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hubverse-org / hubEnsemblesManuscript

https://htmlpreview.github.io/?https://github.com/Infectious-Disease-Modeling-Hubs/hubEnsemblesManuscript/blob/master/analysis/paper/hubEnsembles_manuscript.html
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quarto - problem "patchwork; #38

Closed harryhoch closed 2 months ago

harryhoch commented 4 months ago

tried to render the quato file:

quarto preview hubEnsembles_manuscript.qmd --to pdf --no-watch-inputs --no-browse

got an error that "patchwork" wasn't installed.

elray1 commented 3 months ago

additionally, "reshape2"; I wonder if there's a standard/automatic way to say what packages an analysis like this relies on?

annakrystalli commented 3 months ago

It seems like some of the issues are arising because, although these dependencies are specified in the DESCRIPTION file, they are specified under Suggests (probably a remnant of how it was set up originally in hubEnsembles). Given that for the manuscript it would would be more useful to have all dependencies available and their versions fixed however, should we use renv instead?

annakrystalli commented 3 months ago

Ooops! I just noticed we do have renv set up! The instructions to use it are just missing from the README! @harryhoch any chance you could run renv::restore() and let me know if that fixes your issues?

lshandross commented 2 months ago

Should be fixed thanks to https://github.com/Infectious-Disease-Modeling-Hubs/hubEnsemblesManuscript/pull/70