Re: yum update / kernal update failed - remove or repair

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On 1/22/20 3:57 PM, Gary Stainburn wrote:
> I have managed to find out what happened in the yum update and it turns out it was a mess.  It looks like the server ran out of memory in the middle and things then started to fail.  Any advice on how to recover from this would be greatly appreciated
> 
> The log below shows:
> 
> [root@vps2 ~]# yum history info 22
> Loaded plugins: fastestmirror, langpacks
> Repository mariadb is listed more than once in the configuration
> Transaction ID : 22
> Begin time     : Sun Jan 19 18:15:33 2020
> Begin rpmdb    : 795:6c5cd82e3ada047c7071fea1524f41fd13fab6a1
> End time       :            19:19:32 2020 (63 minutes)
> End rpmdb      : 801:6d1b278ccbeef6f68ff494cb28eaed5c7be4124b
> User           : root <root>
> Return-Code    : Failure: 1
> Command Line   : update
> Transaction performed with:
>     Installed     rpm-4.11.3-40.el7.x86_64                      @anaconda
>     Installed     yum-3.4.3-163.el7.centos.noarch               @anaconda
>     Installed     yum-plugin-fastestmirror-1.1.31-52.el7.noarch @anaconda
> Packages Altered:
>     Updated MariaDB-client-10.4.10-1.el7.centos.x86_64        @mariadb
>     Update                 10.4.11-1.el7.centos.x86_64        @mariadb
>     Updated MariaDB-common-10.4.10-1.el7.centos.x86_64        @mariadb
>     Update                 10.4.11-1.el7.centos.x86_64        @mariadb
>     Updated MariaDB-compat-10.4.10-1.el7.centos.x86_64        @mariadb
>     Update                 10.4.11-1.el7.centos.x86_64        @mariadb
>  ** Updated MariaDB-server-10.4.10-1.el7.centos.x86_64        @mariadb
> Loading mirror speeds from cached hostfile
>  * base: mirror.as29550.net
>  * epel: www.mirrorservice.org
>  * extras: www.mirrorservice.org
>  * remi-php73: mirrors.ukfast.co.uk
>  * remi-safe: mirrors.ukfast.co.uk
>  * updates: www.mirrorservice.org
>  ** Update                 10.4.11-1.el7.centos.x86_64        @?mariadb
>  ** Updated MariaDB-shared-10.4.10-1.el7.centos.x86_64        @mariadb
>     Update                 10.4.11-1.el7.centos.x86_64        @mariadb
>  ** Updated ca-certificates-2018.2.22-70.0.el7_5.noarch       @anaconda
>  ** Update                  2019.2.32-76.el7_7.noarch         @?updates
>     Updated certbot-0.39.0-1.el7.noarch                       @epel
>     Update          1.0.0-1.el7.noarch                        @epel
>     Updated clamav-0.101.4-1.el7.x86_64                       @epel
>     Update         0.101.5-1.el7.x86_64                       @epel
>     Updated clamav-data-0.101.4-1.el7.noarch                  @epel
>     Update              0.101.5-1.el7.noarch                  @epel
>     Updated clamav-devel-0.101.4-1.el7.x86_64                 @epel
>     Update               0.101.5-1.el7.x86_64                 @epel
>     Updated clamav-filesystem-0.101.4-1.el7.noarch            @epel
>     Update                    0.101.5-1.el7.noarch            @epel
>     Updated clamav-lib-0.101.4-1.el7.x86_64                   @epel
>     Update             0.101.5-1.el7.x86_64                   @epel
>     Updated clamav-update-0.101.4-1.el7.x86_64                @epel
>     Update                0.101.5-1.el7.x86_64                @epel
>     Updated clamd-0.101.4-1.el7.x86_64                        @epel
