Prokka Error

Question

[Maayeesha]

I have installed prokka in ubuntu as per recommendation in their GitHub repository. But the "local" isn't being created. Previously, when I tried to create the directory manually, an indexing error occurred. Can someone please help out?

[lieven.sterck]

hi,

first a small notice: please don't paste an image of your terminal in your post. Simply copy-paste the actual text from your terminal in your post and format it with the 101011 button on top of the edit box.

Have you checked the file/directory permissions? I see there a message related to permission problems. And do you have enough free space in those locations to put the required files?

Answer 1

[Mensur Dlakic]

First, the directory in question is not local but rather .local. That dot in front is easy to miss.

The error indicates that you don't have the file Viruses in the location where prokka expects it.

Assuming you have Perl and other dependencies already installed, I suggest you delete all the existing directories and issue these commands:

git clone https://github.com/tseemann/prokka.git $HOME/prokka
$HOME/prokka/bin/prokka --setupdb