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jianhuupenn / TESLA

Deciphering tumor ecosystems at super-resolution from spatial transcriptomics with TESLA
MIT License
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GLIBCXX Error when installing #17

Open Jorges1000 opened 2 months ago

Jorges1000 commented 2 months ago

Hi,

I tried to install Tesla on a ubuntu system a got the following error:

ImportError: /usr/lib/x86_64-linux-gnu/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/myusername/.local/share/r-miniconda/envs/SCP_env/lib/python3.8/site-packages/cv2.cpython-38-x86_64-linux-gnu.so)`

Here are the relevant libraries:

locate libstdc++.so.6 /home/myusername/.local/share/r-miniconda/envs/SCP_env/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/envs/SCP_env/lib/libstdc++.so.6.0.32 /home/myusername/.local/share/r-miniconda/envs/SpatialDDLS-env/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/envs/SpatialDDLS-env/lib/libstdc++.so.6.0.32 /home/myusername/.local/share/r-miniconda/envs/r-reticulate/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/envs/r-reticulate/lib/libstdc++.so.6.0.32 /home/myusername/.local/share/r-miniconda/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/lib/libstdc++.so.6.0.29 /home/myusername/.local/share/r-miniconda/pkgs/libstdcxx-ng-11.2.0-h1234567_1/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/pkgs/libstdcxx-ng-11.2.0-h1234567_1/lib/libstdc++.so.6.0.29 /home/myusername/.local/share/r-miniconda/pkgs/libstdcxx-ng-13.2.0-h7e041cc_5/lib/libstdc++.so.6 /home/myusername/.local/share/r-miniconda/pkgs/libstdcxx-ng-13.2.0-h7e041cc_5/lib/libstdc++.so.6.0.32

echo $LD_LIBRARY_PATH /shared/apps/anaconda3/2020.11/lib:/opt/slurm/lib:/shared/apps/R/4.3.1/lib/R/lib:/shared/apps/R/4.3.1/lib:/lib:/usr/local/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-11-openjdk-amd64/lib/server

Is there a quick fix?

jianhuupenn commented 2 months ago

Thanks for your interest in TESLA. I haven't come across this error. However, I find a potential quick solution here: https://askubuntu.com/questions/1166292/version-glibcxx-3-4-26-not-found-even-though-libstdc-so-6-recent-enough Installing libstdc++6 and gcc-9 helped me. Hope it will help you too.

sudo add-apt-repository ppa:ubuntu-toolchain-r/test
sudo apt update
sudo apt install gcc-9
sudo apt install libstdc++6

Hope this helps.