On Tue, Sep 24, 2024 at 9:41 PM Anne Schilling <anne1.schill...@gmail.com> wrote: > > Thank you for your suggestions, Dima! > > I am still having trouble though: > [...]
> ==> Reinstalling scipy > ==> Pouring scipy--1.14.1.arm64_sequoia.bottle.tar.gz > 🍺 /opt/homebrew/Cellar/scipy/1.14.1: 1,389 files, 63.8MB > ==> Running `brew cleanup scipy`... > Disable this behaviour by setting HOMEBREW_NO_INSTALL_CLEANUP. > Hide these hints with HOMEBREW_NO_ENV_HINTS (see `man brew`). > MacBook-Pro-3:sage anne$ source $SAGE_ROOT/.homebrew-build-env > > ./bootstrap > ... > ./configure You must run source .homebrew-build-env ./bootstrap ./configure --enable-system-site-packages and then you can check its output (or the top-level config.log) for scipy: using system package; SPKG will not be installed If you have that in, run make. Else, post said config.log. Also check that you actually got scipy for the python you're using, by starting it and running "import scipy" Dima > ... > > make > ... > [sage_conf-10.4] [spkg-install] Removing file or directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/bin/sage-config > [sage_conf-10.4] [spkg-install] Removing file or directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/bin/sage-env-config > [sage_conf-10.4] [spkg-install] Removing file or directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/__editable__.sage_conf-10.4.pth > [sage_conf-10.4] [spkg-install] Removing file or directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/__editable___sage_conf_10_4_finder.py > [sage_conf-10.4] [spkg-install] Removing file or directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_conf-10.4.dist-info/ > [sage_conf-10.4] [spkg-install] Successfully uninstalled sage-conf-10.4 > [sage_conf-10.4] [spkg-install] changing mode of > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/bin/sage-config to 755 > [sage_conf-10.4] [spkg-install] Successfully installed sage-conf-10.4 > [sage_conf-10.4] Moving package files from temporary location > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/sage_conf-10.4/inst > to /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9 > [scipy-1.12.0] Applying patches from ../patches... > [scipy-1.12.0] Applying ../patches/tests_no_internet_dependency.patch > [scipy-1.12.0] patching file 'scipy/datasets/meson.build' > [sage_conf-10.4] Deleting build directory > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/sage_conf-10.4 > [sage_conf-10.4] Finished installing sage_conf-10.4 > [scipy-1.12.0] Host system: Darwin MacBook-Pro-3.local 24.0.0 Darwin Kernel > Version 24.0.0: Mon Aug 12 20:51:54 PDT 2024; > root:xnu-11215.1.10~2/RELEASE_ARM64_T6000 arm64 > [scipy-1.12.0] C compiler: gcc, Apple clang version 16.0.0 > (clang-1600.0.26.3), Target: arm64-apple-darwin24.0.0, Thread model: posix, > InstalledDir: > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin > [scipy-1.12.0] No stamp file for package 'scipy' in > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/lib/sage/installed > [scipy-1.12.0] No spkg-legacy-uninstall script; nothing to do > [scipy-1.12.0] [spkg-install] Installing scipy-1.12.0 > [scipy-1.12.0] [spkg-install] * Building wheel... > [scipy-1.12.0] [spkg-install] Project name: scipy > [scipy-1.12.0] [spkg-install] Project version: 1.12.0 > [scipy-1.12.0] [spkg-install] C compiler for the host machine: gcc (clang > 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.3)") > [scipy-1.12.0] [spkg-install] C linker for the host machine: gcc ld64 classic > PROJECT:ld64 > [scipy-1.12.0] [spkg-install] C++ compiler for the host machine: g++ (clang > 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.3)") > [scipy-1.12.0] [spkg-install] C++ linker for the