Creating reports from jupyter notebook analyses with doconce

[karinlag]

First, apologies if this is a FAQ, however, I have not been able to figure out this issue by reading the docs so far (which may very well just be because I haven't understood enough of how doconce works yet).

I am making a bioinformatics analyses pipeline, and I have analyses at the end of this pipeline that I'd like to run. I also want these analyses to be available as jupyter notebooks so that the users can rerun and modify the analyses as needed - note. As far as I've understood, I can have these analyses written in doconce, and get notebooks produced from these, which the user can then run. However, I have heard rumours that I can also have doconce execute these analyses, and produce pdfs/html/whatever from these. I have yet to find out how to do this from the documentation. I realize that if this is indeed possible, it should be described somewhere, and I would be grateful if somebody could point me to where to find the relevant docs.

[KGHustad]

This feature is not considered stable yet, hence there is no mention of it in the documentation. If you want to try it out, you need to use the dev branch. Code execution is enabled with --execute.

[karinlag]

Thanks for letting me know, and for pointing me in the right direction!