On Fri, 10 Mar 2006, Liaw, Andy wrote: > Dear R-devel, > > [I'm not sure if this is appropriate for R-devel. If not, I'm more than > happy to move it to R-help.]
It is certainly not appropriate to R-help: see the posting guide. > As those of you who saw my post on R-help know, I've been trying to build > R-patched on a dual Opteron box running Scyld Beowulf, using the PGI 6.1 > compilers. The build went fine, but I couldn't get it to pass make > check-all. Jennifer Lai, who reported success with PGI 6.0 previously, > seems to have the same problem with 6.1. Here are the particulars: > > Since R requires IEEE754 conformance, the flag to use for PGI is -Kieee. > (BTW, configure still insist on sticking in -mieee-fp, which generates a > warning.) With that flag, the build runs into trouble with the first > example in ?optim. Running it by hand gives me: Well, configure insists on doing so because we were told it was correct. (Will change.) Is -Kieee always correct for PG? Looking at http://www.amd.com/us-en/assets/content_type/DownloadableAssets/dwamd_PGI_nov603.pdf suggests you might want to try -pc64 -Kieee. >> optim(c(-1.2,1), fr, control=list(trace=6)) > Nelder-Mead direct search function minimizer > function value for initial parameters = 24.200000 > Scaled convergence tolerance is 3.60608e-07 > Stepsize computed as 0.120000 > BUILD 3 24.200000 7.095296 > REFLECTION 5 15.080000 4.541696 > REFLECTION 7 7.095296 4.456256 > [...] > HI-REDUCTION 191 0.000002 0.000000 > LO-REDUCTION 193 0.000001 0.000000 > > and the process just hangs (until ctrl-z and kill -9). This could well be a problem with extended precision: I'll see if I can spot anything. > If I build R without the -Kieee flag, make check-all fails at arith-true.R, > in particular, the following: > >> pretty(pi, n = 10) - 2:5 > [1] -2.220446e-16 -4.440892e-16 -8.881784e-16 -8.881784e-16 > > whereas the build with the -Kieee flag gives: > >> pretty(pi, n = 10) - 2:5 > [1] 0 0 0 0 > > and can pass the arith-true.R test. > > The configuration is as follows: > > export PG_HOME=/usr/pgi/linux86-64/6.1 > ~/Rbuild/R-patched/configure \ > CC=pgcc \ > CFLAGS="-g -Kieee" \ > CPPFLAGS="-I$PG_HOME/include -I$PG_HOME/include/CC" \ > CPICFLAGS=-fpic \ > F77=pgf95 \ > FFLAGS="-g -Kieee"\ > FPICFLAGS=-fpic \ > CXX=pgCC \ > CXXFLAGS="-g -Kieee" \ > CXXPICFLAGS=-fpic \ > SHLIB_CXXLDFLAGS=-shared \ > SHLIB_LDFLAGS=-shared \ > LDFLAGS="-L$PG_HOME/libso -L/usr/lib64 -L/usr/X11R6/lib64" \ > --without-tcltk \ > --with-blas="-L/usr/pgi/linux86-64/6.1/libso -lacml" > > [The pgf95 (or pgf90) is needed for linking against ACML to work. This > should be unrelated as optim is in C.] > > I'd very much appreciate any pointers. > > Best, > Andy > > > Andy Liaw, PhD > Biometrics Research PO Box 2000 RY33-300 > Merck Research Labs Rahway, NJ 07065 > andy_liaw(a)merck.com 732-594-0820 > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel > > -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595 ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
