On Tue, Feb 9, 2021 at 3:32 PM Trevor Karn <[email protected]> wrote: > > I uninstalled and reinstalled homebrew and that got rid of the brew doctor > warnings. I then brewed the suggested packages from the Sage link Zachary > provided and the packages listed at the end of the output of configure. > > Then from SAGE_ROOT I ran > > make distclean > source .homebrew-build-env > ./bootstrap -d > ./configure > make -j4 build > > In the end this seems to be working. Thank you so much Dima and Zachary for > your help. > > The reason for running ./bootstrap with the -d flag was because that is what > an error message told me to do. Without -d flag: > > trevorkarn@Trevors-MacBook-Air sage % source .homebrew-build-env > > trevorkarn@Trevors-MacBook-Air sage % ./bootstrap > > rm -rf config configure build/make/Makefile-auto.in > > rm -f src/doc/en/installation/*.txt > > rm -rf src/doc/en/reference/spkg/*.rst > > rm -f src/doc/en/reference/repl/*.txt > > rm -f environment.yml > > rm -f src/environment.yml > > rm -f environment-optional.yml > > rm -f src/environment-optional.yml > > src/doc/bootstrap:92: installing src/doc/en/installation/arch.txt and > src/doc/en/installation/arch-optional.txt > > src/doc/bootstrap:92: installing src/doc/en/installation/debian.txt and > src/doc/en/installation/debian-optional.txt > > src/doc/bootstrap:92: installing src/doc/en/installation/fedora.txt and > src/doc/en/installation/fedora-optional.txt > > src/doc/bootstrap:92: installing src/doc/en/installation/cygwin.txt and > src/doc/en/installation/cygwin-optional.txt > > src/doc/bootstrap:92: installing src/doc/en/installation/homebrew.txt and > src/doc/en/installation/homebrew-optional.txt > > src/doc/bootstrap:66: installing environment.yml, environment-optional.yml, > src/environment.yml and src/environment-optional.yml > > src/doc/bootstrap:103: installing src/doc/en/reference/spkg/*.rst > > src/doc/bootstrap:182: installing src/doc/en/reference/repl/options.txt > > bootstrap:73: installing 'config/config.rpath' > > ./bootstrap: line 118: aclocal: command not found > > Bootstrap failed. Either install autotools or run bootstrap with > > the -d option to download the auto-generated files instead.
build/pkgs/_bootstrap/distros/homebrew.txt contains a list of dev packages recommended for Homebrew. (and with these installed, ./bootstrap should complete without errors) I wonder whether any of these are printed at the end of the ./configure run. > > > Best Regards, > > Trevor Karn > > > On Tue, Feb 9, 2021 at 4:06 AM Dima Pasechnik <[email protected]> wrote: >> >> On Tue, Feb 9, 2021 at 4:07 AM Zachary Scherr <[email protected]> wrote: >> > >> > I need to sign off for the night, but the numpy error is definitely >> > related to gfortran. If you have gcc installed via homebrew then it >> > should come with the latest version of gfortran. You can see from your >> > config.log file that gfortran is not found: >> > >> > configure:7281: checking for gfortran >> > configure:7311: result: no >> > >> > and other standard homebrew packages are not found, like openblas: >> > >> > configure:12171: checking BLAS library >> > configure:12190: result: openblas >> > configure:12239: checking whether any of gfortran is installed as or will >> > be installed as SPKG >> > configure:12243: result: yes; install openblas as well >> > configure:13540: no suitable system package found for SPKG openblas >> > >> > are you aware if you have gcc and openblas installed via homebrew? I also >> > see that you didn't run "source .homebrew-build-env" before running >> > ./configure since I don't see certain items on your path. If you go to >> > the sage installation guide at >> > https://doc.sagemath.org/html/en/installation/source.html#macos-recommended-installation >> > you can see a list of homebrew packages you might want to have before >> > installing sage. I think if you get everything in working order with >> > homebrew then you shouldn't have any issues installing sage. Here is my >> > best suggestion as to what to try: >> > >> > - fix all "brew doctor" warnings. This might not be necessary, but I get >> > worried when I see so many warnings. You can probably just delete all the >> > suggested files and you should be fine. >> > >> > - install all the recommended homebrew packages. If any are already >> > installed then maybe try "brew reinstall" to make sure it is installed >> > properly. If you think you have homebrew gcc