symbol lookup error: undefined symbol __libc_pthread_init (texmacs)

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4 participants

Josselin Poiret
???
Jonathan Brielmaier
Maxime Devos

Owner: unassigned

Submitted by: Maxime Devos

Severity: normal

Maxime Devos wrote on 1 May 2023 14:38

Recipients:(address . bug-guix@gnu.org)

Message-ID:83ad4ac2-b21e-1df6-2205-d66f3b70c7b6@telenet.be

Hi,

After doing a "guix pull", TeXmacs doesn't start anymore (this is on a 
x86_64 system, and without LD_LIBRARY_PATH):

$ guix --version && guix shell texmacs -- texmacs
hint: Consider installing the `glibc-locales' package and defining 
`GUIX_LOCPATH', along these lines:

      guix install glibc-locales
      export GUIX_LOCPATH="$HOME/.guix-profile/lib/locale"

See the "Application Setup" section in the manual, for more info.

guix (GNU Guix) 3676e312aaf1ce10ed1d7844e871b54e04624098
Copyright (C) 2023 the Guix authors
License GPLv3+: GNU GPL version 3 or later 
http://gnu.org/licenses/gpl.html
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
hint: Consider installing the `glibc-locales' package and defining 
`GUIX_LOCPATH', along these lines:

      guix install glibc-locales
      export GUIX_LOCPATH="$HOME/.guix-profile/lib/locale"

See the "Application Setup" section in the manual, for more info.


(process:20100): Gtk-WARNING **: 14:35:00.637: Locale not supported by C 
library.
         Using the fallback 'C' locale.
texmacs.bin: symbol lookup error: 
/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libpthread.so.0: 
undefined symbol: __libc_pthread_init, version GLIBC_PRIVATE

Greetings,
Maxime.

Attachment: OpenPGP_0x49E3EE22191725EE.asc

Attachment: OpenPGP_signature

Jonathan Brielmaier wrote on 2 May 2023 22:16

Recipients:(address . 63203@debbugs.gnu.org)

Message-ID:6cff6c3d-c33b-69f9-87a1-cc4e4ca2a009@web.de

For me this error doesn't happen when running `guix shell texmacs --

texmacs` but when running `guix shell icedove-wayland -- icedove`.

```

$ guix describe

guix 91bfd30

Repository-URL: https://git.savannah.gnu.org/git/guix.git

Branch: master

Commit: 91bfd30ee3f35dfb7048bf42aea92f939cffbf17

```

The last working version of icedove I have in my guix profile history is:

Generation 117 12. April 2023 10:20:48

+ icedove-wayland 102.10.0 out

/gnu/store/9zkzs288rjpsbkdj352sfmjc8fnf5qlk-icedove-wayland-102.10.0

which refers back to Guix commit

https://git.savannah.gnu.org/cgit/guix.git/commit/?id=3ab983d630a95a29b9418b1ba8a26e5ca2836ec0

After upgrading my system via `sudo -i guix pull` and `sudo -i guix

system reconfigure config.scm`, icedove works again :)

Josselin Poiret wrote on 4 May 2023 10:17

Recipients:

Message-ID:87o7n04ij6.fsf@jpoiret.xyz

Hi Jonathan,

Jonathan Brielmaier <jonathan.brielmaier@web.de> writes:

Toggle quote (22 lines)> For me this error doesn't happen when running `guix shell texmacs --
> texmacs` but when running `guix shell icedove-wayland -- icedove`.
>
> ```
> $ guix describe
>    guix 91bfd30
>      Repository-URL: https://git.savannah.gnu.org/git/guix.git
>      Branch: master
>      Commit: 91bfd30ee3f35dfb7048bf42aea92f939cffbf17
> ```
>
> The last working version of icedove I have in my guix profile history is:
> Generation 117	12. April 2023 10:20:48
>   + icedove-wayland	102.10.0	out
> /gnu/store/9zkzs288rjpsbkdj352sfmjc8fnf5qlk-icedove-wayland-102.10.0
>
> which refers back to Guix commit
> https://git.savannah.gnu.org/cgit/guix.git/commit/?id=3ab983d630a95a29b9418b1ba8a26e5ca2836ec0
>
> After upgrading my system via `sudo -i guix pull` and `sudo -i guix
> system reconfigure config.scm`, icedove works again :)

Does running `guix shell icedove-wayland -- icedove` trigger a texmacs
error, or is it an icedove error?  Icedove and friends dlopen quite a
lot of libraries, and we might've forgot some of them, so they might
leak from somewhere else triggering this problem.  Adding
`LD_DEBUG=libs` to the environment variables might help with finding out
which libs are leaking through.

