 at 14:35 +0900, 卯野賢太 wrote:
Hi freesurfer gurus
We are trying to preprocess of Tutorial fMRI Data. Following Freesurfer wiki,we adhered to hierarchy and type ' preproc-sess -s mgh-101.1 -fwhm 5'. But the following Error was displayed.
[root@localhost my-study]# preproc-sess -s mgh-101.1 -fwhm 5
preproc-sess logfile is log/preproc-sess.log
instem f mc 1 f fmc stc 0 fmc sm 1 fmc fmcsm5 mask 1 brain mgh-101.1 MC ----------------------------- 2009年 9月 3日 木曜日 13:46:33 JST /usr/local/freesurfer/fsfast-tutorial/my-study mc-sess -fstem f -fmcstem fmc -s mgh-101.1 -d /usr/local/freesurfer/fsfast-tutorial/my-study -fsd bold -new
-update -no-inorm
Logfile is /usr/local/freesurfer/fsfast-tutorial/my-study/log/mc-mgh-101.1-bold.log
/usr/local/freesurfer/fsfast-tutorial/my-study/mgh-101.1 RunList: 003 005 007 010 Targ Stem is 003/f ------- ************************** ----------- ------- Motion Correcting Run 003 ----------- ------- ************************** ----------- sess = mgh-101.1 2009年 9月 3日 木曜日 13:46:34 JST mc-afni2 --i 003/f.nii --t 003/f.nii --frame 0 --o 003/fmc.nii --mcdat 003/fmc.mcdat /usr/local/freesurfer/fsfast-tutorial/my-study/mgh-101.1/bold mri_info --nframes --o /tmp/mriinfo.12296 003/f.nii log file is 003/fmc.nii.mclog mcdat file is 003/fmc.mcdat tmp dir is 003/tmp.mc-afni2.12296 #@# -------------------------------- /usr/local/freesurfer/fsfast-tutorial/my-study/mgh-101.1/bold mri_convert 003/f.nii 003/tmp.mc-afni2.12296/tempvol.nii.gz --nskip 0 --ndrop 84 -odt float mri_convert 003/f.nii 003/tmp.mc-afni2.12296/tempvol.nii.gz --nskip 0 --ndrop 84 -odt float nskip = 0 ndrop = 84 $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from 003/f.nii... TR=3000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.9973, -0.0712038, 0.0179835) j_ras = (0.0625429, -0.951817, -0.300222) k_ras = (0.038494, -0.298286, 0.9537) changing data type from 4 to 3 (noscale = 0)... Dropping last 84 frames writing to 003/tmp.mc-afni2.12296/tempvol.nii.gz... #@# -------------------------------- /usr/local/freesurfer/fsfast-tutorial/my-study/mgh-101.1/bold mri_convert 003/f.nii 003/tmp.mc-afni2.12296/invol.nii.gz -odt float mri_convert 003/f.nii 003/tmp.mc-afni2.12296/invol.nii.gz -odt float $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from 003/f.nii... TR=3000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.9973, -0.0712038, 0.0179835) j_ras = (0.0625429, -0.951817, -0.300222) k_ras = (0.038494, -0.298286, 0.9537) changing data type from 4 to 3 (noscale = 0)... writing to 003/tmp.mc-afni2.12296/invol.nii.gz... #@# -------------------------------- /usr/local/freesurfer/fsfast-tutorial/my-study/mgh-101.1/bold 3dvolreg -verbose -dfile 003/fmc.mcdat -base 003/tmp.mc-afni2.12296/tempvol.nii.gz -prefix 003/tmp.mc-afni2.12296/outvol.nii.gz 003/tmp.mc-afni2.12296/invol.nii.gz 3dvolreg: error while loading shared libraries: libXp.so.6: cannot open shared object file: No such file or directory ERROR: 3dvolreg ERROR: mc-sess failed
If we need to download AFNI(or 3dvolreg),where should we put them(or 3dvolreg)? Please give us your suggestion. Thank you
Kenta
-- 卯野賢太 =================================== 早稲田大学 スポーツ科学研究科 修士課程１年 卯野賢太
早稲田大学 フロンティアリサーチセンター 所沢キャンパス 110号館 〒359-1165 所沢市堀之内135-1 TEL：04-2947-6809 (内田研究室) unokentauno@gmail.com =================================== _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer