[igraph] igraph_1.0.1.tar.gz compile problem

[John Nyhuis]

Following the advice here (Thanks!), I compiled a custom libxml2 (ver 2.9.2) in 
/net/lebowski/vol1/sw/R/3.2.2/lib64/lib/

I fed this ld path to R using the following command:
> install.packages("igraph", lib = "/net/lebowski/vol1/sw/R/3.2.2/lib64/lib/")

and ended up with the same error, included below:

foreign-graphml.c:65: warning: excess elements in struct initializer
foreign-graphml.c:65: warning: (near initialization for ‘blankEntityStruct’)
foreign-graphml.c: In function ‘igraph_read_graph_graphml’:
foreign-graphml.c:1330: error: ‘XML_PARSE_HUGE’ undeclared (first use in this 
function)
foreign-graphml.c:1330: error: (Each undeclared identifier is reported only once
foreign-graphml.c:1330: error: for each function it appears in.)
make: *** [foreign-graphml.o] Error 1
ERROR: compilation failed for package ‘igraph’
* removing ‘/net/lebowski/vol1/sw/R/3.2.2/lib64/lib/igraph’

The downloaded source packages are in
        ‘/tmp/RtmpnVIhWA/downloaded_packages’
Warning message:
In install.packages("igraph", lib = "/net/lebowski/vol1/sw/R/3.2.2/lib64/lib/") 
:
  installation of package ‘igraph’ had non-zero exit status


Could it be something else?  Changing out libxml2 did not seem to make any 
difference in my compile error...
Any help would be appreciated.  Thanks in advance!


Thanks,
John Nyhuis
IT Manager, Stam Lab
2211 Elliott Avenue
6th Floor, 6S139
Seattle, WA 98121
O: (206)-267-1097 ext 220
F: (206)-441-3033

On 10/01/2015 05:02 AM, Gábor Csárdi wrote:
> You need a fairly recent version of the libxml2 library, including the
> development headers.
>
> Gabor
>
> On Wed, Sep 30, 2015 at 10:38 PM, John Nyhuis <address@hidden> wrote:
> > When I try to install igraph_1.0.1.tar.gz in R 3.2.2, I fail with the
> > following compile error:
> >
> > foreign-graphml.c:65: warning: excess elements in struct initializer
> > foreign-graphml.c:65: warning: (near initialization for ‘blankEntityStruct’)
> > foreign-graphml.c: In function ‘igraph_read_graph_graphml’:
> > foreign-graphml.c:1330: error: ‘XML_PARSE_HUGE’ undeclared (first use in
> > this function)
> > foreign-graphml.c:1330: error: (Each undeclared identifier is reported only
> > once
> > foreign-graphml.c:1330: error: for each function it appears in.)
> > make: *** [foreign-graphml.o] Error 1
> > ERROR: compilation failed for package ‘igraph’
> >
> > This is with gcc version 4.1.2 20080704
> > on a RHEL 5.11 cluster running R 3.2.2
> >
> > Can anyone point me in the correct direction?
> >
> >
> >
> > --
> > Thanks,
> > John Nyhuis
> > IT Manager, Stam Lab
> > 2211 Elliott Avenue
> > 6th Floor, 6S139
> > Seattle, WA 98121
> > O: (206)-267-1097 ext 220
> > F: (206)-441-3033
> >
> > _______________________________________________
> > igraph-help mailing list
> > address@hidden
> > https://lists.nongnu.org/mailman/listinfo/igraph-help
>
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