MongoDB installation Ubuntu 12.04 LTS errors

installationmongodbUbuntu

I need some help with my MongoDB installation on a clean, fresh Ubuntu 12.04 LTS server with no nonsense installed. I thought it would be a piece of cake, but I got some errors and the Ubuntu-forums didn't had the answer I was looking for.

Before I started with the actual installation of MongoDB, I wanted the server to be up-to-date, so I typed:

$ sudo apt-get clean && sudo apt-get update && sudo apt-get upgrade

I went to to website from MongoDB (http://docs.mongodb.org/manual/tutorial/install-mongodb-on-ubuntu/) and followed their tutorial, so I typed:

$ sudo apt-key adv --keyserver hkp://keyserver.ubuntu.com:80 --recv 7F0CEB10
$ echo "deb http://repo.mongodb.org/apt/ubuntu "$(lsb_release -sc)"/mongodb-org/3.0 multiverse" | sudo tee /etc/apt/sources.list.d/mongodb-org-3.0.list
$ sudo apt-get update
$ sudo apt-get install -y mongodb-org

At this point I have MongoDB installed. Like we all know, in order to use MongoDB you need to start it using a terminal and after that you'll be able to connect with a seperated terminal/connection.

So, I typed:

ubuntu-user@ubuntu-vm:~$ mongo
MongoDB shell version: 3.0.1
connecting to: test
Server has startup warnings: 
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] 
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] ** WARNING: /sys/kernel/mm/transparent_hugepage/defrag is 'always'.
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] **        We suggest setting it to 'never'
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] 
> ^C

ubuntu-user@ubuntu-vm:~$ mongod
2015-03-27T12:38:54.773+0100 I STORAGE  [initandlisten] exception in initAndListen: 29 Data directory /data/db not found., terminating
2015-03-27T12:38:54.774+0100 I CONTROL  [initandlisten] dbexit:  rc: 100

Ofcourse, I don't want to use stackoverflow right away, before doing my own investigation first. I went online to look for answers and I noticed that lots of people using "export LC_ALL=C" to fix the variable problem. I also tried using dpkg.

ubuntu-user@ubuntu-vm:~$ export LC_ALL=C

ubuntu-user@ubuntu-vm:~$ dpkg-reconfigure locales
root@ubuntu-vm:~# dpkg-reconfigure locales
perl: warning: Setting locale failed.
perl: warning: Please check that your locale settings:
    LANGUAGE = "en_US:en",
    LC_ALL = "c",
    LC_PAPER = "nl_NL.UTF-8",
    LC_ADDRESS = "nl_NL.UTF-8",
    LC_MONETARY = "nl_NL.UTF-8",
    LC_NUMERIC = "nl_NL.UTF-8",
    LC_TELEPHONE = "nl_NL.UTF-8",
    LC_IDENTIFICATION = "nl_NL.UTF-8",
    LC_MEASUREMENT = "nl_NL.UTF-8",
    LC_NAME = "nl_NL.UTF-8",
    LANG = "en_US.UTF-8"
    are supported and installed on your system.
perl: warning: Falling back to the standard locale ("C").
locale: Cannot set LC_CTYPE to default locale: No such file or directory
locale: Cannot set LC_MESSAGES to default locale: No such file or directory
locale: Cannot set LC_ALL to default locale: No such file or directory
/bin/bash: warning: setlocale: LC_ALL: cannot change locale (c)
Generating locales...
  en_AG.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_AU.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_BW.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_CA.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_DK.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_GB.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_HK.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_IE.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_IN.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_NG.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_NZ.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_PH.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_SG.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_US.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_ZA.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_ZM.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
  en_ZW.UTF-8... /usr/sbin/locale-gen: line 177: warning: setlocale: LC_ALL: cannot change locale (c)
up-to-date
Generation complete.

Apparently, that didn't work properly, so I needed to continue my search. I came up with another solution: edit the /etc/default/grub file with GRUB_CMDLINE_LINUX_DEFAULT="transparent_hugepage=never" and then I got this:

ubuntu-user@ubuntu-vm:~$ mongo
Failed global initialization: BadValue Invalid or no user locale set.
Please ensure LANG and/or LC_* environment variables are set correctly.

ubuntu-user@ubuntu-vm:~$ mongod
2015-03-27T12:56:19.085+0100 F CONTROL  Failed global initialization:
BadValue Invalid or no user locale set. Please ensure LANG and/or LC_*
environment variables are set correctly.

