[R-sig-Fedora] Cannot install igraph package

[Paul Smith]

On Mon, Oct 9, 2017 at 4:42 PM, Tom Callaway <tcallawa at redhat.com> wrote:
>
> On 10/09/2017 11:16 AM, Paul Smith wrote:
>>
>> I am trying to install
>>
>> igraph package
>>
>> but getting the following error:
>>
>> ------------------
>> make: *** [/usr/lib64/R/etc/Makeconf:159: foreign-graphml.o] Error 1
>> ERROR: compilation failed for package ‘igraph’
>> * removing ‘/usr/lib64/R/library/igraph’
>> ------------------
>>
>> Any ideas?
>
> Need to see a lot more logs, specifically, the items before that Error
> occurs.

Thanks, Tom. Below, you can find more logs:

---------------------
 #  define strdup igraph_i_strdup

In file included from /usr/include/string.h:634:0,
                 from src/foreign-gml-parser.y:54:
/usr/include/bits/string2.h:208:0: note: this is the location of the
previous definition
 #   define strdup(s) __strdup (s)

gcc -m64 -I/usr/include/R -DNDEBUG   -I/usr/local/include  -DUSING_R
-I. -Iinclude -Ics -Iglpk -Iplfit -ICHOLMOD/Include -IAMD/Include
-ICOLAMD/Include -ISuiteSparse_config -I/usr/local/include -O2 -g
-pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fexceptions -fstack-protector-strong --param=ssp-buffer-size=4
-grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1
-m64 -mtune=generic -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT
-DPACKAGE_VERSION=\"1.1.1\" -DINTERNAL_ARPACK
-DIGRAPH_THREAD_LOCAL=/**/ -fpic  -O2 -g -pipe -Wall
-Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector-strong --param=ssp-buffer-size=4
-grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1
-m64 -mtune=generic  -c foreign-graphml.c -o foreign-graphml.o
foreign-graphml.c: In function ‘igraph_write_graph_graphml’:
foreign-graphml.c:1408:46: error: expected ‘)’ before ‘GRAPHML_NAMESPACE_URI’
   ret=fprintf(outstream, "<graphml xmlns=\"" GRAPHML_NAMESPACE_URI "\"\n");
                                              ^~~~~~~~~~~~~~~~~~~~~
foreign-graphml.c:1412:59: error: expected ‘)’ before ‘GRAPHML_NAMESPACE_URI’
   ret=fprintf(outstream, "         xsi:schemaLocation=\""
GRAPHML_NAMESPACE_URI "\n");
                                                           ^~~~~~~~~~~~~~~~~~~~~
foreign-graphml.c:1414:38: error: expected ‘)’ before ‘GRAPHML_NAMESPACE_URI’
   ret=fprintf(outstream, "         " GRAPHML_NAMESPACE_URI
"/1.0/graphml.xsd\">\n");
                                      ^~~~~~~~~~~~~~~~~~~~~
make: *** [/usr/lib64/R/etc/Makeconf:159: foreign-graphml.o] Error 1
ERROR: compilation failed for package ‘igraph’
* removing ‘/usr/lib64/R/library/igraph’

The downloaded source packages are in
    ‘/tmp/Rtmpq4eKlz/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
Warning message:
In install.packages("igraph") :
  installation of package ‘igraph’ had non-zero exit status
---------------------

Are they enough logs?

Paul