installed then you should be >> > able to do "which gfortran" and "gfortran --version". That should >> > hopefully show you that you have gfortran 10.2.0_3. >> > >> > - in your sage folder under the develop branch you should run the commands >> > I mentioned, and don't skip out on "source .homebrew-build-env": >> > >> > >> make distclean >> > >> ./bootstrap >> > >> source .homebrew-build-env >> > >> ./configure >> > >> > Before running "make -j4 build" you can look at config.log and make sure >> > that it picked up all of the relevant homebrew packages. >> > >> > >> source .homebrew-build-env >> >> should be run before ./bootstrap >> >> >> as well, ./confugure at the end of its run outputs an advice on >> packages that can still be installed. >> >> > >> > >> > >> > On Monday, February 8, 2021 at 10:52:43 PM UTC-5 Trevor Karn wrote: >> >> >> >> Here is the new one. Thanks so much for all of your help on this, Zachary. >> >> >> >> >> >> Best Regards, >> >> >> >> Trevor Karn >> >> >> >> >> >> On Mon, Feb 8, 2021 at 9:40 PM Zachary Scherr <[email protected]> wrote: >> >>> >> >>> At some point you should deal with those warnings, but I don't think >> >>> that is what is causing your problems (although they are probably >> >>> symptomatic of other possible issues). >> >>> >> >>> The config.log file you posted earlier is picking up a lot of packages >> >>> that were built by sage and not from homebrew. Do you have the >> >>> config.log file that you got after running make distclean? >> >>> >> >>> On Monday, February 8, 2021 at 10:10:01 PM UTC-5 Trevor Karn wrote: >> >>>> >> >>>> brew doctor is giving lots of errors about unbrewed files: >> >>>> >> >>>> trevorkarn@Trevors-MacBook-Air sage % brew doctor >> >>>> >> >>>> Please note that these warnings are just used to help the Homebrew >> >>>> maintainers >> >>>> >> >>>> with debugging if you file an issue. If everything you use Homebrew for >> >>>> is >> >>>> >> >>>> working fine: please don't worry or file an issue; just ignore this. >> >>>> Thanks! >> >>>> >> >>>> >> >>>> Warning: Unbrewed dylibs were found in /usr/local/lib. >> >>>> >> >>>> If you didn't put them there on purpose they could cause problems when >> >>>> >> >>>> building Homebrew formulae, and may need to be deleted. >> >>>> >> >>>> >> >>>> Unexpected dylibs: >> >>>> >> >>>> /usr/local/lib/libtcl8.6.dylib >> >>>> >> >>>> /usr/local/lib/libtk8.6.dylib >> >>>> >> >>>> >> >>>> Warning: Unbrewed header files were found in /usr/local/include. >> >>>> >> >>>> If you didn't put them there on purpose they could cause problems when >> >>>> >> >>>> building Homebrew formulae, and may need to be deleted. >> >>>> >> >>>> >> >>>> Unexpected header files: >> >>>> >> >>>> /usr/local/include/fakemysql.h >> >>>> >> >>>> /usr/local/include/fakepq.h >> >>>> >> >>>> /usr/local/include/fakesql.h >> >>>> >> >>>> /usr/local/include/itcl.h >> >>>> >> >>>> /usr/local/include/itcl2TclOO.h >> >>>> >> >>>> /usr/local/include/itclDecls.h >> >>>> >> >>>> /usr/local/include/itclInt.h >> >>>> >> >>>> /usr/local/include/itclIntDecls.h >> >>>> >> >>>> /usr/local/include/itclMigrate2TclCore.h >> >>>> >> >>>> /usr/local/include/itclTclIntStubsFcn.h >> >>>> >> >>>> /usr/local/include/mysqlStubs.h >> >>>> >> >>>> /usr/local/include/odbcStubs.h >> >>>> >> >>>> /usr/local/include/pqStubs.h >> >>>> >> >>>> /usr/local/include/tcl.h >> >>>> >> >>>> /usr/local/include/tclDecls.h >> >>>> >> >>>> /usr/local/include/tclOO.h >> >>>> >> >>>> /usr/local/include/tclOODecls.h >> >>>> >> >>>> /usr/local/include/tclPlatDecls.h >> >>>> >> >>>> /usr/local/include/tclThread.h >> >>>> >> >>>> /usr/local/include/tclTomMath.h >> >>>> >> >>>> /usr/local/include/tclTomMathDecls.h >> >>>> >> >>>> /usr/local/include/tdbc.h >> >>>> >> >>>> /usr/local/include/tdbcDecls.h >> >>>> >> >>>> /usr/local/include/tdbcInt.h >> >>>> >> >>>> /usr/local/include/tk.h >> >>>> >> >>>> /usr/local/include/tkDecls.h >> >>>> >> >>>> /usr/local/include/tkPlatDecls.h >> >>>> >> >>>> >> >>>> Warning: Unbrewed '.pc' files were found in /usr/local/lib/pkgconfig. >> >>>> >> >>>> If you didn't put them there on purpose they could cause problems when >> >>>> >> >>>> building Homebrew formulae, and may need to be deleted. >> >>>> >> >>>> >> >>>> Unexpected '.pc' files: >> >>>> >> >>>> /usr/local/lib/pkgconfig/tcl.pc >> >>>> >> >>>> /usr/local/lib/pkgconfig/tk.pc >> >>>> >> >>>> >> >>>> Warning: Unbrewed static libraries were found in /usr/local/lib. >> >>>> >> >>>> If