UseR!2019 talk on R gnumaker package

Tags

GNU Make

R gnumaker: easy Makefile construction for enhancing reproducible research

Today, I gave a talk in a great session on Reproducibility at the R Users Conference useR!2019 in Toulouse, France.

There were three speakers with some great ideas and impressive software for reproducibility:

• Quentin Fazilleau Package flextable: a grammar to produce tabular reporting from R
• Leah Welty Connecting R/R Markdown and Microsoft Word using StatTag for Collaborative Reproducibility
• Sébastien Rochette The Rmd first method: when projects start with the documentation

The source (and pdf) for my talk on R gnumaker are available at gitlab

GNU Makefile rules used in R gnumaker may be found at https://github.com/petebaker/r-makefile-definitions

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UseR!2019 talk available here

Tags

GNU Make

It looks like the direct link to talk on gitlab is blocked. Thanks Ray for letting me know!

The talk may be downloaded here.

If you want to obtain the R Markdown files for the talk, then you may be able to reach the gitlab site from the link on the top left hand side of this page. If you are trying to install `gnumaker` package and don’t have the graphics packages installed then you may need to install one or more graphics packages via `bioconductor`.

I’ll fix the links and installation instructions when I get back to Australia.

In the mean time, I’m having a lovely holiday in France and will be back online in 10 days or so.

Peter

Paper on using GNU Make for data analysis workflow accepted by JSS

Tags

GNU Make

My recently accepted and revised paper (Code Snippet) Using GNU Make to Manage the Workflow of Data Analysis Projects is now in the publication queue at the Journal of Statistical Software. A final draft version, which is subject to change, may be dowloaded here.

The article describes GNU Make pattern rules for R, Sweave, R Markdown, SAS, Stata, Perl and Python to streamline management of data analysis and reporting projects. Rules are used by adding a single line to project Makefiles. Additional flexibility is available for modifying standard program options. An overall strategy is outlined for Makefile construction and illustrated via simple and complex examples.

The GNU Makefile rules described in the paper may be found at https://github.com/petebaker/r-makefile-definitions