So, practically I have no idea what went wrong. I looked all over the internet and couldn't find the exact answer I am looking for. I did a clean install just like the website said. A few months ago I did the same tutorial and everything was working perfectly, with version 2.6.x, this is 3.0.1.

Could you guys help me out? Any comments/tips/tricks will be sincerely appreciated 🙂

Best Answer

There is actually nothing really wrong here, at least not based on what you have included in the question. Go back to this point:

ubuntu-user@ubuntu-vm:~$ mongo

MongoDB shell version: 3.0.1
connecting to: test
Server has startup warnings: 
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] 
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] ** WARNING: /sys/kernel/mm/transparent_hugepage/defrag is 'always'.
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] **        We suggest setting it to 'never'
2015-03-27T12:37:30.430+0100 I CONTROL  [initandlisten] 
> ^C

At this point you have a running mongod (the procedure you followed installs it as a service), and you have successfully connected to it using the mongo shell, it just has a hugepages warning - that is something you should fix long-term but it does not prevent MongoDB from running.

You then exited the shell and attemped to start another mongod for some reason (you do not need to, the service is still running). If you run mongod without a config file or any options, it will attempt to start with its defaults (port 27017, data directory = /data/db). In this case /data/db does not exist and so you get the error and it terminates.

To fix the error in terms of the hugepages you can alter grub.conf file, as outlined in this answer but you may have made a mistake or omitted something when you made your changes. It's also possible that you will lose those changes if/when you upgrade your kernel. Hence I would recommend undoing your grub changes and trying the second option listed in the answer above, that is, add the command to your /etc/rc.local file.

if test -f /sys/kernel/mm/transparent_hugepage/enabled; then
   echo never > /sys/kernel/mm/transparent_hugepage/enabled
fi
if test -f /sys/kernel/mm/transparent_hugepage/defrag; then
   echo never > /sys/kernel/mm/transparent_hugepage/defrag
fi

As an added bonus, you can run this from the command line (as root), then restart the mongod service to confirm the changes have been picked up successfully.

Related Solutions

Mongodb – Upstart script in ubuntu for mongodb

Are you running from the 10gen repository or from the default Debian/Ubuntu repo? I recommend using the official 10gen repository.

Check this link out - [10gen MongoDB How-To Install on Ubuntu:] http://docs.mongodb.org/manual/tutorial/install-mongodb-on-ubuntu/. It is best to uninstall the previous mongodb installation prior to this change, which will also require you to modify your repository source (in /etc/apt/source.list) but this is also detailed in the link above. I recommend using upstart over sysvinit and the processed is outlined in the How-To.

With the 10gen Ubuntu set-up, the configuration file is in /etc/mongodb.conf.

There are several ways that you can you can run a separate mongod process, one would simply be running it from the cli -

sudo -u mongodb mongod --dbpath /var/tmp/mongotest --logpath /var/tmp/mongotest_log --port 3001 &

which will produce (using 'ps')

mongodb   2210  3.3  1.5 259012 15300 pts/0    Dl   11:48   0:00 mongod --dbpath /var/tmp/mongotest --logpath /var/tmp/mongotest_log --port 3001

and you can connect via the cli -> mongod --port 3001

Another way is creating a copy of /etc/mongodb.conf -

sudo cp /etc/mongodb.conf /etc/mongodbnew.conf and editing the following lines in the new file - 


# mongodbnew.conf

dbpath=/var/lib/mongodbnew

#where to log
logpath=/var/log/mongodb/mongodbnew.log

port = 27018

I have changed the dbpath (where the mongodb files are stored) from /var/lib/mongodb to /var/lib/mongodbnew; the log path has changed from mongodb.log to mongodbnew.log and the port has changed from the default of 27017 to 27018 (you will also have to remove the # to uncomment the line).

I also changed the top line to reflect the new name of this configuration file.