you didn't put them there on purpose they could cause problems when >> >>>> >> >>>> building Homebrew formulae, and may need to be deleted. >> >>>> >> >>>> >> >>>> Unexpected static libraries: >> >>>> >> >>>> /usr/local/lib/libtclstub8.6.a >> >>>> >> >>>> /usr/local/lib/libtkstub8.6.a >> >>>> >> >>>> >> >>>> Warning: You have unlinked kegs in your Cellar. >> >>>> >> >>>> Leaving kegs unlinked can lead to build-trouble and cause formulae that >> >>>> depend on >> >>>> >> >>>> those kegs to fail to run properly once built. Run `brew link` on these: >> >>>> >> >>>> ffmpeg >> >>>> >> >>>> ghostscript >> >>>> >> >>>> >> >>>> Warning: Homebrew's "sbin" was not found in your PATH but you have >> >>>> installed >> >>>> >> >>>> formulae that put executables in /usr/local/sbin. >> >>>> >> >>>> Consider setting your PATH for example like so: >> >>>> >> >>>> echo 'export PATH="/usr/local/sbin:$PATH"' >> ~/.zshrc >> >>>> >> >>>> >> >>>> Warning: Broken symlinks were found. Remove them with `brew cleanup`: >> >>>> >> >>>> /usr/local/bin/git-trac >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy10.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy5.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy6.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy7.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy8.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasy9.pfb >> >>>> >> >>>> /usr/local/share/ghostscript/9.27/Resource/Font/wasyb10.pfb >> >>>> >> >>>> /usr/local/share/man/man1/brew-cask.1 >> >>>> >> >>>> /usr/local/share/zsh/site-functions/_brew_cask >> >>>> >> >>>> trevorkarn@Trevors-MacBook-Air sage % brew cleanup >> >>>> >> >>>> Removing: /usr/local/Cellar/gettext/0.20.1... (1,899 files, 18.5MB) >> >>>> >> >>>> Removing: /usr/local/Cellar/gmp/6.1.2_2... (18 files, 3.1MB) >> >>>> >> >>>> Removing: /usr/local/Cellar/gnutls/3.6.9... (1,227 files, 9.9MB) >> >>>> >> >>>> Removing: /usr/local/Cellar/icu4c/64.2... (257 files, 69.2MB) >> >>>> >> >>>> Removing: /usr/local/Cellar/libevent/2.1.11... (1,063 files, 5MB) >> >>>> >> >>>> Removing: /usr/local/Cellar/libffi/3.2.1... (16 files, 296.8KB) >> >>>> >> >>>> Removing: /usr/local/Cellar/libidn2/2.2.0_1... (70 files, 700.9KB) >> >>>> >> >>>> Removing: /usr/local/Cellar/libtasn1/4.14... (59 files, 384KB) >> >>>> >> >>>> Removing: /usr/local/Cellar/nettle/3.4.1... (85 files, 2MB) >> >>>> >> >>>> Error: Interrupted system call @ dir_initialize - /usr/local/Cellar/opus >> >>>> >> >>>> trevorkarn@Trevors-MacBook-Air sage % ;2D >> >>>> >> >>>> >> >>>> Best Regards, >> >>>> >> >>>> Trevor Karn >> >>>> >> >>>> >> >>>> On Mon, Feb 8, 2021 at 8:38 PM Zachary Scherr <[email protected]> wrote: >> >>>>> >> >>>>> In your original config.log, it looked like sage was picking up its >> >>>>> own fortran: >> >>>>> >> >>>>> configure:11991: gfortran has already been installed by SageMath >> >>>>> configure:39396: result: gfortran-9.2.0: >> >>>>> already installed as an SPKG >> >>>>> >> >>>>> The current version of gfortran from homebrew is 10.2.0 version 3 >> >>>>> >> >>>>> GNU Fortran (Homebrew GCC 10.2.0_3) 10.2.0 >> >>>>> Copyright (C) 2020 Free Software Foundation, Inc. >> >>>>> This is free software; see the source for copying conditions. There >> >>>>> is NO >> >>>>> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR >> >>>>> PURPOSE. >> >>>>> >> >>>>> ./configure should be picking up homebrew's gfortran (installed with >> >>>>> gcc), and it seems from your config.log file that you do have homebrew >> >>>>> and therefore you should have the most recent gfortran. >> >>>>> Do you have the newest config.log file from after running make >> >>>>> distclean? You may also want to try running >> >>>>> >> >>>>> brew doctor >> >>>>> >> >>>>> to see if there is something wrong with your homebrew. >> >>>>> On Monday, February 8, 2021 at 9:27:11 PM UTC-5 Trevor Karn wrote: >> >>>>>> >> >>>>>> Unfortunately, that did not seem to work. >> >>>>>> >> >>>>>> Here are the last few lines of the terminal output and I've attached >> >>>>>> the numpy log. >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] real 28m38.843s >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] user 24m18.545s >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] sys 3m53.423s >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] Copying package files from temporary location >> >>>>>> /Users/trevorkarn/Applications/sage/local/var/tmp/sage/build/singular-4.1.1p2.p0/inst >> >>>>>> to /Users/trevorkarn/Applications/sage/local >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] Successfully installed singular-4.1.1p2.p0 >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] Deleting temporary build directory >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] >> >>>>>> /Users/trevorkarn/Applications/sage/local/var/tmp/sage/build/singular-4.1.1p2.p0 >> >>>>>> >> >>>>>> [singular-4.1.1p2.p0] Finished installing singular-4.1.1p2.p0 >> >>>>>> >> >>>>>> make[2]: *** [all-build] Error 2 >> >>>>>> >> >>>>>> >> >>>>>> real 182m14.796s >> >>>>>> >> >>>>>> user 355m33.883s >> >>>>>> >> >>>>>> sys 72m32.388s >> >>>>>> >> >>>>>> *************************************************************** >> >>>>>> >> >>>>>> Error building Sage. >> >>>>>> >> >>>>>> >> >>>>>> The following package(s) may have failed to build (not necessarily >> >>>>>> >> >>>>>> during this run of 'make all-build'): >> >>>>>> >> >>>>>> >> >>>>>> * package: numpy-1.19.4 >> >>>>>> >> >>>>>> last build time: Feb 8 19:48 >> >>>>>> >> >>>>>> log file: >> >>>>>> /Users/trevorkarn/Applications/sage/logs/pkgs/numpy-1.19.4.log >> >>>>>> >> >>>>>> build directory: >> >>>>>> /Users/trevorkarn/Applications/sage/local/var/tmp/sage/build/numpy-1.19.4 >> >>>>>> >> >>>>>> >> >>>>>> 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-build] Error 1 >> >>>>>> >> >>>>>> make: *** [build] Error 2 >> >>>>>> >> >>>>>> trevorkarn@Trevors-MacBook-Air sage % >> >>>>>> >> >>>>>> >> >>>>>> >> >>>>>> Best Regards, >> >>>>>> >> >>>>>> Trevor Karn >> >>>>>> >> >>>>>> >> >>>>>> On Mon, Feb 8, 2021 at 1:56 PM Zachary Scherr <[email protected]> >> >>>>>> wrote: >> >>>>>>> >> >>>>>>> yea, something seems messed up. For example, the numpy problem was >> >>>>>>> fixed on beta 6 and should still be fixed in beta 7. It looks like >> >>>>>>> somehow you have old files hanging around which are causing >> >>>>>>> problems. Hopefully make distclean will clean everything and let >> >>>>>>> you start fresh. >> >>>>>>> >> >>>>>>> On Monday, February 8, 2021 at 2:25:16 PM UTC-5 Trevor Karn wrote: >> >>>>>>>> >> >>>>>>>> I must have typed it wrong. The second option you gave failed on >> >>>>>>>> numpy, but I tried the first option again, and it is compiling. >> >>>>>>>> >> >>>>>>>> Best Regards, >> >>>>>>>> >> >>>>>>>> Trevor Karn >> >>>>>>>> >> >>>>>>>> >> >>>>>>>> On Mon, Feb 8, 2021 at 11:31 AM Zachary Scherr <[email protected]> >> >>>>>>>> wrote: >> >>>>>>>>> >> >>>>>>>>> Are you sure you typed it correctly? Maybe try running >> >>>>>>>>> >> >>>>>>>>> ./bootstrap >> >>>>>>>>> >> >>>>>>>>> to make sure that the make targets are in order. >> >>>>>>>>> >> >>>>>>>>> On Monday, February 8, 2021 at 12:27:01 PM UTC-5 Trevor Karn wrote: >> >>>>>>>>>> >> >>>>>>>>>> I tried make distclean and got an error “make: *** No rule to >> >>>>>>>>>> make target ‘distclean’. Stop.” >> >>>>>>>>>> >> >>>>>>>>>> So I tried your second suggestion and it seems to be working so >> >>>>>>>>>> far, but it is still compiling. >> >>>>>>>>>> >> >>>>>>>>>> On Mon, Feb 8, 2021 at 10:29 AM Zachary Scherr <[email protected]> >> >>>>>>>>>> wrote: >> >>>>>>>>>>> >> >>>>>>>>>>> Probably the thing to try would be: >> >>>>>>>>>>> >> >>>>>>>>>>> make distclean >> >>>>>>>>>>> >> >>>>>>>>>>> and then you can build from scratch via: >> >>>>>>>>>>> >> >>>>>>>>>>> ./bootstrap >> >>>>>>>>>>> source .homebrew-build-env >> >>>>>>>>>>> ./configure >> >>>>>>>>>>> make -j4 build >> >>>>>>>>>>> >> >>>>>>>>>>> But if you want to try cleaning wheel first before starting from >> >>>>>>>>>>> scratch, you could just try >> >>>>>>>>>>> >> >>>>>>>>>>> make wheel-clean >> >>>>>>>>>>> make -j4 build >> >>>>>>>>>>> >> >>>>>>>>>>> but it might be better to clean everything and start from >> >>>>>>>>>>> scratch. >> >>>>>>>>>>> >> >>>>>>>>>>> On Monday, February 8, 2021 at 10:59:05 AM UTC-5 Trevor Karn >> >>>>>>>>>>> wrote: >> >>>>>>>>>>>> >> >>>>>>>>>>>> I do not see pep425tags.py in that directory. >> >>>>>>>>>>>> >> >>>>>>>>>>>> trevorkarn@Trevors-MacBook-Air sage % cd >> >>>>>>>>>>>> /Users/trevorkarn/Applications/sage/local/lib/python3.9/site-packages/wheel/ >> >>>>>>>>>>>> >> >>>>>>>>>>>> trevorkarn@Trevors-MacBook-Air wheel % ls >> >>>>>>>>>>>> >> >>>>>>>>>>>> __init__.py __pycache__ cli metadata.py util.py wheelfile.py >> >>>>>>>>>>>> >> >>>>>>>>>>>> __main__.py bdist_wheel.py macosx_libfile.py pkginfo.py vendored >> >>>>>>>>>>>> >> >>>>>>>>>>>> >> >>>>>>>>>>>> Is