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baransahin

Member

Registered: 2024-04-03

Posts: 7

[SOLVED] Pacman outputs "... is empty, not checked" on installation

I am getting those outputs ("... is empty, not checked" and "... is truncated") whenever I install a package with pacman. I give the output of system upgrade down below as an example. It is not causing any error for now, I can successfully install packages and upgrade my system but I want to know why is that giving me this output and if it is going to be a problem for me later.

I found some similar topics on this forum. It was suggesting to use pacman -Qkk and fix the packages one by one. I ran pacman -Qkk but I don't know really how to fix those warning it gave me.

[baran@192 ~]$ sudo pacman -Syu
[sudo] password for baran: 
:: Synchronizing package databases...
 core                                                 128.3 KiB   168 KiB/s 00:01 [###############################################] 100%
 extra                                                  8.1 MiB  3.79 MiB/s 00:02 [###############################################] 100%
 multilib is up to date
:: Starting full system upgrade...
resolving dependencies...
looking for conflicting packages...

Packages (4) containerd-1.7.15-1  hwdata-0.381-1  libx11-1.8.9-1  libxmlb-0.3.17-1

Total Download Size:    30.14 MiB
Total Installed Size:  142.04 MiB
Net Upgrade Size:       -1.94 MiB

:: Proceed with installation? [Y/n] 
:: Retrieving packages...
 containerd-1.7.15-1-x86_64                            26.4 MiB  4.53 MiB/s 00:06 [###############################################] 100%
 libx11-1.8.9-1-x86_64                               2039.9 KiB  3.09 MiB/s 00:01 [###############################################] 100%
 hwdata-0.381-1-any                                  1625.2 KiB  3.63 MiB/s 00:00 [###############################################] 100%
 libxmlb-0.3.17-1-x86_64                              150.6 KiB  1186 KiB/s 00:00 [###############################################] 100%
 Total (4/4)                                           30.1 MiB  4.03 MiB/s 00:07 [###############################################] 100%
(4/4) checking keys in keyring                                                    [###############################################] 100%
(4/4) checking package integrity                                                  [###############################################] 100%
(4/4) loading package files                                                       [###############################################] 100%
(4/4) checking for file conflicts                                                 [###############################################] 100%
(4/4) checking available disk space                                               [###############################################] 100%
:: Processing package changes...
(1/4) upgrading containerd                                                        [###############################################] 100%
(2/4) upgrading hwdata                                                            [###############################################] 100%
(3/4) upgrading libx11                                                            [###############################################] 100%
(4/4) upgrading libxmlb                                                           [###############################################] 100%
ldconfig: File /usr/lib32/libgstpbutils-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstsdp-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstgl-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstfft-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstfft-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstreamer-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstnet-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstbase-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstriff-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstrtp-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstreamer-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgsttag-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstvideo-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgsttag-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstcontroller-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgsttag-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstapp-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstallocators-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstapp-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstallocators-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstvideo-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstcontroller-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstcheck-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstrtsp-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstsdp-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstnet-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstaudio-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstsdp-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstbase-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstrtp-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstallocators-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstgl-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstgl-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstaudio-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstrtsp-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstrtsp-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstreamer-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstbase-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstriff-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstcheck-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstriff-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstrtp-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstapp-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstpbutils-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstcheck-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstfft-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstaudio-1.0.so.0.2401.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstcontroller-1.0.so.0 is empty, not checked.
ldconfig: File /usr/lib32/libgstnet-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstpbutils-1.0.so is empty, not checked.
ldconfig: File /usr/lib32/libgstvideo-1.0.so is empty, not checked.
ldconfig: File /usr/lib/libfolks.so.26 is empty, not checked.
ldconfig: File /usr/lib/libfolks.so.26.0.0 is empty, not checked.
ldconfig: File /usr/lib/libfolks-eds.so is empty, not checked.
ldconfig: File /usr/lib/libfolks.so is empty, not checked.
ldconfig: File /usr/lib/librdf.so.0 is empty, not checked.
ldconfig: File /usr/lib/libfolks-dummy.so is empty, not checked.
ldconfig: file /usr/lib/libnvidia-rtcore.so.550.67 is truncated

