[Phylobase-devl] New phylobase build approach using static libncl (Was: Rcpp and OS X compiliation)

François Michonneau francois.michonneau at gmail.com
Mon Feb 1 19:22:46 CET 2010

Hi all,

It looks that we're still having some troubles building the package on R-forge.

Now, we get the following error message for the linux builds:
g++ -shared -L/usr/local/lib64 -o phylobase.so NCLInterface.o
ReadWithNCL.o ancestors.o descendants.o phyloXX.o reorderBinary.o
reorderRobust.o -L/home/rforge/lib/R/2.10/Rcpp/lib -lRcpp
-Wl,-rpath,/home/rforge/lib/R/2.10/Rcpp/lib -Llib/ncl -lncl
-L/srv/R/R-patched/build.10-01-29/lib -lR
/usr/bin/ld: lib/ncl/libncl.a(nxsassumptionsblock.o): relocation
R_X86_64_32 against `.rodata.str1.1' can not be used when making a
shared object; recompile with -fPIC
lib/ncl/libncl.a: could not read symbols: Bad value
collect2: ld returned 1 exit status

(For some reason, the Mac builds aren't updated yet)

  -- François

On Sun, Jan 31, 2010 at 09:58, Dirk Eddelbuettel <edd at debian.org> wrote:
> All,
> Just as a heads-up, Windows builds were also broken.
> When NCL was updated, a Makefile.win I had added got lost. I restored it,
> made the necessary updates. This builds now -- I used the CRAN win-builder to
> test it:
>    From: Uwe.Ligges at R-Project.org
>    To: edd at debian.org
>    Cc: Uwe.Ligges at R-Project.org
>    Subject: Package phylobase_0.5.1.tar.gz has been checked and built
>    Dear package maintainer,
>    this notification has been generated automatically.
>    Your package phylobase_0.5.1.tar.gz has been built (if working) and checked for Windows.
>    Please check the log files and (if working) the binary package at:
>    http://win-builder.r-project.org/s02150BP6m7i
>    The files will be removed after roughly 72 hours.
>    Installation time in seconds: 88
>    Check time in seconds: 77
>    Check result: WARNING
>    R version 2.10.1 (2009-12-14) (32-bit)
>    All the best,
>    Uwe Ligges
>    (CRAN maintainer of binary packages for Windows)
> (where I changed DESCRIPTION locally to have the mail come to me, and
> increased the version to 0.5.1).
> I have just committed the Windows fixes as rev 731.
> Regards, Dirk
> --
> Three out of two people have difficulties with fractions.

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