apt updates packages but then they show as new updates again

jata1 · 7. Mai 2021

Hi all,

I have a rpi3 with omv 5. Clean/new install a few months ago on a almost new SD card. Everything working fine.

A few weeks ago, I installed all packages that needed updating through the GUI. Next day they were all back and listed as updates. I updated again and noticed the installed versions and update versions were the same versions - so just updating over the current packages.

Rebooted and did the update from the cli and rebooted after but the issue persists.

Thought it might be a bad SD card but it is a good quality card and I am not seeing any error/issues with the unit.

Any thoughts on how to resolve this or should I just take the hit and try a new SD card?

KM0201 · 7. Mai 2021

Zitat von jata1

Hi all,

I have a rpi3 with omv 5. Clean/new install a few months ago on a almost new SD card. Everything working fine.

A few weeks ago, I installed all packages that needed updating through the GUI. Next day they were all back and listed as updates. I updated again and noticed the installed versions and update versions were the same versions - so just updating over the current packages.

Rebooted and did the update from the cli and rebooted after but the issue persists.

Thought it might be a bad SD card but it is a good quality card and I am not seeing any error/issues with the unit.

Any thoughts on how to resolve this or should I just take the hit and try a new SD card?

Alles anzeigen

Are you sure it's actually updating, or is it showing you updates that have been held back? Read the message carefully

jata1 · 7. Mai 2021

Thanks. Yes I am sure they are updating and the GUI list is cleared. Next morning they are all back.

During the actual update process, i can see packages being installed over existing packages with the same version number.

mi-hol · 7. Mai 2021

was caused by a defect introduced with OMV version 5.6.3 and should be fixed with 5.6.7

jata1 · 10. Mai 2021

thanks. Have done the latest updates yesterday and this morning I have the same issue so I guess I will try a new SD card to see if this fixes the issue.

jata1 · 11. Mai 2021

This morning all the updates are no longer showing... Not sure what has happened but this issue seems to have resolved itself...

Very strange.

Pivo0815 · 11. Mai 2021

I have the same Problem since a few weeks. I'm on 5.6.6-1 OMV.

How can I fix this problem?

When I install die following Updates OMV doesn't find Updates through manuell Update-Search. After 24 h the Updates are visible again.

Code

bind9-host/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

curl/stable 7.64.0-4+deb10u2 armhf [upgradable from: 7.64.0-4+deb10u2]

dnsutils/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

git/stable 1:2.20.1-2+deb10u3 armhf [upgradable from: 1:2.20.1-2+deb10u3]

libbind9-161/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libcurl3-gnutls/stable 7.64.0-4+deb10u2 armhf [upgradable from: 7.64.0-4+deb10u2]

libcurl4/stable 7.64.0-4+deb10u2 armhf [upgradable from: 7.64.0-4+deb10u2]

libdns-export1104/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libdns1104/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libexif12/stable 0.6.21-5.1+deb10u5 armhf [upgradable from: 0.6.21-5.1+deb10u5]

libexpat1/stable 2.2.6-2+deb10u1 armhf [upgradable from: 2.2.6-2+deb10u1]

libfreetype6-dev/stable 2.9.1-3+deb10u2 armhf [upgradable from: 2.9.1-3+deb10u2]

libfreetype6/stable 2.9.1-3+deb10u2 armhf [upgradable from: 2.9.1-3+deb10u2]

libfribidi0/stable 1.0.5-3.1+deb10u1 armhf [upgradable from: 1.0.5-3.1+deb10u1]

libgssapi-krb5-2/stable 1.17-3+deb10u1 armhf [upgradable from: 1.17-3+deb10u1]

libicu63/stable 63.1-6+deb10u1 armhf [upgradable from: 63.1-6+deb10u1]

libidn2-0/stable 2.0.5-1+deb10u1 armhf [upgradable from: 2.0.5-1+deb10u1]

libirs161/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libisc-export1100/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libisc1100/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libisccc161/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libisccfg163/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libjson-c3/stable 0.12.1+ds-2+deb10u1 armhf [upgradable from: 0.12.1+ds-2+deb10u1]

libk5crypto3/stable 1.17-3+deb10u1 armhf [upgradable from: 1.17-3+deb10u1]

libkrb5-3/stable 1.17-3+deb10u1 armhf [upgradable from: 1.17-3+deb10u1]

libkrb5support0/stable 1.17-3+deb10u1 armhf [upgradable from: 1.17-3+deb10u1]

libldb1/stable 2:1.5.1+really1.4.6-3+deb10u1 armhf [upgradable from: 2:1.5.1+really1.4.6-3+deb10u1]

liblwres161/stable 1:9.11.5.P4+dfsg-5.1+deb10u5 armhf [upgradable from: 1:9.11.5.P4+dfsg-5.1+deb10u5]

