Hi Dirk: What would commenting out -lquadmath in /etc/R/Makeconf do? If a package, such as Hmisc, requires it, wouldn't that prevent compiling or does the compiler then do more of a search for the library at that point?
I wonder if I could have prevented this problem by pulling in a newer version of R from backports rather than sid? Peter On Fri, Jan 13, 2012 at 4:48 PM, Dirk Eddelbuettel <[email protected]> wrote: > > Hi Peter, > > On 13 January 2012 at 16:01, Peter Muhlberger wrote: > | Hi Dirk: > | > | I checked several months of r-sig-debian archives for a keyword > | associated with my problem & found nothing. Clearly, I used the wrong > | keyword (probably "libquad"). Now that you mention that there was a > | recent discussion, I can see it, and it's helpful. Wish I knew of a > | way to do a better search on the archive. > > Yes, sorry, and it was more or less timing issue. You and the other poster > were pretty hit at the same time. > | > | I thought my experience might be helpful because I have a fairly > | plain-vanilla version of Squeeze and build-essentials. I gather from > | the prior discussion on Jan 12 that my problem is that I updated my > | copy of R using the sid archive (had to to use the sem package), so > | now when I build it's probably expecting a more recent compiler setup. > > Right. That "gap" between sid and squeeze is usually non-existent, and I have > also at times done a pick and choose. > > In this case, though, it seems that there is a compiler change and the two > are different. > > You could try editing /etc/R/Makeconf and just comment out -lquadmath. > > Dirk > > | So maybe my problem is more esoteric than I imagined. It does seem > | complicated to be a R user in Squeeze. > | > | It's also helpful to know that there are binaries for things like > | Hmisc in the archives. > | > | Thanks in general for tackling the inclusion of R in Debian! > | > | Cheers, > | Peter > | > | On Thu, Jan 12, 2012 at 10:21 PM, Dirk Eddelbuettel <[email protected]> wrote: > | > > | > On 12 January 2012 at 21:30, Peter Muhlberger wrote: > | > | Apologies if this has been posted about recently, but I haven't been > | > | on this listserve for a while. > | > > | > That is rude. This was discussed, and a fix layed out, within the last 24 > hours. > | > > | > | I ran into a problem trying to compile Hmisc (required package for > | > > | > 1) r-cran-hmisc was part of Debian for years. Why compile? > | > > | > 2) r-cran-rms is part of Debian, the 'rms' package has replaced Hmisc > /years > | > ago/ upstream. > | > > | > | rms) and have found a solution that I'd like to share. The compile > | > | fails with the message: > | > | > | > | /usr/bin/ld: cannot find -lquadmath > | > | > | > | libquadmath exists on my Debian Squeeze system (up-to-date, recently > installed): > | > | > | > | ldconfig -p | grep libquad* > | > | libquadmath.so.0 (libc6,x86-64) => > | > | /usr/lib/x86_64-linux-gnu/libquadmath.so.0 > | > | > | > | The problem appears to be that libquadmath.so.0 is buried in the > | > | directory x86_64-linux-gnu where the compiler apparently can't see it. > | > | > | > | The fix is: > | > | > | > | cd /usr/lib > | > | sudo ln -s /usr/lib/x86_64-linux-gnu/libquadmath.so.0 > /usr/lib/libquadmath.so > | > | > | > | Now, the compile works. > | > | > | > | Whoever is setting up R or R packages for Debian should try to insure > | > | that users don't have to apply fixes like the one above. > | > > | > Nonsense. Look at the compile logs of /hundreds/ of r-cran-* packages > across > | > /more than a dozen/ architectures. They build. > | > > | > Look eg at http://packages.qa.debian.org/r/r-cran-rms.html and click on > build > | > log, or go to https://buildd.debian.org/status/package.php?p=r-cran-rms > | > > | > Funny how it builds on all of our machines witout intervention, eh? > | > > | > Dirk > | > > | > | > | > | Cheers, > | > | Peter > | > | > | > | _______________________________________________ > | > | R-SIG-Debian mailing list > | > | [email protected] > | > | https://stat.ethz.ch/mailman/listinfo/r-sig-debian > | > > | > -- > | > "Outside of a dog, a book is a man's best friend. Inside of a dog, it is > too > | > dark to read." -- Groucho Marx > > -- > "Outside of a dog, a book is a man's best friend. Inside of a dog, it is too > dark to read." -- Groucho Marx _______________________________________________ R-SIG-Debian mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-debian
