Kubuntu 18.04 upgrade has broken MongoDB server?

Question

It seems that after upgrading to Ubuntu/ Kubuntu 18.04 has broken my MongoDB server.

I have tried to reinstall Mongo but I still can't start it as before:

$ sudo apt-get install mongodb-server
$ mongo --version
MongoDB shell version v3.6.3
git version: 9586e557d54ef70f9ca4b43c26892cd55257e1a5
OpenSSL version: OpenSSL 1.1.0h  27 Mar 2018
allocator: tcmalloc
modules: none
build environment:
    distarch: x86_64
    target_arch: x86_64

The status:

$ sudo service mongodb status
● mongodb.service - An object/document-oriented database
   Loaded: loaded (/lib/systemd/system/mongodb.service; enabled; vendor preset: enabled)
   Active: failed (Result: exit-code) since Sun 2018-10-07 14:30:40 BST; 17s ago
     Docs: man:mongod(1)
  Process: 5925 ExecStart=/usr/bin/mongod --unixSocketPrefix=${SOCKETPATH} --config ${CONF} $DAEMON_OPTS (code=exited, status=62)
 Main PID: 5925 (code=exited, status=62)

Oct 07 14:30:38 lau-desktop systemd[1]: Started An object/document-oriented database.
Oct 07 14:30:40 lau-desktop systemd[1]: mongodb.service: Main process exited, code=exited, status=62/n/a
Oct 07 14:30:40 lau-desktop systemd[1]: mongodb.service: Failed with result 'exit-code'.

Any ideas?

EDIT:

When I tried to install mongo 4, I get the error:

Preparing to unpack .../mongodb-org-server_4.0.3_amd64.deb ...
Unpacking mongodb-org-server (4.0.3) ...
dpkg: error processing archive /var/cache/apt/archives/mongodb-org-server_4.0.3_amd64.deb (--unpack):
 trying to overwrite '/usr/bin/mongod', which is also in package mongodb-server-core 1:3.6.3-0ubuntu1
dpkg-deb: error: paste subprocess was killed by signal (Broken pipe)
Preparing to unpack .../mongodb-org-mongos_4.0.3_amd64.deb ...
Unpacking mongodb-org-mongos (4.0.3) ...
dpkg: error processing archive /var/cache/apt/archives/mongodb-org-mongos_4.0.3_amd64.deb (--unpack):
 trying to overwrite '/usr/bin/mongos', which is also in package mongodb-server-core 1:3.6.3-0ubuntu1
dpkg-deb: error: paste subprocess was killed by signal (Broken pipe)
Preparing to unpack .../mongodb-org-tools_4.0.3_amd64.deb ...
Unpacking mongodb-org-tools (4.0.3) ...
dpkg: error processing archive /var/cache/apt/archives/mongodb-org-tools_4.0.3_amd64.deb (--unpack):
 trying to overwrite '/usr/bin/bsondump', which is also in package mongo-tools 3.6.3-0ubuntu1
dpkg-deb: error: paste subprocess was killed by signal (Broken pipe)
Errors were encountered while processing:
 /var/cache/apt/archives/mongodb-org-server_4.0.3_amd64.deb
 /var/cache/apt/archives/mongodb-org-mongos_4.0.3_amd64.deb
 /var/cache/apt/archives/mongodb-org-tools_4.0.3_amd64.deb
E: Sub-process /usr/bin/dpkg returned an error code (1)

EDIT 2:

$ sudo apt upgrade
Reading package lists... Done
Building dependency tree       
Reading state information... Done
You might want to run 'apt --fix-broken install' to correct these.
The following packages have unmet dependencies.
 mongodb-org : Depends: mongodb-org-server but it is not installed
               Depends: mongodb-org-mongos but it is not installed
               Depends: mongodb-org-tools but it is not installed
E: Unmet dependencies. Try 'apt --fix-broken install' with no packages (or specify a solution).

