CODEWITHSUNDEEP
rr-markdown
Dan
Dan

Reputation: 12074

Suppressing marmap messages in RMarkdown

Say I have the following RMarkdown file:

---
title: "Test"
author: "Mr. Test"
date: "October 15, 2018"
output: html_document
---

```{r echo = FALSE, message = FALSE, error = FALSE, warning = FALSE}
# Load library
library(marmap)

# Download bathymetry data and keep for future use
bathy <- getNOAA.bathy(lon1 = -5, lon2 = 5, lat1 = -5, lat2 = 5, resolution = 1, keep = TRUE)

# Perform same command again, which reads downloaded file
invisible(bathy <- getNOAA.bathy(lon1 = -5, lon2 = 5, lat1 = -5, lat2 = 5, resolution = 1, keep = TRUE))
```

This uses the marmap package to download and load some data into R. Then, it loads the data again from the local file. This gives the following output:

enter image description here

Notice that I try suppressing all output from this chunk using chunk options, whether an error, message, or warning, yet there is still output. I even tried wrapping the commands in invisible and still I get output. Looking at the raw code for getNOAA.bathy, I see that the author is using cat to print output rather than message. In this case, how do I silence the function?

Upvotes: 0

Views: 43

Answers (1)

Dan
Dan

Reputation: 12074

Okay, I have a solution. Apparently, invisible alone won't do the job, but invisible(capture.output()) will. Any clarification as to why this is the case would be appreciated.

Upvotes: 2

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