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Your python3 install is corrupted. Please fix the '/usr/bin/python3' symlink.

Posted September 10, 2019 40k views
UbuntuPython

When trying to do “do-release-upgrade” from current Ubuntu 18.04 to new 19.04 I am getting error

“Your python3 install is corrupted. Please fix the ’/usr/bin/python3’ symlink ”

I currently have python 2.7, 3, 3.6 and 3.7 installed.

Please advise what shall i try.
Thanks

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cznew03
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cznew03

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4 answers
abmononline October 20, 2020

i had the same problem with my python3 installation because i installed an alternative version. the default that came with ubuntu 18.04 was python3.6 and i had installed 3.7 & 3.8 and when ever i wanted to switch to the specific version i would use use update-alternative command. the issue with process is that it alters the default python3 simlink to point to the alternative installation path from

/usr/bin/python3.6

to

/etc/alternatives/python3

and the system expects that the first not the second even the terminal wouldn’t work so to restore to the default,

  • remove alternative python installation (optional) but pointless to keep one when ubuntu 20.04 uses later version of python3
sudo update-alternative --remove python3 {/path/to/python3.7}
  • restore the old (defulat) symlink of python3
sudo rm -rf /usr/bin/python3 && sudo ln -s /usr/bin/python3.6 /usr/bin/python3

and after that if you check your python3 symlink path

ls -la /usr/bin/python3.6

and it should point to the old (default) /usr/bin/python3.6

good luck and hope this helps.

Reply Report
  • babi47 November 14, 2020

    This worked perfectly for me.Thanks

    Reply Report
  • simranss December 31, 2020

    This completely worked. It was a lifesaver. I had to upgrade from 20.04 LTS to 20.10.
    Actually, I had python 3.9 installed as well.

    sudo update-alternative --remove python3 {/path/to/python3.9}

    The only change I had to made was in the python version.

    sudo rm -rf /usr/bin/python3 && sudo ln -s /usr/bin/python3.8 /usr/bin/python3

    And it worked like a charm.

    Reply Report
alexdo September 10, 2019

Hello,

I believe this is a know issue, you can also check this in the following report in the launchpad bugs forum:

https://bugs.launchpad.net/ubuntu/+source/ubuntu-release-upgrader/+bug/1825655

The suggested workaround is to remove the python’s binary in /usr/bin and then to create a symlink and perform the upgrade:

sudo rm /usr/bin/python

sudo ln -s /usr/bin/python2.7 /usr/bin/python

and then perform the upgrade

do-release-upgrade

I would also recommend you to backup your droplet in case something goes wrong, however you will simply remove the binary file from the /usr/bin and then create a symlink to replace it.

Let me know how it goes.

Alex

Reply Report
  • cznew03 September 10, 2019

    Thank you. Tried that, Now getting "-bash: /usr/bin/do-release-upgrade: /usr/bin/python3: bad interpreter: Too many levels of symbolic links "

    Reply Report
  • cegalvao June 15, 2020

    This solution worked for me! I just did a litte correction:

    sudo rm /usr/bin/python
sudo ln -s /usr/bin/python2.7 /usr/bin/python

sudo rm /usr/bin/python3
sudo ln -s /usr/bin/python3.8 /usr/bin/python3

do-release-upgrade

    Look at whereis python3 for show paths with correct version.

    Reply Report
cznew03 September 10, 2019

Seems i have done something to python.
Now when i try sudo apt upgrade ,

i get 

Processing was halted because there were too many errors.
E: Sub-process /usr/bin/dpkg returned an error code (1)```
Reply Report
  • alexdo September 10, 2019

    Can you provide me with the full output of the apt upgrade command as it usually says which packages are failing?

    Looking forward to your reply.