libnghttp2-14/stable 1.36.0-2+deb10u1 armhf [upgradable from: 1.36.0-2+deb10u1]

libnginx-mod-http-dav-ext/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

libnginx-mod-http-echo/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

libnginx-mod-http-image-filter/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

libnginx-mod-mail/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

libnginx-mod-stream/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

libopenjp2-7/stable 2.3.0-2+deb10u2 armhf [upgradable from: 2.3.0-2+deb10u2]

libopenmpt0/stable 0.4.3-1+deb10u1 armhf [upgradable from: 0.4.3-1+deb10u1]

libp11-kit0/stable 0.23.15-2+deb10u1 armhf [upgradable from: 0.23.15-2+deb10u1]

libsasl2-2/stable 2.1.27+dfsg-1+deb10u1 armhf [upgradable from: 2.1.27+dfsg-1+deb10u1]

libsasl2-modules-db/stable 2.1.27+dfsg-1+deb10u1 armhf [upgradable from: 2.1.27+dfsg-1+deb10u1]

libsasl2-modules/stable 2.1.27+dfsg-1+deb10u1 armhf [upgradable from: 2.1.27+dfsg-1+deb10u1]

libtiff5/stable 4.1.0+git191117-2~deb10u2 armhf [upgradable from: 4.1.0+git191117-2~deb10u2]

libvpx5/stable 1.7.0-3+deb10u1 armhf [upgradable from: 1.7.0-3+deb10u1]

libzmq5/stable 4.3.1-4+deb10u2 armhf [upgradable from: 4.3.1-4+deb10u2]

minidlna/stable 1.2.1+dfsg-2+deb10u2 armhf [upgradable from: 1.2.1+dfsg-2+deb10u2]

nginx-full/stable 1.14.2-2+deb10u3 armhf [upgradable from: 1.14.2-2+deb10u3]

patch/stable 2.7.6-3+deb10u1 armhf [upgradable from: 2.7.6-3+deb10u1]

php7.3-bcmath/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-cgi/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-cli/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-common/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-fpm/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-intl/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-json/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-mbstring/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-opcache/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-readline/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-sqlite3/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

php7.3-xml/stable 7.3.27-1~deb10u1 armhf [upgradable from: 7.3.27-1~deb10u1]

python-ldb/stable 2:1.5.1+really1.4.6-3+deb10u1 armhf [upgradable from: 2:1.5.1+really1.4.6-3+deb10u1]

python3-apt/stable 1.8.4.3 armhf [upgradable from: 1.8.4.3]

python3-lxml/stable 4.3.2-1+deb10u3 armhf [upgradable from: 4.3.2-1+deb10u3]

sudo/stable 1.8.27-1+deb10u3 armhf [upgradable from: 1.8.27-1+deb10u3]

wpasupplicant/stable 2:2.7+git20190128+0c1e29f-6+deb10u3 armhf [upgradable from: 2:2.7+git20190128+0c1e29f-6+deb10u3]

Alles anzeigen

mi-hol · 11. Mai 2021

There are several methods documented on "how to fix apt issues" on https://linuxhint.com/apt_get_fix_missing_broken_packages/

jata1 · 12. Mai 2021

Pivo0815 - so it looks like i'm not the only one with this issue. Unfortunately, I do not have a solution (yet) as this issue has happened again for me.

I took the option to buy a new SD card and have created a new/clean install of OMV using latest Raspbian lite image. Just finished the install and configuration so will monitor over the next few days and let you know if this works. If it doesn't nothing will

mi-hol - Thanks. I have already tried all of the suggestions on your link and not have solved the issue. Hopefully the nuclear reset/install will fix it.

geaves · 12. Mai 2021

This might be related to the apt cache, two things I do, all updates are installed from OMV's update management, an email notification is sent through informing me what is available to update. Once the updates are deployed I then go to OMV-Extras and from the Updates dropdown I run apt clean, this in essence clears the apt cache.

Is this necessary, probably not, but it's a habit I have gotten into and to date it has not failed me yet, and no this is not on a Pi but the principle is the same.

jata1 · 14. Mai 2021

geaves - thanks for the input. I have never had this issue before and I have multiple rpis and other SBC running OMV for the last 4+ years. So it was a very strange issue that I was spending too much time trying to resolve.

So I bought a new SD card (<$10) and setup as a new clean install. Took about 2hrs in total. Now working perfectly and issue resolved.

mi-hol · 15. Mai 2021

OMV changelog mentions the fix

openmediavault (5.6.7-1) stable; urgency=low


	* Set correct dependency order of the sub-modules apt and cronapt.
	Because of that bug it might happen that security packages are
	not auto-installed via cronapt on some systems.

vutanmapu · 21. Mai 2021

It's the same problem here. sudo apt clean (or by OMV-Extras) doesn't help. I won't reinstall OMV until the next version of Debian and Raspberry Pi OS will release.

vutanmapu · 28. Mai 2021

I updated to OMV version 5.6.8-1 (Usul). But the problem remains: After some hours the system wants me to upgrade again.

