Hey all, I'm developing an application that calls third party software using system2(..., stdout = TRUE) and then reads this using textConnection() + read.csv (). Problem is that sometimes the output is bigger than 8096 bytes and then the lines are split (from system2 documentation), what messes up what I have set up to read the output. Is there any way of preventing system2() from breaking the lines? I think I can work around this issue, but I'm looking for a cleaner solution for the time being. Cheers, Luiz -- Luiz Max Fagundes de Carvalho PhD student, Institute of Evolutionary Biology, School of Biological Sciences, Ashworth Laboratories, Ash 2, office 123 University of Edinburgh, United Kingdom. http://br.linkedin.com/pub/luiz-max-carvalho/49/687/283 [[alternative HTML version deleted]]
You don't say which operating system you are using, but this sounds like it
could easily be affected by your OS (even of in this case it isn't). My
suggestion would be to use a temporary file.
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On March 15, 2015 11:02:57 AM PDT, Luiz Max Carvalho <luizepidemiologia at
gmail.com> wrote:>Hey all,
>
>I'm developing an application that calls third party software using
>system2(..., stdout = TRUE) and then reads this using textConnection()
>+
> read.csv ().
>
>Problem is that sometimes the output is bigger than 8096 bytes and then
>the
>lines are split (from system2 documentation), what messes up what I
>have
>set up to read the output.
>
>Is there any way of preventing system2() from breaking the lines? I
>think I
>can work around this issue, but I'm looking for a cleaner solution for
>the
>time being.
>
>Cheers,
>
>Luiz
Sorry for that. It's Ubuntu 14.04. I would like to avoid a temporary file altogether, but if there is not other way... Thanks, Luiz On 15 March 2015 at 20:14, Jeff Newmiller <jdnewmil at dcn.davis.ca.us> wrote:> You don't say which operating system you are using, but this sounds like > it could easily be affected by your OS (even of in this case it isn't). My > suggestion would be to use a temporary file. > --------------------------------------------------------------------------- > Jeff Newmiller The ..... ..... Go Live... > DCN:<jdnewmil at dcn.davis.ca.us> Basics: ##.#. ##.#. Live > Go... > Live: OO#.. Dead: OO#.. Playing > Research Engineer (Solar/Batteries O.O#. #.O#. with > /Software/Embedded Controllers) .OO#. .OO#. rocks...1k > --------------------------------------------------------------------------- > Sent from my phone. Please excuse my brevity. > > On March 15, 2015 11:02:57 AM PDT, Luiz Max Carvalho < > luizepidemiologia at gmail.com> wrote: > >Hey all, > > > >I'm developing an application that calls third party software using > >system2(..., stdout = TRUE) and then reads this using textConnection() > >+ > > read.csv (). > > > >Problem is that sometimes the output is bigger than 8096 bytes and then > >the > >lines are split (from system2 documentation), what messes up what I > >have > >set up to read the output. > > > >Is there any way of preventing system2() from breaking the lines? I > >think I > >can work around this issue, but I'm looking for a cleaner solution for > >the > >time being. > > > >Cheers, > > > >Luiz > >-- Luiz Max Fagundes de Carvalho PhD student, Institute of Evolutionary Biology, School of Biological Sciences, Ashworth Laboratories, Ash 2, office 123 University of Edinburgh, United Kingdom. http://br.linkedin.com/pub/luiz-max-carvalho/49/687/283 [[alternative HTML version deleted]]