Upgrade issues between ubuntu 14.04 lts and 16.04 lts

[sireasoning]

I recently updated our egroupware server from ubuntu 14.04 lts to 16.04 lts. During the upgrade it uninstalled egroupware. I also deleted the egroupware sources for 14.04 After the upgrade I went to the install page of egroupware and reinstalled egroupware for 16.04 including creating new sources for 16.04 following directions from the Ubuntu page and copy/pasting the scripts. Unfortunately it does not work. It is possible that the issues may be because of the mysql/mariadb upgrade between Ubuntu 14.04 and 16.04. I noticed two flags one for mysql 5.5 and one for mysql 5.7 and I also noticed a new directory, /var/lib/mysql-5.7 which now houses the egroupware database and contained the two flags I mentioned previously. Upon review of studying the mysql pages, it is not recommended to update the databases directly between mysql 5.5 and 5.7 but first to do an upgrade to 5.6 first so this may be the issue.

How do you recommend I proceed?

[obsazeny.cz]

Dne 06.09.2016 v 17:48 sireasoning napsal(a):

Unfortunately it does not work.

Hi,
what is not working?

D.

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[sireasoning]

When I go to the website I get a generic page that says that the page is
not working with an option to reload.

Apache is working as I have owncloud server and it is working fine,
mysql claims to be active although root is denied access. I had actually
attempted to change roots password before as I read that it may be an
issue but it won’t let me log in with the new password in mysql now and
I get a message of failure with root password = NO

d# /etc/init.d/mysql status
● mysql.service - LSB: Start and stop the mysql database server daemon
Loaded: loaded (/etc/init.d/mysql; bad; vendor preset: enabled)
Active: active (running) since Wed 2016-09-07 07:42:26 CDT; 5min ago
Docs: man:systemd-sysv-generator(8)
Process: 2846 ExecStart=/etc/init.d/mysql start (code=exited,
status=0/SUCCESS)
CGroup: /system.slice/mysql.service
├─2950 /bin/bash /usr/bin/mysqld_safe
├─2951 logger -p daemon err -t /etc/init.d/mysql -i
├─3119 /usr/sbin/mysqld --basedir=/usr
–datadir=/var/lib/mysql --plugin-dir=/usr/lib/mysql/plugin --user=mysql
–skip-log-error …
└─3120 logger -t mysqld -p daemon error

Sep 07 07:42:24 egw.ritcheys.info mysqld[3120]: 160907 7:42:24 [Note]
Plugin ‘FEEDBACK’ is disabled.
Sep 07 07:42:24 egw.ritcheys.info mysqld[3120]: 160907 7:42:24 [Note]
Server socket created on IP: ‘127.0.0.1’.
Sep 07 07:42:24 egw.ritcheys.info mysqld[3120]: 160907 7:42:24
[Warning] Found invalid password for user: ‘root@localhost’; Ignoring user
Sep 07 07:42:25 egw.ritcheys.info mysqld[3120]: 160907 7:42:25 [Note]
/usr/sbin/mysqld: ready for connections.
Sep 07 07:42:25 egw.ritcheys.info mysqld[3120]: Version:
‘10.0.25-MariaDB-0ubuntu0.16.04.1’ socket:
’/var/run/mysqld/mysqld.sock’ p…u 16.04
Sep 07 07:42:26 egw.ritcheys.info mysql[2846]: …done.
Sep 07 07:42:26 egw.ritcheys.info systemd[1]: Started LSB: Start and
stop the mysql database server daemon.
Sep 07 07:42:27 egw.ritcheys.info /etc/mysql/debian-start[3296]:
/usr/bin/mysql_upgrade: the ‘–basedir’ option is always ignored
Sep 07 07:42:27 egw.ritcheys.info /etc/mysql/debian-start[3308]:
Checking for insecure root accounts.
Sep 07 07:42:27 egw.ritcheys.info mysql[2846]: ERROR 1045 (28000):
Access denied for user ‘root’@‘localhost’ (using password: NO)
Hint: Some lines were ellipsized, use -l to show in full.

[sireasoning]

I input the new root password into /etc/mysql/debian.conf and that error
message went away but there was no change to the website as it still
gets a generic page is not working.

