[CI] ELF load command address/offset not properly aligned

[hcho3]

https://buildkite.com/xgboost/xgboost-ci/builds/2318#0187b326-d760-4d4d-9dc0-15a31faf3dcd

    raise XGBoostError(
E   xgboost.core.XGBoostError:
E   XGBoost Library (libxgboost.so) could not be loaded.
E   Likely causes:
E     * OpenMP runtime is not installed
E       - vcomp140.dll or libgomp-1.dll for Windows
E       - libomp.dylib for Mac OSX
E       - libgomp.so for Linux and other UNIX-like OSes
E       Mac OSX users: Run `brew install libomp` to install OpenMP runtime.
E
E     * You are running 32-bit Python on a 64-bit OS
E
E   Error message(s): ['libgomp-a34b3233.so.1.0.0: ELF load command address/offset not properly aligned']

[trivialfis]

seems to be flaky? Not reproducible anymore.

[hcho3]

Yeah I couldn't reproduce it on my machine either.

[hcho3]

I found the cause. Patchelf 0.18.0, which came out 2 days ago, is causing ELF load command error. The cause is yet unknown.

• 0.18.0.0 seems to cause misaligned sections mayeut/patchelf-pypi#87
• ELF load command address/offset not properly aligned NixOS/patchelf#492
• Revert patchelf update pypa/manylinux#1481

The Docker image quay.io/pypa/manylinux2014_x86_64 is re-built once in every few days, and the image produced on April 24 contained the buggy Patchelf 0.18.0.

The bug is not active now, as the latest quay.io/pypa/manylinux2014_x86_64 image uses Patchelf 0.17.2.

[hcho3]

Closing for now. I will keep monitoring NixOS/patchelf#492 and mayeut/patchelf-pypi#87 closely for the next few days.