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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Received on Wed May 26 2021 - 06:30:02 PDT
