Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Mon, Mar 8, 2021 at 12:48 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I installed Miniconda3 and then issued > > conda config --add channels conda-forge > conda create -n sage sage python=3.8.5 > conda activate sage > > and now " sage --version" tells me > > SageMath version 9.2, Release Date: 2020-10-24 > hackekc6@dlp762 R --version > R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" > Copyright (C) 2020 The R Foundation for Statistical Computing > Platform: x86_64-conda-linux-gnu (64-bit) > > R is free software and comes with ABSOLUTELY NO WARRANTY. > You are welcome to redistribute it under the terms of the > GNU General Public License versions 2 or 3. > For more information about these matters see > https://www.gnu.org/licenses/. > > I have asked the user originally requesting a new version of sage to test. > > But I don't understand why the precompiled binary seems to work > and I am not able to compile the source myself. They have a good toolchain, specifically targeting the widest possible variety of Linux installations on x86/x86_64. You can build sage using their toochain (as you basically already have 99% of the needed conda packages installed) see https://wiki.sagemath.org/Conda And as the numpy issue shows, there are quirks with CPU support on your box. Hope this explains. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Samstag, 6. März 2021 23:58 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Sat, Mar 6, 2021 at 8:17 PM Nathan Dunfield wrote: > > > > Is there some reason you need to build from source? Last fall, I struggled > > without success to get Sage 9.1 to build on RHEL 6 (technically Scientific > > Linux 6, which is clone of RHEL), but the conda version worked fine for me > > on that platform: > > > > https://doc.sagemath.org/html/en/installation/conda.html > > indeed, this it worth trying, although with these highly non-standard HPC > cluster machines one never knowns... > > > > > Best, Nathan > > > > -- > > You received this message because you are subscribed to the Google Groups > > "sage-support" group. > > To unsubscribe from this group and stop receiving emails from it, send an > > email to sage-support+unsubscr...@googlegroups.com. > > To view this discussion on the web visit > > https://groups.google.com/d/msgid/sage-support/4225e2cf-d872-409d-b25c-4d4b11515e9an%40googlegroups.com. > > -- > You received this message because you are subscribed to a topic in the Google > Groups "sage-support" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/sage-support/GniJKQ0MaMY/unsubscribe. > To unsubscribe from this group and all its topics, send an email to > sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/CAAWYfq1JGyGuws3k4egj%2BwGXk5ezjF6tx-%2BMyvuW0iLksmLPbg%40mail.gmail.com. > > -- > You received this message because you are subscribed to the Google Groups > "sage-support" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/786bb402a40045b68ee3bc565828cfdb%40ruhr-uni-bochum.de. -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/CAAWYfq12UqJ5KvXFv0AuSyVtfdjSEGa6sw-1Phe7cGvACvvdiQ%40mail.gmail.com.
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
You're now hacking numpy on a 7-year old CPU (that's your Intel(R) Xeon(R) CPU E7-4830 v2 @ 2.20GHz)... Probably its AVX support in gcc is a bit broken. Try CC="gcc -march=core2" make -j8 numpy (this should create a numpy build without AVX support) On Mon, Mar 8, 2021 at 11:49 AM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > > > I upgraded gcc to 10.2.0 but that did not help. > > > > Regards Klaus > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Sonntag, 7. März 2021 21:37 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > On Sun, 7 Mar 2021, 20:33 Matthias Koeppe, wrote: > > From numpy.log: > > > > gcc: numpy/core/src/multiarray/flagsobject.c > > gcc: numpy/core/src/multiarray/nditer_api.c > > In file included from > /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/immintrin.h:51, > > from numpy/core/src/umath/simd.inc.src:25, > > from numpy/core/src/umath/loops.c.src:50: > > /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/avxintrin.h:1194:1: > error: inlining failed in call to always_inline '_mm256_movemask_ps': target > specific option mismatch > > > > Try upgrading your compiler. > > > > I presume it is one of these very expensive and very non-standard HPC > clusters, with some special soft that just can't be upgraded. > > > > Thank goodness it is not a Cray :-) > > > > > > > > > > On Saturday, March 6, 2021 at 10:35:39 AM UTC-8 > klaus.ha...@ruhr-uni-bochum.de wrote: > > High, > > I did a fresh start over: > > cd sage-9.2 > make distclean > ./configure --with-mp=gmp > make mpir-clean > make bzip2 xz pcre -j3 > make -j8 > > But compilation still fails for numpy-1.19.1. > I include config.log and error log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > -Ursprüngliche Nachricht- > Von: sage-s...@googlegroups.com Im Auftrag von > Dima Pasechnik > Gesendet: Samstag, 6. März 2021 16:13 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik wrote: > > > > why did you run ./configure with the option "--with-blas=openblas" ? > > > > Please try re-running ./configure without it. > > > > Then hopefully numpy etc will be built. > > Sorry, that was wrong. > > It's probably your new Python interfering. > Start from scratch > > make distclean > ./configure --with-mp=gmp > > I suppose it will pick up your newly installed Python3 and use it, you can > check config.log for this, or just the output of ./configure > > > > > > > > > > On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, > > wrote: > >> > >> High, > >> > >> running "make toolchain shows only > >> > >> [lsf@dlp762 sage-9.2]$ make toolchain make build/make/Makefile --stop > >> make[1]: Entering directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2' > >> make[1]: `build/make/Makefile' is up to date. > >> make[1]: Leaving directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2' > >> build/bin/sage-logger \ > >> "cd build/make && ./install 'toolchain'" > >> logs/install.log > >> make[1]: Entering directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> make[1]: Leaving directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> Nothing to (re)build / all up-to-date. > >> [lsf@dlp762 sage-9.2]$ > >> > >> I include the config log. > >> > >> Regards, Klaus Hackenberg > >> > >> -- > >> Klaus Hackenberg > >> IT-Systeme und Software-Integration > >> IT.SERVICES > >> Ruhr-Universität Bochum | 44780 Bochum > >> fon: +49 234 32 23485 > >> http://www.it-services.rub.de/ > >> > >> -Ursprüngliche Nachricht- > >&g
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Sun, 7 Mar 2021, 20:33 Matthias Koeppe, wrote: > From numpy.log: > > gcc: numpy/core/src/multiarray/flagsobject.c > gcc: numpy/core/src/multiarray/nditer_api.c > In file included from > /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/immintrin.h:51, > from numpy/core/src/umath/simd.inc.src:25, > from numpy/core/src/umath/loops.c.src:50: > /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/avxintrin.h:1194:1: > error: inlining failed in call to always_inline '_mm256_movemask_ps': > target specific option mismatch > > Try upgrading your compiler. > I presume it is one of these very expensive and very non-standard HPC clusters, with some special soft that just can't be upgraded. Thank goodness it is not a Cray :-) > > > > > On Saturday, March 6, 2021 at 10:35:39 AM UTC-8 > klaus.ha...@ruhr-uni-bochum.de wrote: > >> High, >> >> I did a fresh start over: >> >> cd sage-9.2 >> make distclean >> ./configure --with-mp=gmp >> make mpir-clean >> make bzip2 xz pcre -j3 >> make -j8 >> >> But compilation still fails for numpy-1.19.1. >> I include config.log and error log. >> >> Regards, Klaus Hackenberg >> >> -- >> Klaus Hackenberg >> IT-Systeme und Software-Integration >> IT.SERVICES >> Ruhr-Universität Bochum | 44780 Bochum >> fon: +49 234 32 23485 <+49%20234%203223485> >> http://www.it-services.rub.de/ >> >> -----Ursprüngliche Nachricht- >> Von: sage-s...@googlegroups.com Im Auftrag >> von Dima Pasechnik >> Gesendet: Samstag, 6. März 2021 16:13 >> An: sage-support >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> >> On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik wrote: >> > >> > why did you run ./configure with the option "--with-blas=openblas" ? >> > >> > Please try re-running ./configure without it. >> > >> > Then hopefully numpy etc will be built. >> >> Sorry, that was wrong. >> >> It's probably your new Python interfering. >> Start from scratch >> >> make distclean >> ./configure --with-mp=gmp >> >> I suppose it will pick up your newly installed Python3 and use it, you >> can check config.log for this, or just the output of ./configure >> >> >> > >> > >> > >> > On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, < >> sage-s...@googlegroups.com> wrote: >> >> >> >> High, >> >> >> >> running "make toolchain shows only >> >> >> >> [lsf@dlp762 sage-9.2]$ make toolchain make build/make/Makefile --stop >> >> make[1]: Entering directory >> `/net/dlp762/share/application-software/Sage/sage-9.2' >> >> make[1]: `build/make/Makefile' is up to date. >> >> make[1]: Leaving directory >> `/net/dlp762/share/application-software/Sage/sage-9.2' >> >> build/bin/sage-logger \ >> >> "cd build/make && ./install 'toolchain'" >> >> logs/install.log >> >> make[1]: Entering directory >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' >> >> make[1]: Leaving directory >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' >> >> Nothing to (re)build / all up-to-date. >> >> [lsf@dlp762 sage-9.2]$ >> >> >> >> I include the config log. >> >> >> >> Regards, Klaus Hackenberg >> >> >> >> -- >> >> Klaus Hackenberg >> >> IT-Systeme und Software-Integration >> >> IT.SERVICES >> >> Ruhr-Universität Bochum | 44780 Bochum >> >> fon: +49 234 32 23485 <+49%20234%203223485> >> >> http://www.it-services.rub.de/ >> >> >> >> -Ursprüngliche Nachricht- >> >> Von: sage-s...@googlegroups.com Im >> >> Auftrag von Dima Pasechnik >> >> Gesendet: Samstag, 6. März 2021 01:08 >> >> An: sage-support ; Matthias Koeppe >> >> >> >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> >> >> >> "Error building wheel for numpy" >> >> >> >> please post >> >> /net/dlp762/share/application-software/Sage/sage-9.2/config.log >> >> >> >> could you also please try running >> >> >> >> make toolchain >> >> >> >> and
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
>From numpy.log: gcc: numpy/core/src/multiarray/flagsobject.c gcc: numpy/core/src/multiarray/nditer_api.c In file included from /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/immintrin.h:51, from numpy/core/src/umath/simd.inc.src:25, from numpy/core/src/umath/loops.c.src:50: /net/dlp762/share/application-software/Gcc/lib/gcc/x86_64-pc-linux-gnu/9.2.0/include/avxintrin.h:1194:1: error: inlining failed in call to always_inline '_mm256_movemask_ps': target specific option mismatch Try upgrading your compiler. On Saturday, March 6, 2021 at 10:35:39 AM UTC-8 klaus.ha...@ruhr-uni-bochum.de wrote: > High, > > I did a fresh start over: > > cd sage-9.2 > make distclean > ./configure --with-mp=gmp > make mpir-clean > make bzip2 xz pcre -j3 > make -j8 > > But compilation still fails for numpy-1.19.1. > I include config.log and error log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 <+49%20234%203223485> > http://www.it-services.rub.de/ > > -Ursprüngliche Nachricht- > Von: sage-s...@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Samstag, 6. März 2021 16:13 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik wrote: > > > > why did you run ./configure with the option "--with-blas=openblas" ? > > > > Please try re-running ./configure without it. > > > > Then hopefully numpy etc will be built. > > Sorry, that was wrong. > > It's probably your new Python interfering. > Start from scratch > > make distclean > ./configure --with-mp=gmp > > I suppose it will pick up your newly installed Python3 and use it, you can > check config.log for this, or just the output of ./configure > > > > > > > > > > On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, < > sage-s...@googlegroups.com> wrote: > >> > >> High, > >> > >> running "make toolchain shows only > >> > >> [lsf@dlp762 sage-9.2]$ make toolchain make build/make/Makefile --stop > >> make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > >> make[1]: `build/make/Makefile' is up to date. > >> make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > >> build/bin/sage-logger \ > >> "cd build/make && ./install 'toolchain'" > >> logs/install.log > >> make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> Nothing to (re)build / all up-to-date. > >> [lsf@dlp762 sage-9.2]$ > >> > >> I include the config log. > >> > >> Regards, Klaus Hackenberg > >> > >> -- > >> Klaus Hackenberg > >> IT-Systeme und Software-Integration > >> IT.SERVICES > >> Ruhr-Universität Bochum | 44780 Bochum > >> fon: +49 234 32 23485 <+49%20234%203223485> > >> http://www.it-services.rub.de/ > >> > >> -Ursprüngliche Nachricht- > >> Von: sage-s...@googlegroups.com Im > >> Auftrag von Dima Pasechnik > >> Gesendet: Samstag, 6. März 2021 01:08 > >> An: sage-support ; Matthias Koeppe > >> > >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > >> > >> "Error building wheel for numpy" > >> > >> please post > >> /net/dlp762/share/application-software/Sage/sage-9.2/config.log > >> > >> could you also please try running > >> > >> make toolchain > >> > >> and then run make. > >> > >> > >> > >> Matthias, > >> is it another instance of not having .pc files ready for blas/lapack > etc? > >> > >> Running from numpy source directory. > >> > /net/dlp762/share/application-software/Sage/sage-9.2/local/var/tmp/sage/build/numpy-1.19.1/src/numpy/distutils/system_info.py:1914: > >> UserWarning: > >> Optimized (vendor) Blas libraries are not found. > >> Falls back to netlib Blas library which has worse performance. > >> A better performance should be easily gained by switching > >> Blas library. > >> if self._calc_info(blas): > >> > /net/dlp762/sha
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Sat, Mar 6, 2021 at 8:17 PM Nathan Dunfield wrote: > > Is there some reason you need to build from source? Last fall, I struggled > without success to get Sage 9.1 to build on RHEL 6 (technically Scientific > Linux 6, which is clone of RHEL), but the conda version worked fine for me on > that platform: > > https://doc.sagemath.org/html/en/installation/conda.html indeed, this it worth trying, although with these highly non-standard HPC cluster machines one never knowns... > > Best, Nathan > > -- > You received this message because you are subscribed to the Google Groups > "sage-support" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/4225e2cf-d872-409d-b25c-4d4b11515e9an%40googlegroups.com. -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/CAAWYfq1JGyGuws3k4egj%2BwGXk5ezjF6tx-%2BMyvuW0iLksmLPbg%40mail.gmail.com.
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
OK, I should have seen this already in the 1st numpy problem report. Basically, compiling C-code in build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.c fails. Try SAGE_FAT_BINARY=yes make -j8 numpy Anyhow, can we get the output of lscpu or cat /proc/cpuinfo One has to tell numpy to On Sat, Mar 6, 2021 at 6:35 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I did a fresh start over: > > cd sage-9.2 > make distclean > ./configure --with-mp=gmp > make mpir-clean > make bzip2 xz pcre -j3 > make -j8 > > But compilation still fails for numpy-1.19.1. > I include config.log and error log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Samstag, 6. März 2021 16:13 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik wrote: > > > > why did you run ./configure with the option "--with-blas=openblas" ? > > > > Please try re-running ./configure without it. > > > > Then hopefully numpy etc will be built. > > Sorry, that was wrong. > > It's probably your new Python interfering. > Start from scratch > > make distclean > ./configure --with-mp=gmp > > I suppose it will pick up your newly installed Python3 and use it, you can > check config.log for this, or just the output of ./configure > > > > > > > > > > On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, > > wrote: > >> > >> High, > >> > >> running "make toolchain shows only > >> > >> [lsf@dlp762 sage-9.2]$ make toolchain make build/make/Makefile --stop > >> make[1]: Entering directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2' > >> make[1]: `build/make/Makefile' is up to date. > >> make[1]: Leaving directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2' > >> build/bin/sage-logger \ > >> "cd build/make && ./install 'toolchain'" > >> logs/install.log > >> make[1]: Entering directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> make[1]: Leaving directory > >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > >> Nothing to (re)build / all up-to-date. > >> [lsf@dlp762 sage-9.2]$ > >> > >> I include the config log. > >> > >> Regards, Klaus Hackenberg > >> > >> -- > >> Klaus Hackenberg > >> IT-Systeme und Software-Integration > >> IT.SERVICES > >> Ruhr-Universität Bochum | 44780 Bochum > >> fon: +49 234 32 23485 > >> http://www.it-services.rub.de/ > >> > >> -Ursprüngliche Nachricht- > >> Von: sage-support@googlegroups.com Im > >> Auftrag von Dima Pasechnik > >> Gesendet: Samstag, 6. März 2021 01:08 > >> An: sage-support ; Matthias Koeppe > >> > >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > >> > >> "Error building wheel for numpy" > >> > >> please post > >> /net/dlp762/share/application-software/Sage/sage-9.2/config.log > >> > >> could you also please try running > >> > >> make toolchain > >> > >> and then run make. > >> > >> > >> > >> Matthias, > >> is it another instance of not having .pc files ready for blas/lapack etc? > >> > >> Running from numpy source directory. > >> /net/dlp762/share/application-software/Sage/sage-9.2/local/var/tmp/sage/build/numpy-1.19.1/src/numpy/distutils/system_info.py:1914: > >> UserWarning: > >> Optimized (vendor) Blas libraries are not found. > >> Falls back to netlib Blas library which has worse performance. > >> A better performance should be easily gained by switching > >> Blas library. > >> if self._calc_info(blas): > >> /net/dlp762/share/application-software/Sage/sage-9.2/local/lib/python3.8/distutils/dist.py:274: > >> UserWarning: Unknown distribution option: 'define_macros' > >> warnings.warn(msg) > >> error: Command "gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g > >> -fwrapv -O3 -Wall -Wno-unused -fPIC -D
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
Is there some reason you need to build from source? Last fall, I struggled without success to get Sage 9.1 to build on RHEL 6 (technically Scientific Linux 6, which is clone of RHEL), but the conda version worked fine for me on that platform: https://doc.sagemath.org/html/en/installation/conda.html Best, Nathan -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/4225e2cf-d872-409d-b25c-4d4b11515e9an%40googlegroups.com.
