Workflows and their dependencies - Jun's dep spreadsheet - status

[Steffen Möller <steffen_moeller@gmx.de>]

Hello,

Jun created this table
https://docs.google.com/spreadsheets/d/1tApLhVqxRZ2VOuMH_aPUgFENQJfbLlB_PFH_Ah_q7hM/edit?usp=sharing
that lists a set of workflows and its dependencies. Some are trickier to
package than others, but if I read this right, then artic, scrnaseq and
smartseq2 just wait for nextflow and pigx-rnaseq waits for tests to work
:o/ Shovill just needs a package for itself.

Some dependencies that we are missing are also not distributed with
Conda. A weird example is the pip package "capsule" as a dependency of
nextflow. Conda however distributes nextflow, so ... what are they doing?

I started to really like that spreadsheet - have also added bcbio to the
list of pending workflow engines. I don't really know where this
spreadsheet could go. It is useful for us now, but I wonder what kind of
questions it can help answering - is it a similarity score for workflows
implementations? A flexibility score for workflows? An indication for
packages to be substituteable? Something to rank significance for all
those packages left uncited in scientific publications? Once all the
packages are in Debian, we can auto-create that matrix. But now? Any
idea on the bio.tools front about this?

Best,

Steffen