ldconfig: File /usr/lib/libheif.so.1.17.6 is empty, not checked.
ldconfig: File /usr/lib/libavif.so is empty, not checked.
ldconfig: File /usr/lib/libfolks-eds.so.26 is empty, not checked.
ldconfig: File /usr/lib/libfolks-dummy.so.26 is empty, not checked.
ldconfig: File /usr/lib/librdf.so.0.0.0 is empty, not checked.
ldconfig: File /usr/lib/libavif.so.16.0.4 is empty, not checked.
ldconfig: File /usr/lib/librdf.so is empty, not checked.
ldconfig: File /usr/lib/libheif.so is empty, not checked.
ldconfig: file /usr/lib/libnvidia-rtcore.so is truncated

ldconfig: File /usr/lib/libavif.so.16 is empty, not checked.
ldconfig: File /usr/lib/libfolks-dummy.so.26.0.0 is empty, not checked.
ldconfig: File /usr/lib/libfolks-eds.so.26.0.0 is empty, not checked.
ldconfig: File /usr/lib/libheif.so.1 is empty, not checked.
:: Running post-transaction hooks...
(1/2) Reloading system manager configuration...
(2/2) Arming ConditionNeedsUpdate...

This is the output of pacman -Qkk | grep warning

warning: audit: /etc/libaudit.conf (failed to calculate SHA256 checksum)
warning: audit: /etc/audit/audisp-filter.conf (failed to calculate SHA256 checksum)
warning: audit: /etc/audit/audisp-remote.conf (failed to calculate SHA256 checksum)
warning: audit: /etc/audit/zos-remote.conf (failed to calculate SHA256 checksum)
warning: audit: /etc/audit/plugins.d/af_unix.conf (Permission denied)
warning: audit: /etc/audit/plugins.d/au-remote.conf (Permission denied)
warning: audit: /etc/audit/plugins.d/audispd-zos-remote.conf (Permission denied)
warning: audit: /etc/audit/plugins.d/filter.conf (Permission denied)
warning: audit: /etc/audit/plugins.d/syslog.conf (Permission denied)
warning: audit: /usr/share/factory/etc/libaudit.conf (failed to calculate SHA256 checksum)
warning: audit: /usr/share/factory/etc/audit/audisp-filter.conf (failed to calculate SHA256 checksum)
warning: audit: /usr/share/factory/etc/audit/audisp-remote.conf (failed to calculate SHA256 checksum)
warning: audit: /usr/share/factory/etc/audit/zos-remote.conf (failed to calculate SHA256 checksum)
warning: audit: /usr/share/factory/etc/audit/plugins.d/af_unix.conf (Permission denied)
warning: audit: /usr/share/factory/etc/audit/plugins.d/au-remote.conf (Permission denied)
warning: audit: /usr/share/factory/etc/audit/plugins.d/audispd-zos-remote.conf (Permission denied)
warning: audit: /usr/share/factory/etc/audit/plugins.d/filter.conf (Permission denied)
warning: audit: /usr/share/factory/etc/audit/plugins.d/syslog.conf (Permission denied)
warning: dbus: /usr/lib/dbus-1.0/dbus-daemon-launch-helper (failed to calculate SHA256 checksum)
warning: filesystem: /etc/crypttab (failed to calculate SHA256 checksum)
warning: filesystem: /etc/gshadow (failed to calculate SHA256 checksum)
warning: filesystem: /etc/shadow (failed to calculate SHA256 checksum)
warning: filesystem: /usr/share/factory/etc/crypttab (failed to calculate SHA256 checksum)
warning: filesystem: /usr/share/factory/etc/gshadow (failed to calculate SHA256 checksum)
warning: filesystem: /usr/share/factory/etc/shadow (failed to calculate SHA256 checksum)
warning: gdm: /var/lib/gdm/.config (Permission denied)
warning: gdm: /var/lib/gdm/.config/pulse (Permission denied)
warning: gdm: /var/lib/gdm/.config/pulse/default.pa (Permission denied)
warning: gdm: /var/lib/gdm/.local (Permission denied)
warning: gdm: /var/lib/gdm/.local/share (Permission denied)
warning: gdm: /var/lib/gdm/.local/share/applications (Permission denied)
warning: java-runtime-common: /usr/lib/jvm/default (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default (Modification time mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Modification time mismatch)
error: error while reading file /var/lib/pacman/local/lib32-gst-plugins-base-libs-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/lib32-gstreamer-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libavif-1.0.4-2/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libheif-1.17.6-5/mtree: Unrecognized archive format
warning: libutempter: /usr/lib/utempter/utempter (GID mismatch)
warning: libutempter: /usr/lib/utempter/utempter (Permissions mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (Size mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (SHA256 checksum mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (Size mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (SHA256 checksum mismatch)
warning: openssh: /usr/lib/ssh/ssh-keysign (failed to calculate SHA256 checksum)
error: error while reading file /var/lib/pacman/local/redland-1:1.0.17-9/mtree: Unrecognized archive format
warning: shadow: /etc/default/useradd (failed to calculate SHA256 checksum)
warning: shadow: /usr/bin/groupmems (GID mismatch)
warning: shadow: /usr/bin/groupmems (Permissions mismatch)
warning: shadow: /usr/bin/groupmems (failed to calculate SHA256 checksum)
warning: sudo: /etc/sudoers (failed to calculate SHA256 checksum)
warning: systemd: /var/log/journal (GID mismatch)