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik wrote: > > why did you run ./configure with the option "--with-blas=openblas" ? > > Please try re-running ./configure without it. > > Then hopefully numpy etc will be built. Sorry, that was wrong. It's probably your new Python interfering. Start from scratch make distclean ./configure --with-mp=gmp I suppose it will pick up your newly installed Python3 and use it, you can check config.log for this, or just the output of ./configure > > > > On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, > wrote: >> >> High, >> >> running "make toolchain shows only >> >> [lsf@dlp762 sage-9.2]$ make toolchain >> make build/make/Makefile --stop >> make[1]: Entering directory >> `/net/dlp762/share/application-software/Sage/sage-9.2' >> make[1]: `build/make/Makefile' is up to date. >> make[1]: Leaving directory >> `/net/dlp762/share/application-software/Sage/sage-9.2' >> build/bin/sage-logger \ >> "cd build/make && ./install 'toolchain'" logs/install.log >> make[1]: Entering directory >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' >> make[1]: Leaving directory >> `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' >> Nothing to (re)build / all up-to-date. >> [lsf@dlp762 sage-9.2]$ >> >> I include the config log. >> >> Regards, Klaus Hackenberg >> >> -- >> Klaus Hackenberg >> IT-Systeme und Software-Integration >> IT.SERVICES >> Ruhr-Universität Bochum | 44780 Bochum >> fon: +49 234 32 23485 >> http://www.it-services.rub.de/ >> >> -Ursprüngliche Nachricht- >> Von: sage-support@googlegroups.com Im >> Auftrag von Dima Pasechnik >> Gesendet: Samstag, 6. März 2021 01:08 >> An: sage-support ; Matthias Koeppe >> >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> >> "Error building wheel for numpy" >> >> please post >> /net/dlp762/share/application-software/Sage/sage-9.2/config.log >> >> could you also please try running >> >> make toolchain >> >> and then run make. >> >> >> >> Matthias, >> is it another instance of not having .pc files ready for blas/lapack etc? >> >> Running from numpy source directory. >> /net/dlp762/share/application-software/Sage/sage-9.2/local/var/tmp/sage/build/numpy-1.19.1/src/numpy/distutils/system_info.py:1914: >> UserWarning: >> Optimized (vendor) Blas libraries are not found. >> Falls back to netlib Blas library which has worse performance. >> A better performance should be easily gained by switching >> Blas library. >> if self._calc_info(blas): >> /net/dlp762/share/application-software/Sage/sage-9.2/local/lib/python3.8/distutils/dist.py:274: >> UserWarning: Unknown distribution option: 'define_macros' >> warnings.warn(msg) >> error: Command "gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv >> -O3 -Wall -Wno-unused -fPIC -DNPY_INTERNAL_BUILD=1 >> -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 >> -D_LARGEFILE64_SOURCE=1 -DNO_ATLAS_INFO=1 -DHAVE_CBLAS >> -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include >> -Ibuild/src.linux-x86_64-3.8/numpy/core/src/umath >> -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath >> -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common >> -Inumpy/core/include >> -Ibuild/src.linux-x86_64-3.8/numpy/core/include/numpy >> -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core >> -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath >> -Inumpy/core/src/npysort >> -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include/python3.8 >> -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common >> -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath -c >> build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.c -o >> build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o >> -MMD -MF >> build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o.d >> -std=c99" failed with exit status 1 >> >> Error building wheel for numpy >> >> >> On Fri, Mar 5, 2021 at 5:37 PM 'Hackenberg, Klaus' via sage-support >> wrote: >> > >> > High, >> > >> &g
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
why did you run ./configure with the option "--with-blas=openblas" ? Please try re-running ./configure without it. Then hopefully numpy etc will be built. On Sat, 6 Mar 2021, 09:55 'Hackenberg, Klaus' via sage-support, < sage-support@googlegroups.com> wrote: > High, > > running "make toolchain shows only > > [lsf@dlp762 sage-9.2]$ make toolchain > make build/make/Makefile --stop > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > make[1]: `build/make/Makefile' is up to date. > make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > build/bin/sage-logger \ > "cd build/make && ./install 'toolchain'" logs/install.log > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2/build/make' > Nothing to (re)build / all up-to-date. > [lsf@dlp762 sage-9.2]$ > > I include the config log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im > Auftrag von Dima Pasechnik > Gesendet: Samstag, 6. März 2021 01:08 > An: sage-support ; Matthias Koeppe < > mkoe...@math.ucdavis.edu> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > "Error building wheel for numpy" > > please post > /net/dlp762/share/application-software/Sage/sage-9.2/config.log > > could you also please try running > > make toolchain > > and then run make. > > > > Matthias, > is it another instance of not having .pc files ready for blas/lapack etc? > > Running from numpy source directory. > > /net/dlp762/share/application-software/Sage/sage-9.2/local/var/tmp/sage/build/numpy-1.19.1/src/numpy/distutils/system_info.py:1914: > UserWarning: > Optimized (vendor) Blas libraries are not found. > Falls back to netlib Blas library which has worse performance. > A better performance should be easily gained by switching > Blas library. > if self._calc_info(blas): > > /net/dlp762/share/application-software/Sage/sage-9.2/local/lib/python3.8/distutils/dist.py:274: > UserWarning: Unknown distribution option: 'define_macros' > warnings.warn(msg) > error: Command "gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv > -O3 -Wall -Wno-unused -fPIC -DNPY_INTERNAL_BUILD=1 > -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 > -D_LARGEFILE64_SOURCE=1 -DNO_ATLAS_INFO=1 -DHAVE_CBLAS > -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include > -Ibuild/src.linux-x86_64-3.8/numpy/core/src/umath > -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath > -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common > -Inumpy/core/include > -Ibuild/src.linux-x86_64-3.8/numpy/core/include/numpy > -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core > -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath > -Inumpy/core/src/npysort > > -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include/python3.8 > -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common > -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath -c > build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.c -o > build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o > -MMD -MF > build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o.d > -std=c99" failed with exit status 1 > > > Error building wheel for numpy > > > > On Fri, Mar 5, 2021 at 5:37 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > High, > > > > > > > > I succeeded compiling r-3.6.3. > > > > > > > > But now next stop when compiling numpy-1.19.1. > > > > I include the error log. > > > > > > > > Regards, Klaus Hackenberg > > > > > > > > -- > > > > Klaus Hackenberg > > > > IT-Systeme und Software-Integration > > > > IT.SERVICES > > > > Ruhr-Universität Bochum | 44780 Bochum > > > > fon: +49 234 32 23485 > > > > http://www.it-services.rub.de/ > > > > > > > > Von: sage-support@googlegroups.com Im > >
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Friday, March 5, 2021 at 4:08:34 PM UTC-8 Dima Pasechnik wrote: > Matthias, > is it another instance of not having .pc files ready for blas/lapack etc? > I don't think so. From Klaus' configure.log above, === Checking whether SageMath should install SPKG openblas... checking BLAS library... openblas checking whether any of gfortran is installed as or will be installed as SPKG... no checking for OPENBLAS... no checking for library containing openblas_get_config... no checking for library containing cblas_dgemm... no checking for library containing dgeqrf... no checking for library containing dgeqrf_... no checking for library containing DGEQRF... no checking for library containing DGEQRF_... no configure: no suitable system package found for SPKG openblas === So Sage should have installed openblas, which always installs the correct .pc files. But who knows what may have happened in the incremental build here. > -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/7fd455a5-6715-427c-a054-67d22aaed895n%40googlegroups.com.
