I did that, and run the command 3dvolreg.afni on Terminal to check. The Error still remain: *3dvolreg.afni: error while loading shared libraries: libXp.so.6: wrong ELF class: ELFCLASS32*
2015-06-23 10:39 GMT+07:00 Z K <zkauf...@nmr.mgh.harvard.edu>: > From reading the email thread history, it appears you may have downloaded > the apple OS X version of 3rvolreg.afni and overwrote the original, which > is the cause of the error. Please extract the original version of that > binary from the original tarball. If you no longer have it you can download > it from this page: > > https://surfer.nmr.mgh.harvard.edu/fswiki/Download > > -Zeke > > > On Jun 22, 2015, at 11:29 PM, Thục Trinh <thuctrinh...@gmail.com> wrote: > > hello, > I am using CentOS release 6.4 ( final) 64bit and Freesurfer v.5.3.0. > I think that makes the confliction. > > 2015-06-23 8:26 GMT+07:00 Thục Trinh <thuctrinh...@gmail.com>: > >> Hello Douglas and ZK, >> I set the path for shared library in my .basrch file, but it still does >> not work and comes up with this Error: >> *3dvolreg.afni: error while loading shared libraries: libXp.so.6: wrong >> ELF class: ELFCLASS32* >> *ERROR: 3dvolreg.afni* >> *Invalid null command.* >> >> Trinh >> >> 2015-06-23 3:03 GMT+07:00 Z K <zkauf...@nmr.mgh.harvard.edu>: >> >>> Trinh, >>> >>> Attempt to determine where libXp.so.6 was installed on your system after >>> you installed it using yum. For example, on my system libXp.so.6 exists >>> in directory "/usr/lib64". Once you determine the location where the >>> library resides, add that directory to your LD_LIBRARY_PATH after you >>> source freesurfer. >>> >>> $> source $FREESURFER_HOME/SetUpFreeSurfer.sh >>> $> export LD_LIBRARY_PATH=/usr/lib64:$LD_LIBRARY_PATH >>> $> preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage lhrh >>> -fwhm 5 -per-run >>> >>> -Zeke >>> >>> >>> >>> >>> On 06/22/2015 02:40 PM, Douglas Greve wrote: >>> > I'm not sure what to tell you. Zeke, do you have any ideas? >>> > Alternatively, you can just install afni on your machine. Once you >>> > verify that the installation works, copy 3dvolreg from the >>> installation. >>> > >>> > On 6/21/15 3:55 PM, Thục Trinh wrote: >>> >> Hello Douglas, >>> >> I already had *3dvolreg.afni* in */freesurfer/bin/*, but I still >>> >> download the new one 3dvolreg.afni and replaced it in /freesurfer/bin. >>> >> But the Error still remain the same. >>> >> *3dvolreg.afni: error while loading shared libraries: libXp.so.6: >>> >> cannot open shared object file: No such file or directory* >>> >> *ERROR: 3dvolreg.afni* >>> >> *Invalid null command.* >>> >> >>> >> >>> >> 2015-06-19 16:04 GMT+07:00 Douglas Greve <gr...@nmr.mgh.harvard.edu >>> >> <mailto:gr...@nmr.mgh.harvard.edu>>: >>> >> >>> >> >>> >> See this thread >>> >> >>> http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg37764.html >>> >> >>> >> >>> >> >>> >> >>> >> On 6/17/15 5:59 PM, Thục Trinh wrote: >>> >>> Hi freesurfer experts, >>> >>> I am practicing on the fsfast tutorial data that were given at >>> >>> Freesurfer website. >>> >>> I run the command to do the pre-processing on the sess01 >>> <*noproc*>. >>> >>> *preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage lhrh >>> >>> -fwhm 5 -per-run* >>> >>> it was unfinished and failed with the ERROR: >>> >>> *3dvolreg.afni: error while loading shared libraries: libXp.so.6: >>> >>> cannot open shared object file: No such file or directory* >>> >>> *ERROR: 3dvolreg.afni* >>> >>> *Invalid null command.* >>> >>> so I run the command to install libXp.so.6 under root permission >>> >>> *yum install libXp.so.6 *and completely installed. >>> >>> I found the file *3dvolreg.afni *in the $FREESURFER_HOME/bin >>> >>> But the ERROR still remained unfixed. >>> >>> >>> >>> Please help me with any suggestions to finish the preproc-sesss >>> >>> Thankyou and have a nice day. >>> >>> Trinh Tran >>> >>> >>> >>> >>> >>> _______________________________________________ >>> >>> Freesurfer mailing list >>> >>> Freesurfer@nmr.mgh.harvard.edu <mailto: >>> Freesurfer@nmr.mgh.harvard.edu> >>> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >> >>> >> >>> >> _______________________________________________ >>> >> Freesurfer mailing list >>> >> Freesurfer@nmr.mgh.harvard.edu <mailto: >>> Freesurfer@nmr.mgh.harvard.edu> >>> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >> >>> >> >>> >> The information in this e-mail is intended only for the person to >>> >> whom it is >>> >> addressed. If you believe this e-mail was sent to you in error and >>> >> the e-mail >>> >> contains patient information, please contact the Partners >>> >> Compliance HelpLine at >>> >> http://www.partners.org/complianceline . If the e-mail was sent >>> to >>> >> you in error >>> >> but does not contain patient information, please contact the >>> >> sender and properly >>> >> dispose of the e-mail. >>> >> >>> >> >>> >> >>> >> >>> >> _______________________________________________ >>> >> Freesurfer mailing list >>> >> Freesurfer@nmr.mgh.harvard.edu >>> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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