EDIT 3:

$ mongo --versionMongoDB shell version v4.0.3
git version: 7ea530946fa7880364d88c8d8b6026bbc9ffa48c
OpenSSL version: OpenSSL 1.1.0h  27 Mar 2018
allocator: tcmalloc
modules: none
build environment:
    distmod: ubuntu1804
    distarch: x86_64
    target_arch: x86_64

$ sudo service mongodb status
● mongodb.service
   Loaded: masked (/dev/null; bad)
   Active: failed (Result: exit-code) since Sun 2018-10-07 15:12:14 BST; 1h 7min ago
 Main PID: 2232 (code=exited, status=62)

Oct 07 15:12:13 lau-desktop systemd[1]: Started An object/document-oriented database.
Oct 07 15:12:14 lau-desktop systemd[1]: mongodb.service: Main process exited, code=exited, status=62/n/a
Oct 07 15:12:14 lau-desktop systemd[1]: mongodb.service: Failed with result 'exit-code'.

Maybe this might help? https://askubuntu.com/a/842599/231142 — Terrance, Oct 07 '18 at 13:53
Maybe try running sudo apt clean to clean the cache folder then try the install again. — Terrance, Oct 07 '18 at 14:30
@Terrance thanks but still no luck. please see my edit above. — Run, Oct 07 '18 at 14:35
Ah, OK. Probably need to remove the previous version before installing the new one. I am sorry I didn't think about that. Before removing the old version try running sudo apt update and sudo apt upgrade and maybe see if it upgrades to the 4.0 which is supposed to be for Ubuntu 18.04. — Terrance, Oct 07 '18 at 14:52
@Terrance please see my edit 2. I think I should remove all the broken .dev. how can I remove them? — Run, Oct 07 '18 at 15:09
@Terrance I think I have it installed ok now but it still fails to start. see my edit 3. thanks. — Run, Oct 07 '18 at 15:20

score 5 · Accepted Answer · edited Oct 11 '18 at 14:17

Following the guide from Mongo official site, I got it fixed.

Step 1:

sudo apt-key adv --keyserver hkp://keyserver.ubuntu.com:80 --recv E52529D4

Step 2:

echo "deb [ arch=amd64 ] https://repo.mongodb.org/apt/ubuntu bionic/mongodb-org/4.0 multiverse" | sudo tee /etc/apt/sources.list.d/mongodb-org-4.0.list

Step 3:

sudo apt-get update

Step 4:

sudo apt-get install -y mongodb-org=4.0.2 mongodb-org-server=4.0.2 mongodb-org-shell=4.0.2 mongodb-org-mongos=4.0.2 mongodb-org-tools=4.0.2

Step 5:

sudo service mongod start

Step 6:

sudo service mongod status
● mongod.service - High-performance, schema-free document-oriented database
   Loaded: loaded (/etc/systemd/system/mongod.service; enabled; vendor preset: enabled)
   Active: active (running) since Sun 2018-10-07 17:06:28 BST; 4min 24s ago
 Main PID: 27797 (mongod)
    Tasks: 26 (limit: 4915)
   CGroup: /system.slice/mongod.service
           └─27797 /usr/bin/mongod --quiet --config /etc/mongod.conf

Oct 07 17:06:28 lau-desktop systemd[1]: Started High-performance, schema-free document-oriented database.
Oct 07 17:06:28 lau-desktop mongod[27797]: 2018-10-07T17:06:28.337+0100 I CONTROL  [main] Automatically disabling TLS 1.0, to force-enable TLS
lines 1-10/10 (END)

+1 Glad you found a way to fix the dilemma you were having. =) You can accept your own answer here. — Terrance, Oct 11 '18 at 14:17

score 1 · Answer 2 · answered Jan 07 '19 at 04:36

I also faced the same issue. The accepted answer did not worked for me, as I was trying to install version 4.0.5. I like to share how I solved the problem.

From the error message, I learnt that, apt is trying overwrite /usr/bin/bsondump of version 3.6.3, with the latest version(at the time of writing this) 4.0.5. Earlier, I did removed, previously install mongodb version 3.6.3. Some how, mongo-tools package was left.

So, I simply needed to remove mongo-tools@3.6.3. But, as the installation of mongodb@4.0.5 did not completed successfully, I had to reset apt before, I can do anything with apt.

This command undid the broken package installation.

sudo dpkg --remove --force-remove-reinstreq mongodb-org

Then, I simply ran following commands to remove mongo-tools@3.6.3

sudo apt update # to refresh apt
sudo apt remove mongo-tools # to remove mongo-tools 3.6.3

Finally, I re-ran the following command to install latest mongodb

sudo apt-get install -y mongodb-org

It worked!

Kubuntu 18.04 upgrade has broken MongoDB server?

2 Answers2