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
"Error building wheel for numpy" please post /net/dlp762/share/application-software/Sage/sage-9.2/config.log could you also please try running make toolchain and then run make. Matthias, is it another instance of not having .pc files ready for blas/lapack etc? Running from numpy source directory. /net/dlp762/share/application-software/Sage/sage-9.2/local/var/tmp/sage/build/numpy-1.19.1/src/numpy/distutils/system_info.py:1914: UserWarning: Optimized (vendor) Blas libraries are not found. Falls back to netlib Blas library which has worse performance. A better performance should be easily gained by switching Blas library. if self._calc_info(blas): /net/dlp762/share/application-software/Sage/sage-9.2/local/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'define_macros' warnings.warn(msg) error: Command "gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -fPIC -DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -DNO_ATLAS_INFO=1 -DHAVE_CBLAS -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include -Ibuild/src.linux-x86_64-3.8/numpy/core/src/umath -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common -Inumpy/core/include -Ibuild/src.linux-x86_64-3.8/numpy/core/include/numpy -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/net/dlp762/share/application-software/Sage/sage-9.2/local/include/python3.8 -Ibuild/src.linux-x86_64-3.8/numpy/core/src/common -Ibuild/src.linux-x86_64-3.8/numpy/core/src/npymath -c build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.c -o build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o -MMD -MF build/temp.linux-x86_64-3.8/build/src.linux-x86_64-3.8/numpy/core/src/umath/loops.o.d -std=c99" failed with exit status 1 Error building wheel for numpy On Fri, Mar 5, 2021 at 5:37 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > > > I succeeded compiling r-3.6.3. > > > > But now next stop when compiling numpy-1.19.1. > > I include the error log. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 18:00 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > make xz > > > > followed by make > > > > On Fri, 5 Mar 2021, 16:58 'Hackenberg, Klaus' via sage-support, > wrote: > > High, > > > > „make bzip2“ helps further, but r-3.6.3 still does not compile. > > RHEL6 contains > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 2019 > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:37 > 2015 > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64Fri Sep 18 09:39:26 2015 > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 2015 > > > > but 5.0.3 seems tob e necessary > > > > checking if lzma version >= 5.0.3... no > > configure: error: "liblzma library and headers are required" > > > > Is there a suitable version within sage? > > > > I include the error log. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 17:30 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > On Fri, 5 Mar 2021, 16:17 'Hackenberg, Klaus' via sage-support, > wrote: > > High, > > adding /usr/local/Gcc/lib64 to $LD_LIBRARY_PATH helps compiling > gfan-0.6.2.p1. > > Next problem is with r-3.6.3: > The bzip2 from RHEL6 seem to be to old: > > [root@dlp762 Sage]# bzip2 --version > bzip2, a block-sorting file compressor. Version 1.0.5, 10-Dec-2007. > > Is there any option to use another ver
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
make xz followed by make On Fri, 5 Mar 2021, 16:58 'Hackenberg, Klaus' via sage-support, < sage-support@googlegroups.com> wrote: > High, > > > > „make bzip2“ helps further, but r-3.6.3 still does not compile. > > RHEL6 contains > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 2019 > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:37 > 2015 > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64Fri Sep 18 09:39:26 2015 > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 2015 > > > > but 5.0.3 seems tob e necessary > > > > checking if lzma version >= 5.0.3... no > > configure: error: "liblzma library and headers are required" > > > > Is there a suitable version within sage? > > > > I include the error log. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > *Von:* sage-support@googlegroups.com *Im > Auftrag von *Dima Pasechnik > *Gesendet:* Freitag, 5. März 2021 17:30 > *An:* sage-support > *Betreff:* Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > On Fri, 5 Mar 2021, 16:17 'Hackenberg, Klaus' via sage-support, < > sage-support@googlegroups.com> wrote: > > High, > > adding /usr/local/Gcc/lib64 to $LD_LIBRARY_PATH helps compiling > gfan-0.6.2.p1. > > Next problem is with r-3.6.3: > The bzip2 from RHEL6 seem to be to old: > > [root@dlp762 Sage]# bzip2 --version > bzip2, a block-sorting file compressor. Version 1.0.5, 10-Dec-2007. > > Is there any option to use another version (built within sage)? > > > > make bzip2 > > > > > > > I include the error log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im > Auftrag von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 15:58 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > High, > > > > I find the following > > > > [lsf@dlp762 Sage]$ echo $PATH > > /usr/local/Gcc/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bi > > n:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > > [lsf@dlp762 Sage]$ > > [lsf@dlp762 Sage]$ g++ -v > > Using built-in specs. > > COLLECT_GCC=g++ > > COLLECT_LTO_WRAPPER=/net/dlp762/share/application-software/Gcc/bin/../ > > libexec/gcc/x86_64-pc-linux-gnu/9.2.0/lto-wrapper > > Target: x86_64-pc-linux-gnu > > Configured with: ../gcc-9.2.0/configure --disable-multilib > > --exec-prefix=/usr/local/Gcc --prefix=/usr/local/Gcc Thread model: > > posix gcc version 9.2.0 (GCC) > > [lsf@dlp762 Sage]$ > > [lsf@dlp762 Sage]$ find /usr/local/Gcc/ -name libstdc++.so.6 > > /usr/local/Gcc/lib64/libstdc++.so.6 > > /usr/local/Gcc/gcc-build/stage1-x86_64-pc-linux-gnu/libstdc++-v3/src/. > > libs/libstdc++.so.6 > > /usr/local/Gcc/gcc-build/x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/li > > bstdc++.so.6 > > /usr/local/Gcc/gcc-build/prev-x86_64-pc-linux-gnu/libstdc++-v3/src/.li > > bs/libstdc++.so.6 > > [lsf@dlp762 Sage]$ > > try > > export LD_LIBRARY_PATH=/usr/local/Gcc/lib64:$LD_LIBRARY_PATH > > and then run make > > > > > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Freitag, 5. März 2021 15:08 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Fri, Mar 5, 2021 at 12:55 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > > > High, > > > > > > when using "./configure --with-mp=gmp" things look m
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, 5 Mar 2021, 16:30 Dima Pasechnik, wrote: > > > On Fri, 5 Mar 2021, 16:17 'Hackenberg, Klaus' via sage-support, < > sage-support@googlegroups.com> wrote: > >> High, >> >> adding /usr/local/Gcc/lib64 to $LD_LIBRARY_PATH helps compiling >> gfan-0.6.2.p1. >> >> Next problem is with r-3.6.3: >> The bzip2 from RHEL6 seem to be to old: >> >> [root@dlp762 Sage]# bzip2 --version >> bzip2, a block-sorting file compressor. Version 1.0.5, 10-Dec-2007. >> >> Is there any option to use another version (built within sage)? >> > > make bzip2 > this will build sage's version of bzip2 Then run make again, to build r, etc > > > >> I include the error log. >> >> Regards, Klaus Hackenberg >> >> -- >> Klaus Hackenberg >> IT-Systeme und Software-Integration >> IT.SERVICES >> Ruhr-Universität Bochum | 44780 Bochum >> fon: +49 234 32 23485 >> http://www.it-services.rub.de/ >> >> >> -Ursprüngliche Nachricht- >> Von: sage-support@googlegroups.com Im >> Auftrag von Dima Pasechnik >> Gesendet: Freitag, 5. März 2021 15:58 >> An: sage-support >> Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> >> On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support < >> sage-support@googlegroups.com> wrote: >> > >> > High, >> > >> > I find the following >> > >> > [lsf@dlp762 Sage]$ echo $PATH >> > /usr/local/Gcc/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bi >> > n:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin >> > [lsf@dlp762 Sage]$ >> > [lsf@dlp762 Sage]$ g++ -v >> > Using built-in specs. >> > COLLECT_GCC=g++ >> > COLLECT_LTO_WRAPPER=/net/dlp762/share/application-software/Gcc/bin/../ >> > libexec/gcc/x86_64-pc-linux-gnu/9.2.0/lto-wrapper >> > Target: x86_64-pc-linux-gnu >> > Configured with: ../gcc-9.2.0/configure --disable-multilib >> > --exec-prefix=/usr/local/Gcc --prefix=/usr/local/Gcc Thread model: >> > posix gcc version 9.2.0 (GCC) >> > [lsf@dlp762 Sage]$ >> > [lsf@dlp762 Sage]$ find /usr/local/Gcc/ -name libstdc++.so.6 >> > /usr/local/Gcc/lib64/libstdc++.so.6 >> > /usr/local/Gcc/gcc-build/stage1-x86_64-pc-linux-gnu/libstdc++-v3/src/. >> > libs/libstdc++.so.6 >> > /usr/local/Gcc/gcc-build/x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/li >> > bstdc++.so.6 >> > /usr/local/Gcc/gcc-build/prev-x86_64-pc-linux-gnu/libstdc++-v3/src/.li >> > bs/libstdc++.so.6 >> > [lsf@dlp762 Sage]$ >> >> try >> >> export LD_LIBRARY_PATH=/usr/local/Gcc/lib64:$LD_LIBRARY_PATH >> >> and then run make >> >> >> >> >> > >> > Regards, Klaus Hackenberg >> > >> > -- >> > Klaus Hackenberg >> > IT-Systeme und Software-Integration >> > IT.SERVICES >> > Ruhr-Universität Bochum | 44780 Bochum >> > fon: +49 234 32 23485 >> > http://www.it-services.rub.de/ >> > >> > >> > -Ursprüngliche Nachricht- >> > Von: sage-support@googlegroups.com Im >> > Auftrag von Dima Pasechnik >> > Gesendet: Freitag, 5. März 2021 15:08 >> > An: sage-support >> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> > >> > On Fri, Mar 5, 2021 at 12:55 PM 'Hackenberg, Klaus' via sage-support < >> sage-support@googlegroups.com> wrote: >> > > >> > > High, >> > > >> > > when using "./configure --with-mp=gmp" things look much better. >> > > >> > > But now I get an error for gfan-0.6.2.p1. >> > > I include the error log. >> > it says >> > >> > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found >> > (required by ./gfan) >> > ./gfan: /usr/lib64/libstdc++.so.6: version `CXXABI_1.3.8' not found >> > (required by ./gfan) >> > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.26' not found >> > (required by ./gfan) >> > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found >> > (required by ./gfan) >> > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found >> > (required by ./gfan) >> > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.15' not found >> > (required by ./gfan) >> > >> > Something is not quite right with your C++ toolchain. As your gcc/g++ >> >
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, 5 Mar 2021, 16:17 'Hackenberg, Klaus' via sage-support, < sage-support@googlegroups.com> wrote: > High, > > adding /usr/local/Gcc/lib64 to $LD_LIBRARY_PATH helps compiling > gfan-0.6.2.p1. > > Next problem is with r-3.6.3: > The bzip2 from RHEL6 seem to be to old: > > [root@dlp762 Sage]# bzip2 --version > bzip2, a block-sorting file compressor. Version 1.0.5, 10-Dec-2007. > > Is there any option to use another version (built within sage)? > make bzip2 > I include the error log. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im > Auftrag von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 15:58 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > High, > > > > I find the following > > > > [lsf@dlp762 Sage]$ echo $PATH > > /usr/local/Gcc/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bi > > n:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > > [lsf@dlp762 Sage]$ > > [lsf@dlp762 Sage]$ g++ -v > > Using built-in specs. > > COLLECT_GCC=g++ > > COLLECT_LTO_WRAPPER=/net/dlp762/share/application-software/Gcc/bin/../ > > libexec/gcc/x86_64-pc-linux-gnu/9.2.0/lto-wrapper > > Target: x86_64-pc-linux-gnu > > Configured with: ../gcc-9.2.0/configure --disable-multilib > > --exec-prefix=/usr/local/Gcc --prefix=/usr/local/Gcc Thread model: > > posix gcc version 9.2.0 (GCC) > > [lsf@dlp762 Sage]$ > > [lsf@dlp762 Sage]$ find /usr/local/Gcc/ -name libstdc++.so.6 > > /usr/local/Gcc/lib64/libstdc++.so.6 > > /usr/local/Gcc/gcc-build/stage1-x86_64-pc-linux-gnu/libstdc++-v3/src/. > > libs/libstdc++.so.6 > > /usr/local/Gcc/gcc-build/x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/li > > bstdc++.so.6 > > /usr/local/Gcc/gcc-build/prev-x86_64-pc-linux-gnu/libstdc++-v3/src/.li > > bs/libstdc++.so.6 > > [lsf@dlp762 Sage]$ > > try > > export LD_LIBRARY_PATH=/usr/local/Gcc/lib64:$LD_LIBRARY_PATH > > and then run make > > > > > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Freitag, 5. März 2021 15:08 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Fri, Mar 5, 2021 at 12:55 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > > > High, > > > > > > when using "./configure --with-mp=gmp" things look much better. > > > > > > But now I get an error for gfan-0.6.2.p1. > > > I include the error log. > > it says > > > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found > > (required by ./gfan) > > ./gfan: /usr/lib64/libstdc++.so.6: version `CXXABI_1.3.8' not found > > (required by ./gfan) > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.26' not found > > (required by ./gfan) > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found > > (required by ./gfan) > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found > > (required by ./gfan) > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.15' not found > > (required by ./gfan) > > > > Something is not quite right with your C++ toolchain. As your gcc/g++ > > data says --prefix=/usr/local/Gcc one would expect libstdc++.so.6 to > > be in /usr/local/Gcc, and not in /usr/lib64/ (where you probably have > > old RHEL 6 gcc/g++ things) > > > > No idea what exactly. What is the output of > > > > g++ -v > > > > Do you have libstdc++.so.6 in /usr/local/ at all? > > > > > > > > > > > > Regards, Klaus Hackenberg > > > > > > -- > > > Klaus Hackenberg > > > IT-Systeme und Software-Integration > > > IT.SERVICES > > > Ruhr-Universität Bochum | 44780 Bochum > > > fon: +49 234 32 23
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I find the following > > [lsf@dlp762 Sage]$ echo $PATH > /usr/local/Gcc/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > [lsf@dlp762 Sage]$ > [lsf@dlp762 Sage]$ g++ -v > Using built-in specs. > COLLECT_GCC=g++ > COLLECT_LTO_WRAPPER=/net/dlp762/share/application-software/Gcc/bin/../libexec/gcc/x86_64-pc-linux-gnu/9.2.0/lto-wrapper > Target: x86_64-pc-linux-gnu > Configured with: ../gcc-9.2.0/configure --disable-multilib > --exec-prefix=/usr/local/Gcc --prefix=/usr/local/Gcc > Thread model: posix > gcc version 9.2.0 (GCC) > [lsf@dlp762 Sage]$ > [lsf@dlp762 Sage]$ find /usr/local/Gcc/ -name libstdc++.so.6 > /usr/local/Gcc/lib64/libstdc++.so.6 > /usr/local/Gcc/gcc-build/stage1-x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/libstdc++.so.6 > /usr/local/Gcc/gcc-build/x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/libstdc++.so.6 > /usr/local/Gcc/gcc-build/prev-x86_64-pc-linux-gnu/libstdc++-v3/src/.libs/libstdc++.so.6 > [lsf@dlp762 Sage]$ try export LD_LIBRARY_PATH=/usr/local/Gcc/lib64:$LD_LIBRARY_PATH and then run make > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 15:08 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Fri, Mar 5, 2021 at 12:55 PM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > when using "./configure --with-mp=gmp" things look much better. > > > > But now I get an error for gfan-0.6.2.p1. > > I include the error log. > it says > > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found > (required by ./gfan) > ./gfan: /usr/lib64/libstdc++.so.6: version `CXXABI_1.3.8' not found (required > by ./gfan) > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.26' not found > (required by ./gfan) > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found > (required by ./gfan) > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found > (required by ./gfan) > ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.15' not found > (required by ./gfan) > > Something is not quite right with your C++ toolchain. As your gcc/g++ data > says --prefix=/usr/local/Gcc one would expect libstdc++.so.6 to be in > /usr/local/Gcc, and not in /usr/lib64/ (where you probably have old RHEL 6 > gcc/g++ things) > > No idea what exactly. What is the output of > > g++ -v > > Do you have libstdc++.so.6 in /usr/local/ at all? > > > > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Freitag, 5. März 2021 12:45 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Fri, Mar 5, 2021 at 11:24 AM 'Hackenberg, Klaus' via sage-support > > wrote: > > > > > > High, > > > > > > I did the following > > > > > > [lsf@dlp762 Sage]$ cd sage-9.2 > > > [lsf@dlp762 sage-9.2]$ ./configure --with-gmp=gmp > > > > /tmp/configure.log 2>&1 > > > > and so you once again mixed up --with-gmp= and --with-mp= > > > > It should be --with-mp=gmp > > > > > > > [lsf@dlp762 sage-9.2]$ make mpir-clean > /tmp/mpir.clean.log 2>&1 > > > > > > and include the logs. > > > > > > Regards, Klaus Hackenberg > > > > > > -- > > > Klaus Hackenberg > > > IT-Systeme und Software-Integration > > > IT.SERVICES > > > Ruhr-Universität Bochum | 44780 Bochum > > > fon: +49 234 32 23485 > > > http://www.it-services.rub.de/ > > > > > > > > > -Ursprüngliche Nachricht- > > > Von: sage-support@googlegroups.com > > > Im Auftrag von Dima Pasechnik > > > Gesendet: Freitag, 5. März 2021 11:31 > > > An: sage-support > > > Betreff: Re: [sage-support]
