Question 254976 in Ubuntu Question posted in
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Ubuntu – GLIBC_2.35' not found (required by /tmp/_MEIqx6YRS/libpython3.10.so.1.0)

my command ./orthofinder -f /folder

Full error: [28887] Error loading Python lib '/tmp/_MEIqx6YRS/libpython3.10.so.1.0': dlopen: /lib/x86_64-linux-gnu/libm.so.6: version GLIBC_2.35' not found (required by /tmp/_MEIqx6YRS/libpython3.10.so.1.0)

I am trying to run a command line (orthofinder) but I get this error constantly. I have searched online for potential answers but nothing seems to work for me.
My GLIBC version is 2.27 and I know that the requirement apparently should be 3.35.

ldd --version 
ldd (Ubuntu GLIBC 2.27-3ubuntu1.6) 2.27

However in another PC that I have tried it with GLIBC 2.31 it works perfectly.
Moreover,
sudo apt update or sudo apt upgrade do not seem to help either since the version of GLIBC doesn’t change. Also I have installed the latest version of python too, but I dont know how relevant is this. The Ubuntu version that I have is the following:

Linux Mint 19 "Tara," which is based on Ubuntu 18.04 LTS "Bionic Beaver."

So does anyone can help with this problem? I would really appreciate any help on this.

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2

Answers


  1. Chosen as BEST ANSWER
    0

    Hi and thanks for your replies and sorry for this late answer.

    I figured out the problem by changing to an earliest version of Orthofinder. It is recommended in their github account (https://github.com/davidemms/OrthoFinder). So I would suggest that since by upgrading or downgrading GLIBC it can be apparently quite problematic. Thanks a lot. I found a relative question and answer in this post (https://github.com/davidemms/OrthoFinder/issues/305).


  2. 0

    My GLIBC version is 2.27 and I know that the requirement apparently should be 3.35.

    Correct.

    However in another PC that I have tried it with GLIBC 2.31 it works perfectly.

    Note that the version requirement doesn’t come from the orthofinder binary; it comes from libpython3.10.so.1.0 that it uses.

    I don’t know the origin of /tmp/_MEIqx6YRS/libpython3.10.so.1.0, but on the GLIBC-2.31 system your binary must use a different libpython3.10.so.1.0 or it would have had the same problem.

    The /tmp/... path suggests that that libpython3.10.so.1.0 may be embedded into the orthofinder binary itself. Are you sure you are using the same orthofinder binary on both systems?

    sudo apt upgrade do not seem to help either since the version of GLIBC

    It is usual for the apt upgrade etc. to never update GLIBC major.minor version, because doing so can cause all kinds of failures.

    Also I have installed the latest version of python too

    The /tmp/_MEIqx6YRS/libpython3.10.so.1.0 isn’t coming from system Python; it’s coming from somewhere else.

    The orthofinder might be an open-source program (this one?).

    If so, your best solution is to build it yourself on your system.

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