@Simon. Here's what I did. I checked out R revision 70059. Ran export r_cv_libc_stack_end=no. (otherwise it would give that error we talked about before) Ran ./configure --without-recommended-packages. (otherwise it would complain of not finding ./src/library/Recommended/MASS_*.tar.gz) Ran make. Ran make check. Log is here - http://pastebin.com/raw/cGJgqB8p
What do you think? Is there anything else I can do to help solve this issue? On Mon, Feb 1, 2016 at 11:36 AM, Simon Urbanek <simon.urba...@r-project.org> wrote: > > On Feb 1, 2016, at 4:16 AM, Martin Maechler <maech...@stat.math.ethz.ch> > wrote: > >>>>>>> Alba Pompeo <albapom...@gmail.com> >>>>>>> on Fri, 29 Jan 2016 08:23:26 -0200 writes: >> >>> Here is my log from 'make check' using an Intel i5 64-bit >>> processor - http://pastebin.com/raw/N6SYAuFX Here is >>> Isaac's log from 'make check' using an Intel Atom 32-bit >>> processor - http://pastebin.com/raw/sey6DEk9 >> >>> We are both on Alpine Linux, which uses the musl >>> libc. http://www.musl-libc.org/ >> >>> Thank you very much. >> >> It probably would have helped to choose a different subject >> which I now do. >> > > Agreed, since there is actually no abuse, case was easily dismissed as bogus > given the subject. > > >>> On Thu, Jan 28, 2016 at 9:54 AM, Alba Pompeo >>> <albapom...@gmail.com> wrote: >>>> Hello, developers of R. >>>> >>>> I have been unsuccessfully trying to build R on a musl >>>> libc system for the last days. ./configure works, but >>>> make fails. The command that errors out is here - >>>> http://pastebin.com/raw/UwFRsiqT >>>> >>>> It was brought to my attention that this is a (very >>>> longstanding) abuse of a private glibc symbol in R. >>>> >>>> In R 3.2.3, it seems that configure is trying to test for >>>> it on Linux. It apparently fails to accurately test (as >>>> demonstrated by the link error), perhaps because the test >>>> program does not actually *use* __libc_stack_end so it >>>> gets optimized out. (See line 35500 or so in >>>> R-3.2.3/configure.) Ideally, the test program would >>>> check that a pointer to __libc_stack_end is non-null, but >>>> that's an autoconf bug. >> >> So, ideally someone who knows autoconf much better than I do >> should submit a bug report to the autoconf maintainers. >> > > @Alba, can you, please, check that your hypothesis actually holds true and > the latest R from trunk fixes the check for you? > > >> Back to R: I'm not familiar with that part of the code, neither >> the configuration, nor the usage (in R/src/unix/system.c ). >> However, that code seems to be using a a glibc "feature" widely >> available which does help making R startup (a very tiny bit ??) >> faster. >> > > No, it's actually very crucial as it is used to detect stack overflows. > > Cheers, > Simon > > > >>>> A work around was to 'export r_cv_libc_stack_end=no' >>>> before configuring R. >> >> which *does* solve that problem, right? >> >>>> However, there are a couple little issues with non-ASCII >>>> text and a *lot* of math differences, many of which say >>>> "*no* convergence: NOTIFY R-core!". >> >> Hmm, I may be off, but these would look like entirely unrelated >> with the libc_stack_end availibility, wouldn't they ? >> >> Maybe you / the musl developers should try to make those C >> libraries more "standard", notably because I would see math >> differences as something pretty grave for R, and indeed, I would >> not want to use a platform where R's math functions work >> incompatibly with all other platforms ... but maybe I >> misunderstand completely. >> >> Hmm... I've found this, >> >> http://wiki.musl-libc.org/wiki/Functional_differences_from_glibc#Floating-point_and_mathematical_library >> >> which make what you say above more relevant/interesting. >> >> Still, from this thread I get that the C source code of R needs >> considerable configuration patches before R can work with musl. >> But that needs another thread, something like 'Building R with musl'. >> >>>> Until these are resolved, R can't be packaged for >>>> distributions that use musl, such as Alpine Linux. >> >> which I agree would not be ideal. >> Martin >> >> -- >> Martin <maech...@stat.math.ethz.ch> http://stat.ethz.ch/people/maechler >> Seminar für Statistik, ETH Zürich >> >> ______________________________________________ >> R-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-devel >> > ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