host machine: g++ ld64 > classic PROJECT:ld64 > [scipy-1.12.0] [spkg-install] Cython compiler for the host machine: cython > (cython 3.0.10) > [scipy-1.12.0] [spkg-install] Host machine cpu family: aarch64 > [scipy-1.12.0] [spkg-install] Host machine cpu: aarch64 > [scipy-1.12.0] [spkg-install] Program python found: YES > (/Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/bin/python3) > [scipy-1.12.0] [spkg-install] Found pkg-config: YES > (/opt/homebrew/bin/pkg-config) 0.29.2 > [scipy-1.12.0] [spkg-install] Run-time dependency python found: YES 3.9 > [scipy-1.12.0] [spkg-install] Program cython found: YES > (/Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/bin/cython) > [scipy-1.12.0] [spkg-install] Compiler for C supports arguments > -Wno-unused-but-set-variable: YES > [scipy-1.12.0] [spkg-install] Compiler for C supports arguments > -Wno-unused-function: YES > [scipy-1.12.0] [spkg-install] Compiler for C supports arguments > -Wno-conversion: YES > [scipy-1.12.0] [spkg-install] Compiler for C supports arguments > -Wno-misleading-indentation: YES > [scipy-1.12.0] [spkg-install] Library m found: YES > [scipy-1.12.0] [spkg-install] > [scipy-1.12.0] [spkg-install] ../meson.build:80:0: ERROR: Compiler gfortran > cannot compile programs. > [scipy-1.12.0] [spkg-install] > [scipy-1.12.0] [spkg-install] A full log can be found at > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/scipy-1.12.0/src/.mesonpy-igf88b0d/meson-logs/meson-log.txt > [scipy-1.12.0] [spkg-install] > [scipy-1.12.0] [spkg-install] ERROR Backend subprocess exited when trying to > invoke build_wheel > [scipy-1.12.0] [spkg-install] > ******************************************************************************** > [scipy-1.12.0] [spkg-install] Error building a wheel for scipy-1.12.0 > [scipy-1.12.0] [spkg-install] > ******************************************************************************** > [scipy-1.12.0] > ************************************************************************ > [scipy-1.12.0] Error installing package scipy-1.12.0 > [scipy-1.12.0] > ************************************************************************ > [scipy-1.12.0] Please email sage-devel > (http://groups.google.com/group/sage-devel) > [scipy-1.12.0] explaining the problem and including the log files > [scipy-1.12.0] /Users/anne/sage/sage/logs/pkgs/scipy-1.12.0.log > [scipy-1.12.0] and > [scipy-1.12.0] /Users/anne/sage/sage/config.log > [scipy-1.12.0] Describe your computer, operating system, etc. > [scipy-1.12.0] If you want to try to fix the problem yourself, *don't* just > cd to > [scipy-1.12.0] > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/scipy-1.12.0 > and type 'make' or whatever is appropriate. > [scipy-1.12.0] Instead, the following commands setup all environment variables > [scipy-1.12.0] correctly and load a subshell for you to debug the error: > [scipy-1.12.0] (cd > '/Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/scipy-1.12.0' > && '/Users/anne/sage/sage/sage' --buildsh) > [scipy-1.12.0] When you are done debugging, you can type "exit" to leave the > subshell. > [scipy-1.12.0] > ************************************************************************ > make[4]: *** [scipy-SAGE_VENV-no-deps] Error 1 > make[3]: *** > [/Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/lib/sage/installed/scipy-1.12.0] > Error 2 > make[2]: *** [all-start] Error 2 > *************************************************************** > Error building Sage. > > The following package(s) may have failed to build (not necessarily > during this run of 'make all-start'): > > * package: ipykernel-6.27.1 > last build time: Sep 24 13:38 > log file: /Users/anne/sage/sage/logs/pkgs/ipykernel-6.27.1.log > > * package: scipy-1.12.0 > last build time: Sep 24 13:38 > log file: /Users/anne/sage/sage/logs/pkgs/scipy-1.12.0.