GNU bug report logs - #79263
guix guix-science channels : built incompatibilties

Previous Next

To reply to this bug, email your comments to 79263 AT debbugs.gnu.org.
There is no need to reopen the bug first.

Toggle the display of automated, internal messages from the tracker.

Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Arnaud Mounier <arnaud.mounier <at> ube.fr>
To: bug-guix <at> gnu.org
Subject: guix guix-science channels : built incompatibilties
Date: Mon, 18 Aug 2025 15:48:19 +0200

[Message part 1 (text/plain, inline)]

Hi,

I recently install Guix on a GNU/Linux Debian Bookworm on a separate 
partion /gnu. I upgrade to Debian Trixie right now and after that I try 
to upgrade my Guix foreign distro install.

What I have done, after Trixie update :
1. $> sudo -i guix pull
2. $> guix pull

after that I want to update packages ($>guix package -u) but I can't yet.

The first "guix pull" work fine but not the second one.

I'm asking if it's the right way to update guix within a foreign distro.
Here is the result of the "guix pull" with my user :

> ❯ guix pull
> Mise à jour du canal « guix-science » depuis le dépôt Git « https://codeberg.org/guix-science/guix-science.git »...
> Mise à jour du canal « guix » depuis le dépôt Git « https://git.guix.gnu.org/guix.git »...
> Construction depuis ces canaux :
>   guix-sciencehttps://codeberg.org/guix-science/guix-science.git	7bbff91
>   guix      https://git.guix.gnu.org/guix.git	ef6b7bf
> Computing Guix derivation for 'x86_64-linux'... |warning: 'youtube-dl' is deprecated, use 'yt-dlp' instead
> /
> substitute: mise à jour des substituts depuis « https://ci.guix.gnu.org »... 100.0 %
> La dérivation suivante sera compilée :
>   /gnu/store/iidk170dicniy40czi9ldvzqm1slziff-profile.drv
> 
> construction du cache des paquets…
> -builder for `/gnu/store/hn41v25h4b1bmy9jihxhr00smaizg8vy-guix-package-cache.drv' failed to produce output path `/gnu/store/3lkzw6msnry9cwlbvazjss27af37fn34-guix-package-cache'
> la compilation de /gnu/store/hn41v25h4b1bmy9jihxhr00smaizg8vy-guix-package-cache.drv a échoué
> conseil : Cela indique généralement un bogue dans l'un des canaux que vous tirez (pull), ou une incompatibilité entre eux.  Vous pouvez consulter le log généré et rapporter le problème aux développeurs du canal.
> 
> Les canaux que vous tirez sont : guix-science guix.
> 
> Vous trouverez le journal de compilation dans « /var/log/guix/drvs/hn/41v25h4b1bmy9jihxhr00smaizg8vy-guix-package-cache.drv.gz ».
> cannot build derivation `/gnu/store/iidk170dicniy40czi9ldvzqm1slziff-profile.drv': 1 dependencies couldn't be built
> guix pull: erreur : build of `/gnu/store/iidk170dicniy40czi9ldvzqm1slziff-profile.drv' failed

And the backtrace :

> ❯ zcat /var/log/guix/drvs/hn/41v25h4b1bmy9jihxhr00smaizg8vy-guix-package-cache.drv.gz
> (repl-version 0 1 1)
> Generating package cache for '/gnu/store/jy4cpng62x8kqjb3py2iw0zvl7w1cjca-profile'...
> 
> Backtrace:
> In guix/repl.scm:
>     141:4 19 (machine-repl _ _)
>     126:7 18 (_)
> In ice-9/boot-9.scm:
>   1747:15 17 (with-exception-handler #<procedure 7fffedf75f90 at ic…> …)
>   1752:10 16 (with-exception-handler _ _ #:unwind? _ # _)
> In guix/repl.scm:
>     99:21 15 (_)
> In unknown file:
>           14 (_ #<procedure 7fffedf70960 at guix/repl.scm:100:25 ()> …)
>           13 (primitive-load "/gnu/store/r5jydxgp5y16n0l7zi1znf5d1nj…")
> In ice-9/boot-9.scm:
>   1752:10 12 (with-exception-handler _ _ #:unwind? _ # _)
> In gnu/packages.scm:
>    466:11 11 (generate-package-cache _)
> In srfi/srfi-1.scm:
>    460:18 10 (fold #<procedure expand-cache expr> _ _)
> In gnu/packages.scm:
>    426:37  9 (expand-cache . _)
> In guix/packages.scm:
>   1444:17  8 (supported-package? #<package python-jupyterlab <at> 4.3.4 …> …)
> In guix/memoization.scm:
>     101:0  7 (_ #<hash-table 7ffff78187a0 23941/28099> #<package py…> …)
> In guix/packages.scm:
>   1422:39  6 (_)
>   1692:16  5 (package->bag _ _ _ #:graft? _)
>   1796:47  4 (thunk)
> In guix-science/packages/jupyter.scm:
>    105:11  3 (native-inputs #<package python-jupyterlab <at> 4.3.4 guix-s…>)
> In ice-9/boot-9.scm:
>   1685:16  2 (raise-exception _ #:continuable? _)
>   1780:13  1 (_ #<&compound-exception components: (#<&undefined-vari…>)
> In unknown file:
>            0 (backtrace #<undefined>)
> 
> (exception unbound-variable (value #f) (value "Unbound variable: ~S") (value (nss-certs-for-test)) (value #f))

