rgdal installation on Fedora 28

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 at 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 at 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 at 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