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. > > make[1]: *** [all-start] Error 1 > make: *** [all] Error 2 > > Even though brew installed scipy-1.14.1, the error is about scipy-1.12.0. > > Best wishes, > > Anne > > On Tuesday, September 24, 2024 at 9:28:14 AM UTC-7 dim...@gmail.com wrote: >> >> from your scipy log: >> >> [spkg-install] Library m found: YES >> [spkg-install] >> [spkg-install] ../meson.build:80:0: ERROR: Compiler gfortran cannot >> compile programs. >> [spkg-install] >> [spkg-install] A full log can be found at >> /Users/anne/sage/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/scipy-1.12.0/src/.mesonpy-f8mmdnb8/meson-logs/meson-log.txt >> >> The scipy version (1.12) pre-dates macOS 15.0 by almost a year. >> That's totally unsurprising that it doesn't work. >> Note that even the latest scipy version, 1.14.1, was released before macOS >> 15.0. >> >> I'd suggest to install (update) Homebrew, (to) the latest version. >> Install as many Homebrew packages usable by Sage as possible, in >> particular scipy, pari-gp, singular, etc, and >> run (after the all-important step of sourcing .homebrew-build-env) >> >> ./configure --enable-system-site-packages --disable-notebook >> >> to get a semi-minimal configuration before running make. Although I >> expect more issues with giac, gap, etc. >> Another advantage is that building time will be cut to almost the >> minimal (basically, the only big thing to build >> will be sagelib itself) >> >> Dima >> >> >> On Tue, Sep 24, 2024 at 4:39 PM Anne Schilling >> <anne1.s...@gmail.com> wrote: >> > >> > Hi Dima, >> > >> > Here is the log for MacOS 10.15.7. >> > >> > Thank you for your help! >> > >> > Anne >> > >> > On Tuesday, September 24, 2024 at 8:38:02 AM UTC-7 dim...@gmail.com wrote: >> >> >> >> Hi Anne, >> >> >> >> Please post the log file for this: >> >> >> >> package: ipykernel-6.27.1 >> >> last build time: Sep 23 23:48 >> >> log file: /Users/anne/sage/sage/logs/pkgs/ipykernel-6.27.1.log >> >> >> >> On Tue, Sep 24, 2024 at 8:10 AM Anne Schilling >> >> <anne1.s...@gmail.com> wrote: >> >> > >> >> > >> >> > Dear All, >> >> > >> >> > To add further confusion to this issue, I now tried to install sage >> >> > from source on an older MacOS 10.15.7 and got this error message. I >> >> > followed all the instructions in README.md: >> >> > >> >> > ... >> >> > [cypari-2.1.5] [spkg-pipinst] Looking in links: >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/lib/sage/wheels >> >> > [cypari-2.1.5] [spkg-pipinst] Processing >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/lib/sage/wheels/cypari2-2.1.5-cp310-cp310-macosx_10_15_x86_64.whl >> >> > (from -r >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/lib/sage/scripts/cypari/spkg-requirements.txt >> >> > (line 1)) >> >> > [cypari-2.1.5] [spkg-pipinst] Requirement already satisfied: >> >> > cysignals>=1.7 in >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages >> >> > (from cypari2@ >> >> > file:///Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/lib/sage/wheels/cypari2-2.1.5-cp310-cp310-macosx_10_15_x86_64.whl->-r >> >> > >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/lib/sage/scripts/cypari/spkg-requirements.txt >> >> > (line 1)) (1.11.4) >> >> > [cypari-2.1.5] [spkg-pipinst] Installing collected packages: cypari2 >> >> > [cypari-2.1.5] [spkg-pipinst] Successfully installed cypari2-2.1.5 >> >> > [cypari-2.1.5] Deleting build directory >> >> > /Users/anne/sage/sage/local/var/lib/sage/venv-python3.10/var/tmp/sage/build/cypari-2.1.5 >> >> > [cypari-2.1.5] Finished installing cypari-2.1.5 >> >> > [cypari-2.1.5] real 12m29.794s user 10m52.117s sys 0m16.185s >> >> > make[2]: *** [all-start] Error 2 >> >> > *************************************************************** >> >> > Error building Sage. >> >> > >> >> > The following package(s) may have failed to build (not necessarily >> >> > during this run of 'make all-start'): >> >> > >> >> > * package: ipykernel-6.27.1 >> >> > last build time: Sep 23 23:48 >> >> > log file: /Users/anne/sage/sage/logs/pkgs/ipykernel-6.27.1.