Hi, Thanks for the hint but setting SAGE_BUILD_DIR does not seem to work in this case.
Regards, phiho On Thu, Feb 17, 2022 at 7:48 AM Tobias Diez <tobiasdiez...@gmail.com> wrote: > From the logs: > error: Command "gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv > -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g > -fwrapv -O2 -g -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I./sage/cpython > -I/mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/lib/python3.8/site-packages/cysignals > -I./sage/rings -I/mnt/g/Maths/sage-9.5/clone/pkgs/sagemath-standard > -I/usr/include/python3.8 > -I/mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/lib/python3.8/site-packages/numpy/core/include > -Ibuild/cythonized > -I/mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/include > -I/usr/include/python3.8 -c build/cythonized/sage/arith/power.c -o > build/temp.linux-x86_64-3.8/build/cythonized/sage/arith/power.o > -fno-strict-aliasing -DCYTHON_CLINE_IN_TRACEBACK=1 -std=c99" failed with > exit status 1 > Exception ignored in: <function Pool.__del__ at 0x7f439611e430> > Traceback (most recent call last): > File "/usr/lib/python3.8/multiprocessing/pool.py", line 268, in __del__ > self._change_notifier.put(None) > File "/usr/lib/python3.8/multiprocessing/queues.py", line 368, in put > self._writer.send_bytes(obj) > File "/usr/lib/python3.8/multiprocessing/connection.py", line 200, in > send_bytes > self._send_bytes(m[offset:offset + size]) > File "/usr/lib/python3.8/multiprocessing/connection.py", line 411, in > _send_bytes > self._send(header + buf) > File "/usr/lib/python3.8/multiprocessing/connection.py", line 368, in > _send > n = write(self._handle, buf) > OSError: [Errno 9] Bad file descriptor > > Looks similar to errors I had due to sage's handling of the build/temp.xyz > folder (combined with a bug in WSL). You can try the workaround of setting > SAGE_BUILD_DIR mentioned at the end of > https://doc.sagemath.org/html/en/installation/source.html#ubuntu-on-windows-subsystem-for-linux-wsl-prerequisite-installation. > For me this worked. > On Wednesday, 16 February 2022 at 23:10:25 UTC+1 Matthias Koeppe wrote: > >> I think it's a bug in WSL 1. We should update our WSL install >> instructions to mention this limitation. >> >> You could also try if switching to WSL 2 improves the situation when >> using the mounted drive. >> >> >> On Wednesday, February 16, 2022 at 12:04:41 PM UTC-8 hohoa...@gmail.com >> wrote: >> >>> Hi Matthias, >>> >>> I have just finished the builds for sage 9.5 and 9.6 b01 successfully on >>> the root drive (instead of mounted drive which was OK for sage 9.4) >>> >>> Thank you so much for your patience. I am wondering what is the problem >>> with the mounted drive. >>> Is it a bug in WSL or a feature in Ubuntu and/or Sage I am concerned >>> about the limited disk space on the root drive >>> >>> Again, thank you for your help and patience. >>> >>> Regards, >>> >>> phiho >>> >>> >>> On Tuesday, February 15, 2022 at 11:46:41 AM UTC-5 Matthias Koeppe wrote: >>> >>>> I would suggest to try whether the "Invalid argument" syscall errors go >>>> away if you clone the Sage source tree in the Linux file system, for >>>> example, in "/sage", instead of a location mounted from the Windows file >>>> system (/mnt/g/Maths/sage-9.5/clone/). >>>> >>>> >>>> >>>> >>>> On Tuesday, February 15, 2022 at 12:14:30 AM UTC-8 hohoa...@gmail.com >>>> wrote: >>>> >>>>> Hi, >>>>> >>>>> Thank you so much for your advice. >>>>> >>>>> I just started afresh with a new clone from github and following the >>>>> instructions from https://sagemanifolds.obspm.fr/install_ubuntu.html >>>>> >>>>> After running './configure', conda was deactivated (twice): >>>>> >>>>> $ which conda >>>>> /home/hph/miniconda3/bin/conda >>>>> >>>>> $ conda deactivate >>>>> $ conda deactivate >>>>> >>>>> Then: >>>>> >>>>> $ make ccache >>>>> $ MAKE="make -j8" make >>>>> >>>>> after 10 times of -re-make (with MAKE="make -j8"): >>>>> >>>>> $ ls -l *.log | wc -l >>>>> 152 >>>>> >>>>> $ ls -l *.log.error | wc -l >>>>> 12 >>>>> >>>>> All the errors from the earlier make's seemed to be fixed eventually >>>>> in the later re-make, all except 'scipy-1.7.2' and 'sagelib-9.5' >>>>> >>>>> Please find attached 'config.log.7z' and 'Error building a wheel for >>>>> scipy-1.7.2 - scipy-1.7.2.log.error.7z' (from re-make #5 to #10) and >>>>> 'sagelib-9.5.log.error.7z' >>>>> >>>>> The re-make #10, scipy-1.7.2 failed with: >>>>> >>>>> *error: Command "gfortran -Wall -g -ffixed-form -fno-second-underscore >>>>> -g -O2 -fPIC -fPIC -O3 -funroll-loops >>>>> -I/mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/lib/python3.8/site-packages/numpy/core/include >>>>> -Ibuild/src.linux-x86_64-3.8/numpy/distutils/include -c -c >>>>> scipy/interpolate/fitpack/curev.f -o >>>>> build/temp.linux-x86_64-3.8/scipy/interpolate/fitpack/curev.o" failed with >>>>> exit status 1* >>>>> >>>>> ########### CLIB COMPILER OPTIMIZATION ########### >>>>> Platform : >>>>> Architecture: x64 >>>>> Compiler : gcc >>>>> >>>>> CPU baseline : >>>>> Requested : 'min' >>>>> Enabled : SSE SSE2 SSE3 >>>>> Flags : -msse -msse2 -msse3 >>>>> Extra checks: none >>>>> >>>>> CPU dispatch : >>>>> Requested : 'max -xop -fma4' >>>>> Enabled : SSSE3 SSE41 POPCNT SSE42 AVX F16C FMA3 AVX2 AVX512F >>>>> AVX512CD AVX512_KNL AVX512_KNM AVX512_SKX AVX512_CLX AVX512_CNL AVX512_ICL >>>>> Generated : none >>>>> CCompilerOpt.cache_flush[809] : write cache to path -> >>>>> /mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/var/tmp/sage/build/scipy-1.7.2/src/build/temp.linux-x86_64-3.8/ccompiler_opt_cache_clib.py >>>>> *error: Command "gfortran -Wall -g -ffixed-form >>>>> -fno-second-underscore -g -O2 -fPIC -fPIC -O3 -funroll-loops >>>>> -I/mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/lib/python3.8/site-packages/numpy/core/include >>>>> -Ibuild/src.linux-x86_64-3.8/numpy/distutils/include -c -c >>>>> scipy/interpolate/fitpack/curev.f -o >>>>> build/temp.linux-x86_64-3.8/scipy/interpolate/fitpack/curev.o" failed with >>>>> exit status 1* >>>>> Building wheel for scipy (pyproject.toml): finished with status >>>>> 'error' >>>>> ERROR: Failed building wheel for scipy >>>>> Failed to build scipy >>>>> ERROR: Failed to build one or more wheels >>>>> >>>>> ******************************************************************************** >>>>> Error building a wheel for scipy-1.7.2 >>>>> >>>>> ******************************************************************************** >>>>> >>>>> real 3m25.289s >>>>> user 6m14.359s >>>>> sys 1m47.406s >>>>> >>>>> In the re-make #12, 'sagelib-9.5' build failed with: >>>>> *error: [Errno 22] Invalid argument: >>>>> 'sage/rings/power_series_poly.pxd'* >>>>> >>>>> Discovering Python/Cython source code.... >>>>> distributions = [''] >>>>> Discovered Python/Cython sources, time: 2.99 seconds. >>>>> running build >>>>> Generating auto-generated sources >>>>> Building interpreters for fast_callable >>>>> running build_cython >>>>> Enabling Cython debugging support >>>>> *error: [Errno 22] Invalid argument: >>>>> 'sage/rings/power_series_poly.pxd'* >>>>> >>>>> real 0m17.411s >>>>> user 0m4.844s >>>>> sys 0m11.797s >>>>> >>>>> >>>>> Regards, >>>>> >>>>> phiho >>>>> >>>>> >>>>> On Thu, Feb 3, 2022 at 2:36 PM Matthias Koeppe <matthia...@gmail.com> >>>>> wrote: >>>>> >>>>>> It would probably be a good idea to do "make ccache" and then >>>>>> re-attempt the build. >>>>>> On Thursday, February 3, 2022 at 11:32:32 AM UTC-8 hohoa...