>     Update        0.101.5-1.el7.x86_64                        @epel
>     Updated curl-7.29.0-54.el7.x86_64                         @anaconda
>     Update       7.29.0-54.el7_7.1.x86_64                     @updates
>     Updated fail2ban-0.9.7-1.el7.noarch                       @epel
>     Update           0.10.4-1.el7.noarch                      @epel
>     Updated fail2ban-firewalld-0.9.7-1.el7.noarch             @epel
>     Update                     0.10.4-1.el7.noarch            @epel
>     Updated fail2ban-sendmail-0.9.7-1.el7.noarch              @epel
>     Update                    0.10.4-1.el7.noarch             @epel
>     Updated fail2ban-server-0.9.7-1.el7.noarch                @epel
>     Update                  0.10.4-1.el7.noarch               @epel
>     Updated fail2ban-systemd-0.9.7-1.el7.noarch               @epel
>     Update                   0.10.4-1.el7.noarch              @epel
>     Updated fribidi-1.0.2-1.el7.x86_64                        @anaconda
>     Update          1.0.2-1.el7_7.1.x86_64                    @updates
>     Updated iproute-4.11.0-25.el7.x86_64                      @anaconda
>     Update          4.11.0-25.el7_7.2.x86_64                  @updates
>     Install kernel-3.10.0-1062.9.1.el7.x86_64                 @updates
>     Updated kernel-headers-3.10.0-1062.4.3.el7.x86_64         @updates
>     Update                 3.10.0-1062.9.1.el7.x86_64         @updates
>     Updated kernel-tools-3.10.0-1062.4.3.el7.x86_64           @updates
>     Update               3.10.0-1062.9.1.el7.x86_64           @updates
>     Updated kernel-tools-libs-3.10.0-1062.4.3.el7.x86_64      @updates
>     Update                    3.10.0-1062.9.1.el7.x86_64      @updates
>     Updated libblkid-2.23.2-61.el7.x86_64                     @anaconda
>     Update           2.23.2-61.el7_7.1.x86_64                 @updates
>     Updated libcurl-7.29.0-54.el7.x86_64                      @anaconda
>     Update          7.29.0-54.el7_7.1.x86_64                  @updates
>     Updated libgs-9.25-2.el7_7.2.x86_64                       @updates
>     Update        9.25-2.el7_7.3.x86_64                       @updates
>     Updated libmount-2.23.2-61.el7.x86_64                     @anaconda
>     Update           2.23.2-61.el7_7.1.x86_64                 @updates
>     Updated libsmartcols-2.23.2-61.el7.x86_64                 @anaconda
>     Update               2.23.2-61.el7_7.1.x86_64             @updates
>     Updated libsss_idmap-1.16.4-21.el7.x86_64                 @anaconda
>     Update               1.16.4-21.el7_7.1.x86_64             @updates
>     Updated libsss_nss_idmap-1.16.4-21.el7.x86_64             @anaconda
>     Update                   1.16.4-21.el7_7.1.x86_64         @updates
>     Updated libuuid-2.23.2-61.el7.x86_64                      @anaconda
>     Update          2.23.2-61.el7_7.1.x86_64                  @updates
>     Updated libwebp7-1.0.2-1.el7.remi.x86_64                  @remi-safe
>     Update           1.0.3-1.el7.remi.x86_64                  @remi-safe
>  ** Updated microcode_ctl-2:2.1-53.3.el7_7.x86_64             @updates
>     Update                2:2.1-53.7.el7_7.x86_64             @updates
>     Updated nss-3.44.0-4.el7.x86_64                           @anaconda
>     Update      3.44.0-7.el7_7.x86_64                         @updates
