[Phylobase-devl] New phylobase build approach using static libncl (Was: Rcpp and OS X compiliation)
edd at debian.org
Mon Feb 1 19:41:51 CET 2010
On 1 February 2010 at 13:22, François Michonneau wrote:
| 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
Good catch. I never need that on 32bit where it works automatically so I
forgot. This basically means that out plan of using
configure --enable-static --disable-shared
doesn't work as configure no longer seems to add -fPIC. That stinks.
I think the simplest solution is to tell configure to stuff itself, and to
use the same Makefile we already use for Windows, maybe with an explicit
-fPIC thrown in for good measure.
| (For some reason, the Mac builds aren't updated yet)
(I see that with my projects too. R-Forge is not so strong on OS X support.)
| -- 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.
Three out of two people have difficulties with fractions.
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