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, Mar 5, 2021 at 12:55 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > when using "./configure --with-mp=gmp" things look much better. > > But now I get an error for gfan-0.6.2.p1. > I include the error log. it says ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found (required by ./gfan) ./gfan: /usr/lib64/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by ./gfan) ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.26' not found (required by ./gfan) ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found (required by ./gfan) ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found (required by ./gfan) ./gfan: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.15' not found (required by ./gfan) Something is not quite right with your C++ toolchain. As your gcc/g++ data says --prefix=/usr/local/Gcc one would expect libstdc++.so.6 to be in /usr/local/Gcc, and not in /usr/lib64/ (where you probably have old RHEL 6 gcc/g++ things) No idea what exactly. What is the output of g++ -v Do you have libstdc++.so.6 in /usr/local/ at all? > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 12:45 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Fri, Mar 5, 2021 at 11:24 AM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > I did the following > > > > [lsf@dlp762 Sage]$ cd sage-9.2 > > [lsf@dlp762 sage-9.2]$ ./configure --with-gmp=gmp > > > /tmp/configure.log 2>&1 > > and so you once again mixed up --with-gmp= and --with-mp= > > It should be --with-mp=gmp > > > > [lsf@dlp762 sage-9.2]$ make mpir-clean > /tmp/mpir.clean.log 2>&1 > > > > and include the logs. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Freitag, 5. März 2021 11:31 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Fri, Mar 5, 2021 at 10:02 AM 'Hackenberg, Klaus' via sage-support > > wrote: > > > > > > High, > > > > > > I installed python 3.9.2 in /usr/local/Python and added it to PATH > > > variable > > > > > > [lsf@dlp762 root]$ echo $PATH > > > /usr/local/Python/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/loc > > > al /bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > > > [lsf@dlp762 root]$ python --version > > > Python 3.9.2 > > > > > > Now symmetrica-3.0.1. compiles successfull. > > > But ppl-1.2 no longer compiles !!! > > > So I seem to be in a deadlock . > > > > > It's the same misconfiguration of mp/gmp stuff as before. > > Without knowning what exactly you did after changing PATH, it's hard to > > tell. > > > > please post the top level config.log (the one in the same directory as > > the main ./configure script) > > - the ppl problems come from the top level misconfiguration. > > > > > > > > > I include ppl error logs. > > > > > > Regards, Klaus Hackenberg > > > > > > -- > > > Klaus Hackenberg > > > IT-Systeme und Software-Integration > > > IT.SERVICES > > > Ruhr-Universität Bochum | 44780 Bochum > > > fon: +49 234 32 23485 > > > http://www.it-services.rub.de/ > > > > > > > > > -Ursprüngliche Nachricht- > > > Von: sage-support@googlegroups.com > > > Im Auftrag von Dima Pasechnik > > > Gesendet: Donnerstag, 4. März 2021 18:53 > > > An: sage-support > > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support > > > wrote: > > > > > > > > High, > > > > > > > > > > > > > > > > on my RHEL6 server I see > > > > > > > > >
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, Mar 5, 2021 at 11:24 AM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I did the following > > [lsf@dlp762 Sage]$ cd sage-9.2 > [lsf@dlp762 sage-9.2]$ ./configure --with-gmp=gmp > /tmp/configure.log 2>&1 and so you once again mixed up --with-gmp= and --with-mp= It should be --with-mp=gmp > [lsf@dlp762 sage-9.2]$ make mpir-clean > /tmp/mpir.clean.log 2>&1 > > and include the logs. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Freitag, 5. März 2021 11:31 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Fri, Mar 5, 2021 at 10:02 AM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > I installed python 3.9.2 in /usr/local/Python and added it to PATH > > variable > > > > [lsf@dlp762 root]$ echo $PATH > > /usr/local/Python/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local > > /bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > > [lsf@dlp762 root]$ python --version > > Python 3.9.2 > > > > Now symmetrica-3.0.1. compiles successfull. > > But ppl-1.2 no longer compiles !!! > > So I seem to be in a deadlock . > > > It's the same misconfiguration of mp/gmp stuff as before. > Without knowning what exactly you did after changing PATH, it's hard to tell. > > please post the top level config.log (the one in the same directory as the > main ./configure script) > - the ppl problems come from the top level misconfiguration. > > > > > I include ppl error logs. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Donnerstag, 4. März 2021 18:53 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support > > wrote: > > > > > > High, > > > > > > > > > > > > on my RHEL6 server I see > > > > > > > > > > > > [root@dlp762 Sage]# python --version > > > > > > Python 2.6.6 > > > > > > > > > > > > But the server has installed xz packages > > > > > > > > > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > > > > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 > > > 2019 > > > > > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 > > > 09:39:37 2015 > > > > > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64Fri Sep 18 09:39:26 2015 > > > > > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 > > > 2015 > > > > > > > > > > > > Is it possible to use the buildin xz ? > > > > Do you have xz application installed and accepted by Sage (it should > > be visible in config.log)? If so, something is breaking in > > https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/unco > > mpress/tar_file.py#L161 > > > > Mind you, python 2.6.6 has been released about 12 years ago, not sure > > this code, from 2016, was ever tested on 2.6.6 (perhaps on less buggy > > 2.6.7...) > > > > You may try installing pyenv with newer python and run Sage > > installation from there. See https://gist.github.com/ysaotome/7956676 > > (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 > > hell completely) > > > > > > > > > > > > > > > > Regards, Klaus Hackenberg > > > > > > > > > > > > -- > > > > > > Klaus Hackenberg > > > > > > IT-Systeme und Software-Integration > > > > > > IT.SERVICES > > > > > > Ruhr-Universität Bochum | 44780 Bochum > > > > > > fon: +49 234 32 23485 > > > > > > http://www.it-services.rub.de/ > > > > > > > > >
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Fri, Mar 5, 2021 at 10:02 AM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I installed python 3.9.2 in /usr/local/Python and added it to PATH variable > > [lsf@dlp762 root]$ echo $PATH > /usr/local/Python/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > [lsf@dlp762 root]$ python --version > Python 3.9.2 > > Now symmetrica-3.0.1. compiles successfull. > But ppl-1.2 no longer compiles !!! > So I seem to be in a deadlock . > It's the same misconfiguration of mp/gmp stuff as before. Without knowning what exactly you did after changing PATH, it's hard to tell. please post the top level config.log (the one in the same directory as the main ./configure script) - the ppl problems come from the top level misconfiguration. > I include ppl error logs. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Donnerstag, 4. März 2021 18:53 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > > > > > on my RHEL6 server I see > > > > > > > > [root@dlp762 Sage]# python --version > > > > Python 2.6.6 > > > > > > > > But the server has installed xz packages > > > > > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 > > 2019 > > > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 > > 09:39:37 2015 > > > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64Fri Sep 18 09:39:26 2015 > > > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 > > 2015 > > > > > > > > Is it possible to use the buildin xz ? > > Do you have xz application installed and accepted by Sage (it should be > visible in config.log)? If so, something is breaking in > https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/tar_file.py#L161 > > Mind you, python 2.6.6 has been released about 12 years ago, not sure this > code, from 2016, was ever tested on 2.6.6 (perhaps on less buggy 2.6.7...) > > You may try installing pyenv with newer python and run Sage installation from > there. See https://gist.github.com/ysaotome/7956676 > (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 hell > completely) > > > > > > > > > > Regards, Klaus Hackenberg > > > > > > > > -- > > > > Klaus Hackenberg > > > > IT-Systeme und Software-Integration > > > > IT.SERVICES > > > > Ruhr-Universität Bochum | 44780 Bochum > > > > fon: +49 234 32 23485 > > > > http://www.it-services.rub.de/ > > > > > > > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Donnerstag, 4. März 2021 17:18 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > > > your system python cannot uncompress .xz files... :( > > > > > > > > how old is it? > > > > > > > > can you install systemwide python2 to be python 2.7? > > > > > > > > On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, > > wrote: > > > > High, > > > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > > using the command " make mpir-clean" and got > > > > == > > === > > [lsf@dlp762 sage-9.2]$ make mpir-clean make build/make/Makefile --stop > > make[1]: Entering directory > > `/net/dlp762/share/application-software/Sage/sage-9.2' > > rm -f config.log > > mkdir -p logs/pkgs > > ln -s logs/pkgs/config.log config.log > > ** > > ** > > error: Sage source tree is unconfigured. Please run "./configure" first. > > note: Type "./configure --help" to see the available configuration options. > > ** > > ** > > make[1]: *** [build/ma
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
OK, time to officially remove support for building with python 2.6 as sage-bootstrap-python - https://trac.sagemath.org/ticket/20023 (needs review). On Thursday, March 4, 2021 at 10:25:35 AM UTC-8 Dima Pasechnik wrote: > On Thu, Mar 4, 2021 at 6:18 PM Matthias Koeppe > wrote: > > > > Looks like we cannot bootstrap using Python 2.6 any more. > > > > The error seen in the log is: > https://stackoverflow.com/questions/19668395/str-format-for-python-2-6-gives-error-where-2-7-does-not > > yes, but this is the secondary error, in processing ValueError thrown by > > https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/cmdline.py#L53 > > > > > > > > > > > On Thursday, March 4, 2021 at 9:53:28 AM UTC-8 Dima Pasechnik wrote: > >> > >> On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support > >> wrote: > >> > > >> > High, > >> > > >> > > >> > > >> > on my RHEL6 server I see > >> > > >> > > >> > > >> > [root@dlp762 Sage]# python --version > >> > > >> > Python 2.6.6 > >> > > >> > > >> > > >> > But the server has installed xz packages > >> > > >> > > >> > > >> > [root@dlp762 Sage]# rpm -qa --last|grep xz > >> > > >> > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 > 2019 > >> > > >> > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 > 09:39:37 2015 > >> > > >> > xz-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:26 2015 > >> > > >> > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 > 2015 > >> > > >> > > >> > > >> > Is it possible to use the buildin xz ? > >> > >> Do you have xz application installed and accepted by Sage (it should > >> be visible in > >> config.log)? If so, something is breaking in > >> > https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/tar_file.py#L161 > >> > >> Mind you, python 2.6.6 has been released about 12 years ago, not sure > >> this code, from 2016, was ever tested > >> on 2.6.6 (perhaps on less buggy 2.6.7...) > >> > >> You may try installing pyenv with newer python and > >> run Sage installation from there. See > https://gist.github.com/ysaotome/7956676 > >> (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 > >> hell completely) > >> > >> > >> > > >> > > >> > > >> > Regards, Klaus Hackenberg > >> > > >> > > >> > > >> > -- > >> > > >> > Klaus Hackenberg > >> > > >> > IT-Systeme und Software-Integration > >> > > >> > IT.SERVICES > >> > > >> > Ruhr-Universität Bochum | 44780 Bochum > >> > > >> > fon: +49 234 32 23485 <+49%20234%203223485> > >> > > >> > http://www.it-services.rub.de/ > >> > > >> > > >> > > >> > Von: sage-s...@googlegroups.com Im > Auftrag von Dima Pasechnik > >> > Gesendet: Donnerstag, 4. März 2021 17:18 > >> > An: sage-support > >> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > >> > > >> > > >> > > >> > your system python cannot uncompress .xz files... :( > >> > > >> > > >> > > >> > how old is it? > >> > > >> > > >> > > >> > can you install systemwide python2 to be python 2.7? > >> > > >> > > >> > > >> > On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, < > sage-s...@googlegroups.com> wrote: > >> > > >> > High, > >> > > >> > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > >> > using the command " make mpir-clean" and got > >> > > >> > > = > >> > [lsf@dlp762 sage-9.2]$ make mpir-clean > >> > make build/make/Makefile --stop > >> > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > >> > rm -f config.log > >> > mkdir -p logs/pkgs > >>
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Thu, Mar 4, 2021 at 6:18 PM Matthias Koeppe wrote: > > Looks like we cannot bootstrap using Python 2.6 any more. > > The error seen in the log is: > https://stackoverflow.com/questions/19668395/str-format-for-python-2-6-gives-error-where-2-7-does-not yes, but this is the secondary error, in processing ValueError thrown by https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/cmdline.py#L53 > > > > > On Thursday, March 4, 2021 at 9:53:28 AM UTC-8 Dima Pasechnik wrote: >> >> On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support >> wrote: >> > >> > High, >> > >> > >> > >> > on my RHEL6 server I see >> > >> > >> > >> > [root@dlp762 Sage]# python --version >> > >> > Python 2.6.6 >> > >> > >> > >> > But the server has installed xz packages >> > >> > >> > >> > [root@dlp762 Sage]# rpm -qa --last|grep xz >> > >> > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 2019 >> > >> > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:37 >> > 2015 >> > >> > xz-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:26 2015 >> > >> > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 2015 >> > >> > >> > >> > Is it possible to use the buildin xz ? >> >> Do you have xz application installed and accepted by Sage (it should >> be visible in >> config.log)? If so, something is breaking in >> https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/tar_file.py#L161 >> >> Mind you, python 2.6.6 has been released about 12 years ago, not sure >> this code, from 2016, was ever tested >> on 2.6.6 (perhaps on less buggy 2.6.7...) >> >> You may try installing pyenv with newer python and >> run Sage installation from there. See >> https://gist.github.com/ysaotome/7956676 >> (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 >> hell completely) >> >> >> > >> > >> > >> > Regards, Klaus Hackenberg >> > >> > >> > >> > -- >> > >> > Klaus Hackenberg >> > >> > IT-Systeme und Software-Integration >> > >> > IT.SERVICES >> > >> > Ruhr-Universität Bochum | 44780 Bochum >> > >> > fon: +49 234 32 23485 >> > >> > http://www.it-services.rub.de/ >> > >> > >> > >> > Von: sage-s...@googlegroups.com Im Auftrag >> > von Dima Pasechnik >> > Gesendet: Donnerstag, 4. März 2021 17:18 >> > An: sage-support >> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> > >> > >> > >> > your system python cannot uncompress .xz files... :( >> > >> > >> > >> > how old is it? >> > >> > >> > >> > can you install systemwide python2 to be python 2.7? >> > >> > >> > >> > On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, >> > wrote: >> > >> > High, >> > >> > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) >> > using the command " make mpir-clean" and got >> > >> > = >> > [lsf@dlp762 sage-9.2]$ make mpir-clean >> > make build/make/Makefile --stop >> > make[1]: Entering directory >> > `/net/dlp762/share/application-software/Sage/sage-9.2' >> > rm -f config.log >> > mkdir -p logs/pkgs >> > ln -s logs/pkgs/config.log config.log >> > >> > error: Sage source tree is unconfigured. Please run "./configure" first. >> > note: Type "./configure --help" to see the available configuration options. >> > ************ >> > make[1]: *** [build/make/Makefile] Error 1 >> > make[1]: Leaving directory >> > `/net/dlp762/share/application-software/Sage/sage-9.2' >> > make: *** [mpir-clean] Error 2 >> > [lsf@dlp762 sage-9.2]$ >> > = >> > >> > I then used >> > >> > ./configure --with-mp=gmp >> > make mpir-c