>     Updated nss-softokn-3.44.0-5.el7.x86_64                   @anaconda
>     Update              3.44.0-8.el7_7.x86_64                 @updates
>     Updated nss-softokn-freebl-3.44.0-5.el7.x86_64            @anaconda
>     Update                     3.44.0-8.el7_7.x86_64          @updates
>     Updated nss-sysinit-3.44.0-4.el7.x86_64                   @anaconda
>     Update              3.44.0-7.el7_7.x86_64                 @updates
>     Updated nss-tools-3.44.0-4.el7.x86_64                     @anaconda
>     Update            3.44.0-7.el7_7.x86_64                   @updates
>     Updated nss-util-3.44.0-3.el7.x86_64                      @anaconda
>     Update           3.44.0-4.el7_7.x86_64                    @updates
>     Updated numactl-libs-2.0.12-3.el7.x86_64                  @anaconda
>     Update               2.0.12-3.el7_7.1.x86_64              @updates
>     Updated pgdg-redhat-repo-42.0-5.noarch                    @/pgdg-centos10-10-2.noarch
>     Update                   42.0-6.noarch                    @pgdg10
>     Updated php-7.3.12-1.el7.remi.x86_64                      @remi-php73
>     Update      7.3.13-1.el7.remi.x86_64                      @remi-php73
>     Updated php-cli-7.3.12-1.el7.remi.x86_64                  @remi-php73
>     Update          7.3.13-1.el7.remi.x86_64                  @remi-php73
>     Updated php-common-7.3.12-1.el7.remi.x86_64               @remi-php73
>     Update             7.3.13-1.el7.remi.x86_64               @remi-php73
>     Updated php-gd-7.3.12-1.el7.remi.x86_64                   @remi-php73
>     Update         7.3.13-1.el7.remi.x86_64                   @remi-php73
>     Updated php-json-7.3.12-1.el7.remi.x86_64                 @remi-php73
>     Update           7.3.13-1.el7.remi.x86_64                 @remi-php73
>     Updated php-ldap-7.3.12-1.el7.remi.x86_64                 @remi-php73
>     Update           7.3.13-1.el7.remi.x86_64                 @remi-php73
>     Updated php-mysqlnd-7.3.12-1.el7.remi.x86_64              @remi-php73
>     Update              7.3.13-1.el7.remi.x86_64              @remi-php73
>     Updated php-odbc-7.3.12-1.el7.remi.x86_64                 @remi-php73
>     Update           7.3.13-1.el7.remi.x86_64                 @remi-php73
>     Updated php-pdo-7.3.12-1.el7.remi.x86_64                  @remi-php73
>     Update          7.3.13-1.el7.remi.x86_64                  @remi-php73
>  ** Updated php-pear-1:1.10.10-2.el7.remi.noarch              @remi-php70
>  ** Update           1:1.10.10-4.el7.remi.noarch              @?remi-php73
>     Updated php-pgsql-7.3.12-1.el7.remi.x86_64                @remi-php73
>     Update            7.3.13-1.el7.remi.x86_64                @remi-php73
>     Updated php-process-7.3.12-1.el7.remi.x86_64              @remi-php73
>     Update              7.3.13-1.el7.remi.x86_64              @remi-php73
>     Updated php-xml-7.3.12-1.el7.remi.x86_64                  @remi-php73
>     Update          7.3.13-1.el7.remi.x86_64                  @remi-php73
>     Updated php-xmlrpc-7.3.12-1.el7.remi.x86_64               @remi-php73
>     Update             7.3.13-1.el7.remi.x86_64               @remi-php73
>     Updated postgresql10-10.11-1PGDG.rhel7.x86_64             @pgdg10
>     Update               10.11-2PGDG.rhel7.x86_64             @pgdg10
>     Updated postgresql10-contrib-10.11-1PGDG.rhel7.x86_64     @pgdg10