Also, you don't have to `guix pull` as root, you can just do `sudo
guix system reconfigure config.scm` which will use your user's guix to
reconfigure.

Best,
-- 
Josselin Poiret

Maxime Devos wrote on 5 May 2023 13:21

Recipients:

Message-ID:eecb55d5-8c08-2728-c4b3-37be1e262da3@telenet.be

After doing "guix pull" on my other account, I'm getting the same error 
with icedove:

antipode@antipode ~$ guix shell icedove -- icedove 
(icedove-default:21853): Gtk-WARNING **: 13:03:47.337: Locale not 
supported by C library.
	Using the fallback 'C' locale.
/gnu/store/554lc5hx2lig0h6va9x96fmbj8wd0ymm-profile/bin/icedove: symbol 
lookup error: 
/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libpthread.so.0: 
undefined symbol: __libc_pthread_init, version GLIBC_PRIVATE.

The error appears when adding --pure (both for TeXmacs and Icedove).

As proposed in https://issues.guix.gnu.org/63203#2, I added 
LD_DEBUG=libs (see fake attachement), although I did this for TeXmacs 
instead of icedove:

$ guix shell texmacs coreutils -- env LD_DEBUG=libs texmacs |&tee foo

However, when trying to attach the log, icedove crashes directly after 
pressing the 'Attach' button:

antipode@antipode ~$ guix shell icedove --pure -- icedove
[ Output before pressing Attach ]
hint: Consider installing the `glibc-locales' package and defining 
`GUIX_LOCPATH', along these lines:

      guix install glibc-locales
      export GUIX_LOCPATH="$HOME/.guix-profile/lib/locale"

See the "Application Setup" section in the manual, for more info.

[ImapModuleLoader] Using nsImapService.cpp
[NntpModuleLoader] Using NntpService.jsm
[Pop3ModuleLoader] Using Pop3Service.jsm

(icedove-default:22829): Gtk-WARNING **: 13:11:52.412: Could not load a 
pixbuf from 
/org/gtk/libgtk/icons/16x16/status/window-minimize-symbolic.symbolic.png.
This may indicate that pixbuf loaders or the mime database could not be 
found.
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.412: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.412: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.412: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.412: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.412: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.412: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.412: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.412: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.412: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.413: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.413: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.413: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.413: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.413: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.413: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.413: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.491: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.491: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.491: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.491: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.491: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.491: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.492: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.492: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.492: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
[Parent 22829, Main Thread] WARNING: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): Gdk-CRITICAL **: 13:11:52.492: 
gdk_cairo_surface_create_from_pixbuf: assertion 'GDK_IS_PIXBUF (pixbuf)' 
failed
[Parent 22829, Main Thread] WARNING: g_object_unref: assertion 
'G_IS_OBJECT (object)' failed: 'glib warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): GLib-GObject-CRITICAL **: 13:11:52.492: 
g_object_unref: assertion 'G_IS_OBJECT (object)' failed
Crash Annotation GraphicsCriticalError: |[0][GFX1-]: glxtest: libpci 
missing (t=0.294907) [GFX1-]: glxtest: libpci missing
Crash Annotation GraphicsCriticalError: |[0][GFX1-]: glxtest: libpci 
missing (t=0.294907) |[1][GFX1-]: glxtest: libEGL missing (t=0.294965) 
[GFX1-]: glxtest: libEGL missing
Crash Annotation GraphicsCriticalError: |[0][GFX1-]: glxtest: libpci 
missing (t=0.294907) |[1][GFX1-]: glxtest: libEGL missing (t=0.294965) 
|[2][GFX1-]: glxtest: libGL.so.1 missing (t=0.294971) [GFX1-]: glxtest: 
libGL.so.1 missing
Crash Annotation GraphicsCriticalError: |[0][GFX1-]: glxtest: libpci 
missing (t=0.294907) |[1][GFX1-]: glxtest: libEGL missing (t=0.294965) 
|[2][GFX1-]: glxtest: libGL.so.1 missing (t=0.294971) |[3][GFX1-]: 
glxtest: libEGL missing (t=0.294978) [GFX1-]: glxtest: libEGL missing
Crash Annotation GraphicsCriticalError: |[0][GFX1-]: glxtest: libpci 
missing (t=0.294907) |[1][GFX1-]: glxtest: libEGL missing (t=0.294965) 
|[2][GFX1-]: glxtest: libGL.so.1 missing (t=0.294971) |[3][GFX1-]: 
glxtest: libEGL missing (t=0.294978) |[4][GFX1-]: No GPUs detected via 
PCI (t=0.294993) [GFX1-]: No GPUs detected via PCI
[calBackendLoader] Using Thunderbird's ical.js backend
console.debug: "Found 240 public keys and 2 secret keys (2 protected, 0 
unprotected)"
console.warn: services.settings: Failed to load last_modified.json: 
TypeError: NetworkError when attempting to fetch resource.
console.debug: "Trying to load 
/gnu/store/89jc3lq4ma0bsi78qbqi8yjkq7cps6y9-icedove-102.10.1/lib/icedove/libotr.so"
console.debug: "Trying to load libotr.so from system's standard library 
locations"
console.debug: "Trying to load libotr.so.5 from system's standard 
library locations"
console.debug: "Trying to load libotr.so from system's standard library 
locations"
console.log: (new Error("Cannot load required OTR library", 
"resource:///modules/OTRLib.jsm", 109))
[Parent 22829, Main Thread] WARNING: Failed to connect to proxy: 'glib 
warning', file 
/tmp/guix-build-icedove-minimal-102.10.1.drv-0/icedove-102.10.1/toolkit/xre/nsSigHandlers.cpp:167