there a way to clean the build environment? >> >>>>>>>>>>>> >> >>>>>>>>>>>> Best Regards, >> >>>>>>>>>>>> >> >>>>>>>>>>>> Trevor Karn >> >>>>>>>>>>>> >> >>>>>>>>>>>> >> >>>>>>>>>>>> On Mon, Feb 8, 2021 at 9:54 AM Dima Pasechnik >> >>>>>>>>>>>> <[email protected]> wrote: >> >>>>>>>>>>>>> >> >>>>>>>>>>>>> the only explanation for pep425tags.py would be an unclean >> >>>>>>>>>>>>> build >> >>>>>>>>>>>>> environment - e.g. weird env vars set, or strange stuff in >> >>>>>>>>>>>>> PATH. >> >>>>>>>>>>>>> >> >>>>>>>>>>>>> On Mon, Feb 8, 2021 at 3:51 PM Zachary Scherr >> >>>>>>>>>>>>> <[email protected]> wrote: >> >>>>>>>>>>>>> > >> >>>>>>>>>>>>> > and do you see that pep425tags.py file in that directory? >> >>>>>>>>>>>>> > >> >>>>>>>>>>>>> > On Monday, February 8, 2021 at 10:21:09 AM UTC-5 Trevor Karn >> >>>>>>>>>>>>> > wrote: >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> The only contents of the file you pointed me towards are >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> __version__ = '0.36.2' >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> Best Regards, >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> Trevor Karn >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> >> >>>>>>>>>>>>> >> On Mon, Feb 8, 2021 at 9:09 AM Zachary Scherr >> >>>>>>>>>>>>> >> <[email protected]> wrote: >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> I really don't understand. The Cython log file shows that >> >>>>>>>>>>>>> >>> the problem is in >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> /Users/trevorkarn/Applications/sage/local/lib/python3.9/site-packages/wheel/pep425tags.py >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> I could be mistaken, but I don't think pep425tags.py has >> >>>>>>>>>>>>> >>> been a part of the wheel package for a while now. >> >>>>>>>>>>>>> >>> Certainly when I looked at wheel on my sage there was no >> >>>>>>>>>>>>> >>> such file. >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> Can you go to your >> >>>>>>>>>>>>> >>> "/Users/trevorkarn/Applications/sage/local/lib/python3.9/site-packages/wheel/" >> >>>>>>>>>>>>> >>> directory and take a look at __init__.py. Does the >> >>>>>>>>>>>>> >>> version say 0.36.2? >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> On Monday, February 8, 2021 at 9:32:20 AM UTC-5 Trevor >> >>>>>>>>>>>>> >>> Karn wrote: >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Here is what I get. It seems like it is the same as yours? >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> trevorkarn@Trevors-MacBook-Air sage % brew info python3 >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> [email protected]: stable 3.9.1 >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Interpreted, interactive, object-oriented programming >> >>>>>>>>>>>>> >>>> language >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> https://www.python.org/ >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> /usr/local/Cellar/[email protected]/3.9.1_8 (8,665 files, >> >>>>>>>>>>>>> >>>> 129.4MB) * >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Built from source on 2021-02-05 at 16:39:31 >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> From: >> >>>>>>>>>>>>> >>>> https://github.com/Homebrew/homebrew-core/blob/HEAD/Formula/[email protected] >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> License: Python-2.0 >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> ==> Dependencies >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Build: pkg-config ✔ >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Required: gdbm ✔, [email protected] ✔, readline ✔, sqlite ✔, >> >>>>>>>>>>>>> >>>> tcl-tk ✔, xz ✔ >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> ==> Caveats >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Python has been installed as >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> /usr/local/bin/python3 >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Unversioned symlinks `python`, `python-config`, `pip` >> >>>>>>>>>>>>> >>>> etc. pointing to >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> `python3`, `python3-config`, `pip3` etc., respectively, >> >>>>>>>>>>>>> >>>> have been installed into >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> /usr/local/opt/[email protected]/libexec/bin >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> You can install Python packages with >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> pip3 