Mathematica-related procedures

In this section, we will show you a few things related specifically to running code reproducibly with Wolfram Mathematica. For more general debugging tips for this and other computer languages, see our wiki.

Files

Mathematica uses the file extension .nb. This includes both code and the output. You will run the code, and then save the output in two ways: .nb and as a PDF.

Note

At this time, Mathematica is only available on CCSS machines.

Instructions

Follow these instructions for each file:

• Open each .nb file, and do the following:

  • Cell -> Delete all output

  • Evaluation -> Evaluate Notebook

  • Save

  • Save as... -> PDF

• Then completely exit Mathematica again!

Note

You can paste this into the Replication Steps section when appropriate:

- Opened each `.nb` file, and did the following:
  - `Cell` -> `Delete all output`
  - `Evaluation` -> `Evaluate Notebook`
  - `Save`
  - `Save as...` -> `PDF` 

Then commit both the re-executed notebooks and the new PDF files to your repository.

Variations

There are a lot of different ways to run Mathematica code. Should this not work, talk to your supervisor.