(icedove-default:22829): libnotify-WARNING **: 13:11:58.378: Failed to 
connect to proxy

[ Output after pressing Attach ]

(icedove-default:22829): Gtk-WARNING **: 13:12:14.029: Could not find 
the icon 'user-home-symbolic-ltr'. The 'hicolor' theme
was not found either, perhaps you need to install it.
You can get a copy from:
	http://icon-theme.freedesktop.org/releases
**
Gtk:ERROR:../gtk+-3.24.37/gtk/gtkiconhelper.c:495:ensure_surface_for_gicon: 
assertion failed (error == NULL): Failed to load 
/org/gtk/libgtk/icons/16x16/status/image-missing.png: Unrecognized image 
file format (gdk-pixbuf-error-quark, 3)
Bail out! 
Gtk:ERROR:../gtk+-3.24.37/gtk/gtkiconhelper.c:495:ensure_surface_for_gicon: 
assertion failed (error == NULL): Failed to load 
/org/gtk/libgtk/icons/16x16/status/image-missing.png: Unrecognized image 
file format (gdk-pixbuf-error-quark, 3)
Redirecting call to abort() to mozalloc_abort

Exiting due to channel error.

[ End of output ]

As such, I'll just paste the output in-line.  There's something 
suspicious aout the output: it appears that glibc-2.33 is used, whereas 
according to 'guix gc --references "$(guix build texmacs)", it should be 
glibc-2.35.

hint: Consider installing the `glibc-locales' package and defining
`GUIX_LOCPATH', along these lines:

      guix install glibc-locales
      export GUIX_LOCPATH="$HOME/.guix-profile/lib/locale"

See the "Application Setup" section in the manual, for more info.

