Consider all the text that one sees on the console during an R session. Is there a way, within R, to make all this text--both the "output" and the "messages"--automatically get copied to a single text file, in addition to seeing it on the console? If I remember to save the console to a file at the end of my R session, that does it. But (1) That requires pointing and clicking--can it be automated as a text command? (2) It would be nice to issue the text command at the start of the R session, such as "log this entire session in mylog.txt, append", if this would ensure that the session is logged whether I remember to save the console or not. As far as I can tell, sink(file="mylog.txt") will hide the output from me and put it into mylog.txt. But it still shows me the error messages. An attempt to put the output and messages into separate files returns an error:> sink("junkout.txt", type="output") > sink("junkmsg.txt", type="message")Error in sink("junkmsg.txt", type = "message") : 'file' must be NULL or an already open connection and at any rate I'd like both messages in the same file, just like on the console. People who run R at the unix command line apparently use the unix command -script-. But I mean something that will work within R, platform-independent. A 2003 post to R-help suggests savehistory(), but this does *not* save the console; I tried it just now. Another post from the same thread suggests using emacs. But that is not platform-independent. The existence of the 2003 thread suggests that this issue comes up periodically. Was it a deliberate design decision not to make logs available, in contrast to the way logging works in Stata? I use the Rgui on a MacBook Pro:> sessionInfo()R version 2.8.1 (2008-12-22) i386-apple-darwin8.11.1 locale: en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] lme4_0.999375-28 Matrix_0.999375-21 lattice_0.17-17 foreign_0.8-29 loaded via a namespace (and not attached): [1] boot_1.2-34 grid_2.8.1 Thanks for any insights. Jacob A. Wegelin Assistant Professor Department of Biostatistics Virginia Commonwealth University 730 East Broad Street Room 3006 P. O. Box 980032 Richmond VA 23298-0032 U.S.A. E-mail: jwegelin at vcu.edu URL: http://www.people.vcu.edu/~jwegelin
Consider all the text that one sees on the console during an R session. Is there a way, within R, that all this text--i.e., both the "output" and the "messages"--can be automatically copied to a single file, in addition to its being visible on the console? If I remember to save the console to a file at the end of my R session, that does it. But (1) That requires pointing and clicking--can it be automated as a text command? (2) It would be nice to issue the text command at the start of the R session, such as "log this entire session in mylog.txt, append", to ensure that the session is logged whether I remember to save the console or not. As far as I can tell, sink(file="mylog.txt") will hide the output from me and put it into mylog.txt. But it still shows me the error messages. An attempt to put the output and messages into separate files returns an error:> sink("junkout.txt", type="output") > sink("junkmsg.txt", type="message")Error in sink("junkmsg.txt", type = "message") : 'file' must be NULL or an already open connection and at any rate I'd like both messages in the same file, just like on the console. People who run R at the unix command line apparently use the unix command -script-. But I mean something that will work within R, platform-independent. A 2003 post to R-help suggests savehistory(), but this does *not* save the console; I tried it just now. Another post from the same thread suggests using emacs. But that is not platform-independent. The existence of the 2003 thread suggests that this issue comes up periodically. Was it a deliberate design decision not to make logs available, in contrast to the way logging works in Stata? I use the Rgui on a MacBook Pro:> sessionInfo()R version 2.8.1 (2008-12-22) i386-apple-darwin8.11.1 locale: en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] lme4_0.999375-28 Matrix_0.999375-21 lattice_0.17-17 foreign_0.8-29 loaded via a namespace (and not attached): [1] boot_1.2-34 grid_2.8.1 Thanks for any insights. Jacob A. Wegelin Assistant Professor Department of Biostatistics Virginia Commonwealth University 730 East Broad Street Room 3006 P. O. Box 980032 Richmond VA 23298-0032 U.S.A. E-mail: jwegelin@vcu.edu URL: http://www.people.vcu.edu/~jwegelin [[alternative HTML version deleted]]
Maybe I'm missing something in the history help file. I read it and subsequently tried> savehistory("trythis.txt")but the resulting file does not contain the text that scrolled past the console. It contains only a few uninteresting timestamps. Is there some more useful application of history() or savehistory()? On Mon, Aug 3, 2009 at 4:09 PM, roger koenker <rkoenker@uiuc.edu> wrote:> have you read > > ?history > > > url: www.econ.uiuc.edu/~roger Roger Koenker > email rkoenker@uiuc.edu Department of Economics > vox: 217-333-4558 University of Illinois > fax: 217-244-6678 Urbana, IL 61801 > > > > > On Aug 3, 2009, at 3:01 PM, Jacob Wegelin wrote: > > Consider all the text that one sees on the console during an R session. >> >> Is there a way, within R, that all this text--i.e., both the "output" and >> the "messages"--can be automatically copied to a single file, in addition >> to >> its being visible on the console? >> >> If I remember to save the console to a file at the end of my R session, >> that >> does it. But >> >> (1) That requires pointing and clicking--can it be automated as a text >> command? >> >> (2) It would be nice to issue the text command at the start of the R >> session, such as "log this entire session in mylog.txt, append", to ensure >> that the session is logged whether I remember to save the console or not. >> >> As far as I can tell, >> >> sink(file="mylog.txt") >> >> will hide the output from me and put it into mylog.txt. But it still shows >> me the error messages. >> >> An attempt to put the output and messages into separate files returns an >> error: >> >> sink("junkout.txt", type="output") >>> sink("junkmsg.txt", type="message") >>> >> Error in sink("junkmsg.txt", type = "message") : >> 'file' must be NULL or an already open connection >> >> and at any rate I'd like both messages in the same file, just like on the >> console. >> >> People who run R at the unix command line apparently use the unix command >> -script-. But I mean something that will work within R, >> platform-independent. >> >> A 2003 post to R-help suggests savehistory(), but this does *not* save the >> console; I tried it just now. Another post from the same thread suggests >> using emacs. But that is not platform-independent. >> >> The existence of the 2003 thread suggests that this issue comes up >> periodically. Was it a deliberate design decision not to make logs >> available, in contrast to the way logging works in Stata? >> >> I use the Rgui on a MacBook Pro: >> >> sessionInfo() >>> >> R version 2.8.1 (2008-12-22) >> i386-apple-darwin8.11.1 >> >> locale: >> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 >> >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> >> other attached packages: >> [1] lme4_0.999375-28 Matrix_0.999375-21 lattice_0.17-17 >> foreign_0.8-29 >> >> loaded via a namespace (and not attached): >> [1] boot_1.2-34 grid_2.8.1 >> >> >> Thanks for any insights. >> >> Jacob A. Wegelin >> Assistant Professor >> Department of Biostatistics >> Virginia Commonwealth University >> 730 East Broad Street Room 3006 >> P. O. Box 980032 >> Richmond VA 23298-0032 >> U.S.A. >> E-mail: jwegelin@vcu.edu >> URL: http://www.people.vcu.edu/~jwegelin >> >> [[alternative HTML version deleted]] >> >> ______________________________________________ >> R-help@r-project.org mailing list >> 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]]
sink(..., type=c("output","message"), split=TRUE) at the
beginning of
your session should do it?
Jacob Wegelin wrote:>
> Consider all the text that one sees on the console during an R session.
>
> Is there a way, within R, to make all this text--both the
"output" and
> the "messages"--automatically get copied to a single text file,
in
> addition to seeing it on the console?
>
> If I remember to save the console to a file at the end of my R
> session, that does it. But
>
> (1) That requires pointing and clicking--can it be automated as a text
> command?
>
> (2) It would be nice to issue the text command at the start of the R
> session, such as "log this entire session in mylog.txt, append",
if
> this would ensure that the session is logged whether I remember to
> save the console or not.
>
> As far as I can tell,
>
> sink(file="mylog.txt")
>
> will hide the output from me and put it into mylog.txt. But it still
> shows me the error messages.
>
> An attempt to put the output and messages into separate files returns
> an error:
>
>> sink("junkout.txt", type="output")
>> sink("junkmsg.txt", type="message")
> Error in sink("junkmsg.txt", type = "message") :
> 'file' must be NULL or an already open connection
>
> and at any rate I'd like both messages in the same file, just like on
> the console.
>
> People who run R at the unix command line apparently use the unix
> command -script-. But I mean something that will work within R,
> platform-independent.
>
> A 2003 post to R-help suggests savehistory(), but this does *not* save
> the console; I tried it just now. Another post from the same thread
> suggests using emacs. But that is not platform-independent.
>
> The existence of the 2003 thread suggests that this issue comes up
> periodically. Was it a deliberate design decision not to make logs
> available, in contrast to the way logging works in Stata?
>
> I use the Rgui on a MacBook Pro:
>
>> sessionInfo()
> R version 2.8.1 (2008-12-22) i386-apple-darwin8.11.1
>
> locale:
> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
>
> other attached packages:
> [1] lme4_0.999375-28 Matrix_0.999375-21 lattice_0.17-17
> foreign_0.8-29
>
> loaded via a namespace (and not attached):
> [1] boot_1.2-34 grid_2.8.1
>
>
> Thanks for any insights.
>
> Jacob A. Wegelin
> Assistant Professor
> Department of Biostatistics
> Virginia Commonwealth University
> 730 East Broad Street Room 3006
> P. O. Box 980032
> Richmond VA 23298-0032
> U.S.A. E-mail: jwegelin at vcu.edu URL: http://www.people.vcu.edu/~jwegelin
>
> ______________________________________________
> R-help at r-project.org mailing list
> 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.