xbps-update -Su error on python3-pycparser-2.19_3

[p2501mk]

Regular morning xbps-update -Su errors out on above mentioned package.

System

• xuname:
  Void 5.8.12_2 x86_64 GenuineIntel notuptodate rrFFFF
• package:
  python3-pycparser-2.19_3

Expected behavior

update running smoothly

Actual behavior

[*] Updating repository https://alpha.de.repo.voidlinux.org/current/x86_64-repodata' ...
[*] Updating repository `https://alpha.de.repo.voidlinux.org/current/nonfree/x86_64-repodata' ...

Name Action Version New version Download size
fontmanager update 0.7.7_1 0.7.9_1 -
libgexiv2 update 0.12.0_2 0.12.1_1 -
libxkbcommon update 0.10.0_1 1.0.1_1 -
libxkbcommon-x11 update 0.10.0_1 1.0.1_1 -
linux5.8 update 5.8.12_2 5.8.13_1 -
linux5.8-headers update 5.8.12_2 5.8.13_1 -
python3-pip update 20.2.3_1 20.2.3_2 -
python3-setproctitle update 1.1.10_6 1.1.10_7 -
run-parts update 4.11.1_1 4.11.2_1 -
python3-sabyenc3 install - 4.0.2_1 -
python3-cheetah3 install - 3.2.5_1 -
python3-ply install - 3.11_3 -
python3-pycparser install - 2.19_3 -
python3-cffi install - 1.14.3_1 -
python3-cryptography install - 3.1_1 -
python3-feedparser install - 5.2.1_7 -
python3-configobj install - 5.0.6_7 -
python3-more-itertools install - 8.5.0_1 -
python3-jaraco install - 1.0_1 -
python3-jaraco.functools install - 3.0.1_1 -
python3-Cheroot install - 8.3.1_2 -
python3-tempora install - 2.0.0_2 -
python3-portend install - 2.5_3 -
python3-zc.lockfile install - 2.0_3 -
python3-jaraco.classes install - 3.1.0_1 -
python3-jaraco.text install - 3.2.0_1 -
python3-jaraco.collections install - 3.0.0_1 -
python3-CherryPy install - 18.6.0_1 -
python3-notify2 install - 0.3.1_1 -
sabnzbd update 2.3.9_1 3.0.2_1 -
sip update 4.19.24_1 4.19.24_2 -

python3-pycparser-2.19_3: unpacking ...
ERROR: python3-pycparser-2.19_3: [unpack] failed to extract file ./usr/lib/python3.8/site-packages/pycparser/ply': folder not empty

xbps-pkgdb -m hold is not stopping the behavior

[Duncaen]

Any chance you installed some python packages with pip and its now resulting in the file conflict?

[p2501mk]

I've indeed got a ton of packages according to pip list. How do I know which one is causing the conflict?

[Duncaen]

pycparser, but its hard to tell if there are going to be more conflicts.
Generally its better to use pip in virtual envs or as user into the $HOME directory.

I guess you could uninstall all globally installed pip packages and then use xbps-pkgdb -a to see if it removed some files managed by xbps and then reinstall those with xbps-install -f pkgname.

[p2501mk]

Okay thanks, that bit about pip is good to know. I bet I installed something as root.

I was lazy and moved all files in that directory to a tmp one, xbps-update worked after that. Files in that dir got recreated with the update so in the end I don't know what caused the hang.

[Anachron]

Thats why I only install pkgs from non-xbps to a local directory. I do this with python, go, nodejs, ruby etc.

[p2501mk]

I guess I should do the same, then. Thanks for the hint! :3