>     Update                       10.11-2PGDG.rhel7.x86_64     @pgdg10
>     Updated postgresql10-libs-10.11-1PGDG.rhel7.x86_64        @pgdg10
>     Update                    10.11-2PGDG.rhel7.x86_64        @pgdg10
>  ** Updated postgresql10-server-10.11-1PGDG.rhel7.x86_64      @pgdg10
>     Update                      10.11-2PGDG.rhel7.x86_64      @pgdg10
>  ** Updated proftpd-1.3.5e-7.el7.x86_64                       @epel
>     Update          1.3.5e-8.el7.x86_64                       @epel
>     Updated python-perf-3.10.0-1062.4.3.el7.x86_64            @updates
>     Update              3.10.0-1062.9.1.el7.x86_64            @updates
>     Updated python-requests-2.6.0-7.el7_7.noarch              @updates
>     Update                  2.6.0-8.el7_7.noarch              @updates
>     Updated python2-acme-0.39.0-1.el7.noarch                  @epel
>     Update               1.0.0-1.el7.noarch                   @epel
>     Updated python2-certbot-0.39.0-1.el7.noarch               @epel
>     Update                  1.0.0-1.el7.noarch                @epel
>     Updated python2-certbot-apache-0.39.0-1.el7.noarch        @epel
>     Update                         1.0.0-1.el7.noarch         @epel
>     Updated selinux-policy-3.13.1-252.el7.1.noarch            @updates
>     Update                 3.13.1-252.el7_7.6.noarch          @updates
>     Updated selinux-policy-targeted-3.13.1-252.el7.1.noarch   @updates
>     Update                          3.13.1-252.el7_7.6.noarch @updates
>     Updated sos-3.7-7.el7.centos.noarch                       @updates
>     Update      3.7-10.el7.centos.noarch                      @updates
>  ** Updated sssd-client-1.16.4-21.el7.x86_64                  @anaconda
>     Update              1.16.4-21.el7_7.1.x86_64              @updates
>     Updated tcpdump-14:4.9.2-4.el7.x86_64                     @anaconda
>     Update          14:4.9.2-4.el7_7.1.x86_64                 @updates
>     Updated util-linux-2.23.2-61.el7.x86_64                   @anaconda
>     Update             2.23.2-61.el7_7.1.x86_64               @updates
> Scriptlet output:
>    1 error: Couldn't fork %post(libsss_idmap-1.16.4-21.el7_7.1.x86_64): Cannot allocate memory
>    2 error: Couldn't fork %post(libsss_nss_idmap-1.16.4-21.el7_7.1.x86_64): Cannot allocate memory
>    3 error: Couldn't fork %pre(ca-certificates-2019.2.32-76.el7_7.noarch): Cannot allocate memory
>    4 error: ca-certificates-2019.2.32-76.el7_7.noarch: install failed
>    5 error: Couldn't fork %post(certbot-1.0.0-1.el7.noarch): Cannot allocate memory
>    6 error: Couldn't fork %pre(MariaDB-server-10.4.11-1.el7.centos.x86_64): Cannot allocate memory
>    7 error: MariaDB-server-10.4.11-1.el7.centos.x86_64: install failed
>    8 error: Couldn't fork %post(sssd-client-1.16.4-21.el7_7.1.x86_64): Cannot allocate memory
>    9 error: Couldn't fork %post(kernel-tools-3.10.0-1062.9.1.el7.x86_64): Cannot allocate memory
>   10 error: Couldn't fork %pre(php-pear-1:1.10.10-4.el7.remi.noarch): Cannot allocate memory
>   11 error: php-pear-1:1.10.10-4.el7.remi.noarch: install failed
>   12 warning: /etc/clamd.d/scan.conf created as /etc/clamd.d/scan.conf.rpmnew
>   13 error: Couldn't fork %triggerin(microcode_ctl-2:2.1-53.7.el7_7.x86_64): Cannot allocate memory
>   14 error: php-pear-1:1.10.10-2.el7.remi.noarch: erase skipped
