Hi Gerald,
I installed gcc11 myself from source.
Dave, I will try to install again from a clean Git repo to a clean
directory to see if maybe something got mixed up before.
-Dan
On Wed, May 26, 2021 at 10:07 PM Gerald Monard <gerald.monard.gmail.com>
wrote:
> Hello,
>
> ldd libcpptraj.so points to /lib64/libstdc++.so.6.
>
> .Dan: how do you get gcc-11? On my container, this is gcc 10.2.1 with
> Fedora 33.
>
> Best,
>
> Gerald.
>
> On Wed, May 26, 2021 at 10:01 PM David A Case <david.case.rutgers.edu>
> wrote:
>
> > On Fri, May 21, 2021, Dan Roe wrote:
> >
> > >Fedora 33 Gcc 11 (cmake, serial+openmp) builds fine. Built using:
> > >
> > >Almost all AT tests pass. However, there is an error when trying to
> > >import pytraj. It seems that libcpptraj.so gets linked to the
> > >libstdc++ from miniconda, and that requires a much higher version of
> > >glibc (3.4.29) than what ships with fedora 33 (2.32). Note that this
> > >happens with "configure" as well so it's not a cmake problem:
> > >
> > >```
> > >$ amber.python
> > >>>> import pytraj as pt
> >
> > >ImportError:
> >
> /home/droe/amber/GIT/amber20_src/build/CMakeFiles/miniconda/install/lib/libstdc++.so.6:
> > >version `GLIBCXX_3.4.29' not found (required by
> >
> >
> >/home/droe/amber/GIT/amber20_src/build/AmberTools/src/cpptraj/src/libcpptraj.so)
> >
> > Dan (Gerald): can you cd to amber20_src/build/AmberTools/src/cpptraj/src/
> > and type "ldd libcpptraj.so"? Does it point to a miniconda libstdc++?
> On
> > my Ubunutu machines, it points to the libstdc++ in /usr/lib.
> >
> > pytraj seems to work fine on Gerald's Fedora container, so maybe seeing
> > what
> > ldd reports there might be a start.
> >
> > ...thanks...dave
> >
> >
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> >
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Received on Thu May 27 2021 - 12:00:02 PDT
