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Hi, I'm bumping this up to see if anyone might have a solution. Thanks, Chris On Fri, Dec 28, 2018 at 10:54 AM Chris Watson <[log in to unmask]> wrote: > Thanks. I installed the patch, but see another error that I suspected > might happen: > split_parts_gpu: /lib64/libc.so.6: version `GLIBC_2.14' not found > (required by split_parts_gpu) > > As far as I know, there isn't a "safe" way to upgrade glibc since many > other programs could break. Do I have to do a manual install (into e.g. > /usr/local) and then point LD_LIBRARY_PATH there? > > Chris > > On Fri, Dec 28, 2018 at 6:52 AM Matthew Webster < > [log in to unmask]> wrote: > >> Hi Chris, >> There is a bug in the 6.0.0 version of bedpostx_gpu ( actually in >> xfibres_gpu ). The upcoming patch ( FSL6.0.1) will have a fixed binary, but >> until then Moises has generated a patch ( see below for details ): >> >> >> Hi Mina, >> A version for FSL 6.x is now available. >> You can find the files here (FSL 6.x FILES): >> https://users.fmrib.ox.ac.uk/~moisesf/Bedpostx_GPU/Installation.html >> >> Same for probtrackx_gpu: >> https://users.fmrib.ox.ac.uk/~moisesf/Probtrackx_GPU/Installation.html >> >> This should solve that problem, but let me know if it doesn't. >> Thanks, >> Moises. >> >> >> Hope this helps, >> Kindest Regards >> Matthew >> -------------------------------- >> Dr Matthew Webster >> FMRIB Centre >> John Radcliffe Hospital >> University of Oxford >> >> On 28 Dec 2018, at 04:38, Chris Watson <[log in to unmask]> wrote: >> >> Hi Moises et al., >> I am trying to run "bedpostx_gpu", yet it finishes pretty quickly with an >> error. I have successfully run "eddy_cuda" on the same system. >> >> The error message (in dwi.bedpostX/logs/bedpostx_gpu.eXXXX.1) is some >> variant of: >> "/bin/sh: line 1: 4320 Segmentation fault (core dumped)" >> and then the command for "xfibres_gpu" follows. >> In "/var/log/messages", I see e.g. (note the "..." are added by me) >> >> kernel: xfibres_gpu[4320]: segfault at 0 ip 00000035a2c897f2 sp >> 00007ffd0657d358 error 4 in libc-2.12.so[35a2c00000+18b000] >> abrt[4328]: Saved core dump of pid 4320 to /var/spool/abrt/ccpp-2018... >> abrtd: Directory 'ccpp-2018...' creation detected >> abrtd: Executable '/parietal/fsl/fsl-6.0.0/bin/xfibres_gpu' doesn't >> belong to any package and ProcessUnpackaged is set to 'no' >> abrtd: 'post-create' on '/var/spool/abrt/ccpp-2018...' exited with 1 >> abrtd: Deleting problem directory '/var/spool/abrt/ccpp-2018...' >> >> Here is some system info: >> OS: CentOS 6.10 (64-bit) >> Kernel: 2.6.32-754.6.3 >> Graphics card: NVIDIA GF100GL (Quadro 4000) >> Kernel driver: kmod-nvidia-390.87-1.el6_10.elrepo.x86_64 >> CUDA version: 7.5-18.x86_64 >> FSL v6.0.0 >> >> I ran "bedpostx_gpu" with the verbose flag, but no additional info was >> provided. >> "ldd $FSLDIR/bin/xfibres_gpu" does not show any errors. Same with >> "libbedpostx_cuda.so", "merge_parts_gpu", "split_parts_gpu". >> >> Could this be a problem related to "glibc"? It is v2.12-1.212.el6, which >> is the current version for CentOS 6. >> I am happy to give more information if necessary. Thanks, >> Chris >> >> ------------------------------ >> >> To unsubscribe from the FSL list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 >> >> >> >> ------------------------------ >> >> To unsubscribe from the FSL list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 >> > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1