I am still seeing this problem on Ubuntu 16.04 with a Nvidia GPU only:

mai 07 18:50:26 bender systemd[1]: Starting Light Display Manager...
mai 07 18:50:27 bender lightdm[2112]: /etc/modprobe.d is not a file
mai 07 18:50:27 bender lightdm[2112]: /etc/modprobe.d is not a file
mai 07 18:50:27 bender lightdm[2112]: /etc/modprobe.d is not a file
mai 07 18:50:27 bender lightdm[2112]: /etc/modprobe.d is not a file
mai 07 18:50:27 bender lightdm[2112]: /etc/modprobe.d is not a file
mai 07 18:50:27 bender lightdm[2112]: update-alternatives: error: no 
alternatives for x86_64-linux-gnu_gfxcore_conf
mai 07 18:50:27 bender systemd[1]: Stopped Light Display Manager.
zsh: exit 3     sudo service lightdm status

ii  nvidia-361                                      361.42-0ubuntu2             
               amd64        NVIDIA binary driver - version 361.42
ii  nvidia-opencl-icd-361                           361.42-0ubuntu2             
               amd64        NVIDIA OpenCL ICD
ii  nvidia-prime                                    0.8.2                       
               amd64        Tools to enable NVIDIA's Prime
ii  nvidia-settings                                 361.42-0ubuntu1             
               amd64        Tool for configuring the NVIDIA graphics driver

Surprisingly, this causes lightdm not to start automatically upon first
boot, but a manual restart works.

Happy to provide more details and help debug that.

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https://bugs.launchpad.net/bugs/1369216

Title:
  gpu-manager: /etc/modprobe.d is not a file

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