You can have initramfs-tools and dracut installed in parallel, but you
can only have one default initrd generator: the initramfs-tools or
dracut binary package. But you can have initramfs-tools-core and dracut-
core installed in parallel.

Reading your bug report I assume following:

* initramfs-tools is installed (to be the default initrd generator)
* cryptsetup-initramfs is missing (causing the lack of unlocking the LUKS 
partition)

Can you show the output of "dpkg -l | grep initr"?

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https://bugs.launchpad.net/bugs/2162931

Title:
  LUKS crypted root can not be opened during initrd

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