    Alex

    Reply Report
    • cznew03 September 10, 2019

      Here and sorry its too big

      
root@ubuntu-discord-s-1vcpu-1gb-sgp1-01:~# sudo apt upgrade
Reading package lists... Done
Building dependency tree
Reading state information... Done
Calculating upgrade... Done
The following packages were automatically installed and are no longer required:
  apport-symptoms libexpat1-dev libpython2-stdlib libpython3-dev
  libpython3.6-dev squashfs-tools
Use 'sudo apt autoremove' to remove them.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
57 not fully installed or removed.
Need to get 0 B/47.2 kB of archives.
After this operation, 0 B of additional disk space will be used.
Do you want to continue? [Y/n] y
Setting up python3.6 (3.6.8-1~18.10) ...
/var/lib/dpkg/info/python3.6.postinst: 9: /var/lib/dpkg/info/python3.6.postinst:                                                                       /usr/bin/python3.6: Too many levels of symbolic links
dpkg: error processing package python3.6 (--configure):
 installed python3.6 package post-installation script subprocess returned error                                                                       exit status 2
dpkg: dependency problems prevent configuration of python3:
 python3 depends on python3.6 (>= 3.6.7-1~); however:
  Package python3.6 is not configured yet.

dpkg: error processing package python3 (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-cffi-backend:
 python3-cffi-backend depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.
 python3-cffi-backend depends on python3 (>= 3.6~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-cffi-backend (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-olefile:
 python3-olefile depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-olefile (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-keyring:
 python3-keyring depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-keyring (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-commandnotfound:
 python3-commandnotfound depends on python3:any (>= 3.2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-commandnotfound (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-crypto:
 python3-crypto depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.
 python3-crypto depends on python3 (>= 3.6~); however:
  Package python3 is not configured yet.
 python3-crypto depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-crypto (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-constantly:
 python3-constantly depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-constantly (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-requests-unixsocket:
 python3-requests-unixsocket depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-requests-unixsocket (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of language-selector-common:
 language-selector-common depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package language-selector-common (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-click:
 python3-click depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-click (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-idna:
 python3-idna depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-idna (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-xdg:
 python3-xdg depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-xdg (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-update-manager:
 python3-update-manager depends on python3:any (>= 3.2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-update-manager (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-keyrings.alt:
 python3-keyrings.alt depends on python3-crypto; however:
  Package python3-crypto is not configured yet.
 python3-keyrings.alt depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-keyrings.alt (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-colorama:
 python3-colorama depends on python3:any (>= 3.4~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-colorama (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-certifi:
 python3-certifi depends on python3:any (>= 3.4~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-certifi (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-wheel:
 python3-wheel depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-wheel (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-gi:
 python3-gi depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.
 python3-gi depends on python3 (>= 3.6~); however:
  Package python3 is not configured yet.
 python3-gi depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-gi (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-apport:
 python3-apport depends on python3:any (>= 3.0~); however:
  Package python3 is not configured yet.
 python3-apport depends on python3-requests-unixsocket; however:
  Package python3-requests-unixsocket is not configured yet.

dpkg: error processing package python3-apport (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-asn1crypto:
 python3-asn1crypto depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-asn1crypto (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-blinker:
 python3-blinker depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-blinker (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-debconf:
 python3-debconf depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-debconf (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-oauthlib:
 python3-oauthlib depends on python3:any (>= 3.4~); however:
  Package python3 is not configured yet.
 python3-oauthlib depends on python3-blinker; however:
  Package python3-blinker is not configured yet.

dpkg: error processing package python3-oauthlib (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-chardet:
 python3-chardet depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-chardet (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of sosreport:
 sosreport depends on python3:any (>= 3.3~); however:
  Package python3 is not configured yet.

dpkg: error processing package sosreport (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-systemd:
 python3-systemd depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.
 python3-systemd depends on python3 (>= 3.6~); however:
  Package python3 is not configured yet.
 python3-systemd depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-systemd (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-all:
 python3-all depends on python3 (= 3.6.7-1~18.10); however:
  Package python3 is not configured yet.
 python3-all depends on python3.6; however:
  Package python3.6 is not configured yet.

