I tried it, and it works for me (superficial test : jags compiles, the R packages using install, a,d an old R script runs).
This is now Trac#21736 <https://trac.sagemath.org/ticket/21736#ticket> . I won't do it immediately (my "woking Sage installation is somewhat patched, and going back to develop and forward to my branch costs about 30 minutes (compilation) + 70 minutes (ptestlong), so I need a new "pristine" tree... Thanks for your help ! -- Emmanuel Charpentier Le jeudi 20 octobre 2016 23:27:33 UTC+2, François a écrit : > > libopenblas.so to liblapack.so? Yes it should and I think we even should > do > it in spkg-install. Feel free to open a ticket. > > François > > > On 21/10/2016, at 10:23, Emmanuel Charpentier <emanuel.c...@gmail.com > <javascript:>> wrote: > > > > Would it be sufficient to link libosympenblas.so to liblapack.so in > $SAGE_ROOT/local/lib/ ? > > > > Thanks for the hint ! > > > > -- > > Emmanuel Charpentier > > > > Le jeudi 20 octobre 2016 23:12:43 UTC+2, François a écrit : > > This is because automatic blas/lapack detection is a hopeless task. > > You should pass your lapack libraries to the configuration script. > > If you can’t, hack it. > > And now that we have switched to openblas, -lopenblas provides lapack. > > > > François > > > > > On 21/10/2016, at 10:04, Emmanuel Charpentier <emanuel.c...@gmail.com> > wrote: > > > > > > Something just changed in the Sage build process : as of 7.4, LAPACK > is no longer available to programs running in the Sage shell. > > > > > > Case in point : I want to install JAGS (an MCMC sampler), which is > needed by the rjags R package, of some use to Bayesian R users... This > package compiled fine in the Sage shell up to Sage 7.4beta6. Now, the > --configure step fails with : > > > > > > checking for cheev_ in -llapack... no > > > checking for cheev_ in -llapack_rs6k... no > > > configure: error: "You need to install the LAPACK library" > > > > > > Indeed : > > > > > > charpent@asus16-ec:~$ find /usr/local/sage-7/ -iname "*lapack*so*" > > > /usr/local/sage-7/local/lib/R/modules/lapack.so > > > /usr/local/sage-7/local/lib/python2.7/site-packages/cvxopt/lapack.so > > > > /usr/local/sage-7/local/lib/python2.7/site-packages/numpy/linalg/lapack_lite.so > > > > > > /usr/local/sage-7/local/lib/python2.7/site-packages/scipy/linalg/_flapack.so > > > > > /usr/local/sage-7/local/lib/python2.7/site-packages/scipy/linalg/cython_lapack.so > > > > > charpent@asus16-ec:~$ find /usr/local/sage-7/ -iname "*lapack*h*" > > > /usr/local/sage-7/local/lib/R/include/R_ext/Lapack.h > > > /usr/local/sage-7/local/include/lapacke_mangling.h > > > > /usr/local/sage-7/local/include/linbox/algorithms/numeric-solver-lapack.h > > > /usr/local/sage-7/local/include/lapacke_config.h > > > /usr/local/sage-7/local/include/lapacke.h > > > > > > > > > Short of forcing the Sage build process to use the system's LAPACK > (which can be done but, as far as I know, is not recommended), I don't see > how to force the creation of this library and its header file. > > > > > > Note that could be useful to reduce overhead : R (standard package) > creates its own version (probably for lack of finding it at build time...) > ; it also exists in the python package cvxopt. > > > > > > 1) What do you think ? > > > > > > 2) Should a ticket be filed ? > > > > > > HTH, > > > > > > -- > > > Emmanuel Charpentier > > > > > > -- > > > You received this message because you are subscribed to the Google > Groups "sage-devel" group. > > > To unsubscribe from this group and stop receiving emails from it, send > an email to sage-devel+...@googlegroups.com. > > > To post to this group, send email to sage-...@googlegroups.com. > > > Visit this group at https://groups.google.com/group/sage-devel. > > > For more options, visit https://groups.google.com/d/optout. > > > > > > -- > > You received this message because you are subscribed to the Google > Groups "sage-devel" group. > > To unsubscribe from this group and stop receiving emails from it, send > an email to sage-devel+...@googlegroups.com <javascript:>. > > To post to this group, send email to sage-...@googlegroups.com > <javascript:>. > > Visit this group at https://groups.google.com/group/sage-devel. > > For more options, visit https://groups.google.com/d/optout. > > -- You received this message because you are subscribed to the Google Groups "sage-devel" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at https://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
