Re: [Rd] 7 arguments passed to .Internal(identical) which requires 6

From: Matthew Dowle <mdowle_at_mdowle.plus.com>
Date: Thu, 07 Jun 2012 01:30:33 +0100

I built R-trunk (rev 59537), ran 'Rtrunk CMD build data.table', installed the resulting tar.gz into R release and it ran tests ok. So it seems ok now, if that tested it right. Will check R-Forge again when it catches up. Thanks.
Matthew

On Wed, 2012-06-06 at 22:04 +0200, peter dalgaard wrote:
> FYI, Brian has backed out the changes to identical() in r59533 of R-patched. Please retry your test codes with the new version. (Due to some ISP mess-up, Brian is temporarily unable to reply in detail himself.)
>
> -pd
>
>
> On Jun 6, 2012, at 20:29 , <luke-tierney@uiowa.edu> <luke-tierney@uiowa.edu> wrote:
>
> > On Wed, 6 Jun 2012, Matthew Dowle wrote:
> >
> >> Dan Tenenbaum <dtenenba <at> fhcrc.org> writes:
> >>
> >>>
> >>> I know this has come up before on R-help
> >>> (http://r.789695.n4.nabble.com/7-arguments-passed-to-Internal-identical-which-
> >> requires-6-td4548460.html)
> >>> but I have a concise reproducible case that I wanted to share.
> >>>
> >>> Also, please note the Bioconductor scenario which is potentially
> >>> seriously impacted by this.
> >>> The issue arises when a binary version of a package (like my example
> >>> package below) is built under R 2.15.0 Patched but then installed
> >>> under R 2.15.0. Our package AnnotationDbi (which hundreds of other
> >>> packages depend on) is impacted by this issue to the extent that
> >>> calling virtually any function in it will return something like this:
> >>> Error in ls(2) :
> >>> 7 arguments passed to .Internal(identical) which requires 6
> >>>
> >>> My concern is that when R 2.15.1 is released and Bioconductor starts
> >>> building all its packages under it, that R 2.15.0 users will start to
> >>> experience this problem. We can ask all users to upgrade to R 2.15.1
> >>> if we have to, but it's not usually the case that a minor point
> >>> release MUST be installed in order to run packages built under it
> >>> (please correct me if I'm wrong). We would much prefer a workaround or
> >>> fix to make an upgrade unnecessary.
> >>>
> >>
> >> I'm seeing the same issue. Installing the latest R-Forge .zip of data.table
> >> built using 2.15.0 patched, on R 2.15.0 (or 2.14.1 same issue), then running
> >> data.table(a=1:3) produces the "7 arguments passed to .Internal(identical)
> >> which requires 6" error. traceback() and debugger() just display the top level
> >> call. debug(data.table) and stepping through reveals it is a call to identical
> >> () but just a regular one. No .Internal() call in the package, let alone
> >> passing 6 or 7 arguments to .Internal.
> >>
> >> Not sure how else to debug or trace it. R-Forge is byte compiling data.table
> >> using R 2.15.0 patched (iiuc), would that make a difference when the byte code
> >> is loaded into 2.15.0 which doesn't have the new argument in identical()?
> >
> > Yes it would.
> >
> > luke
> >
> >>
> >> Matthew
> >>
> >> ______________________________________________
> >> R-devel_at_r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-devel
> >>
> >
> > --
> > Luke Tierney
> > Chair, Statistics and Actuarial Science
> > Ralph E. Wareham Professor of Mathematical Sciences
> > University of Iowa Phone: 319-335-3386
> > Department of Statistics and Fax: 319-335-3017
> > Actuarial Science
> > 241 Schaeffer Hall email: luke-tierney_at_uiowa.edu
> > Iowa City, IA 52242 WWW: http://www.stat.uiowa.edu
> >
> > ______________________________________________
> > R-devel_at_r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-devel
>



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