Last edited by baransahin (2024-04-08 11:25:15)

impossibleveins23

Member

Registered: 2022-06-18

Posts: 92

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

Just to verify, you execute pacman -Qkk as root. Correct?

* Is the package for any of empty files installed? (you can check by: pacman -Qo /usr/lib32/libgsttag-1.0.so.0.2401.0 )
* If it does, better reinstall the package (since the files are empty) and if doesn't I believe you can delete the empty files.
* The packages that reports "size mismath", try to explicitly reinstall and see if error disappear.

I wonder regarding more critical files like the users' passwords (/etc/shadow)
* Can you check that the file permissions are correct?
* Can you calc sha256 sum of the file?

loqs

Member

Registered: 2014-03-06

Posts: 17,581

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

# LC_ALL=C pacman -Qkk 2>&1 | grep -v ', 0 altered files' | tee /tmp/broken_packages.txt
cat /tmp/broken_packages.txt | curl -F 'file=@-' 0x0.st

Then please post the link that generates.

/etc/shadow changing is expected as users are added and passwords are set.  Even if no users are manually added systemd-sysusers will add those required by installed packages.

baransahin

Member

Registered: 2024-04-03

Posts: 7

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

I might have ran the pacman -Qkk without root privileges, so I ran it again with sudo. This is the output:

warning: java-runtime-common: /usr/lib/jvm/default (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default (Modification time mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Modification time mismatch)
error: error while reading file /var/lib/pacman/local/lib32-gst-plugins-base-libs-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/lib32-gstreamer-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libavif-1.0.4-2/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libheif-1.17.6-5/mtree: Unrecognized archive format
warning: libutempter: /usr/lib/utempter/utempter (GID mismatch)
warning: libutempter: /usr/lib/utempter/utempter (Permissions mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (Size mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (SHA256 checksum mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (Size mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (SHA256 checksum mismatch)
error: error while reading file /var/lib/pacman/local/redland-1:1.0.17-9/mtree: Unrecognized archive format
warning: shadow: /usr/bin/groupmems (GID mismatch)
warning: shadow: /usr/bin/groupmems (Permissions mismatch)
warning: systemd: /var/log/journal (GID mismatch)

And the output for the

# LC_ALL=C pacman -Qkk 2>&1 | grep -v ', 0 altered files' | tee /tmp/broken_packages.txt
cat /tmp/broken_packages.txt | curl -F 'file=@-' 0x0.st

is this:

