Guix Workflow Language ?

[zimoun <zimon.toutoune@gmail.com>]

Dear,

Thank you to provide a workflow manager!
It is fun. :-)

I am currently investigating to describe basic and simple workflows.
And there is a couple of solutions, from python-oriented Snakemake
with Conda capabilities to Common Workflow Language or Workflow
Description Language.

https://snakemake.readthedocs.io/en/latest/
http://www.commonwl.org
https://software.broadinstitute.org/wdl/

And there is already some pipelines elsewhere, e.g.,
https://view.commonwl.org/workflows?search=rnaseq
https://github.com/UMCUGenetics/GGR-cwl

Moreover, some hyper-specialised and classical genomics pipelines are
also available elsewhere, e.g.,
http://bioinformatics.mdc-berlin.de/pigx/


Well, my question is: does it appear to you reasonable to write a
front-end for CWL ?


Because it seems hard to have some room in this landscape, even if I
think that the Guix-way is the most scientific (reproducible, open,
etc.).
I mean, there is room for a guix-backend engine (another CWL
implementation), I guess.

So, during a raining week-end, I gave a look to the specs of CWL and
why not start by define a subset, but then I have failed to write a
parser of it in Guile.


Hum? another question: does it exist an easy-to-use Guile library for
parsing YAML-like files ?


I have found Racket ones, but it was not clear to me how to do with
Guile (without reinventing the wheel).


What do you think about feeding GWL engine by CWL pipeline ?


Thank you for any advice.

All the best,
simon