install <package> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> They will install into the site-package directory >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> /usr/local/lib/python3.9/site-packages >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> See: https://docs.brew.sh/Homebrew-and-Python >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> ==> Analytics >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> install: 755,419 (30 days), 2,396,024 (90 days), >> >>>>>>>>>>>>> >>>> 2,995,387 (365 days) >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> install-on-request: 244,063 (30 days), 714,665 (90 days), >> >>>>>>>>>>>>> >>>> 799,812 (365 days) >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> build-error: 0 (30 days) >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Best Regards, >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> Trevor Karn >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> >> >>>>>>>>>>>>> >>>> On Mon, Feb 8, 2021 at 8:17 AM Dima Pasechnik >> >>>>>>>>>>>>> >>>> <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> Could it be that you need to update your Homebrew (?) >> >>>>>>>>>>>>> >>>>> python3 package? >> >>>>>>>>>>>>> >>>>> What version do you have now? >> >>>>>>>>>>>>> >>>>> E.g. on a box where the latest Sage builds I have >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> % brew info python3 >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> [email protected]: stable 3.9.1 (bottled) >> >>>>>>>>>>>>> >>>>> Interpreted, interactive, object-oriented programming >> >>>>>>>>>>>>> >>>>> language >> >>>>>>>>>>>>> >>>>> https://www.python.org/ >> >>>>>>>>>>>>> >>>>> /usr/local/Cellar/[email protected]/3.9.1_8 (4,057 files, >> >>>>>>>>>>>>> >>>>> 67.8MB) * >> >>>>>>>>>>>>> >>>>> Poured from bottle on 2021-02-06 at 10:13:24 >> >>>>>>>>>>>>> >>>>> From: >> >>>>>>>>>>>>> >>>>> https://github.com/Homebrew/homebrew-core/blob/HEAD/Formula/[email protected] >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> On Mon, Feb 8, 2021 at 1:53 PM Trevor Karn >> >>>>>>>>>>>>> >>>>> <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > Ah I see, thanks for explaining. >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > Here is my top-level config.log. >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > Best Regards, >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > Trevor Karn >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > >> >>>>>>>>>>>>> >>>>> > On Mon, Feb 8, 2021 at 7:09 AM Dima Pasechnik >> >>>>>>>>>>>>> >>>>> > <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> On Mon, 8 Feb 2021, 13:02 Trevor Karn, >> >>>>>>>>>>>>> >>>>> >> <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> Thanks for sending that link. I am confused though, >> >>>>>>>>>>>>> >>>>> >>> because it says a fix was issued. Does that mean it >> >>>>>>>>>>>>> >>>>> >>> should work now? >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> sorry, I was not clear. What I meant to say that it >> >>>>>>>>>>>>> >>>>> >> appears to be a well-known issue in the Python@macOS >> >>>>>>>>>>>>> >>>>> >> universe, >> >>>>>>>>>>>>> >>>>> >> and lately all seems to be OK with Sage. >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> To figure out exactly goes wrong in your case, we >> >>>>>>>>>>>>> >>>>> >> need to know where Python3 used in Sage is coming >> >>>>>>>>>>>>> >>>>> >> from. >> >>>>>>>>>>>>> >>>>> >> Please post the top-level config.log >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> And yes, I am on the most recent develop branch >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> On Mon, Feb 8, 2021 at 5:42 AM Dima Pasechnik >> >>>>>>>>>>>>> >>>>> >>> <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> >>>> >> >>>>>>>>>>>>> >>>>> >>>> This seems to be well-known issue, see e.g >> >>>>>>>>>>>>> >>>>> >>>> https://github.com/pypa/virtualenv/issues/2027 >> >>>>>>>>>>>>> >>>>> >>>> >> >>>>>>>>>>>>> >>>>> >>>> Are you on the most recent develop branch >> >>>>>>>>>>>>> >>>>> >>>> (9.3.beta7)? >> >>>>>>>>>>>>> >>>>> >>>> >> >>>>>>>>>>>>> >>>>> >>>> On Mon, Feb 8, 2021 at 9:20 AM Trevor Karn >> >>>>>>>>>>>>> >>>>> >>>> <[email protected]> wrote: >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > Hi, >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > I'm trying to build Sage from the source code. I >> >>>>>>>>>>>>> >>>>> >>>> > cloned it from git, and tried to