Dirk,

Please let me know when you will support nightly builds of R-devel with all
R and BioConductor packages. I would also need your help syncing my home
setup with the one that I use on a remote Linux cluster using RHEL 5. For my
needs, the packages on these two setups need to be exactly the same. I would
also need your help being able to load either the current release of R and
the current R-devel with 2 different site-libraries.

If you are set up to help with this, let me know and I'll get started.

Lastly, do you think non-Debian Linux users would NOT benefit to the answers
to my question? It does seem that the problem was my lack of understanding
of the need for the xlm2-dev libraries, not a Debian specific issue. Or do
you believe that if I were using another distribution this problem would not
have occurred? I don't think so, but if you believe that to be the case, it
would be of interest.

Ready to get started when you are,

Mark
------------------------------------------------------------
Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine

15032 Hunter Court, Westfield, IN  46074

(317) 490-5129 Work, & Mobile & VoiceMail
(317) 399-1219  Home
Skype:  mkimpel

"The real problem is not whether machines think but whether men do." -- B.
F. Skinner
******************************************************************


On Tue, Oct 14, 2008 at 3:00 PM, Dirk Eddelbuettel <edd@debian.org> wrote:

> On Tue, Oct 14, 2008 at 02:34:57PM -0400, Mark Kimpel wrote:
> > Subject pretty much says it all. Wonder if there is there is some code in
> > XML that the new gcc doesn't like? See output below:
>
> You are wondering wronly.
>
> > * Installing *source* package 'XML' ...
> > checking for gcc... gcc
> > checking for C compiler default output file name... a.out
> > checking whether the C compiler works... yes
> > checking whether we are cross compiling... no
> > checking for suffix of executables...
> > checking for suffix of object files... o
> > checking whether we are using the GNU C compiler... yes
> > checking whether gcc accepts -g... yes
> > checking for gcc option to accept ISO C89... none needed
> > checking how to run the C preprocessor... gcc -E
> > checking for sed... /bin/sed
> > checking for xml2-config... no
> > Cannot find xml2-config
> > ERROR: configuration failed for package 'XML'
> > ** Removing '/home/mkimpel/R_HOME/site-library-2.8.0/XML'
>
> You seem to be
>
> a) missing the libxml2-dev package for Debian:
>
>                sudo apt-get install libxml2-dev
>
> b) once again ignoring the fact that XML is available for you as a
>   binary Debian package via
>
>                sudo apt-get install r-cran-xml'
>
> c) also ignoring the fact that, should you still insist on building it
>   yourself, that
>
>                sudo apt-get build-dep r-cran-xml
>
>   would do step a) for you
>
> d) forgetting that we repeatedly recommended r-sig-debian as a more
>   suitable mailing list to you.
>
> Stunned,  Dirk
>
>
>
> >
> > ------------------------------------------------------------
> > Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
> > Indiana University School of Medicine
> >
> > 15032 Hunter Court, Westfield, IN  46074
> >
> > (317) 490-5129 Work, & Mobile & VoiceMail
> > (317) 399-1219  Home
> > Skype:  mkimpel
> >
> > "The real problem is not whether machines think but whether men do." --
> B.
> > F. Skinner
> > ******************************************************************
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-help@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
> --
> Three out of two people have difficulties with fractions.
>

	[[alternative HTML version deleted]]