@gmail.com >>>>>> wrote: >>>>>> >>>>>>> Hi, >>>>>>> >>>>>>> Actually this approach was tried a few times before. The report was >>>>>>> from a fresh clone and build. >>>>>>> >>>>>>> 'MAKE="make -j8" make' was just tried again and the re-make ended >>>>>>> with these failed packages: >>>>>>> >>>>>>> <quote> >>>>>>> real 13m20.842s >>>>>>> user 14m38.391s >>>>>>> sys 6m4.781s >>>>>>> *************************************************************** >>>>>>> Error building Sage. >>>>>>> >>>>>>> The following package(s) may have failed to build (not necessarily >>>>>>> during this run of 'make all-start'): >>>>>>> >>>>>>> * package: arb-2.19.0.p0 >>>>>>> last build time: Feb 3 12:08 >>>>>>> log file: >>>>>>> /mnt/g/Maths/sage-9.5/clone/logs/pkgs/arb-2.19.0.p0.log >>>>>>> >>>>>>> * package: pplpy-0.8.6 >>>>>>> last build time: Feb 3 12:09 >>>>>>> log file: >>>>>>> /mnt/g/Maths/sage-9.5/clone/logs/pkgs/pplpy-0.8.6.log >>>>>>> >>>>>>> * package: sphinx-4.2.0 >>>>>>> last build time: Feb 3 12:09 >>>>>>> log file: >>>>>>> /mnt/g/Maths/sage-9.5/clone/logs/pkgs/sphinx-4.2.0.log >>>>>>> >>>>>>> * package: numpy-1.21.4 >>>>>>> last build time: Feb 3 12:13 >>>>>>> log file: >>>>>>> /mnt/g/Maths/sage-9.5/clone/logs/pkgs/numpy-1.21.4.log >>>>>>> >>>>>>> It is safe to delete any log files and build directories, but they >>>>>>> contain information that is helpful for debugging build problems. >>>>>>> WARNING: If you now run 'make' again, the build directory of the >>>>>>> same version of the package will, by default, be deleted. Set the >>>>>>> environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this. >>>>>>> >>>>>>> </quote> >>>>>>> >>>>>>> Please find attached 'config.log.7z' and the logs of failed packages* >>>>>>> including numpy-1.21.4*.log2.7z. >>>>>>> >>>>>>> FWIW, 'sage-9.4' was successfully built (the first time) from the >>>>>>> tarball (with 'configure' pre-made, downloaded from github) on this same >>>>>>> machine about a week ago. >>>>>>> (The tarball for 'sage-9.5' did not go far) >>>>>>> >>>>>>> numpy-1.21.4 still failed in another re-make >>>>>>> >>>>>>> Regards, >>>>>>> >>>>>>> phiho >>>>>>> >>>>>>> P.S: I will be out of town and will have no access to the Internet >>>>>>> (a couple weeks or so), please allow me to catch up later on. >>>>>>> >>>>>>> >>>>>>> On Thu, Feb 3, 2022 at 11:20 AM Matthias Koeppe < >>>>>>> matthia...@gmail.com> wrote: >>>>>>> >>>>>>>> The compilation fails with a failed system call: >>>>>>>> >>>>>>>> /usr/include/x86_64-linux-gnu/bits/types.h:142:10: fatal error: >>>>>>>> /mnt/g/Maths/sage-9.5/clone/local/var/lib/sage/venv-python3.8/include/bits/time64.h: >>>>>>>> Invalid argument >>>>>>>> 142 | #include <bits/time64.h> /* Defines __TIME*_T_TYPE >>>>>>>> macros. */ >>>>>>>> | ^~~~~~~~~~~~~~~ >>>>>>>> compilation terminated. >>>>>>>> >>>>>>>> This is likely sporadic and will go away if you just restart "make". >>>>>>>> Tracked at https://trac.sagemath.org/ticket/31088 >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> On Thursday, February 3, 2022 at 1:22:11 AM UTC-8 >>>>>>>> hohoa...@gmail.com wrote: >>>>>>>> >>>>>>>>> Greetings, >>>>>>>>> >>>>>>>>> The instructions at >>>>>>>>> https://sagemanifolds.obspm.fr/install_ubuntu.html were followed. >>>>>>>>> >>>>>>>>> It is much appreciated if someone would kindly point out what was >>>>>>>>> missing in the build process. >>>>>>>>> >>>>>>>>> Please find attached 'install.log.7z' and 'numpy-1.21.4.log.7z' >>>>>>>>> >>>>>>>>> Regards, >>>>>>>>> >>>>>>>>> phiho >>>>>>>>> >>>>>>>>> P.S: >>>>>>>>> $ uname -a >>>>>>>>> Linux 4.4.0-17763-Microsoft #2268-Microsoft Thu Oct 07 16:36:00 >>>>>>>>> PST 2021 x86_64 x86_64 x86_64 GNU/Linux >>>>>>>>> >>>>>>>>> >>>>>>>>> -- >>>>>>>> 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/461e60bb-5ae8-453c-b332-2bf2b02d6e14n%40googlegroups.com >>>>>>>> <https://groups.google.com/d/msgid/sage-devel/461e60bb-5ae8-453c-b332-2bf2b02d6e14n%40googlegroups.com?utm_medium=email&utm_source=footer> >>>>>>>> . >>>>>>>> >>>>>>> -- >>>>>> 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/751fde85-2d70-4fad-9f5a-05114f670b74n%40googlegroups.com >>>>>> <https://groups.google.com/d/msgid/sage-devel/751fde85-2d70-4fad-9f5a-05114f670b74n%40googlegroups.com?utm_medium=email&utm_source=footer> >>>>>> . >>>>>> >>>>> -- > 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/879f148b-ffab-45d7-a29a-f1bda7f60cc6n%40googlegroups.com > <https://groups.google.com/d/msgid/sage-devel/879f148b-ffab-45d7-a29a-f1bda7f60cc6n%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "sage-devel" group. 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