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. >> >> > >> >> > real 44m57.426s user 209m54.674s sys 32m35.642s >> >> > make[1]: *** [all-start] Error 1 >> >> > make: *** [all] Error 2 >> >> > >> >> > Best wishes, >> >> > >> >> > Anne >> >> > On Monday, September 23, 2024 at 9:10:12 PM UTC-7 Anne Schilling wrote: >> >> >> >> >> >> Hi Kwankyu, >> >> >> >> >> >> I tried the simplified installation instructions in 38659. Now I get >> >> >> the following error message (after doing make distclean as well): >> >> >> >> >> >> [cypari-2.2.0] [spkg-pipinst] Requirement already satisfied: >> >> >> cysignals>=1.11.3 in >> >> >> /Applications/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages >> >> >> (from cypari2@ >> >> >> file:///Applications/sage/local/var/lib/sage/venv-python3.9/var/lib/sage/wheels/cypari2-2.2.0-cp39-cp39-macosx_11_0_universal2.whl->-r >> >> >> >> >> >> /Applications/sage/local/var/lib/sage/venv-python3.9/var/lib/sage/scripts/cypari/spkg-requirements.txt >> >> >> (line 1)) (1.11.4) >> >> >> [cypari-2.2.0] [spkg-pipinst] Installing collected packages: cypari2 >> >> >> [cypari-2.2.0] [spkg-pipinst] Successfully installed cypari2-2.2.0 >> >> >> [cypari-2.2.0] Deleting build directory >> >> >> /Applications/sage/local/var/lib/sage/venv-python3.9/var/tmp/sage/build/cypari-2.2.0 >> >> >> [cypari-2.2.0] Finished installing cypari-2.2.0 >> >> >> [cypari-2.2.0] real 1m44.371s user 1m31.273s sys 0m7.499s >> >> >> >> >> >> make[2]: *** [all-start] Error 2 >> >> >> *************************************************************** >> >> >> Error building Sage. >> >> >> >> >> >> The following package(s) may have failed to build (not necessarily >> >> >> during this run of 'make all-start'): >> >> >> >> >> >> * package: ipykernel-6.27.1 >> >> >> last build time: Sep 23 20:59 >> >> >> log file: /Applications/sage/logs/pkgs/ipykernel-6.27.1.log >> >> >> >> >> >> * package: scipy-1.12.0 >> >> >> last build time: Sep 23 20:59 >> >> >> log file: /Applications/sage/logs/pkgs/scipy-1.12.0.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. >> >> >> >> >> >> real 33m20.291s user 80m26.058s sys 15m16.308s >> >> >> >> >> >> make[1]: *** [all-start] Error 1 >> >> >> make: *** [all] Error 2 >> >> >> >> >> >> Best wishes, >> >> >> >> >> >> Anne >> >> >> >> >> >> On Monday, September 23, 2024 at 5:59:17 PM UTC-7 Kwankyu Lee wrote: >> >> >>> >> >> >>> Hi Anne, >> >> >>> >> >> >>> The PR https://github.com/sagemath/sage/pull/38659 aims to simplify >> >> >>> the installation instructions in README. >> >> >>> >> >> >>> As you seem to have a new macOS, would you try the guide in the new >> >> >>> README on your platform? >> >> >>> >> >> >>> I have no idea about the cause of your troubles though. >> >> >>> >> >> >>> Kwankyu >> >> > >> >> > -- >> >> > 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/a53e3416-59c2-4364-9a2d-b5e031d99916n%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/a32bf782-ac78-4fec-90d2-a1254653e30bn%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/8b8f08c4-4470-4d53-98b7-ac044398e3c4n%40googlegroups.com. -- You received this message because you are subscribed to the Google Groups "sage-devel" group. 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