backup file: filesystem: /etc/fstab (Modification time mismatch)
backup file: filesystem: /etc/fstab (Size mismatch)
backup file: filesystem: /etc/fstab (SHA256 checksum mismatch)
backup file: filesystem: /etc/group (Modification time mismatch)
backup file: filesystem: /etc/group (Size mismatch)
backup file: filesystem: /etc/group (SHA256 checksum mismatch)
backup file: filesystem: /etc/gshadow (Modification time mismatch)
backup file: filesystem: /etc/gshadow (Size mismatch)
backup file: filesystem: /etc/gshadow (SHA256 checksum mismatch)
backup file: filesystem: /etc/passwd (Modification time mismatch)
backup file: filesystem: /etc/passwd (Size mismatch)
backup file: filesystem: /etc/passwd (SHA256 checksum mismatch)
backup file: filesystem: /etc/resolv.conf (Modification time mismatch)
backup file: filesystem: /etc/resolv.conf (Size mismatch)
backup file: filesystem: /etc/resolv.conf (SHA256 checksum mismatch)
backup file: filesystem: /etc/shadow (Modification time mismatch)
backup file: filesystem: /etc/shadow (Size mismatch)
backup file: filesystem: /etc/shadow (SHA256 checksum mismatch)
backup file: filesystem: /etc/shells (Modification time mismatch)
backup file: filesystem: /etc/shells (Size mismatch)
backup file: filesystem: /etc/shells (SHA256 checksum mismatch)
backup file: filesystem: /etc/subgid (Modification time mismatch)
backup file: filesystem: /etc/subgid (Size mismatch)
backup file: filesystem: /etc/subgid (SHA256 checksum mismatch)
backup file: filesystem: /etc/subuid (Modification time mismatch)
backup file: filesystem: /etc/subuid (Size mismatch)
backup file: filesystem: /etc/subuid (SHA256 checksum mismatch)
folks: no mtree file
backup file: glibc: /etc/locale.gen (Modification time mismatch)
backup file: glibc: /etc/locale.gen (Size mismatch)
backup file: glibc: /etc/locale.gen (SHA256 checksum mismatch)
backup file: grub: /etc/default/grub (Modification time mismatch)
backup file: grub: /etc/default/grub (Size mismatch)
backup file: grub: /etc/default/grub (SHA256 checksum mismatch)
gvfs-goa: 13 towarning: java-runtime-common: /usr/lib/jvm/default (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default (Modification time mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Modification time mismatch)
java-runtime-common: 21 total files, 2 altered files
lerror: error while reading file /var/lib/pacman/local/lib32-gst-plugins-base-libs-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/lib32-gstreamer-1.24.1-1/mtree: Unrecognized archive format
lib32-gst-plugins-base-libs: no mtree file
lib32-gstreamer: no mtree file
lib32-nspr: 8 totaerror: error while reading file /var/lib/pacman/local/libavif-1.0.4-2/mtree: Unrecognized archive format
libavif: no mtree file
libepubgen: 24error: error while reading file /var/lib/pacman/local/libheif-1.17.6-5/mtree: Unrecognized archive format
libheif: no mtree file
liborcus: 1warning: libutempter: /usr/lib/utempter/utempter (GID mismatch)
warning: libutempter: /usr/lib/utempter/utempter (Permissions mismatch)
libutempter: 20 total files, 1 altered file
libxfixes: 18 total files, 0 altered fwarning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (Size mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (SHA256 checksum mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (Size mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (SHA256 checksum mismatch)
iles
backup file: mkinitcpio: /etc/mkinitcpio.conf (Modification time mismatch)
backup file: mkinitcpio: /etc/mkinitcpio.conf (Size mismatch)
backup file: mkinitcpio: /etc/mkinitcpio.conf (SHA256 checksum mismatch)
nvidia-utils: 232 total files, 2 altered files
openssh: 81 total files, 0 aerror: error while reading file /var/lib/pacman/local/redland-1:1.0.17-9/mtree: Unrecognized archive format
ltered files
backup file: pacman: /etc/pacman.conf (Modification time mismatch)
backup file: pacman: /etc/pacman.conf (Size mismatch)
backup file: pacman: /etc/pacman.conf (SHA256 checksum mismatch)
backup file: pacman-mirrorlist: /etc/pacman.d/mirrorlist (Modification time mismatch)
backup file: pacman-mirrorlist: /etc/pacman.d/mirrorlist (Size mismatch)
backup file: pacman-mirrorlist: /etc/pacman.d/mirrorlist (SHA256 checksum mismatch)
redland: no mtree file
rygel: 360 total files,warning: shadow: /usr/bin/groupmems (GID mismatch)
warning: shadow: /usr/bin/groupmems (Permissions mismatch)
warning: systemd: /var/log/journal (GID mismatch)
 0 altered files
shadow: 588 total files, 1 altered file
backup file: sudo: /etc/sudoers (Modification time mismatch)
backup file: sudo: /etc/sudoers (Size mismatch)
backup file: sudo: /etc/sudoers (SHA256 checksum mismatch)
systemd: 1449 total files, 1 altered file

loqs

Member

Registered: 2014-03-06

Posts: 17,581

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

folks: no mtree file
lib32-gst-plugins-base-libs: no mtree file
lib32-gstreamer: no mtree file
libavif: no mtree file
libheif: no mtree file
redland: no mtree file

