[R] Trouble building R 3.5.0 under Ubuntu 18.04

[Ista Zahn]

On Wed, May 23, 2018 at 2:27 PM, Kevin E. Thorpe
<kevin.thorpe at utoronto.ca> wrote:
> I suspect the main difficulty the OP is having is building R with shlib
> support.

apt-get update
apt-get build-dep r-base
wget https://cran.r-project.org/src/base/R-3/R-3.5.0.tar.gz
tar -xvf R-3.5.0.tar.gz
cd R-3.5.0
./configure --enable-R-shlib
make

also works fine here. FWIW, I'm starting with the ubuntu:latest docker
image and going from there.

Best,
Ista
>
> Steve, can you build from source without the --enable-R-shlib flag on
> configure?
>
> Kevin
>
>
> On 05/23/2018 01:58 PM, Ista Zahn wrote:
>>
>> On Tue, May 22, 2018 at 6:47 PM, Steve Gutreuter <sgutreuter at gmail.com>
>> wrote:
>>>
>>> I would love to hear from anyone who has successfully built 3.5.0 under
>>>   Ubuntu 18.04 (Bionic Beaver).
>>
>>
>> This is the wrong list, see R-sig-debian. That said,
>>
>> apt-get update
>> apt-get build-dep r-base
>> wget https://cran.r-project.org/src/base/R-3/R-3.5.0.tar.gz
>> tar -xvf R-3.5.0.tar.gz
>> cd R-3.5.0
>> ./configure
>> make
>> ./bin/R
>>
>> works for me.
>>
>> --Ista
>>   My attempts have failed, including:
>>>
>>>
>>> export LDFLAGS="$LDFLAGS -fPIC"
>>> export CXXFLAGS="$CXXFLAGS -fPIC"
>>> export CFLAGS="$CFLAGS -fPIC"
>>> ./configure --enable-R-shlib --prefix=/usr/lib/R/3.5.0
>>>
>>> #### Configure completes normally without errors or warnings
>>>
>>> make
>>>
>>> #### make fails, always with lines like:
>>> /usr/bin/x86_64-linux-gnu-ld: ../appl/dtrsl.o: relocation R_X86_64_32
>>> against `.rodata' can not be used when making a shared object;
>>> recompile with -fPIC
>>> /usr/bin/x86_64-linux-gnu-ld: attrib.o: relocation R_X86_64_PC32
>>> against symbol `R_NilValue' can not be used when making a shared
>>> object; recompile with -fPIC
>>> /usr/bin/x86_64-linux-gnu-ld: final link failed: Bad value
>>> collect2: error: ld returned 1 exit status
>>> Makefile:177: recipe for target 'libR.so' failed
>>> make[3]: *** [libR.so] Error 1
>>> make[3]: Leaving directory '/home/steve/src/R/R-3.5.0/src/main'
>>> Makefile:135: recipe for target 'R' failed
>>>
>>> How does one set the -fPIC flag?
>>>
>>> I have never had trouble compiling under Mint, which is based on
>>> Ubuntu.
>>>
>>> Thanks!
>>> Steve
>>>
>
>
> --
> Kevin E. Thorpe
> Head of Biostatistics,  Applied Health Research Centre (AHRC)
> Li Ka Shing Knowledge Institute of St. Michael's Hospital
> Assistant Professor, Dalla Lana School of Public Health
> University of Toronto
> email: kevin.thorpe at utoronto.ca  Tel: 416.864.5776  Fax: 416.864.3016
>
>
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