[Bioc-devel] Package CITATION and ISO-8859-1 ("latin-1") encoding

Henrik Bengtsson hb at stat.berkeley.edu
Tue Oct 20 19:20:14 CEST 2009

Thanks - and thanks for taking action on this. /Henrik

On Tue, Oct 20, 2009 at 10:02 AM, Chao-Jen Wong <cwon2 at fhcrc.org> wrote:
> Hi, Henrik
> I apologize that I've modified the character 'ö'  without thinking more
> carefully.  Yes, you are right. One of our servers does not encode
> ISO-8559-1 character set correctly, and I should have result the
> encoding setting instead of just substituting 'ö' by 'o'.  Thanks for
> bringing up this issue.
> Regards,
> Chao-Jen
> Henrik Bengtsson wrote:
>> Hi,
>> in aroma.light I have two entries in the CITATION file that contains
>> ISO-8559-1 characters, more precisely the character 'ö' (LaTeX \"{o},
>> an 'o' with an "umlaut", 246==0xF6==\0366).
>> According to Writing R Extensions, "The CITATION file is parsed as R
>> code (in the package's declared encoding, defaulting to latin-1).".
>> I noticed that 'c.wong' has recently modified this CITATION file by
>> substituting the above characters with plain 'o':s.  However, those
>> are not the same letters.  I suspect this change was done because one
>> of the Bioconductor check servers gave a warning.  Since the correct
>> letters are part of the ISO-8559-1 and the R manuals says that
>> ISO-8559-1 is the default, I'd say there is nothing wrong with the
>> original CITATION file (I've changed back in my case), but with the
>> default encoding settings of one of the Bioconductor severs.
>> Comments?
>> /Henrik
>> PS. Related: I've noticed that Bioc people/scripts occasionally bump
>> the version number of a package; if so could you please make sure to
>> update the DESCRIPTION *date* too.
>> _______________________________________________
>> Bioc-devel at stat.math.ethz.ch mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> --
> Chao-Jen Wong
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Avenue N., M2-B876
> PO Box 19024
> Seattle, WA 98109
> 206.667.4485
> cwon2 at fhcrc.org

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