[Rd] missing space in R version specifier makes PACKAGES file unreadable by install.packages()
dtenenba at fhcrc.org
Thu Mar 21 18:30:10 CET 2013
On Thu, Mar 21, 2013 at 10:28 AM, Duncan Murdoch
<murdoch.duncan at gmail.com> wrote:
> On 21/03/2013 12:59 PM, Dan Tenenbaum wrote:
>> On Thu, Mar 21, 2013 at 9:52 AM, Dan Tenenbaum <dtenenba at fhcrc.org> wrote:
>> > Hi,
>> > After updating to R-3.0 beta r62328, I get the following:
>> >> install.packages("Biobase", type="source",
>> >> repos="http://george2/BBS/2.12/bioc")
>> > Error in do.call(op, list(v_c, v_t[[op]])) :
>> > could not find function "R (>=2.15.1)"
>> > The problem can be fixed by adding a space after >= in the offending
>> > package's DESCRIPTION file and re-generating the PACKAGES file with
>> > tools:::write_PACKAGES().
>> > However, this worked OK in r62077.
>> Beg pardon, this did not work in r62077 either.
>> However I still think it's worth reporting.
> I don't think this has changed recently. The manual currently says "The
> comment should contain a comparison operator, whitespace and a valid version
> number." In 2.15.0 it was less explicit, but the example contained a space.
> It may be that some code path worked before more or less by accident,
> because in December changes were made to the parsing to avoid a tricky
> reentrancy problem, but I don't think it has ever been documented to work
> without whitespace.
> I can't think of the reason white space was required, but the code does
> explicitly look for it, so I'd be reluctant to change it.
You're right. It was not R that changed, but something on our side. R
CMD build will not build a package with such a malformed version
specifier, so it normally would not be an issue. Please disregard and
sorry for the noise.
> Duncan Murdoch
>> > I'm not sure if >=2.15.1 (without
>> > the space) is valid syntax, but I wonder if R can be a bit more
>> > forgiving, as this issue derailed our daily builds.
>> >> sessionInfo()
>> > R version 3.0.0 alpha (2013-03-18 r62312)
>> > Platform: x86_64-apple-darwin10.8.0 (64-bit)
>> > locale:
>> >  C
>> > attached base packages:
>> >  stats graphics grDevices utils datasets methods base
>> > loaded via a namespace (and not attached):
>> >  tools_3.0.0
>> > Thanks,
>> > Dan
>> R-devel at r-project.org mailing list
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