You will also have to create the data directory because it won't exist and without it, the mongod process won't start and ensure that the owner and group is mongodb -

sudo mkdir /var/lib/mongodbnew
sudo chown -R mongodb:mongodb mongodbnew/

Additionally, create and change the persmissions of your log file -

sudo touch /var/log/mongodb/mongodbnew.log && sudo chown mongodb:mongodb /var/log/mongodb/mongodbnew.log

To start your new mongod process (in the background) from the cli, type

sudo -u mongodb /usr/bin/mongod --config /etc/mongodbnew.conf &

which send the following to the screen -

"all output going to: /var/log/mongodb/mongodbnew.log"

Check that the mongod processes are running with "ps" -

sysadmin@ubuntu:/var/lib$ ps auwx | grep mongo | egrep -v 'grep|sudo'
mongodb    921 11.3  1.5 627672 15608 ?        Ssl  10:56   4:30 /usr/bin/mongod --config /etc/mongodb.conf
mongodb   2137  7.8  1.5 627672 15880 pts/0    Sl   11:36   0:00 /usr/bin/mongod --config /etc/mongodbnew.conf

To verify that you can connect, run the Mongo shell -

$ mongo --port 27018
MongoDB shell version: 2.0.5
connecting to: 127.0.0.1:27018/test
>

With lsof, you should now see your two mongod processes, the original bound to 27017 and the new one bound to 27018.

$ sudo lsof -i :27017
COMMAND PID    USER   FD   TYPE DEVICE SIZE/OFF NODE NAME
mongod  921 mongodb    6u  IPv4   9066      0t0  TCP *:27017 (LISTEN)
sysadmin@ubuntu:/var/lib$ sudo lsof -i :27018
COMMAND  PID    USER   FD   TYPE DEVICE SIZE/OFF NODE NAME
mongod  2137 mongodb    6r  IPv4  11923      0t0  TCP *:27018 (LISTEN)

To ensure that the two processes run at start-up, copy the original init configuration file -

sudo cp /etc/init/mongodb.conf /etc/init/mongodbnew.conf

which should result in two files such as -

$ ls -lart /etc/init/mongo*
-rw-r--r-- 1 root root 536 May  8 15:51 /etc/init/mongodb.conf
-rw-r--r-- 1 root root 554 Jun 11 11:43 /etc/init/mongodbnew.conf

Edit the new mongodbnew.conf file using vi or whatever you prefer to look like this -

## Ubuntu upstart file at /etc/init/mongodbnew.conf

limit nofile 20000 20000

kill timeout 300 # wait 300s between SIGTERM and SIGKILL.

pre-start script
    mkdir -p /var/lib/mongodbnew/
    mkdir -p /var/log/mongodbnew/
end script

start on runlevel [2345]

stop on runlevel [06]

script
  ENABLE_MONGODB="yes"
  if [ -f /etc/default/mongodbnew ]; then . /etc/default/mongodbnew; fi
  if [ "x$ENABLE_MONGODB" = "xyes" ]; then exec start-stop-daemon --start --quiet --chuid mongodb --exec                /usr/bin/mongod -- --config /etc/mongodbnew.conf; fi

end script

I have tested this on Ubuntu 12.04 and it appears to work well, including after a reboot. I haven't run it in production obviously. Apologies, if there's any typo's above but there's a lot of information and I may have missed something.

Finally, here's a link on Replica Sets that might help you as it has come examples on starting multiple mongod instances from the cli - http://www.mongodb.org/display/DOCS/Replica+Set+Tutorial.

Installing Oracle 11g XE on Ubuntu 12.04

This part is unusual:

ORACLE_HOME=/u01/app/oracle/product/11.2.0/xe/

This needs to be char-by-char identical every time. I see it ends with a slash here, which is non-standard, and I suspect that you've added it by mistake. Adding a slash will result in "ORACLE not available" in so-called bequeath sqlplus, I've just experimented on my system. Try again with one consistent setting like:

export ORACLE_HOME=/u01/app/oracle/product/11.2.0/xe

Best Answer

Related Solutions

Mongodb – Upstart script in ubuntu for mongodb

end script

Installing Oracle 11g XE on Ubuntu 12.04

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