dpkg: error processing package python3-all (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-httplib2:
 python3-httplib2 depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-httplib2 (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-pip:
 python3-pip depends on python3:any (>= 3.4~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-pip (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-requests:
 python3-requests depends on python3-certifi; however:
  Package python3-certifi is not configured yet.
 python3-requests depends on python3-chardet (<< 3.1.0); however:
  Package python3-chardet is not configured yet.
 python3-requests depends on python3-idna; however:
  Package python3-idna is not configured yet.
 python3-requests depends on python3:any (>= 3.4~); however:
  Package python3 is not configured yet.
 python3-requests depends on python3-chardet (>= 3.0.2); however:
  Package python3-chardet is not configured yet.

dpkg: error processing package python3-requests (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-attr:
 python3-attr depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-attr (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-gdbm:amd64:
 python3-gdbm:amd64 depends on python3 (>= 3.6.6-1~); however:
  Package python3 is not configured yet.
 python3-gdbm:amd64 depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-gdbm:amd64 (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-openssl:
 python3-openssl depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-openssl (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-software-properties:
 python3-software-properties depends on python3:any; however:
  Package python3 is not configured yet.
 python3-software-properties depends on python3; however:
  Package python3 is not configured yet.
 python3-software-properties depends on python3-gi; however:
  Package python3-gi is not configured yet.

dpkg: error processing package python3-software-properties (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-twisted:
 python3-twisted depends on python3-attr; however:
  Package python3-attr is not configured yet.
 python3-twisted depends on python3-constantly; however:
  Package python3-constantly is not configured yet.
 python3-twisted depends on python3:any; however:
  Package python3 is not configured yet.
 python3-twisted depends on python3-openssl; however:
  Package python3-openssl is not configured yet.

dpkg: error processing package python3-twisted (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-service-identity:
 python3-service-identity depends on python3-attr; however:
  Package python3-attr is not configured yet.
 python3-service-identity depends on python3-openssl; however:
  Package python3-openssl is not configured yet.
 python3-service-identity depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-service-identity (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-configobj:
 python3-configobj depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-configobj (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-setuptools:
 python3-setuptools depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-setuptools (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-hyperlink:
 python3-hyperlink depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-hyperlink (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-secretstorage:
 python3-secretstorage depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-secretstorage (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-automat:
 python3-automat depends on python3-attr; however:
  Package python3-attr is not configured yet.
 python3-automat depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-automat (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of dh-python:
 dh-python depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package dh-python (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-debian:
 python3-debian depends on python3-chardet; however:
  Package python3-chardet is not configured yet.
 python3-debian depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-debian (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of ssh-import-id:
 ssh-import-id depends on python3-requests (>= 1.1.0); however:
  Package python3-requests is not configured yet.
 ssh-import-id depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package ssh-import-id (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-distutils:
 python3-distutils depends on python3 (>= 3.6.6-1~); however:
  Package python3 is not configured yet.
 python3-distutils depends on python3 (<< 3.8); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-distutils (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of cloud-init:
 cloud-init depends on python3; however:
  Package python3 is not configured yet.
 cloud-init depends on python3-requests; however:
  Package python3-requests is not configured yet.
 cloud-init depends on python3-configobj; however:
  Package python3-configobj is not configured yet.
 cloud-init depends on python3-oauthlib; however:
  Package python3-oauthlib is not configured yet.
 cloud-init depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package cloud-init (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of software-properties-common:
 software-properties-common depends on python3:any; however:
  Package python3 is not configured yet.
 software-properties-common depends on python3; however:
  Package python3 is not configured yet.
 software-properties-common depends on python3-gi; however:
  Package python3-gi is not configured yet.
 software-properties-common depends on python3-software-properties (= 0.96.27.1)                                                                      ; however:
  Package python3-software-properties is not configured yet.

