Hi, I had mri_cvs_register die on me when it couldn't find a shared library. Relevant bit is (full log is attached):
mris_resample: error while loading shared libraries: libboost_program_options.so.5: cannot open shared object file: No such file or directory
Freesurfer bugr info:
--------------------
FREESURFER_HOME: /hsgs/software/freesurfer/5.3.0
Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
RedHat release: Red Hat Enterprise Linux Server release 6.3 (Santiago)
Kernel info: Linux 2.6.32-358.6.2.el6.x86_64 x86_64
----------------------
Any thoughts on how to proceed? Thanks!
Michael
You will need to install libboost v1.41 onto your system. You should be able to install it using yum:
$>yum install boost-devel
However, its possible that the version you get thru this method may be incompatible with the version required by freesurfer. If the above does not fix your issue, then download libboost (http://www.boost.org/users/history/version_1_41_0.html) and untar it. Then:
cd libboost_folder mkdir libraries ./bootstrap.sh --prefix=./libraries ./bjam install cd libraries/lib ln -s libboost_program_options.so.1.41.0 libboost_program_options.so.5 export
LD_LIBRARY_PATH=.../boost_temp/boost_1_41_0/libraries/lib:$LD_LIBRARY_PATH
Hope this helps and feel free to contact me if your having issues getting it to work.
-Zeke
On 05/28/2014 12:17 PM, Michael Waskom wrote:
Hi, I had mri_cvs_register die on me when it couldn't find a shared library. Relevant bit is (full log is attached):
mris_resample: error while loading shared libraries: libboost_program_options.so.5: cannot open shared object file: No such file or directory
Freesurfer bugr info:
FREESURFER_HOME: /hsgs/software/freesurfer/5.3.0
Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
RedHat release: Red Hat Enterprise Linux Server release 6.3 (Santiago)
Kernel info: Linux 2.6.32-358.6.2.el6.x86_64 x86_64
Any thoughts on how to proceed? Thanks!
Michael
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Zeke,
I am also having this same problem. Even after completing the steps you listed above. I am running Ubuntu 12.04.
Any suggetions?
Thanks
On Wed, May 28, 2014 at 1:50 PM, Z K zkaufman@nmr.mgh.harvard.edu wrote:
You will need to install libboost v1.41 onto your system. You should be able to install it using yum:
$>yum install boost-devel
However, its possible that the version you get thru this method may be incompatible with the version required by freesurfer. If the above does not fix your issue, then download libboost (http://www.boost.org/users/history/version_1_41_0.html) and untar it. Then:
cd libboost_folder mkdir libraries ./bootstrap.sh --prefix=./libraries ./bjam install cd libraries/lib ln -s libboost_program_options.so.1.41.0 libboost_program_options.so.5 export
LD_LIBRARY_PATH=.../boost_temp/boost_1_41_0/libraries/lib:$LD_LIBRARY_PATH
Hope this helps and feel free to contact me if your having issues getting it to work.
-Zeke
On 05/28/2014 12:17 PM, Michael Waskom wrote:
Hi, I had mri_cvs_register die on me when it couldn't find a shared library. Relevant bit is (full log is attached):
mris_resample: error while loading shared libraries: libboost_program_options.so.5: cannot open shared object file: No such file or directory
Freesurfer bugr info:
FREESURFER_HOME: /hsgs/software/freesurfer/5.3.0
Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
RedHat release: Red Hat Enterprise Linux Server release 6.3 (Santiago)
Kernel info: Linux 2.6.32-358.6.2.el6.x86_64 x86_64
Any thoughts on how to proceed? Thanks!
Michael
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.
Hi Corinna,
Its been awhile since Ive used Ubuntu12.04. Infact its End of Life date is 3 days away ;)
Can you please send me the command and the log file which gives the exact error. Thanks.
-Zeke
On 04/25/2017 01:49 PM, Corinna Bauer wrote:
Hi Zeke,
I am also having this same problem. Even after completing the steps you listed above. I am running Ubuntu 12.04.
Any suggetions?
