Seqware command tab-completion

Download the tab-completion script.

Download the script from https://github.com/SeqWare/seqware/releases/download/1.1.0/seqware_bash_completion

From the command line, you can do it like this:

$ wget https://github.com/SeqWare/seqware/releases/download/1.1.0/seqware_bash_completion

Install the script.

The script contains bash code that will tell your system how to perform tab-completion for the seqware command. You will need to execute this script to register this code with your system. To do this, you must ensure that the file is executable.

$ chmod u+x seqware_bash_completion

The script needs to be installed in /etc/bash_completion.d/. If you don’t have access to this directory, you could try installing it to ~/.bash_completion.d/ instead.

$ sudo mv seqware_bash_completion /etc/bash_completion.d/

The script then needs to be executed.

$ /etc/bash_completion.d/seqware_bash_completion

You should now be able to type seqware-<TAB> and see a list of available sub-commands (the changes might not be noticable until you open a new terminal or start a new session):

$ seqware 
annotate      checkdb       create        files         workflow      
bundle        copy          dev           query         workflow-run

This will work on subcommands as well!

$ seqware annotate 
experiment    ius           processing    study         workflow-run  
file          lane          sample        workflow