[Bioc-devel] BioC 3.7 Windows check warning "file link zz in package yy does not exist "

[Ramon Diaz-Uriarte]

Dear Lluis and Vincent,

Thanks for confirming this in other packages.

In the two examples shown, these must be false positives, as the links
exist. But also the fact that the warnings only appear in Windows suggests
a false positive: I do not understand how this warning would not be
triggered in Linux and Mac if the links did not exist.

Best,


R.


On Fri, 06-April-2018, at 16:44:42, Lluís Revilla <lluis.revilla at gmail.com> wrote:
> I have recently faced a similar warning.
> This is when a link to a help page of another package is broken (there is
> not such help page). Although those could be false positives:
> mclapply help page does exists in parallel package.
> as.MAList does exists in devel limma
>
> HTH
>
> On 6 April 2018 at 16:35, Vincent Carey <stvjc at channing.harvard.edu> wrote:
>
>> ive seen this too apropos bigrquery on windows
>>
>> On Fri, Apr 6, 2018 at 10:22 AM Ramon Diaz-Uriarte <rdiaz02 at gmail.com>
>> wrote:
>>
>> >
>> > Dear All,
>> >
>> > Two packages I maintain are showing, in Windows, a warning during check
>> > with messages like
>> >
>> > Rd warning:
>> > C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/Rtmp21WlQD/R.INSTALL23343f935731/
>> OncoSimulR/man/oncoSimulIndiv.Rd:570:
>> > file link 'mclapply' in package 'parallel' does not exist and so has been
>> > treated as a topic
>> >
>> > or
>> >
>> > Rd warning:
>> > C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpQfQaA1/R.
>> INSTALL1ec81d5b6233/ADaCGH2/man/inputToADaCGH.Rd:45:
>> > file link 'as.MAList' in package 'limma' does not exist and so has been
>> > treated as a topic
>> >
>> >
>> >
>> > that I cannot reproduce under Linux and that I think are false
>> > positives. Is there a way to avoid this warning? As far as I can tell,
>> > those links really exist.
>> >
>> > Best,
>> >
>> >
>> > R.
>> >
>> > --
>> > Ramon Diaz-Uriarte
>> > Department of Biochemistry, Lab B-25
>> > Facultad de Medicina
>> > Universidad Autónoma de Madrid
>> > Arzobispo Morcillo, 4
>> > 28029 Madrid
>> > Spain
>> >
>> > Phone: +34-91-497-2412
>> >
>> > Email: rdiaz02 at gmail.com
>> >        ramon.diaz at iib.uam.es
>> >
>> > http://ligarto.org/rdiaz
>> >
>> > _______________________________________________
>> > Bioc-devel at r-project.org mailing list
>> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
>> >
>>
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>>
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--
Ramon Diaz-Uriarte
Department of Biochemistry, Lab B-25
Facultad de Medicina
Universidad Autónoma de Madrid
Arzobispo Morcillo, 4
28029 Madrid
Spain

Phone: +34-91-497-2412

Email: rdiaz02 at gmail.com
       ramon.diaz at iib.uam.es

http://ligarto.org/rdiaz