build from the >> >>>>>>>>>>>>> >>>>> >>>> > develop branch using make from the sage >> >>>>>>>>>>>>> >>>>> >>>> > directory. I ran into trouble building cython. >> >>>>>>>>>>>>> >>>>> >>>> > The error message suggested that I email this >> >>>>>>>>>>>>> >>>>> >>>> > group. Does anyone have any advice on how to >> >>>>>>>>>>>>> >>>>> >>>> > proceed? >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > I am using macOS Big Sur 11.2 on a MacBook Air. >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > The log file is attached, this is from a second >> >>>>>>>>>>>>> >>>>> >>>> > run - it failed once, and I tried running make a >> >>>>>>>>>>>>> >>>>> >>>> > second time without any changes and this is the >> >>>>>>>>>>>>> >>>>> >>>> > log from the second run, which returns the same >> >>>>>>>>>>>>> >>>>> >>>> > error just without all of the info before it (eg. >> >>>>>>>>>>>>> >>>>> >>>> > the flint installation). >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > Thanks so much. >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > Best, >> >>>>>>>>>>>>> >>>>> >>>> > Trevor >> >>>>>>>>>>>>> >>>>> >>>> > >> >>>>>>>>>>>>> >>>>> >>>> > -- >> >>>>>>>>>>>>> >>>>> >>>> > 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 >> >>>>>>>>>>>>> >>>>> >>>> > [email protected]. >> >>>>>>>>>>>>> >>>>> >>>> > To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> >>>> > https://groups.google.com/d/msgid/sage-devel/1c93ec2e-86bd-45f0-bba0-cc254a392305n%40googlegroups.com. >> >>>>>>>>>>>>> >>>>> >>>> >> >>>>>>>>>>>>> >>>>> >>>> -- >> >>>>>>>>>>>>> >>>>> >>>> You received this message because you are >> >>>>>>>>>>>>> >>>>> >>>> subscribed to a topic in the Google Groups >> >>>>>>>>>>>>> >>>>> >>>> "sage-devel" group. >> >>>>>>>>>>>>> >>>>> >>>> To unsubscribe from this topic, visit >> >>>>>>>>>>>>> >>>>> >>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>>>> >>>>> >>>> To unsubscribe from this group and all its topics, >> >>>>>>>>>>>>> >>>>> >>>> send an email to [email protected]. >> >>>>>>>>>>>>> >>>>> >>>> To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> >>>> https://groups.google.com/d/msgid/sage-devel/CAAWYfq3CFFAYzUtNnSrt_RPKW7X_p8j_VXGtZbKLWG%2BST%3DCO%2BQ%40mail.gmail.com. >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> -- >> >>>>>>>>>>>>> >>>>> >>> Best, >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> Trevor >> >>>>>>>>>>>>> >>>>> >>> >> >>>>>>>>>>>>> >>>>> >>> -- >> >>>>>>>>>>>>> >>>>> >>> 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 >> >>>>>>>>>>>>> >>>>> >>> [email protected]. >> >>>>>>>>>>>>> >>>>> >>> To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> >>> https://groups.google.com/d/msgid/sage-devel/CAJ6VCMAVGG57CHovd7zoXa0C3Nxsr3WfXi0FWwapKrDfup7_sA%40mail.gmail.com. >> >>>>>>>>>>>>> >>>>> >> >> >>>>>>>>>>>>> >>>>> >> -- >> >>>>>>>>>>>>> >>>>> >> You received this message because you are subscribed >> >>>>>>>>>>>>> >>>>> >> to a topic in the Google Groups "sage-devel" group. >> >>>>>>>>>>>>> >>>>> >> To unsubscribe from this topic, visit >> >>>>>>>>>>>>> >>>>> >> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>>>> >>>>> >> To unsubscribe from this group and all its topics, >> >>>>>>>>>>>>> >>>>> >> send an email to [email protected]. >> >>>>>>>>>>>>> >>>>> >> To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> >> https://groups.google.com/d/msgid/sage-devel/CAAWYfq026cNP9FTmBySPskZZoc%2BH4ykTQO7je6TW4YTkirg_qw%40mail.gmail.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 >> >>>>>>>>>>>>> >>>>> > [email protected]. >> >>>>>>>>>>>>> >>>>> > To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> > https://groups.google.com/d/msgid/sage-devel/CAJ6VCMDJEN7KzDmvB0x0GDrXiQrK3F_e_eBZvSJf-JxVre0n-Q%40mail.gmail.com. >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> -- >> >>>>>>>>>>>>> >>>>> You received this message because you are subscribed to >> >>>>>>>>>>>>> >>>>> a topic in the Google Groups "sage-devel" group. >> >>>>>>>>>>>>> >>>>> To unsubscribe from this topic, visit >> >>>>>>>>>>>>> >>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>>>> >>>>> To unsubscribe from this group and all its topics, send >> >>>>>>>>>>>>> >>>>> an email to [email protected]. >> >>>>>>>>>>>>> >>>>> >> >>>>>>>>>>>>> >>>>> To view this discussion on the web visit >> >>>>>>>>>>>>> >>>>> https://groups.google.com/d/msgid/sage-devel/CAAWYfq3meWN5AWip9BG5GzJ%3DFfLvoHKFrpS6Ezmq4X2GWH8mQw%40mail.gmail.com. >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> -- >> >>>>>>>>>>>>> >>> You