Mysql status now looks like this: # /etc/init.d/mysql status
● mysql.service - LSB: Start and stop the mysql database server daemon
Loaded: loaded (/etc/init.d/mysql; bad; vendor preset: enabled)
Active: active (running) since Wed 2016-09-07 08:08:18 CDT; 7s ago
Docs: man:systemd-sysv-generator(8)
Process: 4030 ExecStop=/etc/init.d/mysql stop (code=exited,
status=1/FAILURE)
Process: 4331 ExecStart=/etc/init.d/mysql start (code=exited,
status=0/SUCCESS)
CGroup: /system.slice/mysql.service
├─2950 /bin/bash /usr/bin/mysqld_safe
├─2951 logger -p daemon err -t /etc/init.d/mysql -i
├─3119 /usr/sbin/mysqld --basedir=/usr
–datadir=/var/lib/mysql --plugin-dir=/usr/lib/mysql/plugin --user=mysql
–skip-log-error …
└─3120 logger -t mysqld -p daemon error

Sep 07 08:08:18 egw.ritcheys.info systemd[1]: Starting LSB: Start and
stop the mysql database server daemon…
Sep 07 08:08:18 egw.ritcheys.info mysql[4331]: * Starting MariaDB
database server mysqld
Sep 07 08:08:18 egw.ritcheys.info mysql[4331]: …done.
Sep 07 08:08:18 egw.ritcheys.info systemd[1]: Started LSB: Start and
stop the mysql database server daemon.

[sireasoning]

I noticed that the /var/lib/mysql directory (without egroupware directory) has a file called mysql_upgrade_info showing 10.0.25-MariaDB. The var/lib/mysql-5.7 directory (which includes the egroupware directory) has mysql_upgrade_info showing 5.7.13 (current mysql version)

[sireasoning]

for what it is worth… the setup page does not work either
https://xxx.xxx.xxx/egroupware/setup

[obsazeny.cz]

I think I had the same issue, but I cannot explain what exactly helped.
I think that in the end I did apt-get remove/reinstall egroupware and
installed again. There were some missing dependecies and it was kind of
seek and hide.

d.

Dne 07.09.2016 v 16:49 sireasoning napsal(a):

for what it is worth… the setup page does not work either
https://xxx.xxx.xxx/egroupware/setup

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[sireasoning]

I uninstalled and reinstalled and got the following message:

PHP Notice: Undefined index: currentapp in /var/lib/egroupware/header.inc.php on line 16
PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 90
PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 91
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php --update 'all,sczjd,?<M)Y5OPrS=:38Au’
No default timezone (php.ini date.timezone) set, we temporary set ‘America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up to date
Your database is not working! mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

EGroupware install log saved to /root/egroupware-epl-install.log

[GeorgK]

Put “if (isset($GLOBALS[‘egw_info’][‘flags’][‘currentapp’]))” in front
of if (!isset($GLOBALS[‘egw_info’]) ||
in_array($GLOBALS[‘egw_info’][‘flags’][‘currentapp’],array(‘jinn’,‘mydms’,‘tts’)))

Then there is no NOTICE message, which blocks the setup

should be than:
// allow to migrate from phpgw_info to egw_info
if (isset($GLOBALS[‘egw_info’][‘flags’][‘currentapp’]))
if (!isset($GLOBALS[‘egw_info’]) ||
in_array($GLOBALS[‘egw_info’][‘flags’][‘currentapp’],array(‘jinn’,‘mydms’,‘tts’)))

this works for our environment …

09:57:56 -0700 (MST)

I uninstalled and reinstalled and got the following message:

PHP Notice: Undefined index: currentapp in
/var/lib/egroupware/header.inc.php on line 16
PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 90
PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 91
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php
–update ‘all,sczjd,?<M)Y5OPrS=:38Au’
No default timezone (php.ini date.timezone) set, we temporary set
’America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up
to date
Your database is not working!
mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

EGroupware install log saved to /root/egroupware-epl-install.log

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-14-04-lts-and-16-04-lts-tp4014077p4014089.html
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Mit freundlichen Grüßen,

Georg Klimm

LOHN24.de GmbH Internetlohnabrechnungen ila
Hausanschrift: Jahnstrasse 35 * 12347 Berlin
Postanschrift: Postfach 47 06 69 * 12315 Berlin
Tel: +49 30 6840881-499 * Fax: +49 30 6644208
Internet: https://www.lohn24.de
AG Berlin-Charlottenburg HRB 92027
Geschäftsführer Hans-Joachim May, Christoph Ludwigs, Hans-Georg Klimm

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[sireasoning]

I added that line and got this during the install:
PHP Warning: include(/usr/share/egroupware/phpgwapi/setup/setup.inc.php): failed to open stream: No such file or directory in /var/lib/egroupware/header.inc.php on line 105
PHP Warning: include(): Failed opening ‘/usr/share/egroupware/phpgwapi/setup/setup.inc.php’ for inclusion (include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on line 105
PHP Notice: Undefined variable: setup_info in /var/lib/egroupware/header.inc.php on line 106
PHP Notice: Undefined variable: setup_info in /var/lib/egroupware/header.inc.php on line 107
PHP Warning: require_once(/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php): failed to open stream: No such file or directory in /var/lib/egroupware/header.inc.php on line 121
PHP Fatal error: require_once(): Failed opening required ‘/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php’ (include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on line 121
EGroupware install log saved to /root/egroupware-epl-install.log