Code

sudo apt upgrade
Reading package lists... Done
Building dependency tree
Reading state information... Done
Calculating upgrade... Done
The following packages will be upgraded:
  bind9-host curl libbind9-161 libcurl4 libdns-export1104 libdns1104 libexpat1
  libfreetype6 libfreetype6-dev libfribidi0 libgssapi-krb5-2 libicu63
  libidn2-0 libisc-export1100 libisc1100 libisccc161 libisccfg163 libjson-c3
  libk5crypto3 libkrb5-3 libkrb5support0 libldb1 liblwres161 libnghttp2-14
  libnginx-mod-http-dav-ext libnginx-mod-http-echo
  libnginx-mod-http-image-filter libnginx-mod-mail libnginx-mod-stream libnss3
  libp11-kit0 libsasl2-2 libsasl2-modules libsasl2-modules-db libtiff5
  libx11-6 libzmq5 nginx-full patch php7.3-bcmath php7.3-cgi php7.3-cli
  php7.3-common php7.3-fpm php7.3-json php7.3-mbstring php7.3-opcache
  php7.3-readline php7.3-xml python-ldb python3-apt python3-lxml sudo
  wpasupplicant
54 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 26.2 MB of archives.
After this operation, 10.3 MB of additional disk space will be used.
Do you want to continue? [Y/n]

Alles anzeigen

mi-hol · 28. Mai 2021

is openmediavault-omvextrasorg (5.6.1) installed?

what is the content of /etc/apt/sources.list ?

ryecoaaron · 28. Mai 2021

Zitat von vutanmapu

I updated to OMV version 5.6.8-1 (Usul). But the problem remains: After some hours the system wants me to upgrade again.

Is this an RPi? What is the output of:

sudo omv-aptclean

ryecoaaron · 28. Mai 2021

Zitat von mi-hol

is openmediavault-omvextrasorg (5.6.1) installed?

This issue has nothing to do with omv-extras.

vutanmapu · 28. Mai 2021

openmediavault-omvextrasorg 5.6.1, OMV-Extras.org Package Repositories for OpenMediaVault is installed.

The content of /etc/apt/sources.list is:

nano /etc/apt/sources.list

GNU nano 3.2 /etc/apt/sources.list

deb http://raspbian.raspberrypi.org/raspbian/ buster main contrib non-free rpi

# Uncomment line below then 'apt-get update' to enable 'apt-get source'

# deb-src http://raspbian.raspberrypi.org/raspbian/ buster main contrib non-free rpi

Yes, it's a Raspberry Pi 4

The output of sudo omv-aptclean is:

Code

sudo omv-aptclean
1. Cleaning apt cache files...

2. Clearing available dpkg packages...

3. Removing apt lists...
removed '/var/lib/apt/lists/_var_cache_openmediavault_archives_Packages'
removed '/var/lib/apt/lists/archive.raspberrypi.org_debian_dists_buster_InRelease'
removed '/var/lib/apt/lists/archive.raspberrypi.org_debian_dists_buster_main_binary-armhf_Packages'
removed directory '/var/lib/apt/lists/auxfiles'
removed '/var/lib/apt/lists/download.docker.com_linux_debian_dists_buster_InRelease'
removed '/var/lib/apt/lists/download.docker.com_linux_debian_dists_buster_stable_binary-armhf_Packages'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_InRelease'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_contrib_binary-armhf_Packages'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_contrib_i18n_Translation-en'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_main_binary-armhf_Packages'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_main_i18n_Translation-en'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_non-free_binary-armhf_Packages'
removed '/var/lib/apt/lists/httpredir.debian.org_debian_dists_buster-backports_non-free_i18n_Translation-en'
removed '/var/lib/apt/lists/lock'
removed '/var/lib/apt/lists/openmediavault-plugin-developers.github.io_packages_debian_dists_usul_InRelease'
removed '/var/lib/apt/lists/openmediavault-plugin-developers.github.io_packages_debian_dists_usul_main_binary-armhf_Packages'
removed '/var/lib/apt/lists/openmediavault.github.io_packages_dists_usul_InRelease'
removed '/var/lib/apt/lists/openmediavault.github.io_packages_dists_usul_main_binary-armhf_Packages'
removed '/var/lib/apt/lists/packages.openmediavault.org_public_dists_usul_InRelease'
removed '/var/lib/apt/lists/packages.openmediavault.org_public_dists_usul_main_binary-armhf_Packages'
removed directory '/var/lib/apt/lists/partial'
removed '/var/lib/apt/lists/raspbian.raspberrypi.org_raspbian_dists_buster_InRelease'
removed '/var/lib/apt/lists/raspbian.raspberrypi.org_raspbian_dists_buster_contrib_binary-armhf_Packages'
removed '/var/lib/apt/lists/raspbian.raspberrypi.org_raspbian_dists_buster_main_binary-armhf_Packages'
removed '/var/lib/apt/lists/raspbian.raspberrypi.org_raspbian_dists_buster_non-free_binary-armhf_Packages'
removed '/var/lib/apt/lists/raspbian.raspberrypi.org_raspbian_dists_buster_rpi_binary-armhf_Packages'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_InRelease'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_main_binary-armhf_Packages'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_main_i18n_Translation-en'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_main_source_Sources'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_non-free_i18n_Translation-en'
removed '/var/lib/apt/lists/security.debian.org_debian-security_dists_buster_updates_non-free_source_Sources'