Thank's a lot,
arnome


-- 
« Quand les hommes considèrent certaines situations comme réelles, elles 
sont réelles dans leur conséquence. »
Le théorème de Thomas.

..: Arnaud Mounier • Informaticien :..

UMR 6298 ARTEHIS - Archéologie, Terre, Histoire et Sociétés
Bâtiment Sciences Gabriel
6, Boulevard Gabriel
21000 Dijon
Téléphone : 0 380 393 622

[OpenPGP_signature.asc (application/pgp-signature, attachment)]

Message #10 received at 79263-done <at> debbugs.gnu.org (full text, mbox):

From: Andreas Enge <andreas <at> enge.fr>
To: Arnaud Mounier <arnaud.mounier <at> ube.fr>
Cc: 79263-done <at> debbugs.gnu.org
Subject: Re: guix guix-science channels : built incompatibilties
Date: Mon, 18 Aug 2025 17:10:24 +0200

Hello,

and thanks for your report!

This is also handled on codeberg, and actually an issue with the
guix-science channel:
   https://codeberg.org/guix-science/guix-science/issues/157
after we made a change in Guix.

This should be fixed now, and you should be able to do a
"guix pull" again.

Andreas

Message #13 received at 79263-done <at> debbugs.gnu.org (full text, mbox):

From: Arnaud Mounier <arnaud.mounier <at> ube.fr>
To: Andreas Enge <andreas <at> enge.fr>
Cc: 79263-done <at> debbugs.gnu.org
Subject: Re: guix guix-science channels : built incompatibilties
Date: Tue, 19 Aug 2025 08:43:38 +0200

[Message part 1 (text/plain, inline)]

Hello Andreas,

Many thanks for this prompt reaction. It works fine now, and the pull 
and package update commands ended successfully. You can close this bug.

I still have one question on the update process of Guix on a foreign 
distro. Here's what I attempted to do:

1. <user <at> fd>$> sudo -i guix pull
2. <user <at> fd>$> guix pull
3. <user <at> fd>$> guix package -u

Is it the right way to do it, or do I just need the last 2 commands? 
Should I add a point between 1 and 2 with this command?
<user>$>sudo -i guix package -u

Please excuse me if it's not the right way to ask this kind of unrelated 
bug question. If so, do you know where I can ask it?

Regards,
arnome

Le 18/08/2025 à 17:10, Andreas Enge a écrit :
> Hello,
> 
> and thanks for your report!
> 
> This is also handled on codeberg, and actually an issue with the
> guix-science channel:
>     https://codeberg.org/guix-science/guix-science/issues/157
> after we made a change in Guix.
> 
> This should be fixed now, and you should be able to do a
> "guix pull" again.
> 
> Andreas
> 

-- 
« Quand les hommes considèrent certaines situations comme réelles, elles 
sont réelles dans leur conséquence. »
Le théorème de Thomas.

..: Arnaud Mounier • Informaticien :..

UMR 6298 ARTEHIS - Archéologie, Terre, Histoire et Sociétés
Bâtiment Sciences Gabriel
6, Boulevard Gabriel
21000 Dijon
Téléphone : 0 380 393 622

[OpenPGP_signature.asc (application/pgp-signature, attachment)]

Previous Next

GNU bug tracking system
Copyright (C) 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson.