Re: [Rd] R CMD check file issues

From: Nick Sabbe <nick.sabbe_at_ugent.be>
Date: Thu, 22 Sep 2011 14:16:20 +0200

Hello Uwe, and thanks for your interest in the issue.

There is most certainly not another process that stops working between the two R CMD check calls (recently, I've made a habit out of being ready to press <up arrow> <enter> in the seconds after running my first R CMD check, to rerun it if it fails).

At worst, there may ever have been an explorer window open, but this is definitely not always the case, and I'm sure this window was not closed then, between the calls.

I'm really quite afraid it is more of a windows issue than an R issue, but I was hoping you wizards might have a workaround (apart from the obvious suggestion to install Linux), as it is immensely annoying...

Nick Sabbe

--
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link: http://biomath.ugent.be
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-- Do Not Disapprove





> -----Original Message-----
> From: Uwe Ligges [mailto:ligges_at_statistik.tu-dortmund.de]
> Sent: donderdag 22 september 2011 13:58
> To: Nick Sabbe
> Cc: r-devel_at_r-project.org
> Subject: Re: [Rd] R CMD check file issues
>
> Are you sure there is no other check process or editor that locks the
> file?
>
> Uwe Ligges
>
>
> On 22.09.2011 13:53, Nick Sabbe wrote:
> > This problem is likely to be specific to Windows, and particularly
> Win7.
> >
> >
> >
> > After a successful build of a package (R CMD build addendum), I
> immediately
> > run an R CMD check for the same package.
> >
> > Not always, but _very_ often, I get the following error:
> >
> > C:\Users\nisabbe\Documents\@Doctoraat\R>R CMD check addendum
> >
> > Loading required package: tcltk
> >
> > Loading Tcl/Tk interface ... done
> >
> > Loading required package: Hmisc
> >
> > Loading required package: survival
> >
> > Loading required package: stats
> >
> > Loading required package: graphics
> >
> > Loading required package: splines
> >
> >
> >
> > Attaching package: 'Hmisc'
> >
> >
> >
> > The following object(s) are masked from 'package:survival':
> >
> >
> >
> > untangle.specials
> >
> >
> >
> > The following object(s) are masked from 'package:base':
> >
> >
> >
> > format.pval, round.POSIXt, trunc.POSIXt, units
> >
> >
> >
> > Loading required package: R2HTML
> >
> > Warning in file(filename, "wt") :
> >
> > cannot open file
> > 'C:/Users/nisabbe/Documents/@Doctoraat/R/addendum.Rcheck/00ch
> >
> > eck.log': Permission denied
> >
> > Error in file(filename, "wt") : cannot open the connection
> >
> > Execution halted
> >
> >
> >
> > If, after this, I immediately reissue the R CMD check command, it
> works,
> > without the error.
> >
> > I think this has something to do with how Win7 processes file
> handling
> > (there are known issues even noticeable in windows explorer), but
> perhaps
> > there is a way of circumventing this? It would be greatly
> appreciated, as
> > this issue is preventing automation of build/check/install scripts.
> >
> >
> >
> > Suggestions will be greatly appreciated.
> >
> >
> >
> > Nick Sabbe
> >
> > --
> >
> > ping: nick.sabbe_at_ugent.be
> >
> > link:<http://biomath.ugent.be/> http://biomath.ugent.be
> >
> > wink: A1.056, Coupure Links 653, 9000 Gent
> >
> > ring: 09/264.59.36
> >
> >
> >
> > -- Do Not Disapprove
> >
> >
> >
> >
> > [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-devel_at_r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-devel
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