4. Purging internal cache ...

5. Removing OpenMediaVault cache packages...
removed '/var/cache/openmediavault/archives/Packages'

6. Creating new OpenMediaVault packages file...

7. Updating apt...
Get:1 file:/var/cache/openmediavault/archives  InRelease
Ign:1 file:/var/cache/openmediavault/archives  InRelease
Get:2 file:/var/cache/openmediavault/archives  Release
Ign:2 file:/var/cache/openmediavault/archives  Release
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Ign:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:3 file:/var/cache/openmediavault/archives  Packages
Get:4 file:/var/cache/openmediavault/archives  Translation-en
Ign:4 file:/var/cache/openmediavault/archives  Translation-en
Get:5 http://security.debian.org/debian-security buster/updates InRelease [65.4 kB]
Get:6 http://raspbian.raspberrypi.org/raspbian buster InRelease [15.0 kB]
Get:7 http://archive.raspberrypi.org/debian buster InRelease [32.7 kB]
Get:8 http://httpredir.debian.org/debian buster-backports InRelease [46.7 kB]
Get:9 https://openmediavault.github.io/packages usul InRelease [12.7 kB]
Get:10 https://download.docker.com/linux/debian buster InRelease [48.3 kB]
Get:11 https://openmediavault-plugin-developers.github.io/packages/debian usul InRelease [3928 B]
Get:12 http://security.debian.org/debian-security buster/updates/main Sources [186 kB]
Get:13 http://security.debian.org/debian-security buster/updates/non-free Sources [692 B]
Get:14 http://security.debian.org/debian-security buster/updates/main armhf Packages [284 kB]
Get:15 http://security.debian.org/debian-security buster/updates/main Translation-en [150 kB]
Get:16 http://raspbian.raspberrypi.org/raspbian buster/main armhf Packages [13.0 MB]
Get:17 http://packages.openmediavault.org/public usul InRelease [12.7 kB]
Get:18 http://security.debian.org/debian-security buster/updates/non-free Translation-en [344 B]
Get:19 http://archive.raspberrypi.org/debian buster/main armhf Packages [376 kB]
Get:20 http://httpredir.debian.org/debian buster-backports/main armhf Packages [467 kB]
Get:21 https://openmediavault.github.io/packages usul/main armhf Packages [6253 B]
Get:22 http://httpredir.debian.org/debian buster-backports/main Translation-en [402 kB]
Get:23 https://download.docker.com/linux/debian buster/stable armhf Packages [18.9 kB]
Get:24 https://openmediavault-plugin-developers.github.io/packages/debian usul/main armhf Packages [8248 B]
Get:25 http://httpredir.debian.org/debian buster-backports/contrib armhf Packages [8316 B]
Get:26 http://httpredir.debian.org/debian buster-backports/contrib Translation-en [8076 B]
Get:27 http://httpredir.debian.org/debian buster-backports/non-free armhf Packages [13.0 kB]
Get:28 http://httpredir.debian.org/debian buster-backports/non-free Translation-en [38.3 kB]
Get:29 http://packages.openmediavault.org/public usul/main armhf Packages [6253 B]
Get:30 http://raspbian.raspberrypi.org/raspbian buster/contrib armhf Packages [58.7 kB]
Get:31 http://raspbian.raspberrypi.org/raspbian buster/non-free armhf Packages [104 kB]
Get:32 http://raspbian.raspberrypi.org/raspbian buster/rpi armhf Packages [1360 B]
Fetched 15.4 MB in 20s (753 kB/s)
Reading package lists... Done

8. Saving current package list...

Alles anzeigen

ryecoaaron · 28. Mai 2021

Zitat von vutanmapu

Yes, it's a Raspberry Pi 4

RE: Same list of updates every day on Pi 4

vutanmapu · 28. Mai 2021

Yes, there is the same list of updates every day on Pi 4.

apt updates packages but then they show as new updates again

Jetzt mitmachen!

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