      22438:	find library=libc.so.6 [0]; searching
      22438:	 search 
cache=/gnu/store/rib9g2ig1xf3kclyl076w28parmncg4k-bash-minimal-5.1.16/etc/ld.so.cache
      22438:	  trying 
file=/gnu/store/gsjczqir1wbz8p770zndrpw4rnppmxi3-glibc-2.35/lib/libc.so.6
      22438:	
      22438:	
      22438:	calling init: 
/gnu/store/gsjczqir1wbz8p770zndrpw4rnppmxi3-glibc-2.35/lib/ld-linux-x86-64.so.2
      22438:	
      22438:	
      22438:	calling init: 
/gnu/store/gsjczqir1wbz8p770zndrpw4rnppmxi3-glibc-2.35/lib/libc.so.6
      22438:	
      22438:	
      22438:	initialize program: 
/gnu/store/rib9g2ig1xf3kclyl076w28parmncg4k-bash-minimal-5.1.16/bin/sh
      22438:	
      22438:	
      22438:	transferring control: 
/gnu/store/rib9g2ig1xf3kclyl076w28parmncg4k-bash-minimal-5.1.16/bin/sh
      22438:	
      22441:	find library=libpcre.so.1 [0]; searching
      22441:	 search 
cache=/gnu/store/hrgqa7m498wfavq4awai3xz86ifkjxdr-grep-3.6/etc/ld.so.cache
      22441:	  trying 
file=/gnu/store/di5bqb45hi5lvp2q08hlxqjdcl9phjb1-pcre-8.45/lib/libpcre.so.1
      22441:	
      22441:	find library=libgcc_s.so.1 [0]; searching
      22441:	 search 
cache=/gnu/store/hrgqa7m498wfavq4awai3xz86ifkjxdr-grep-3.6/etc/ld.so.cache
      22441:	  trying 
file=/gnu/store/094bbaq6glba86h1d4cj16xhdi6fk2jl-gcc-10.3.0-lib/lib/libgcc_s.so.1
      22441:	
      22441:	find library=libc.so.6 [0]; searching
      22441:	 search 
cache=/gnu/store/hrgqa7m498wfavq4awai3xz86ifkjxdr-grep-3.6/etc/ld.so.cache
      22441:	  trying 
file=/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libc.so.6
      22441:	
      22441:	find library=libpthread.so.0 [0]; searching
      22441:	 search 
cache=/gnu/store/hrgqa7m498wfavq4awai3xz86ifkjxdr-grep-3.6/etc/ld.so.cache
      22441:	  trying 
file=/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libpthread.so.0
      22441:	
      22441:	
      22441:	calling init: 
/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libpthread.so.0
      22441:	
      22441:	
      22441:	calling init: 
/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/ld-linux-x86-64.so.2
      22441:	
      22441:	
      22441:	calling init: 
/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/libc.so.6
      22441:	
      22441:	
      22441:	calling init: 
/gnu/store/094bbaq6glba86h1d4cj16xhdi6fk2jl-gcc-10.3.0-lib/lib/libgcc_s.so.1
      22441:	
      22441:	
      22441:	calling init: 
/gnu/store/di5bqb45hi5lvp2q08hlxqjdcl9phjb1-pcre-8.45/lib/libpcre.so.1
      22441:	
      22441:	
      22441:	initialize program: grep
      22441:	
      22441:	
      22441:	transferring control: grep
      22441:	
      22439:	
      22439:	calling fini: 
/gnu/store/rib9g2ig1xf3kclyl076w28parmncg4k-bash-minimal-5.1.16/bin/sh [0]
      22439:	
      22438:	find library=libguile.so.17 [0]; searching
      22438:	 search 
path=/gnu/store/0r0d7xs056hnr033fwn3bciwdd5kwdbn-texmacs-2.1.1/lib/texmacs/TeXmacs/lib/glibc-hwcaps/x86-64-v3

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Josselin Poiret wrote on 5 May 2023 14:06

Recipients:

Message-ID:87r0rvasph.fsf@jpoiret.xyz

Hi Maxime,

Toggle quote (5 lines)

> 22438: search

>path=/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/glibc-hwcaps/x86-64-v3:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/glibc-hwcaps/x86-64-v2:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/tls/x86_64/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/tls/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/tls/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/tls:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/x86_64/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib/x86_64:/gnu/store/5h2w4qi9hk1qzzgi1w83220ydslinr4s-glibc-2.33/lib:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/glibc-hwcaps/x86-64-v3:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/glibc-hwcaps/x86-64-v2:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/tls/x86_64/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/tls/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/tls/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/tls:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/x86_64/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib/x86_64:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/lib:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/glibc-hwcaps/x86-64-v3:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/glibc-hwcaps/x86-64-v2:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/tls/x86_64/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/tls/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/tls/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/tls:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/x86_64/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib/x86_64:/gnu/store/zl9wf0zwq2ka9rpmayp53hnp2mn460xf-gnutls-3.7.2/lib

> (RUNPATH from file

>/gnu/store/knm6b1dxg2j3vji4wrgngv99pvb6f5ff-glib-networking-2.70.0/lib/gio/modules/libgiognutls.so)

Looks like some GIO modules are being loaded which is pulling in
glibc-2.33.  These GIO modules are I think picked up through environment
variables which might be set by your main profile, which you haven't
upgraded yet.  The solution would be to upgrade the profile which
contains them, I believe (or run in a container shell).

Best,
-- 
Josselin Poiret

Maxime Devos wrote on 13 May 2023 16:17

Recipients:

Message-ID:2c93c29e-032b-2b5e-6139-b28de456b47b@telenet.be

(I did not receive the last reply in my e-mail client.)