Thanks
On Wed, May 28, 2014 at 1:50 PM, Z K <zkaufman@nmr.mgh.harvard.edu mailto:zkaufman@nmr.mgh.harvard.edu> wrote:
You will need to install libboost v1.41 onto your system. You should be able to install it using yum: $>yum install boost-devel However, its possible that the version you get thru this method may be incompatible with the version required by freesurfer. If the above does not fix your issue, then download libboost (http://www.boost.org/users/history/version_1_41_0.html <http://www.boost.org/users/history/version_1_41_0.html>) and untar it. Then: >cd libboost_folder >mkdir libraries >./bootstrap.sh --prefix=./libraries >./bjam install >cd libraries/lib > ln -s libboost_program_options.so.1.41.0 libboost_program_options.so.5 >export LD_LIBRARY_PATH=.../boost_temp/boost_1_41_0/libraries/lib:$LD_LIBRARY_PATH Hope this helps and feel free to contact me if your having issues getting it to work. -Zeke On 05/28/2014 12:17 PM, Michael Waskom wrote: > Hi, I had mri_cvs_register die on me when it couldn't find a shared > library. Relevant bit is (full log is attached): > > mris_resample: error while loading shared libraries: > libboost_program_options.so.5: cannot open shared object file: No such > file or directory > > Freesurfer bugr info: > > -------------------- > > FREESURFER_HOME: /hsgs/software/freesurfer/5.3.0 > > Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 > > RedHat release: Red Hat Enterprise Linux Server release 6.3 (Santiago) > > Kernel info: Linux 2.6.32-358.6.2.el6.x86_64 x86_64 > > ---------------------- > > Any thoughts on how to proceed? Thanks! > > Michael > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <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 <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 comman was mri_cvs_register --mov MAE_06072013 --mni (because labels in MNI space were mapping incorrectly to subject space -- see this thread https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg52786.html )
The log is attached. I killed the command once I saw the errors.
Thanks!
Corinna
On Tue, Apr 25, 2017 at 2:46 PM, Z K zkaufman@nmr.mgh.harvard.edu wrote:
Hi Corinna,
Its been awhile since Ive used Ubuntu12.04. Infact its End of Life date is 3 days away ;)
Can you please send me the command and the log file which gives the exact error. Thanks.
-Zeke
On 04/25/2017 01:49 PM, Corinna Bauer wrote:
Hi Zeke,
I am also having this same problem. Even after completing the steps you listed above. I am running Ubuntu 12.04.
Any suggetions?
Thanks
On Wed, May 28, 2014 at 1:50 PM, Z K <zkaufman@nmr.mgh.harvard.edu mailto:zkaufman@nmr.mgh.harvard.edu> wrote:
You will need to install libboost v1.41 onto your system. You shouldbe
able to install it using yum: $>yum install boost-devel However, its possible that the version you get thru this method maybe
incompatible with the version required by freesurfer. If the abovedoes
not fix your issue, then download libboost (http://www.boost.org/users/history/version_1_41_0.html <http://www.boost.org/users/history/version_1_41_0.html>) and untar it. Then: >cd libboost_folder >mkdir libraries >./bootstrap.sh --prefix=./libraries >./bjam install >cd libraries/lib > ln -s libboost_program_options.so.1.41.0 libboost_program_options.so.5 >export LD_LIBRARY_PATH=.../boost_temp/boost_1_41_0/libraries/lib:$LD_LIBRARY_PATH
Hope this helps and feel free to contact me if your having issues getting it to work. -Zeke On 05/28/2014 12:17 PM, Michael Waskom wrote: > Hi, I had mri_cvs_register die on me when it couldn't find a shared > library. Relevant bit is (full log is attached): > > mris_resample: error while loading shared libraries: > libboost_program_options.so.5: cannot open shared object file: Nosuch
> file or directory > > Freesurfer bugr info: > > -------------------- > > FREESURFER_HOME: /hsgs/software/freesurfer/5.3.0 > > Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 > > RedHat release: Red Hat Enterprise Linux Server release 6.3(Santiago)
> > Kernel info: Linux 2.6.32-358.6.2.el6.x86_64 x86_64 > > ---------------------- > > Any thoughts on how to proceed? Thanks! > > Michael > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <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 <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@nmr.mgh.harvard.edu
-
Corinna Bauer -
Michael Waskom -
Z K