GNU bug report logs - #59512
gtk-4.8.1 grafting fails

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

From: Marek Paśnikowski <marekpasnikowski <at> protonmail.com>
To: "bug-guix <at> gnu.org" <bug-guix <at> gnu.org>
Subject: gtk-4.8.1 grafting fails
Date: Wed, 23 Nov 2022 09:55:13 +0000

Evidence:

applying 20 grafts for gtk-4.8.1 ...
grafting '/gnu/store/vgm4f5k65kn6nwdlhziwzlgc0pli18d7-gtk-4.8.1-bin' -> '/gnu/store/ar0qphva0q53vavqqihgi4pq46f4z1z4-gtk-4.8.1-bin'...
grafting '/gnu/store/vp4ybqhxdrf4b2fk37c0s72g6iafqsmz-gtk-4.8.1-doc' -> '/gnu/store/7hfq1hbhfsmzjil433cjd8mngvxd05xv-gtk-4.8.1-doc'...
ERROR: In procedure fport_fill_input: Input/output error
builder for `/gnu/store/f8sjy3w9c1a9cdndkvflpbqnic7rik8g-gtk-4.8.1.drv' failed with exit code 1

Workaround:

guix system reconfigure --no-grafts

Message #8 received at 59512 <at> debbugs.gnu.org (full text, mbox):

From: Ludovic Courtès <ludo <at> gnu.org>
To: Marek Paśnikowski <marekpasnikowski <at> protonmail.com>
Cc: 59512 <at> debbugs.gnu.org
Subject: Re: bug#59512: gtk-4.8.1 grafting fails
Date: Mon, 28 Nov 2022 21:36:46 +0100

Hi,

Marek Paśnikowski <marekpasnikowski <at> protonmail.com> skribis:

> grafting '/gnu/store/vp4ybqhxdrf4b2fk37c0s72g6iafqsmz-gtk-4.8.1-doc' -> '/gnu/store/7hfq1hbhfsmzjil433cjd8mngvxd05xv-gtk-4.8.1-doc'...
> ERROR: In procedure fport_fill_input: Input/output error

This indicates an error while writing to your storage device, which
could be due to a failing device.

Does /var/log/messages contains hints of input/output errors?

> guix system reconfigure --no-grafts

Note that the effect of this is that important security updates will be
missing.  This is not recommended.

Thanks,
Ludo’.

Message #11 received at 59512 <at> debbugs.gnu.org (full text, mbox):

From: Marek Paśnikowski <marekpasnikowski <at> protonmail.com>
To: 59512 <at> debbugs.gnu.org
Subject: Re: bug#59512: gtk-4.8.1 grafting fails
Date: Tue, 29 Nov 2022 12:37:32 +0000

------- Original Message -------
On poniedziałek, 28 listopada 2022 21:36, Ludovic Courtès <ludo <at> gnu.org> wrote:


>
>
> Hi,
>
> Marek Paśnikowski marekpasnikowski <at> protonmail.com skribis:
>
> > grafting '/gnu/store/vp4ybqhxdrf4b2fk37c0s72g6iafqsmz-gtk-4.8.1-doc' -> '/gnu/store/7hfq1hbhfsmzjil433cjd8mngvxd05xv-gtk-4.8.1-doc'...
> > ERROR: In procedure fport_fill_input: Input/output error
>
>
> This indicates an error while writing to your storage device, which
> could be due to a failing device.
>
> Does /var/log/messages contains hints of input/output errors?

Yes, there is one node with a wrong checksum. On the internet I found [[https://forums.unraid.net/topic/92704-solved-btrfs-csum-error/][a matching topic on Unraid Forum]].

I checked RAM with Memtest (it passed) and then identified the
broken file.  So far, I think I got "lucky" and had a "cosmic ray"
kind of event - I do remember a single failure of resume-from-suspend some time ago.

I should be able to heal the system by deleting the bit-flipped
file and reinstalling gtk.  Does Guix have the ability to remove or
rewrite a specific file in its store?  The file is rooted in the
system configuration - not in a profile.

Thank you for your help.  I would also like to suggest a tweak to
the error message - to make the file system failure more obvious.

Message #16 received at 59512-done <at> debbugs.gnu.org (full text, mbox):

From: Ludovic Courtès <ludo <at> gnu.org>
To: Marek Paśnikowski <marekpasnikowski <at> protonmail.com>
Cc: 59512-done <at> debbugs.gnu.org
Subject: Re: bug#59512: gtk-4.8.1 grafting fails
Date: Fri, 02 Dec 2022 14:15:47 +0100

Hi,

Marek Paśnikowski <marekpasnikowski <at> protonmail.com> skribis:

> I should be able to heal the system by deleting the bit-flipped
> file and reinstalling gtk.  Does Guix have the ability to remove or
> rewrite a specific file in its store?  The file is rooted in the
> system configuration - not in a profile.

‘guix gc --verify=repair’ can do that, but only for items that are
substitutable (grafts are not substitutable).

Closing the bug, thanks!

Ludo’.

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