Hi,

There are no relevant environment variables in the main profile -- it's 
quite spartan:

~/.guix-profile/etc/profile:

# Source this file to [...]

export 
PATH="${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/bin:${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/sbin${PATH:+:}$PATH"
export 
LIBRARY_PATH="${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/lib${LIBRARY_PATH:+:}$LIBRARY_PATH"
export 
CPLUS_INCLUDE_PATH="${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/include/c++:${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/include${CPLUS_INCLUDE_PATH:+:}$CPLUS_INCLUDE_PATH"
export 
C_INCLUDE_PATH="${GUIX_PROFILE:-/gnu/store/04i0m9rwnbw14qjhp2hnmm6gzbyirxn5-profile}/include${C_INCLUDE_PATH:+:}$C_INCLUDE_PATH"


However, GIO_EXTRA_MODULES is defined anyways:

GIO_EXTRA_MODULES=/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/gnu/store/knm6b1dxg2j3vji4wrgngv99pvb6f5ff-glib-networking-2.70.0/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/run/current-system/profile/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules

and it appears 4 times.  Several new problems (unrelated to the 
__libc_pthread_init thing) seem to appear here:

   * the same directory appears four times, which is three times too many
   * it doesn't use /run/current-system/profile/... file names, so a reboot
     may be necessary after reconfiguration (sometimes this is
     unavoidable, but in this case it appears avoidable).

The second thing also happens for XDG_DATA_DIRS, GTK_PATH, 
GDM_CUSTOM_CONF, GDM_DBUS_DAEMON, NM_VPN_PLUGIN_DIR and SHELL:

XDG_DATA_DIRS=/gnu/store/wa5jwl26n7l1h5asmns093xqbpkhqvwx-shared-mime-info-1.15/share:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/share:/gnu/store/cp438dbpiy06fnfq1lrbd5nrzvhzjy2f-mate-desktop-1.24.1/share:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/share:/gnu/store/ycgdcy3zh7symyrvl0xqj8skggl48chp-mate-terminal-1.24.1/share:/gnu/store/wa5jwl26n7l1h5asmns093xqbpkhqvwx-shared-mime-info-1.15/share:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/share:/gnu/store/cp438dbpiy06fnfq1lrbd5nrzvhzjy2f-mate-desktop-1.24.1/share:/gnu/store/rwm63xxik66cjydcalg5sg5p7c6621w5-libmateweather-1.24.1/share:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/share:/gnu/store/6p86xwpq1y9n5in3vaan94hykyddjx86-mate-panel-1.24.1/share:/gnu/store/wa5jwl26n7l1h5asmns093xqbpkhqvwx-shared-mime-info-1.15/share:/gnu/store/ginkhx2irsi4qwkpnnwg4r30h7jwhi62-glib-2.70.2/share:/gnu/store/cp438dbpiy06fnfq1lrbd5nrzvhzjy2f-mate-desktop-1.24.1/share:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/share:/gnu/store/gr5adf2vjrf39i9khlkq6p15hfhk2q0w-mate-session-manager-1.24.1/share:/run/current-system/profile/share:/home/pode/.guix-profile/share:/run/current-system/profile/share
GTK_PATH=/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/lib/gtk-3.0:/gnu/store/fkl4fg06f538ryhiw4bs2iwwfs56g2k3-libcanberra-0.30/lib/gtk-3.0:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/lib/gtk-3.0:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/lib/gtk-3.0:/gnu/store/fkl4fg06f538ryhiw4bs2iwwfs56g2k3-libcanberra-0.30/lib/gtk-3.0:/gnu/store/kq72g9hjl1sj4c1qhw98m8rdw2ymmk7m-gtk+-3.24.30/lib/gtk-3.0
GDM_X_SESSION=/gnu/store/j653i1azcgyahi71pip4rz4ai0529ip2-xinitrc
GDM_CUSTOM_CONF=/gnu/store/i6mfrlxqndq9vxzpmp2qhhrrhsqahnn5-gdm-custom.conf
GDM_DBUS_DAEMON=/gnu/store/d8rf9brix7dh19kxdc819v6amf7icn1s-gdm-dbus-wrapper
NM_VPN_PLUGIN_DIR=/gnu/store/s4j534jy2y6y4b5xff5adgwijxcrgjdl-network-manager-vpn-plugins/lib/NetworkManager/VPN

(This is on a not-up-to-date Guix System, but likely at least some of 
these are still the case)
(Maybe the terminal application or login manager or something else
has an inappropriate wrap-program, or maybe the login manager itself 
loads /etc/profile and afterwards logs in as the user and loads 
/etc/profile again, without clearing environment variables first?)

