In case anyone is curious, I've tracked the problem down to homebrew's openBLAS and so it has nothing to do with sage. If I build numpy from source through homebrew then I get exactly the same error using my system python3. I'm wondering if maybe this has something to do with the fact that openBLAS is bottled with a different processor type than the one that is on my system. In any case I'll ask over there and see if I can get some help.
On Sunday, October 11, 2020 at 10:17:43 PM UTC-4 Zachary Scherr wrote: > Hi Dima, > > My system-wide numpy is installed via pip. I was just remarking that I > didn't build my system-wide numpy from source so it's not a fair > comparison. It's possible that the issues aren't sage related but are > related to building sage's numpy against some homebrew libraries. > > On Sunday, October 11, 2020 at 8:11:13 PM UTC-4 dim...@gmail.com wrote: > >> On Mon, Oct 12, 2020 at 1:00 AM Zachary Scherr <zsc...@gmail.com> wrote: >> > >> > That also crashes with: 86622 segmentation fault ./sage --python >> > >> > I tested this both with building sage against homebrew python 3.8.6 and >> against sage's default python 3.8.5 and the same error occurred in both >> cases. I don't have this problem using my system-wide numpy so it's >> possible that because sage numpy is built from source that maybe one of my >> homebrew libraries is causing issues. I found >> https://github.com/numpy/numpy/issues/11551 which could be relevant and >> might indicate that it's not a sage problem. >> >> If you are talking about Homebrew's numpy, it should be more or less >> identical with Sage's numpy (assuming you use Homebrew's openblas in >> Sage) >> cf. >> https://github.com/Homebrew/homebrew-core/blob/master/Formula/numpy.rb >> >> > >> > I should also add that if I lower the dimension of x to 100000 then it >> works without problem. >> > >> > On Sunday, October 11, 2020 at 3:26:11 PM UTC-4 dim...@gmail.com wrote: >> >> >> >> On Sun, Oct 11, 2020 at 8:14 PM Zachary Scherr <zsc...@gmail.com> >> wrote: >> >> > >> >> > Hi All, >> >> > >> >> > I was doing some bug hunting and noticed that scipy's pytests >> crashed pretty early. I tracked down exactly what was causing the problem >> and noticed it can be reproduced by the following sequence of commands: >> >> > >> >> > sage: import numpy as np >> >> > sage: x = np.random.randn(1000000,2) >> >> > sage: y = np.random.randn(2,2) >> >> > sage: x.dot(y) >> >> >> >> please test this in "plain" Sage python, i.e. does >> >> >> >> ./sage --python >> >> >> >> >>> import numpy as np >> >> >>> x = np.random.randn(1000000,2) >> >> >>> y = np.random.randn(2,2) >> >> >>> x.dot(y) >> >> >> >> reproduce the crash? >> >> >> >> >> >> >> >> > >> >> > produces: >> >> > >> >> > >> ------------------------------------------------------------------------ >> >> > 0 signals.cpython-38-darwin.so 0x00000001088bc62a print_backtrace + >> 58 >> >> > 1 signals.cpython-38-darwin.so 0x00000001088c0277 sigdie + 39 >> >> > 2 signals.cpython-38-darwin.so 0x00000001088c0212 sigdie_for_sig + >> 290 >> >> > 3 libsystem_platform.dylib 0x00007fff6c88e5fd _sigtramp + 29 >> >> > >> ------------------------------------------------------------------------ >> >> > Unhandled SIGBUS: A bus error occurred. >> >> > This probably occurred because a *compiled* module has a bug >> >> > in it and is not properly wrapped with sig_on(), sig_off(). >> >> > Python will now terminate. >> >> > >> ------------------------------------------------------------------------ >> >> > /Users/zscherr/sage/src/bin/sage-python: line 2: 78812 Bus error: 10 >> sage -python "$@" >> >> > >> >> > I haven't tested on any other platforms, but for what it's worth I >> have Catalina 10.15.7 with Xcode 12. >> >> > >> >> > Thanks, >> >> > Zach >> >> > >> >> > -- >> >> > 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 view this discussion on the web visit >> https://groups.google.com/d/msgid/sage-devel/28f58136-d3c7-40b7-9a46-36fc347acc2en%40googlegroups.com >> . >> > >> > -- >> > 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 view this discussion on the web visit >> https://groups.google.com/d/msgid/sage-devel/a67ca4b5-526b-40d7-a476-520d49890207n%40googlegroups.com >> . >> > -- 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 view this discussion on the web visit https://groups.google.com/d/msgid/sage-devel/7ba7ef07-8460-4180-8670-397e1fb6df93n%40googlegroups.com.
