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
