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  • Bug#1103579: coot: autopkgtest regression: ImportError

    From Chris Hofstaedtler@21:1/5 to All on Sat Apr 19 13:20:01 2025
    Source: coot
    Version: 1.1.15+dfsg-1
    Severity: serious
    X-Debbugs-Cc: [email protected]
    Control: affects -1 src:rdkit

    coot's autopkgtests fail with rdkit 202503.1-2:

    https://ci.debian.net/packages/c/coot/testing/amd64/60162582/

    76s Traceback (most recent call last):
    76s File "<frozen runpy>", line 198, in _run_module_as_main
    76s File "<frozen runpy>", line 88, in _run_code
    76s File "/usr/lib/python3/dist-packages/coot/pyrogen.py", line 38, in <module>
    76s import pyrogen_swig as pysw # relies on above rdkit.Chem import AllChem (but ideally should not)
    76s ^^^^^^^^^^^^^^^^^^^^^^^^^^^
    76s File "/usr/lib/python3/dist-packages/coot/pyrogen_swig.py", line 12, in <module>
    76s import _pyrogen_swig
    76s ImportError: /usr/lib/x86_64-linux-gnu/coot/libcoot-lidia-core.so.0: undefined symbol: _ZN5RDKit6MolOps5addHsERKNS_5ROMolEbbPKSt6vectorIjSaIjEEb

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  • From Debian Bug Tracking System@21:1/5 to All on Sat Apr 19 13:20:01 2025
    Processing control commands:

    affects -1 src:rdkit
    Bug #1103579 [src:coot] coot: autopkgtest regression: ImportError
    Added indication that 1103579 affects src:rdkit

    --
    1103579: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1103579
    Debian Bug Tracking System
    Contact [email protected] with problems

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  • From Paul Gevers@21:1/5 to Chris Hofstaedtler on Thu Apr 24 13:10:01 2025
    To: [email protected] (Andrius Merkys)
    Copy: [email protected]
    Copy: [email protected]

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  • From Debian Bug Tracking System@21:1/5 to All on Fri Apr 25 08:00:01 2025
    This is a multi-part message in MIME format...

    Your message dated Fri, 25 Apr 2025 07:52:53 +0200
    with message-id <[email protected]>
    and subject line Re: Bug#1103579: coot: autopkgtest regression: ImportError
    has caused the Debian Bug report #1103579,
    regarding coot: autopkgtest regression: ImportError
    to be marked as done.

    This means that you claim that the problem has been dealt with.
    If this is not the case it is now your responsibility to reopen the
    Bug report if necessary, and/or fix the problem forthwith.

    (NB: If you are a system administrator and have no idea what this
    message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact [email protected]
    immediately.)


    --
    1103579: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1103579
    Debian Bug Tracking System
    Contact [email protected] with problems

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