Suppress reader parse problems in r

Question

I am currently reading in a file using the package readr. The idea is to use read_delim to read in row for row to find the maximum columns in my unstructured data file. The code outputs that there are parsing problems. I know of these and will deal with column type after import. Is there a way to turn off the problems() as the usual options(warn) is not working

i=1
max_col <- 0
options(warn = -1)
while(i != "stop")
{
  n_col<- ncol(read_delim("file.txt", n_max = 1, skip = i, delim="\t"))
  if(n_col > max_col) {
    max_col <- n_col
    print(max_col)
  }
  i <- i+1
  if(n_col==0) i<-"stop"
}
options(warn = 0)

The output to console that I am trying to suppress is the following:

.See problems(...) for more details.
Warning: 11 parsing failures.
row      col   expected  actual
  1 1####4 valid date 1###8

I've the feeling you should fix the file out of R before importing it. Maybe awk is better suited for the task ? — Tensibai, May 26 '16 at 13:52
`suppressWarnings(x <- readr::parse_integer(c("1X", "blah", "3")))` seems to work... — cory, May 26 '16 at 13:53
Probably better to open a `file` connection, read the file a line at a time and count the separators? `max(sapply(readLines("file.txt"),function(x){length(strsplit(x,"\t")[[1]])}))` — Spacedman, May 26 '16 at 13:55

Mehrad Mahmoudian · Accepted Answer · 2017-05-12T07:59:26.750

30

In R you can suppress three main annoying things while using packages:

messages suppressMessages(YOUR_FUNCTION)
warnings suppressWarnings(YOUR_FUNCTION)
package startup messages suppressPackageStartupMessages(YOUR_FUNCTION)

So in your case imho also let the package developer knows so that he/she can for example add a verbose argument in the function.

edited May 12 '17 at 07:59

answered Dec 22 '16 at 14:25

Mehrad Mahmoudian

3,466
32
36

score 8 · Answer 2 · answered Jul 27 '18 at 22:10

8

if you are using rmd 'R Markdown' with RStudio, you can pass in the following arguments which will suppress the warning messages as well as the columns names.

```{r warning = FALSE, message=FALSE}

HTH
AA

answered Jul 27 '18 at 22:10

Amod

636
1
8
9

or in your knitr options with knitr::opts_chunk$set( message = FALSE, warning = FALSE ) – Mike Nov 12 '19 at 20:37

Suppress reader parse problems in r

2 Answers2

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