Re: [igraph] GraphML in R

[Gábor Csárdi]

Hmmm, strange, though. The R package builder should find xml2-config as well....

Anyway, thanks for updating the wiki page!
Best,
Gabor

On Mon, Jan 11, 2010 at 5:42 PM, Matthew Walker
<address@hidden> wrote:
> Hi Gábor,
>
> xml2-config has always been in my path, so it was not that.  However, I was
> finally able to solve this problem by exporting the variables rather than
> specifying them on the command line.  Thus, this did not work:
>
> ./configure --prefix=$HOME/system LDFLAGS=-L$HOME/system/lib/
> CPPFLAGS=-I$HOME/system/include
>
> But this does work:
>
> export CPPFLAGS=-I$HOME/system/include
> export LDFLAGS=-L$HOME/system/lib/
> ./configure --prefix=$HOME/system
>
> I think this works because the exported parameters are then also used for
> the compilation of the R library.
>
> Cheers,
>
> Matthew
>
>
> Gábor Csárdi wrote:
>
> Matthew,
>
> thanks for the wiki page. igraph searches for the program called
> xml2-config to find the libxml2 installation. Maybe all you need to do
> is to make sure that it is in your PATH. (This is true for Linux and
> maybe other Unix-like systems.) Could you please check this?
>
> Otherwise the wiki page is fine, setting the compilation flags always
> works. But it is easier to just use xml2-config if your system has it.
>
> Best,
> Gabor
>
> On Sat, Jan 9, 2010 at 12:47 AM, Matthew Walker
> <address@hidden> wrote:
>
>
> Hi,
>
> I was trying to get GraphML support for the R interface to iGraph.  I
> finally learnt that I must pass to configure the path I used to install
> libxml2.  This took me a wee while to figure out so I have written up a few
> lines on the wiki (http://igraph.wikidot.com/installation-issues) in case
> anyone else has the same desire.  I would love to know if this is the
> "correct" way to get iGraph to work with libxml2 as I was surprised that
> iGraph didn't just take the information offered by pkg-config.
>
> While doing that however, I noticed that support for GMP was turned off.
>  Out of curiosity I installed GMP but it was still "off" no matter what
> options I passed to ./configure.  I looked at the configure.ac and it
> appears that the line "gmp_support=no" might be the cause.  Setting
> "gmp_support=yes" seems to work.  Is this "no" intentional?  What does GMP
> support offer anyway?
>
> I then uninstalled igraph from R (using remove.package()) and then followed
> Gabor's instructions on how create an R package [1] however, despite all
> this, I still do not have GraphML support in R:
>
>
> library(igraph)
> read.graph("~/Desktop/example.graphml.xml", format="graphml")
>
>
> Error in read.graph.graphml(file, ...) :
>  At foreign-graphml.c:1033 : GraphML support is disabled, Unimplemented
> function call
>
> Do you have any suggestions for what I am doing wrong?  I would greatly
> appreciate your help!
>
> Thanks,
>
> Matthew
>
> [1] http://lists.gnu.org/archive/html/igraph-help/2007-04/msg00025.html
>
>
>
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-- 
Gabor Csardi <address@hidden>     UNIL DGM