(This is with gdm-service-type, mate-desktop-service-type and 
%desktop-services.)

 > The solution would be to upgrade the profile which
 > contains them, I believe (or run in a container shell).

Running it in a container shell (or simpler, running with
guix shell --pure) is a work-around, not a solution.

I guess that the relevant profile is the system profile.

According to the second paragraph at guix.gnu.org:

 > [...] Guix supports [...], __unprivileged__ package management.

Upgrading the system profile is a privileged operation,
so having to upgrade the system profile to run texmacs
is not a solution.

I think a proper solution would be to make plugin path environment 
variables ABI-dependent, or more precisely, store-output-name dependent 
(as ABIs are not very practical to keep track of accurately).

Take, for example, the glib package, which currently has the
GIO_EXTRA_MODULES path.  This could be replaced by 
HASH_GIO_EXTRA_MODULES, where HASH is the HASH in 
/gnu/store/XXX-glib-2.72.3.

Then if the system profile is on YYY-glib-..., it would only set
the YYY_GIO_EXTRA_MODULES and then XXX-glib-... used by (user) TeXmacs 
will only
consider XXX_GIO_EXTRA_MODULES instead of the potentially incompatible 
YYY_GIO_....

(Would also be convenient for multi-arch systems, where the user might 
be on a different arch than the system).

(Even better would be if the system profile could contain plugins
for multiple versions, could be convenient on multi-user systems, and 
also on single-user systems for more smooth upgrades.)

Instead of store-output-name-dependent environment variables, an 
alternative method would be to make the location of the plugins 
store-output-name-dependent.

More concretely, keep the current name GIO_EXTRA_MODULES and the current
value of $GIO_EXTRA_MODULES, but put libdconfsettings.so into
/gnu/store/[...]-dconf-0.40.0/lib/gio/modules/HASH/libdconfsettings.so
instead of
/gnu/store/[...]-dconf-0.40.0/lib/gio/modules/libdconfsettings.so
and adjust gio to look in this new location.

(Would require less substitute*.)

(Possible implementation: patch gio to _also_ look in .../HASH/...
add a post-install phase that moves things into the HASH/ directory.
The ‘also’ instead of ‘instead‘ is intentional, in case the plugin
package has tests that set GIO_EXTRA_MODULES for testing.)

Greetings,
Maxime

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??? wrote on 30 Jan 06:46 +0100

Recipients:(name . Maxime Devos)(address . maximedevos@telenet.be)

Message-ID:875xlw97m8.fsf@envs.net

Maxime Devos <maximedevos@telenet.be> writes:

Toggle quote (7 lines)

> [...]

> However, GIO_EXTRA_MODULES is defined anyways:

> GIO_EXTRA_MODULES=/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/gnu/store/knm6b1dxg2j3vji4wrgngv99pvb6f5ff-glib-networking-2.70.0/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules:/run/current-system/profile/lib/gio/modules:/gnu/store/8k9s3z2315p494fj937jyvc9v7gpbjr8-dconf-0.40.0/lib/gio/modules

This environment variable is leaked from program wrappers, likely from

gdm or gnome-shell. I'm trying to address this in

https://issues.guix.gnu.org/75688.

Toggle quote (24 lines)> [...]
>
> I think a proper solution would be to make plugin path environment
> variables ABI-dependent, or more precisely, store-output-name
> dependent (as ABIs are not very practical to keep track of
> accurately).
>
> Take, for example, the glib package, which currently has the
> GIO_EXTRA_MODULES path.  This could be replaced by
> HASH_GIO_EXTRA_MODULES, where HASH is the HASH in
> /gnu/store/XXX-glib-2.72.3.
> [...]
>
> Instead of store-output-name-dependent environment variables, an
> alternative method would be to make the location of the plugins
> store-output-name-dependent.
>
> More concretely, keep the current name GIO_EXTRA_MODULES and the current
> value of $GIO_EXTRA_MODULES, but put libdconfsettings.so into
> /gnu/store/[...]-dconf-0.40.0/lib/gio/modules/HASH/libdconfsettings.so
> instead of
> /gnu/store/[...]-dconf-0.40.0/lib/gio/modules/libdconfsettings.so
> and adjust gio to look in this new location.

Yes, this could solve ABI problems between incompatible programs and

libraries, sound likely doable. I'd try this later, thank you!

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