>   15 error: MariaDB-server-10.4.10-1.el7.centos.x86_64: erase skipped
>   16 error: Couldn't fork %preun(MariaDB-shared-10.4.10-1.el7.centos.x86_64): Cannot allocate memory
>   17 error: MariaDB-shared-10.4.10-1.el7.centos.x86_64: erase failed
>   18 error: Couldn't fork %postun(MariaDB-compat-10.4.10-1.el7.centos.x86_64): Cannot allocate memory
>   19 error: ca-certificates-2018.2.22-70.0.el7_5.noarch: erase skipped
>   20 error: Couldn't fork %preun(microcode_ctl-2:2.1-53.3.el7_7.x86_64): Cannot allocate memory
>   21 error: microcode_ctl-2:2.1-53.3.el7_7.x86_64: erase failed
>   22 error: Couldn't fork %preun(postgresql10-server-10.11-1PGDG.rhel7.x86_64): Cannot allocate memory
>   23 error: postgresql10-server-10.11-1PGDG.rhel7.x86_64: erase failed
>   24 error: Couldn't fork %postun(libmount-2.23.2-61.el7.x86_64): Cannot allocate memory
>   25 error: Couldn't fork %preun(sssd-client-1.16.4-21.el7.x86_64): Cannot allocate memory
>   26 error: sssd-client-1.16.4-21.el7.x86_64: erase failed
>   27 error: Couldn't fork %postun(libblkid-2.23.2-61.el7.x86_64): Cannot allocate memory
>   28 error: Couldn't fork %postun(postgresql10-10.11-1PGDG.rhel7.x86_64): Cannot allocate memory
>   29 error: Couldn't fork %postun(clamav-lib-0.101.4-1.el7.x86_64): Cannot allocate memory
>   30 error: Couldn't fork %postun(kernel-tools-3.10.0-1062.4.3.el7.x86_64): Cannot allocate memory
>   31 error: Couldn't fork %postun(libcurl-7.29.0-54.el7.x86_64): Cannot allocate memory
>   32 error: Couldn't fork %postun(nss-3.44.0-4.el7.x86_64): Cannot allocate memory
>   33 error: Couldn't fork %postun(nss-softokn-3.44.0-5.el7.x86_64): Cannot allocate memory
>   34 error: Couldn't fork %postun(nss-util-3.44.0-3.el7.x86_64): Cannot allocate memory
>   35 error: Couldn't fork %postun(postgresql10-libs-10.11-1PGDG.rhel7.x86_64): Cannot allocate memory
>   36 error: Couldn't fork %postun(libuuid-2.23.2-61.el7.x86_64): Cannot allocate memory
>   37 error: Couldn't fork %postun(libsss_idmap-1.16.4-21.el7.x86_64): Cannot allocate memory
>   38 error: Couldn't fork %postun(libsss_nss_idmap-1.16.4-21.el7.x86_64): Cannot allocate memory
>   39 error: Couldn't fork %postun(libsmartcols-2.23.2-61.el7.x86_64): Cannot allocate memory
>   40 error: Couldn't fork %postun(libwebp7-1.0.2-1.el7.remi.x86_64): Cannot allocate memory
>   41 error: Couldn't fork %postun(fribidi-1.0.2-1.el7.x86_64): Cannot allocate memory
>   42 error: Couldn't fork %preun(proftpd-1.3.5e-7.el7.x86_64): Cannot allocate memory
>   43 error: proftpd-1.3.5e-7.el7.x86_64: erase failed
>   44 error: Couldn't fork %postun(numactl-libs-2.0.12-3.el7.x86_64): Cannot allocate memory
>   45 error: Couldn't fork %posttrans(kernel-3.10.0-1062.9.1.el7.x86_64): Cannot allocate memory
>   46 error: Couldn't fork %posttrans(microcode_ctl-2:2.1-53.7.el7_7.x86_64): Cannot allocate memory
> history info
> [root@vps2 ~]# 
> 

Before you try the update again, you'll have to fix the reason for the
failure - add memory, or at least add a swap file.

You could check with
rpm -qa --last | head -20
which the latest packages are that were installed.

If the rpm database is corrupted, rebuild it with
rpm --rebuilddb

You can reinstall packages that may not be completely installed, using
rpm --reinstall PACKAGE_FILE

I'd rpm --erase the kernel package that does not boot.

HTH,
Kay

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