I then added egroupware-epl-compat (which at least allows me to get into the setup page) and got the following messages:

Setting up egroupware-epl-compat (16.1.20160905) …
PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 91
PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 92
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php --update 'all,sczjd,?eKNJBBNod%egoyb,no,phpgwapi’
No default timezone (php.ini date.timezone) set, we temporary set ‘America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up to date
Your database is not working! mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 91
PHP Warning: Cannot modify header information - headers already sent by (output started at /usr/share/egroupware/setup/setup-cli.php:55) in /var/lib/egroupware/header.inc.php on line 92
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php --update 'all,sczjd,nf1<Iwy)nGGT;HO%,no,etemplate’
No default timezone (php.ini date.timezone) set, we temporary set ‘America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up to date
Your database is not working! mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

Curious about the timezone issue as I set it in php.ini 7.0 and when I do a check installation I get all green checks, including timezone

[GeorgK]

Take care to edit /etc/php/7.0/cli/php.ini

10:33:29 -0700 (MST)

I added that line and got this during the install:
PHP Warning: include(/usr/share/egroupware/phpgwapi/setup/setup.inc.php):
failed to open stream: No such file or directory in
/var/lib/egroupware/header.inc.php on line 105
PHP Warning: include(): Failed opening
’/usr/share/egroupware/phpgwapi/setup/setup.inc.php’ for inclusion
(include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on
line 105
PHP Notice: Undefined variable: setup_info in
/var/lib/egroupware/header.inc.php on line 106
PHP Notice: Undefined variable: setup_info in
/var/lib/egroupware/header.inc.php on line 107
PHP Warning:
require_once(/usr/share/egroupware/phpgwapi/inc/common_functions.inc
.php):
failed to open stream: No such file or directory in
/var/lib/egroupware/header.inc.php on line 121
PHP Fatal error: require_once(): Failed opening required
’/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php’
(include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on
line 121
EGroupware install log saved to /root/egroupware-epl-install.log

I then added egroupware-epl-compat (which at least allows me to get into the
setup page) and got the following messages:

Setting up egroupware-epl-compat (16.1.20160905) …
PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 91
PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 92
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php
–update ‘all,sczjd,?eKNJBBNod%egoyb,no,phpgwapi’
No default timezone (php.ini date.timezone) set, we temporary set
’America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up
to date
Your database is not working!
mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 91
PHP Warning: Cannot modify header information - headers already sent by
(output started at /usr/share/egroupware/setup/setup-cli.php:55) in
/var/lib/egroupware/header.inc.php on line 92
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php
–update ‘all,sczjd,nf1<Iwy)nGGT;HO%,no,etemplate’
No default timezone (php.ini date.timezone) set, we temporary set
’America/Chicago’. You should fix that permanent!
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up
to date
Your database is not working!
mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

Curious about the timezone issue as I set it in php.ini 7.0 and when I do a
check installation I get all green checks, including timezone

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-14-04-lts-and-16-04-lts-tp4014077p4014091.html
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Mit freundlichen Grüßen,

Georg Klimm

LOHN24.de GmbH Internetlohnabrechnungen ila
Hausanschrift: Jahnstrasse 35 * 12347 Berlin
Postanschrift: Postfach 47 06 69 * 12315 Berlin
Tel: +49 30 6840881-499 * Fax: +49 30 6644208
Internet: https://www.lohn24.de
AG Berlin-Charlottenburg HRB 92027
Geschäftsführer Hans-Joachim May, Christoph Ludwigs, Hans-Georg Klimm

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[sireasoning]

thanks. I fixed the cli/php.ini and when trying to install egroupware-epl-compat I get:

Setting up egroupware-epl-compat (16.1.20160905) …
/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php --update 'all,sczjd,a5w[S3d;o2R5M<7e,no,phpgwapi’
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up to date
Your database is not working! mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

/usr/bin/php7.0 -d memory_limit=-1 /usr/share/egroupware/setup/setup-cli.php --update 'all,sczjd,?3fCX?F1cQ&fmNkQ,no,etemplate’
EGroupware API version 16.1.003 found.
EGroupware configuration file (header.inc.php) version 1.29 exists and is up to date
Your database is not working! mysql://egroupware:#VTi-8oIeW1Vcuk[@localhost/egroupware:

Installation failed --> exiting!

