Hi R-help, I've looked at google, the Rscript documentation and the Rscript --help output and haven't found much on this. So, here's my question: I have a rather long script that runs on various input datasets. It is quite convenient to run the script from the Terminal command line with "Rscript scriptname.R" However, some datasets will cause errors. These are non-essential errors -- just some datasets don't have certain columns so certain parts of the overall analysis don't produce figures etc. Yes, I could go through the whole script and insert try() statements, etc. But I'm lazy. So, is there a way to run Rscript or something similar, and just have it ignore all errors (i.e., keep running through the script)? I.e., just like what happens if you just copy-paste the whole script into the R window -- errors happen and are noted but the rest of the script keeps running. Thanks very much for any help!! Cheers! Nick [[alternative HTML version deleted]]
Nick,
I don't know of a way to do what you want ... tell R to ignore all errors
... but, I do have a suggestion.
Since you regard these errors as "non-essential", why not edit your
code to
reflect that? For example, instead of writing
plot(df$x1, df$y1)
write
if ("x1" %in% names(df) & "y1" %in% names(df))
plot(df$x1, df$y1)
... or something like that.
Jean
On Thu, Apr 23, 2015 at 12:28 PM, Nick Matzke <matzke at nimbios.org>
wrote:
> Hi R-help,
>
> I've looked at google, the Rscript documentation and the Rscript --help
> output and haven't found much on this. So, here's my question:
>
> I have a rather long script that runs on various input datasets. It is
> quite convenient to run the script from the Terminal command line with
> "Rscript scriptname.R"
>
> However, some datasets will cause errors. These are non-essential errors --
> just some datasets don't have certain columns so certain parts of the
> overall analysis don't produce figures etc. Yes, I could go through
the
> whole script and insert try() statements, etc. But I'm lazy.
>
> So, is there a way to run Rscript or something similar, and just have it
> ignore all errors (i.e., keep running through the script)? I.e., just like
> what happens if you just copy-paste the whole script into the R window --
> errors happen and are noted but the rest of the script keeps running.
>
> Thanks very much for any help!!
>
> Cheers!
> Nick
>
> [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
[[alternative HTML version deleted]]
On Sun, Apr 26, 2015 at 1:39 PM, Adams, Jean <jvadams at usgs.gov> wrote:> Nick, > > I don't know of a way to do what you want ... tell R to ignore all errors > ... but, I do have a suggestion. > > Since you regard these errors as "non-essential", why not edit your code > to reflect that? For example, instead of writing > plot(df$x1, df$y1) > write > if ("x1" %in% names(df) & "y1" %in% names(df)) plot(df$x1, df$y1) > > ... or something like that. > > Jean >Hi! I could, but you can imagine that doing that several dozen times, reducing readability and increasing the chance of making some other mistake. As originally mentioned, I'm lazy. I did find a super-easy solution, posted here: http://r.789695.n4.nabble.com/run-Rscript-and-ignore-errors-tc4706333.html#a4706395 Cheers! Nick> > On Thu, Apr 23, 2015 at 12:28 PM, Nick Matzke <matzke at nimbios.org> wrote: > >> Hi R-help, >> >> I've looked at google, the Rscript documentation and the Rscript --help >> output and haven't found much on this. So, here's my question: >> >> I have a rather long script that runs on various input datasets. It is >> quite convenient to run the script from the Terminal command line with >> "Rscript scriptname.R" >> >> However, some datasets will cause errors. These are non-essential errors >> -- >> just some datasets don't have certain columns so certain parts of the >> overall analysis don't produce figures etc. Yes, I could go through the >> whole script and insert try() statements, etc. But I'm lazy. >> >> So, is there a way to run Rscript or something similar, and just have it >> ignore all errors (i.e., keep running through the script)? I.e., just >> like >> what happens if you just copy-paste the whole script into the R window -- >> errors happen and are noted but the rest of the script keeps running. >> >> Thanks very much for any help!! >> >> Cheers! >> Nick >> >> [[alternative HTML version deleted]] >> >> ______________________________________________ >> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >> http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. >> > >[[alternative HTML version deleted]]