[R-sig-Geo] rgdal installation on Fedora 28

[Roger Bivand]

On Sat, 16 Jun 2018, Colin Rundel wrote:

> As I mentioned in the tweet, I was able to fix this on both a Fedora 23 and
> Fedora 27 machine by making the following change to configure.ac:
>
> diff --git a/configure.ac b/configure.ac
> index 8ff72be..ab4c772 100644
> --- a/configure.ac
> +++ b/configure.ac
> @@ -3,6 +3,8 @@ define([pkgversion], esyscmd([sh -c "grep Version:
> DESCRIPTION | cut -d' ' -f2 |
> AC_INIT(rgdal, [pkgversion], Roger.Bivand using nhh.no)
> AC_CONFIG_SRCDIR(src/gdal-bindings.cpp)
>
> +AC_PROG_CXX()
> +
> # find R home and set correct compiler + flags
> : ${R_HOME=`R RHOME`}
> if test -z "${R_HOME}"; then
>
> rerunning autoconf (also assuming m4/ax_cxx_compile_stdcxx.m4 is added)
> results in ./configure working for me. I don't have a deep enough
> understanding of the vagaries of autoconf to know why exactly this is
> necessary on redhat systems and why this fixes it but at least everything
> seems to work.

Thanks very much, committed to R-forge as revision 758.

Roger

>
> -Colin
>
> On Fri, Jun 15, 2018 at 7:29 PM Thiago V. dos Santos via R-sig-Geo <
> r-sig-geo using r-project.org> wrote:
>
>> The following lines in your config.log:
>>
>> /usr/bin/ld: /tmp/cc9pfZ1b.o: relocation R_X86_64_32 against .rodata' can
>> not be used when making a shared object; recompile with -fPIC
>>
>> make me wonder: maybe there is a -fPIC compilation flag lacking for you
>> platform in the makefile?
>>
>> Greetings, -- Thiago V. dos Santos
>> Postdoctoral Research FellowDepartment of Climate and Space Science and
>> EngineeringUniversity of Michigan
>>
>>     On Friday, June 15, 2018, 3:27:44 PM EDT, Sarah Goslee <
>> sarah.goslee using gmail.com> wrote:
>>
>>  Hi folks,
>>
>> I updated all of my linux computers to Fedora 28, and now can’t install
>> rgdal.
>>
>> I can install sf with no problems, so it doesn't appear to be an issue
>> with GDAL or with proj.
>>
>> I checked with Roger Bivand, the package maintainer, who asked me to
>> confirm whether I could install sf, to make sure it wasn’t a
>> dependency issue, and to post the logs online, then ask on the
>> R-sig-geo mailing list. I’m putting the full problem here, and the
>> abbreviated version on the mailing list.
>>
>> I’d appreciate any thoughts: I rely very heavily on the incredibly
>> useful rgdal package.
>>
>>> sessionInfo()
>> R version 3.5.0 (2018-04-23)
>> Platform: x86_64-redhat-linux-gnu (64-bit)
>> Running under: Fedora 28 (Workstation Edition)
>>
>> Matrix products: default
>> BLAS/LAPACK: /usr/lib64/R/lib/libRblas.so
>>
>> locale:
>>  [1] LC_CTYPE=en_US.UTF-8      LC_NUMERIC=C
>>  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>>  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
>>  [7] LC_PAPER=en_US.UTF-8      LC_NAME=C
>>  [9] LC_ADDRESS=C              LC_TELEPHONE=C
>> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] stats    graphics  grDevices utils    datasets  methods  base
>>
>> loaded via a namespace (and not attached):
>> [1] compiler_3.5.0 tools_3.5.0</code>
>>
>>
>> The install message is:
>>
>> installing *source* package ‘rgdal’ ...
>> ** package ‘rgdal’ successfully unpacked and MD5 sums checked
>> configure: CC: gcc -m64
>> configure: CXX: g++ -m64
>> configure: rgdal: 1.3-2
>> checking for /usr/bin/svnversion... no
>> configure: svn revision: 755
>> checking whether the C++ compiler works... yes
>> checking for C++ compiler default output file name... a.out
>> checking for suffix of executables...
>> checking whether we are cross compiling... configure: error: in
>> `/tmp/RtmpfMGBY5/R.INSTALL66c3b8deddb/rgdal':
>> configure: error: cannot run C++ compiled programs.
>> If you meant to cross compile, use `--host'.
>> See `config.log' for more details
>> ERROR: configuration failed for package ‘rgdal’
>> * removing ‘/usr/lib64/R/library/rgdal’
>> * restoring previous ‘/usr/lib64/R/library/rgdal’
>>
>>
>> The complete information and config.log are posted online at:
>>
>> http://numberwright.com/2018/06/stuck-on-rgdal/
>>
>>
>> Any ideas? Or any other information that would be useful?
>>
>> Thanks!
>> Sarah
>>
>> --
>> Sarah Goslee
>> http://www.functionaldiversity.org
>>
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-- 
Roger Bivand
Department of Economics, Norwegian School of Economics,
Helleveien 30, N-5045 Bergen, Norway.
voice: +47 55 95 93 55; e-mail: Roger.Bivand using nhh.no
http://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en