All these packages have corrupted or missing mtree files so reinstall them in pacman's database first then reinstall them to fix the packages contents:

# pacman -S --dbonly folks lerror lib32-gst-plugins-base-libs lib32-gstreamer lib32-nspr libavif libheif redland
# pacman -S folks lerror lib32-gst-plugins-base-libs lib32-gstreamer lib32-nspr libavif libheif redland

baransahin

Member

Registered: 2024-04-03

Posts: 7

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

I did as you mentioned but it seems like the same warnings persist. Here is the output of pacman -Qkk:

warning: java-runtime-common: /usr/lib/jvm/default (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default (Modification time mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Modification time mismatch)
error: error while reading file /var/lib/pacman/local/lib32-gst-plugins-base-libs-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/lib32-gstreamer-1.24.1-1/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libavif-1.0.4-2/mtree: Unrecognized archive format
error: error while reading file /var/lib/pacman/local/libheif-1.17.6-5/mtree: Unrecognized archive format
warning: libutempter: /usr/lib/utempter/utempter (GID mismatch)
warning: libutempter: /usr/lib/utempter/utempter (Permissions mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (Size mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (SHA256 checksum mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (Size mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (SHA256 checksum mismatch)
error: error while reading file /var/lib/pacman/local/redland-1:1.0.17-9/mtree: Unrecognized archive format
warning: shadow: /usr/bin/groupmems (GID mismatch)
warning: shadow: /usr/bin/groupmems (Permissions mismatch)
warning: systemd: /var/log/journal (GID mismatch)

loqs

Member

Registered: 2014-03-06

Posts: 17,581

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

What is the output of

pacman -Qi lib32-gst-plugins-base-libs lib32-gstreamer libavif libheif redland

Edit:
Were any errors produced when you executed the commands I posted?
I had `lerror` in the package listed from `lerror: error while reading file /var/lib/pacman/local/lib32-gst-plugins-base-libs-1.24.1-1/mtree: Unrecognized archive format` which should have produced an error causing the commands to fail.

Last edited by loqs (2024-04-07 18:01:49)

baransahin

Member

Registered: 2024-04-03

Posts: 7

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

My bad, I forgot to add the output of reinstalling process. Here is the output:

[baran@192 ~]$ sudo pacman -S --dbonly folks lerror lib32-gst-plugins-base-libs lib32-gstreamer lib32-nspr libavif libheif redland
[sudo] password for baran: 
warning: folks-0.15.9-1 is up to date -- reinstalling
error: target not found: lerror
warning: lib32-gst-plugins-base-libs-1.24.1-1 is up to date -- reinstalling
warning: lib32-gstreamer-1.24.1-1 is up to date -- reinstalling
warning: lib32-nspr-4.35-2 is up to date -- reinstalling
warning: libavif-1.0.4-2 is up to date -- reinstalling
warning: libheif-1.17.6-5 is up to date -- reinstalling
warning: redland-1:1.0.17-9 is up to date -- reinstalling
[baran@192 ~]$ sudo pacman -S folks lerror lib32-gst-plugins-base-libs lib32-gstreamer lib32-nspr libavif libheif redland
warning: folks-0.15.9-1 is up to date -- reinstalling
error: target not found: lerror
warning: lib32-gst-plugins-base-libs-1.24.1-1 is up to date -- reinstalling
warning: lib32-gstreamer-1.24.1-1 is up to date -- reinstalling
warning: lib32-nspr-4.35-2 is up to date -- reinstalling
warning: libavif-1.0.4-2 is up to date -- reinstalling
warning: libheif-1.17.6-5 is up to date -- reinstalling
warning: redland-1:1.0.17-9 is up to date -- reinstalling

And the output of the pacman -Qi is:

Name            : lib32-gst-plugins-base-libs
Version         : 1.24.1-1
Description     : None
Architecture    : None
URL             : None
Licenses        : None
Groups          : None
Provides        : None
Depends On      : None
Optional Deps   : None
Required By     : None
Optional For    : wine  wine-lol-bin
Conflicts With  : None
Replaces        : None
Installed Size  : 0.00 B
Packager        : None
Build Date      : Thu 01 Jan 1970 02:00:00 AM EET
Install Date    : Thu 01 Jan 1970 02:00:00 AM EET
Install Reason  : Explicitly installed
Install Script  : No
Validated By    : Unknown

Name            : lib32-gstreamer
Version         : 1.24.1-1
Description     : None
Architecture    : None
URL             : None
Licenses        : None
Groups          : None
Provides        : None
Depends On      : None
Optional Deps   : None
Required By     : None
Optional For    : None
Conflicts With  : None
Replaces        : None
Installed Size  : 0.00 B
Packager        : None
Build Date      : Thu 01 Jan 1970 02:00:00 AM EET
Install Date    : Thu 01 Jan 1970 02:00:00 AM EET
Install Reason  : Explicitly installed
Install Script  : Yes
Validated By    : Unknown

Name            : libavif
Version         : 1.0.4-2
Description     : None
Architecture    : None
URL             : None
Licenses        : None
Groups          : None
Provides        : None
Depends On      : None
Optional Deps   : None
Required By     : gd  webkit2gtk-4.1  webkitgtk-6.0
Optional For    : gdk-pixbuf2
Conflicts With  : None
Replaces        : None
Installed Size  : 0.00 B
Packager        : None
Build Date      : Thu 01 Jan 1970 02:00:00 AM EET
Install Date    : Thu 01 Jan 1970 02:00:00 AM EET
Install Reason  : Explicitly installed
Install Script  : No
Validated By    : Unknown

Name            : libheif
Version         : 1.17.6-5
Description     : None
Architecture    : None
URL             : None
Licenses        : None
Groups          : None
Provides        : None
Depends On      : None
Optional Deps   : None
Required By     : gd
Optional For    : gdk-pixbuf2  glycin  imagemagick  imlib2
Conflicts With  : None
Replaces        : None
Installed Size  : 0.00 B
Packager        : None
Build Date      : Thu 01 Jan 1970 02:00:00 AM EET
Install Date    : Thu 01 Jan 1970 02:00:00 AM EET
Install Reason  : Explicitly installed
Install Script  : No
Validated By    : Unknown

Name            : redland
Version         : 1:1.0.17-9
Description     : None
Architecture    : None
URL             : None
Licenses        : None
Groups          : None
Provides        : None
Depends On      : None
Optional Deps   : None
Required By     : libreoffice-still
Optional For    : None
Conflicts With  : None
Replaces        : None
Installed Size  : 0.00 B
Packager        : None
Build Date      : Thu 01 Jan 1970 02:00:00 AM EET
Install Date    : Thu 01 Jan 1970 02:00:00 AM EET
Install Reason  : Explicitly installed
Install Script  : No
Validated By    : Unknown

Edit:
I managed to reinstall the packages one by one, first it gave me a lot of "... is exists in file system" error when I tried to reinstall with pacman -S. I go around of it by adding "--overwrite \*" parameter. So I reinstalled the packages as:

sudo pacman -S --overwrite \* pkgName

When I checked the pacman -Qkk again it says:

warning: java-runtime-common: /usr/lib/jvm/default (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default (Modification time mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Symlink path mismatch)
warning: java-runtime-common: /usr/lib/jvm/default-runtime (Modification time mismatch)
warning: libutempter: /usr/lib/utempter/utempter (GID mismatch)
warning: libutempter: /usr/lib/utempter/utempter (Permissions mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (Size mismatch)
warning: nvidia-utils: /usr/lib/libnvidia-rtcore.so.550.67 (SHA256 checksum mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (Size mismatch)
warning: nvidia-utils: /usr/share/nvidia/nvoptix.bin (SHA256 checksum mismatch)
warning: shadow: /usr/bin/groupmems (GID mismatch)
warning: shadow: /usr/bin/groupmems (Permissions mismatch)
warning: systemd: /var/log/journal (GID mismatch)

Happily the error messages have been removed. Also many of the "... is empty, not checked" errors (which occurs during any package installation) are removed too. But there is still few of them persist. Here is the output of my last system upgrade:

:: Synchronizing package databases...
 core                                                 128.4 KiB   234 KiB/s 00:01 [###############################################] 100%
 extra                                                  8.1 MiB  4.30 MiB/s 00:02 [###############################################] 100%
 multilib is up to date
:: Starting full system upgrade...
resolving dependencies...
looking for conflicting packages...

