First, this is not the same error (a segfault) I frequently see when
docbuilding.
Second, I see this after doing `unset MAKE` and then `make -j1`. I can hit
the problem very quickly by running
./sage --docbuild reference/hyperbolic_geometry html
Third, and this is a separate issue, I don't understand why I'm getting the
error. It's arising from plot_directive.py, but I've disabled plotting when
I docbuild, by setting SAGE_DOCBUILD_OPTS=' --no-plot '. Why is it
processing commands inside a `.. plot::` directive at all?
On Tuesday, March 28, 2023 at 12:52:07 PM UTC-7 Dima Pasechnik wrote:
On Tue, Mar 28, 2023 at 7:51 PM Dima Pasechnik <dim...@gmail.com> wrote:
>
> I tried building and testing the latest develop with Homebrew on Intel,
oops, that was still with openblas minor version 21, not 22. Let me
see if 22 works for me.
> and I was getting segfaults in docbuilder. However, they went through
with
>
> make -j1
>
> The usual macOS parallel docbuilder blues, it seems.
>
>
>
> On Tue, 28 Mar 2023, 19:35 John H Palmieri, <jhpalm...@gmail.com> wrote:
>>
>> I ran "brew upgrade" recently on two different Macs, one Intel and one
Apple Silicon, and now the Sage documentation fails to build:
>>
>> [hyperboli] from
/Users/jpalmier/Desktop/Sage/sage_builds/TESTING/clean/sage-10.0.beta5/src/doc/en/reference/hyperbolic_geometry/sage/geometry/hyperbolic_space/hyperbolic_geodesic.rst:
>> [hyperboli] Traceback (most recent call last):
>> [hyperboli] File "sage/matrix/matrix_double_dense.pyx", line 345, in
sage.matrix.matrix_double_dense.Matrix_double_dense.__invert__
>> [hyperboli] M._matrix_numpy = scipy.linalg.inv(self._matrix_numpy)
>> [hyperboli] File
"/Users/jpalmier/Desktop/Sage/sage_builds/TESTING/clean/sage-10.0.beta5/local/var/lib/sage/venv-python3.11/lib/python3.11/site-packages/scipy/linalg/_basic.py",
line 975, in inv
>> [hyperboli] raise LinAlgError("singular matrix")
>> [hyperboli] numpy.linalg.LinAlgError: singular matrix
>> [hyperboli] During handling of the above exception, another exception
occurred:
>> [hyperboli] Traceback (most recent call last):
>> [hyperboli] File
"/Users/jpalmier/Desktop/Sage/sage_builds/TESTING/clean/sage-10.0.beta5/local/var/lib/sage/venv-python3.11/lib/python3.11/site-packages/matplotlib/sphinxext/plot_directive.py",
line 517, in _run_code
>> [hyperboli] exec(code, ns)
>> [hyperboli] File "<string>", line 3, in <module>
>> [hyperboli] File
"/Users/jpalmier/Desktop/Sage/sage_builds/TESTING/clean/sage-10.0.beta5/src/sage/geometry/hyperbolic_space/hyperbolic_geodesic.py",
line 1625, in perpendicular_bisector
>> [hyperboli] isom_mtrx = S.inverse() * (T1 * T2) * S
>> [hyperboli] ^^^^^^^^^^^
>> [hyperboli] File "sage/matrix/matrix2.pyx", line 9964, in
sage.matrix.matrix2.Matrix.inverse
>> [hyperboli] return ~self
>> [hyperboli] File "sage/matrix/matrix_double_dense.pyx", line 347, in
sage.matrix.matrix_double_dense.Matrix_double_dense.__invert__
>> [hyperboli] raise ZeroDivisionError("input matrix must be nonsingular")
>> [hyperboli] ZeroDivisionError: input matrix must be nonsingular
>>
>> (I saw this first with 10.0.beta6 but then went and tried with
10.0.beta5, which had succeeded earlier. Now it fails.)
>>
>> Perhaps this is due to an upgraded openblas? That's the most obvious
among the recently upgraded packages, at least to me: homebrew just
upgraded these:
>>
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 gnupg
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 pinentry
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 npth
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 libusb
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 libksba
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 libgcrypt
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 libassuan
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:21 libgpg-error
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:00 gh
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 10:00 imagemagick
>> drwxr-xr-x 3 jpalmier staff 96 Mar 27 09:59 tox
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 primecount
>> drwxr-xr-x 3 jpalmier staff 96 Mar 27 09:59 tcl-tk
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 qt
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 gobject-introspection
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 netpbm
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 glib
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 mpg123
>> drwxr-xr-x 3 jpalmier admin 96 Mar 27 09:59 cmake
>> drwxr-xr-x 3 jpalmier staff 96 Mar 27 09:59 ghostscript
>> drwxr-xr-x 3 jpalmier staff 96 Mar 27 09:59 sqlite
>> drwxr-xr-x 3 jpalmier staff 96 Mar 27 09:59 openblas
>>
>> "brew info openblas" says that it's version 0.3.22, whereas Sage comes
with 0.3.21. Everything works after building with `./configure
--with-system-openblas=no`, but that flag triggers some other packages to
be built by Sage rather than come from the system, so I'm not 100% sure
it's the issue.
>>
>> Has anyone else seen this?
>>
>> --
>> John
>>
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