[sireasoning]

forgot to add the error messages for egroupware-epl:

Setting up egroupware-epl (16.1.20160905) …
PHP Warning: include(/usr/share/egroupware/phpgwapi/setup/setup.inc.php): failed to open stream: No such file or directory in /var/lib/egroupware/header.inc.php on line 105
PHP Warning: include(): Failed opening ‘/usr/share/egroupware/phpgwapi/setup/setup.inc.php’ for inclusion (include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on line 105
PHP Notice: Undefined variable: setup_info in /var/lib/egroupware/header.inc.php on line 106
PHP Notice: Undefined variable: setup_info in /var/lib/egroupware/header.inc.php on line 107
PHP Warning: require_once(/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php): failed to open stream: No such file or directory in /var/lib/egroupware/header.inc.php on line 121
PHP Fatal error: require_once(): Failed opening required ‘/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php’ (include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on line 121
EGroupware install log saved to /root/egroupware-epl-install.log

[GeorgK]

I think there goes something wrong with the extracting of your
/usr/share/egroupware/phpgwapi
Perhaps you try

aptitude reinstall egroupware-epl

?

11:37:35 -0700 (MST)

forgot to add the error messages for egroupware-epl:

Setting up egroupware-epl (16.1.20160905) …
PHP Warning: include(/usr/share/egroupware/phpgwapi/setup/setup.inc.php):
failed to open stream: No such file or directory in
/var/lib/egroupware/header.inc.php on line 105
PHP Warning: include(): Failed opening
’/usr/share/egroupware/phpgwapi/setup/setup.inc.php’ for inclusion
(include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on
line 105
PHP Notice: Undefined variable: setup_info in
/var/lib/egroupware/header.inc.php on line 106
PHP Notice: Undefined variable: setup_info in
/var/lib/egroupware/header.inc.php on line 107
PHP Warning:
require_once(/usr/share/egroupware/phpgwapi/inc/common_functions.inc
.php):
failed to open stream: No such file or directory in
/var/lib/egroupware/header.inc.php on line 121
PHP Fatal error: require_once(): Failed opening required
’/usr/share/egroupware/phpgwapi/inc/common_functions.inc.php’
(include_path=’.:/usr/share/php’) in /var/lib/egroupware/header.inc.php on
line 121
EGroupware install log saved to /root/egroupware-epl-install.log

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-14-04-lts-and-16-04-lts-tp4014077p4014094.html
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Mit freundlichen Grüßen,

Georg Klimm

LOHN24.de GmbH Internetlohnabrechnungen ila
Hausanschrift: Jahnstrasse 35 * 12347 Berlin
Postanschrift: Postfach 47 06 69 * 12315 Berlin
Tel: +49 30 6840881-499 * Fax: +49 30 6644208
Internet: https://www.lohn24.de
AG Berlin-Charlottenburg HRB 92027
Geschäftsführer Hans-Joachim May, Christoph Ludwigs, Hans-Georg Klimm

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[sireasoning]

I have been uninstalling and then reinstalling each time. I am currently
uninstalling mariaDB and trying out mysql again, but that is failing to
install also.

[sireasoning]

Got it working

First I uninstalled MariaDB. I then tried to install mysql-5.7 but got all kinds of errors and it still did not recognize the database so I purged mysql-5.7. During the purge I discovered that mysql 5.5 from 14.04 was still installed so I purged those files. I then reinstalled mysql-5.7 but still got errors after installing egroupware-epl and egroupware-epl-compat with the database not working. I then created a new database and installed from a backup and that got it working after upgrading.

I did find that there were several applications that were previously installed that I did not seem to find egroupware packages for: phpsysinfo, manual, syncml, egw-pear. DO these still exist or should I remove these packages from the database?

[RalfBecker]

Hi,

Got it working

First I uninstalled MariaDB. I then tried to install mysql-5.7 but got all
kinds of errors and it still did not recognize the database so I purged
mysql-5.7. During the purge I discovered that mysql 5.5 from 14.04 was still
installed so I purged those files. I then reinstalled mysql-5.7 but still
got errors after installing egroupware-epl and egroupware-epl-compat with
the database not working. I then created a new database and installed from a
backup and that got it working after upgrading.

I did find that there were several applications that were previously
installed that I did not seem to find egroupware packages for: phpsysinfo,
manual, syncml, egw-pear. DO these still exist or should I remove these
packages from the database?

No, the don’t exist or are not needed anymore and contain no data, so
you can safely remove them.

Ralf

–
Ralf Becker
EGroupware GmbH [www.egroupware.org]
Handelsregister HRB Kaiserslautern 3587
Geschäftsführer Birgit und Ralf Becker
Leibnizstr. 17, 67663 Kaiserslautern, Germany
Telefon +49 631 31657-0