grst / nxfvars

Access nextflow variables from python scripts or notebooks

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Add a nxfvars execute command

grst opened this issue · comments

Add a nxfvars execute command that calls jupytext/nbconvert to execute and convert a notebook to html.

This should respect jupyter-book compatible tags to

  • hide inputs
  • hide outputs
  • hide both

Optionally, support a nicer template than the default nbconvert one:
https://blog.jupyter.org/the-templating-system-of-nbconvert-6-47ea781eacd2

nxfvars execute is now implemented, but it does not yet respect the tags to hide cells.