[R-sig-Fedora] Cannot install igraph package

[Paul Smith]

Thanks, Saint Pai, that did the trick!

Paul


On Wed, Oct 11, 2017 at 12:33 PM, Pai <mkpai at redhat.com> wrote:
> Hello,
>
> Could you please test the solution at
> https://stackoverflow.com/questions/45318188/getting-error-in-function-igraph-write-graph-graphml-while-installing-igrap
>
> Specifically -
>
> install.packages("devtools")
> library(devtools)
> install_github("igraph/rigraph")
>
> Please let us know if this works
>
> Regards,
> -- Saint Pai
>
>
> On Tue, Oct 10, 2017 at 01:40:53AM +0100, Paul Smith wrote:
>> 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
>>
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>
> --
> Regards,
> M K Pai
> Data Scientist
> Red Hat