Hi, After complete install the suitable version of shared library as you suggested, I cannot find any file name libXpm.x86_64 to set the new path for shared library. Ps: Is there any differences between libXpm.x86_64 and libXp.x86_64
2015-06-24 16:03 GMT+07:00 Jalmar Teeuw <jal...@me.com>: > That sounds more like you have only the 32-bit version of the libXp > installed when 64-bit is required. Are you using the 64-bit version of > Freesurfer 5.3.0 for CentOS 6 that is available on the downloads page? > > Have you tried > > sudo yum install libXp.x86_64 > > on the terminal? This should install the 64-bit libraries alongside the > 32-bit libraries of libXp. > > If I recall correctly, you might also need the libXpm libraries, use > > sudo yum install libXpm.x86_64 > > > > On 24 Jun 2015, at 04:49, Thục Trinh <thuctrinh...@gmail.com> wrote: > > > > 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. > > > > > > _______________________________________________ > > 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. > > > _______________________________________________ > 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.