received this message because you are subscribed to a >> >>>>>>>>>>>>> >>> topic in the Google Groups "sage-devel" group. >> >>>>>>>>>>>>> >>> To unsubscribe from this topic, visit >> >>>>>>>>>>>>> >>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>>>> >>> To unsubscribe from this group and all its topics, send an >> >>>>>>>>>>>>> >>> email to [email protected]. >> >>>>>>>>>>>>> >>> >> >>>>>>>>>>>>> >>> To view this discussion on the web visit >> >>>>>>>>>>>>> >>> https://groups.google.com/d/msgid/sage-devel/c02796d9-9057-41e2-829f-eeb933132d42n%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 [email protected]. >> >>>>>>>>>>>>> >> >>>>>>>>>>>>> > To view this discussion on the web visit >> >>>>>>>>>>>>> > https://groups.google.com/d/msgid/sage-devel/bd636baa-f6b1-42f7-866b-77ba0af40b6en%40googlegroups.com. >> >>>>>>>>>>>>> >> >>>>>>>>>>>>> -- >> >>>>>>>>>>>>> You received this message because you are subscribed to a >> >>>>>>>>>>>>> topic in the Google Groups "sage-devel" group. >> >>>>>>>>>>>>> To unsubscribe from this topic, visit >> >>>>>>>>>>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>>>> To unsubscribe from this group and all its topics, send an >> >>>>>>>>>>>>> email to [email protected]. >> >>>>>>>>>>>>> >> >>>>>>>>>>>>> To view this discussion on the web visit >> >>>>>>>>>>>>> https://groups.google.com/d/msgid/sage-devel/CAAWYfq08zf6vp0LfT%2BGfAy25ML95cxTyxAQho9gB_UdGjqpHFA%40mail.gmail.com. >> >>>>>>>>>>> >> >>>>>>>>>>> -- >> >>>>>>>>>>> You received this message because you are subscribed to a topic >> >>>>>>>>>>> in the Google Groups "sage-devel" group. >> >>>>>>>>>>> To unsubscribe from this topic, visit >> >>>>>>>>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>>>> To unsubscribe from this group and all its topics, send an email >> >>>>>>>>>>> to [email protected]. >> >>>>>>>>>>> >> >>>>>>>>>>> To view this discussion on the web visit >> >>>>>>>>>>> https://groups.google.com/d/msgid/sage-devel/c6d5aec3-7f1c-4dc7-a94b-d1e2ab5fdf53n%40googlegroups.com. >> >>>>>>>>>> >> >>>>>>>>>> -- >> >>>>>>>>>> Best, >> >>>>>>>>>> >> >>>>>>>>>> Trevor >> >>>>>>>>> >> >>>>>>>>> -- >> >>>>>>>>> You received this message because you are subscribed to a topic in >> >>>>>>>>> the Google Groups "sage-devel" group. >> >>>>>>>>> To unsubscribe from this topic, visit >> >>>>>>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>>>> To unsubscribe from this group and all its topics, send an email >> >>>>>>>>> to [email protected]. >> >>>>>>>>> >> >>>>>>>>> To view this discussion on the web visit >> >>>>>>>>> https://groups.google.com/d/msgid/sage-devel/47b9954f-e37a-4a81-a7f4-7747b8139e5an%40googlegroups.com. >> >>>>>>> >> >>>>>>> -- >> >>>>>>> You received this message because you are subscribed to a topic in >> >>>>>>> the Google Groups "sage-devel" group. >> >>>>>>> To unsubscribe from this topic, visit >> >>>>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>>>> To unsubscribe from this group and all its topics, send an email to >> >>>>>>> [email protected]. >> >>>>>>> >> >>>>>>> To view this discussion on the web visit >> >>>>>>> https://groups.google.com/d/msgid/sage-devel/415b45c0-6ee0-41bf-ab36-0a82153fd66fn%40googlegroups.com. >> >>>>> >> >>>>> -- >> >>>>> You received this message because you are subscribed to a topic in the >> >>>>> Google Groups "sage-devel" group. >> >>>>> To unsubscribe from this topic, visit >> >>>>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>>>> To unsubscribe from this group and all its topics, send an email to >> >>>>> [email protected]. >> >>>>> >> >>>>> To view this discussion on the web visit >> >>>>> https://groups.google.com/d/msgid/sage-devel/aafdb9d9-fdc8-4761-864d-051ee78536b3n%40googlegroups.com. >> >>> >> >>> -- >> >>> You received this message because you are subscribed to a topic in the >> >>> Google Groups "sage-devel" group. >> >>> To unsubscribe from this topic, visit >> >>> https://groups.google.com/d/topic/sage-devel/TmbLnmwz2mg/unsubscribe. >> >>> To unsubscribe from this group and all its topics, send an email to >> >>> [email protected]. >> >>> >> >>> To view this discussion on the web visit >> >>> https://groups.google.com/d/msgid/sage-devel/34970320-117f-406c-9e28-9c8fbb7a87d6n%40googlegroups.com. >> > >> > -- >> > You received this message because you are subscribed to the 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