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Upgrade Errors after updating centminmod

Discussion in 'Install & Upgrades or Pre-Install Questions' started by redbird, Jun 29, 2021.

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  1. Jun 29, 2021 #1
    redbird

    redbird Member

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    Hi,

    Just upgraded centmin on several servers from linode, vultr etc. But last one from Ramnode is throwing some errors after updating and re-running centmin.

    Any recommendations how to fix this?

    Code:
    [16:09][root@xxxxx.com ~]# centmin
/usr/local/src/centminmod ~

error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
CRITICAL:yum.main:

Error: rpmdb open failed

real    0m0.207s
user    0m0.140s
sys     0m0.048s
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
CRITICAL:yum.cli:Yum Error: Error: rpmdb open failed
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
CRITICAL:yum.main:

Error: rpmdb open failed
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
CRITICAL:yum.main:

Error: rpmdb open failed
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages database in /var/lib/rpm
error: rpmdb: BDB0113 Thread/process 19470/140467489609536 failed: BDB1507 Thread died in Berkeley DB library
error: db5 error(-30973) from dbenv->failchk: BDB0087 DB_RUNRECOVERY: Fatal error, run database recovery
error: cannot open Packages index using db5 -  (-30973)
error: cannot open Packages database in /var/lib/rpm
CRITICAL:yum.main:

Error: rpmdb open failed
--------------------------------------------------------
     Centmin Mod Menu 123.09beta01 centminmod.com
--------------------------------------------------------
1).  Centmin Install
2).  Add Nginx vhost domain
3).  NSD setup domain name DNS
4).  Nginx Upgrade / Downgrade
5).  PHP Upgrade / Downgrade
6).  XCache Re-install
7).  APC Cache Re-install
8).  XCache Install
9).  APC Cache Install
10). Memcached Server Re-install
11). MariaDB MySQL Upgrade & Management
12). Zend OpCache Install/Re-install
13). Install/Reinstall Redis PHP Extension
14). SELinux disable
15). Install/Reinstall ImagicK PHP Extension
16). Change SSHD Port Number
17). Multi-thread compression: zstd,pigz,pbzip2,lbzip2
18). Suhosin PHP Extension install
19). Install FFMPEG and FFMPEG PHP Extension
20). NSD Install/Re-Install
21). Data Transfer (TBA)
22). Add Wordpress Nginx vhost + Cache Plugin
23). Update Centmin Mod Code Base
24). Exit
--------------------------------------------------------
Enter option [ 1 - 24 ] 24
--------------------------------------------------------

    • CentOS Version: CentOS 7 64bit
    • Centmin Mod Version Installed: i.e. 123.08stable or 123.09beta01
    • Nginx Version Installed: 1.19.6
    • PHP Version Installed: 7.1.30
    • MariaDB MySQL Version Installed:
     
  2. Jun 29, 2021 #2
    eva2000

    eva2000 Administrator Staff Member

    53,229
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    May 24, 2014
    Brisbane, Australia
    Ratings:
    +18,654
    Local Time:
    8:48 AM
    Nginx 1.27.x
    MariaDB 10.x/11.4+
    how much disk space/ram do these VPS have it could be low ram/disk space that corrupted your YUM RPM databases

    output for commands
    Code (Text):
    free -mlt
df -hT


    see error: rpmdb: BDB0113 Thread/process failed: BDB1507 Thread died in Berkeley DB

    Code (Text):
    DT=$(date +"%d%m%y-%H%M%S")
mkdir -p /home/backup_rpmdb_$DT
cp -avr /var/lib/rpm/ /home/backup_rpmdb_$DT/
rm -f /var/lib/rpm/__db*
db_verify /var/lib/rpm/Packages
rpm --rebuilddb
yum clean all
     
  3. Jun 29, 2021 #3
    redbird

    redbird Member

    84
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    Aug 28, 2015
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    Ratings:
    +22
    Local Time:
    8:48 AM
    Code:
                  total        used        free      shared  buff/cache   available
Mem:           1024         356           0         300         667         367
Low:           1024        1023           0
High:             0           0           0
Swap:           512         335         176
Total:         1536         691         176
    Code:
    Filesystem        Type      Size  Used Avail Use% Mounted on
/dev/ploop13629p1 ext4      211G   20G  180G  10% /
none              tmpfs     512M     0  512M   0% /sys/fs/cgroup
none              devtmpfs  512M     0  512M   0% /dev
tmpfs             tmpfs     512M     0  512M   0% /dev/shm
tmpfs             tmpfs     512M  447M   66M  88% /run
tmpfs             tmpfs     103M     0  103M   0% /run/user/0
tmpfs             tmpfs     103M     0  103M   0% /run/user/997
tmpfs             tmpfs     103M     0  103M   0% /run/user/1000
You have new mail in /var/spool/mail/root
    looks fine to me
     
  4. Jun 29, 2021 #4
    redbird

    redbird Member

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    Rebuilding DB seems to get rid of those errors.

    Thank you George as always )
     
  5. Jun 30, 2021 #5
    redbird

    redbird Member

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    However, on a second note, now after re-launching centmin I'm getting this message with different code at the end each time:

    Code:
    [10:11][root@xxx.com ~]# centmin
/usr/local/src/centminmod ~

BDB2053 Freeing read locks for locker 0xb7: 18176/140585354585920
     
  6. Jun 30, 2021 #6
    eva2000

    eva2000 Administrator Staff Member

    53,229
    12,116
    113
    May 24, 2014
    Brisbane, Australia
    Ratings:
    +18,654
    Local Time:
    8:48 AM
    Nginx 1.27.x
    MariaDB 10.x/11.4+
    Probably corruption on the disk itself ? Probably best to move VPS servers but try re-running those commands again
     
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