Packages (3) filesystem-2024.04.07-1  pciutils-3.12.0-1  pcre2-10.43-3

Total Download Size:   1.62 MiB
Total Installed Size:  6.75 MiB
Net Upgrade Size:      0.02 MiB

:: Proceed with installation? [Y/n] 
:: Retrieving packages...
 pcre2-10.43-3-x86_64                                1511.3 KiB  3.69 MiB/s 00:00 [###############################################] 100%
 pciutils-3.12.0-1-x86_64                             136.3 KiB  1239 KiB/s 00:00 [###############################################] 100%
 filesystem-2024.04.07-1-any                           14.0 KiB   127 KiB/s 00:00 [###############################################] 100%
 Total (3/3)                                         1661.6 KiB  1358 KiB/s 00:01 [###############################################] 100%
(3/3) checking keys in keyring                                                    [###############################################] 100%
(3/3) checking package integrity                                                  [###############################################] 100%
(3/3) loading package files                                                       [###############################################] 100%
(3/3) checking for file conflicts                                                 [###############################################] 100%
(3/3) checking available disk space                                               [###############################################] 100%
:: Processing package changes...
(1/3) upgrading filesystem                                                        [###############################################] 100%
(2/3) upgrading pciutils                                                          [###############################################] 100%
(3/3) upgrading pcre2                                                             [###############################################] 100%
ldconfig: File /usr/lib/libfolks.so.26 is empty, not checked.
ldconfig: File /usr/lib/libfolks.so.26.0.0 is empty, not checked.
ldconfig: File /usr/lib/libfolks-eds.so is empty, not checked.
ldconfig: File /usr/lib/libfolks.so is empty, not checked.
ldconfig: File /usr/lib/libfolks-dummy.so is empty, not checked.
ldconfig: file /usr/lib/libnvidia-rtcore.so.550.67 is truncated

ldconfig: File /usr/lib/libfolks-eds.so.26 is empty, not checked.
ldconfig: File /usr/lib/libfolks-dummy.so.26 is empty, not checked.
ldconfig: file /usr/lib/libnvidia-rtcore.so is truncated

ldconfig: File /usr/lib/libfolks-dummy.so.26.0.0 is empty, not checked.
ldconfig: File /usr/lib/libfolks-eds.so.26.0.0 is empty, not checked.
:: Running post-transaction hooks...
(1/4) Creating system user accounts...
(2/4) Applying kernel sysctl settings...
(3/4) Creating temporary files...
(4/4) Arming ConditionNeedsUpdate...

Last edited by baransahin (2024-04-07 21:55:17)

Scimmia

Fellow

Registered: 2012-09-01

Posts: 11,640

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

lerror is not a package, you should not be trying to install that.

seth

Member

Registered: 2012-09-03

Posts: 52,269

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

Re-install folks and nvidia-utils and since you've synced the databases, "-Syu"
You probably want to re-check

sudo LC_ALL=C pacman -Qkk | grep -v ', 0 altered files'

after all of that,

sudo pacman -S --overwrite \* pkgName

Try to not do that - it was "required" because of the corrupted databases and restoring them (and later on the packages) failed because of

error: target not found: lerror

since, as pointed out by loqs and Scimmia, that's not a package in the repos (and also not in that AUR) and no re-installation was performed at all.
If you had correctly updated the repo packages first --dbonly and then w/o that, there would have been no need to steamroll over the system.

lerror is probably a custom package of https://luarocks.org/modules/daelvn/lerror ? You may still need to address that.

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baransahin

Member

Registered: 2024-04-03

Posts: 7

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

I re-installed folks and nvidia-utils, and finally all of the "... is empty, not checked" messages removed. Thank you all for helping me to fix this and giving me insights on the problem. Everything seems fine right now.

seth

Member

Registered: 2012-09-03

Posts: 52,269

Re: [SOLVED] Pacman outputs "... is empty, not checked" on installation

\o/
Please always remember to mark resolved threads by editing your initial posts subject - so others will know that there's no task left, but maybe a solution to find.
Thanks.

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