Hi!
I updated AFNI om my ubuntu 18 machine:
Precompiled binary linux_openmp_64: Feb 14 2020 (Version AFNI_20.0.09 'Galba')
I ran
afni_system_check -check_all
And ran into some expected problems (like an R-package missing due to, I presume, new functionality). But the real problem here are these errors:
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : FAILURE
3dSkullStrip: error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory
uber_subject.py : success
3dAllineate : success
3dRSFC : FAILURE
3dRSFC: error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory
SurfMesh : success
3dClustSim : success
3dMVM : success
I.e. the problem is libgsl.so.0. It also complained about libxp6 but I could fix that (sudo -E apt-get install libxp6).
I found a post on the message board
here which suggested to install the GNU Science Toolbox via
sudo -E apt-get install libgsl0ldbl
But that command tells me that
However the following packages replace it:
libgsl23 libgslcblas0:i386 libgsl23:i386 libgslcblas0
E: Package 'libgsl0ldbl' has no installation candidate
And libgsl23 is already installed. I don't seem to have the libgsl.so.0 file. This is the content:
ls /usr/lib/x86_64-linux-gnu/libgsl*
/usr/lib/x86_64-linux-gnu/libgslcblas.so.0 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 /usr/lib/x86_64-linux-gnu/libgsl.so.19 /usr/lib/x86_64-linux-gnu/libgsl.so.23 /usr/lib/x86_64-linux-gnu/libgsl.so.23.0.0
I exported this variable so that AFNI sees
LD_LIBRARY_PATH = /usr/lib/x86_64-linux-gnu/
And I ran according the installation guide:
sudo ln -s /usr/lib/x86_64-linux-gnu/libgsl.so.23 /usr/lib/x86_64-linux-gnu/libgsl.so.19
But nothing seems to help. Google confuses me since all posts assume that you have the libgsl.so.0 file.
Any ideas?! Thanks!
Edited 1 time(s). Last edit at 02/18/2020 04:47AM by Robin.