dpkg: error processing package software-properties-common (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-cryptography:
 python3-cryptography depends on python3 (>= 3~); however:
  Package python3 is not configured yet.
 python3-cryptography depends on python3-asn1crypto (>= 0.21.0~); however:
  Package python3-asn1crypto is not configured yet.
 python3-cryptography depends on python3-cffi-backend-api-min (<= 9729); however                                                                      :
  Package python3-cffi-backend-api-min is not installed.
  Package python3-cffi-backend which provides python3-cffi-backend-api-min is no                                                                      t configured yet.
 python3-cryptography depends on python3-cffi-backend-api-max (>= 9729); however                                                                      :
  Package python3-cffi-backend-api-max is not installed.
  Package python3-cffi-backend which provides python3-cffi-backend-api-max is no                                                                      t configured yet.
 python3-cryptography depends on python3-idna (>= 2.1); however:
  Package python3-idna is not configured yet.
 python3-cryptography depends on python3:any; however:
  Package python3 is not configured yet.

dpkg: error processing package python3-cryptography (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-incremental:
 python3-incremental depends on python3:any (>= 3.3.2-2~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-incremental (--configure):
 dependency problems - leaving unconfigured
dpkg: dependency problems prevent configuration of python3-distro-info:
 python3-distro-info depends on python3:any (>= 3.0~); however:
  Package python3 is not configured yet.

dpkg: error processing package python3-distro-info (--configure):
 dependency problems - leaving unconfigured
dpkg: too many errors, stopping
Errors were encountered while processing:
 python3.6
 python3
 python3-cffi-backend
 python3-olefile
 python3-keyring
 python3-commandnotfound
 python3-crypto
 python3-constantly
 python3-requests-unixsocket
 language-selector-common
 python3-click
 python3-idna
 python3-xdg
 python3-update-manager
 python3-keyrings.alt
 python3-colorama
 python3-certifi
 python3-wheel
 python3-gi
 python3-apport
 python3-asn1crypto
 python3-blinker
 python3-debconf
 python3-oauthlib
 python3-chardet
 sosreport
 python3-systemd
 python3-all
 python3-httplib2
 python3-pip
 python3-requests
 python3-attr
 python3-gdbm:amd64
 python3-openssl
 python3-software-properties
 python3-twisted
 python3-service-identity
 python3-configobj
 python3-setuptools
 python3-hyperlink
 python3-secretstorage
 python3-automat
 dh-python
 python3-debian
 ssh-import-id
 python3-distutils
 cloud-init
 software-properties-common
 python3-cryptography
 python3-incremental
 python3-distro-info
Processing was halted because there were too many errors.
E: Sub-process /usr/bin/dpkg returned an error code (1)
      Reply Report
jainrid May 22, 2020

Any update?
I have manually install python2.7 and python3.7 after deleting the executable accidentally.

linux@linux:/usr/bin$ 
==> which python
/usr/bin/python
linux@linux:/usr/bin$ 
==> l python
lrwxrwxrwx 1 root root 24 May 22 00:47 python -> /usr/local/bin/python2.7
linux@linux:/usr/bin$ 
==> l python*
lrwxrwxrwx 1 root root 24 May 22 00:47 python -> /usr/local/bin/python2.7
lrwxrwxrwx 1 root root 22 May 22 00:47 python3 -> /usr/local/bin/python3
linux@linux:/usr/bin$ 
==> python --version
Python 3.7.4
linux@linux:/usr/bin$ 
==> lsb_release -a
Traceback (most recent call last):
  File "/usr/bin/lsb_release", line 25, in <module>
    import lsb_release
ModuleNotFoundError: No module named 'lsb_release'
linux@linux:/usr/bin$ 
==> sudo do-release-upgrade
Traceback (most recent call last):
  File "/usr/bin/do-release-upgrade", line 8, in <module>
    from DistUpgrade.DistUpgradeVersion import VERSION
ModuleNotFoundError: No module named 'DistUpgrade'
Reply Report

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