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
Looks like we cannot bootstrap using Python 2.6 any more. The error seen in the log is: https://stackoverflow.com/questions/19668395/str-format-for-python-2-6-gives-error-where-2-7-does-not On Thursday, March 4, 2021 at 9:53:28 AM UTC-8 Dima Pasechnik wrote: > On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > > > > > on my RHEL6 server I see > > > > > > > > [root@dlp762 Sage]# python --version > > > > Python 2.6.6 > > > > > > > > But the server has installed xz packages > > > > > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 2019 > > > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 > 09:39:37 2015 > > > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:26 2015 > > > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 2015 > > > > > > > > Is it possible to use the buildin xz ? > > Do you have xz application installed and accepted by Sage (it should > be visible in > config.log)? If so, something is breaking in > > https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/tar_file.py#L161 > > Mind you, python 2.6.6 has been released about 12 years ago, not sure > this code, from 2016, was ever tested > on 2.6.6 (perhaps on less buggy 2.6.7...) > > You may try installing pyenv with newer python and > run Sage installation from there. See > https://gist.github.com/ysaotome/7956676 > (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 > hell completely) > > > > > > > > > > Regards, Klaus Hackenberg > > > > > > > > -- > > > > Klaus Hackenberg > > > > IT-Systeme und Software-Integration > > > > IT.SERVICES > > > > Ruhr-Universität Bochum | 44780 Bochum > > > > fon: +49 234 32 23485 <+49%20234%203223485> > > > > http://www.it-services.rub.de/ > > > > > > > > Von: sage-s...@googlegroups.com Im Auftrag > von Dima Pasechnik > > Gesendet: Donnerstag, 4. März 2021 17:18 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > > > your system python cannot uncompress .xz files... :( > > > > > > > > how old is it? > > > > > > > > can you install systemwide python2 to be python 2.7? > > > > > > > > On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, < > sage-s...@googlegroups.com> wrote: > > > > High, > > > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > > using the command " make mpir-clean" and got > > > > = > > [lsf@dlp762 sage-9.2]$ make mpir-clean > > make build/make/Makefile --stop > > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > > rm -f config.log > > mkdir -p logs/pkgs > > ln -s logs/pkgs/config.log config.log > > > > > error: Sage source tree is unconfigured. Please run "./configure" first. > > note: Type "./configure --help" to see the available configuration > options. > > > > > make[1]: *** [build/make/Makefile] Error 1 > > make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > > make: *** [mpir-clean] Error 2 > > [lsf@dlp762 sage-9.2]$ > > ========================= > > > > I then used > > > > ./configure --with-mp=gmp > > make mpir-clean > > make -j4 > > > > and ppl-1.2 compiled ! > > > > But now I get a new error with symmetrica-3.0.1. > > I attach the error log file > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 <+49%20234%203223485> > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-s...@googlegroups.com Im Auftrag > von Dima Pasechnik > > Gesendet: Donnerstag, 4. März 2021 15:57 > > An: sage-support >
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Thu, Mar 4, 2021 at 5:08 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > > > on my RHEL6 server I see > > > > [root@dlp762 Sage]# python --version > > Python 2.6.6 > > > > But the server has installed xz packages > > > > [root@dlp762 Sage]# rpm -qa --last|grep xz > > xz-devel-4.999.9-0.5.beta.20091007git.el6.x86_64 Tue Jun 18 11:06:45 2019 > > xz-lzma-compat-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:37 > 2015 > > xz-4.999.9-0.5.beta.20091007git.el6.x86_64Fri Sep 18 09:39:26 2015 > > xz-libs-4.999.9-0.5.beta.20091007git.el6.x86_64 Fri Sep 18 09:39:03 2015 > > > > Is it possible to use the buildin xz ? Do you have xz application installed and accepted by Sage (it should be visible in config.log)? If so, something is breaking in https://github.com/sagemath/sage/blob/master/build/sage_bootstrap/uncompress/tar_file.py#L161 Mind you, python 2.6.6 has been released about 12 years ago, not sure this code, from 2016, was ever tested on 2.6.6 (perhaps on less buggy 2.6.7...) You may try installing pyenv with newer python and run Sage installation from there. See https://gist.github.com/ysaotome/7956676 (you ought to replace 2.7.6 with 3.9.1 there, to escape the Python2 hell completely) > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Donnerstag, 4. März 2021 17:18 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > your system python cannot uncompress .xz files... :( > > > > how old is it? > > > > can you install systemwide python2 to be python 2.7? > > > > On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, > wrote: > > High, > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > using the command " make mpir-clean" and got > > = > [lsf@dlp762 sage-9.2]$ make mpir-clean > make build/make/Makefile --stop > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > rm -f config.log > mkdir -p logs/pkgs > ln -s logs/pkgs/config.log config.log > > error: Sage source tree is unconfigured. Please run "./configure" first. > note: Type "./configure --help" to see the available configuration options. > > make[1]: *** [build/make/Makefile] Error 1 > make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > make: *** [mpir-clean] Error 2 > [lsf@dlp762 sage-9.2]$ > = > > I then used > > ./configure --with-mp=gmp > make mpir-clean > make -j4 > > and ppl-1.2 compiled ! > > But now I get a new error with symmetrica-3.0.1. > I attach the error log file > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Donnerstag, 4. März 2021 15:57 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > Please post the top-level config.log, then we'll see more details about GMP. > > In Sage 9.2, if you do ./configure without arguments, Sage is building a > GMP-compatible MPIR, not "real" GMP. > (Perhaps MPIR is broken now beyond repair, and shoud not be used on RHEL 6,I > don't know) We're changing with in the coming 9.3, see > https://trac.sagemath.org/ticket/30752 > Meanwhile please do > > make mpir-clean > ./configure --with-mp=gmp > make -j4 > > > On Thu, Mar 4, 2021 at 2:06 PM 'Hackenberg, Klaus' via sage-support > wrote: > > > > High, > > > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > > using the commands > > > > ./configure > > make -j4 > > > > and ran into the same error. > > > > gmp binaries are build automatically > > > > ls -lrt sage-9.2/local/lib/*gmp* > > -rwxr-xr-x 1 lsf lsf 3342817 Mar
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
your system python cannot uncompress .xz files... :( how old is it? can you install systemwide python2 to be python 2.7? On Thu, 4 Mar 2021, 16:04 'Hackenberg, Klaus' via sage-support, < sage-support@googlegroups.com> wrote: > High, > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > using the command " make mpir-clean" and got > > = > [lsf@dlp762 sage-9.2]$ make mpir-clean > make build/make/Makefile --stop > make[1]: Entering directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > rm -f config.log > mkdir -p logs/pkgs > ln -s logs/pkgs/config.log config.log > > > error: Sage source tree is unconfigured. Please run "./configure" first. > note: Type "./configure --help" to see the available configuration > options. > > > make[1]: *** [build/make/Makefile] Error 1 > make[1]: Leaving directory > `/net/dlp762/share/application-software/Sage/sage-9.2' > make: *** [mpir-clean] Error 2 > [lsf@dlp762 sage-9.2]$ > = > > I then used > > ./configure --with-mp=gmp > make mpir-clean > make -j4 > > and ppl-1.2 compiled ! > > But now I get a new error with symmetrica-3.0.1. > I attach the error log file > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -----Ursprüngliche Nachricht- > Von: sage-support@googlegroups.com Im > Auftrag von Dima Pasechnik > Gesendet: Donnerstag, 4. März 2021 15:57 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > Please post the top-level config.log, then we'll see more details about > GMP. > > In Sage 9.2, if you do ./configure without arguments, Sage is building a > GMP-compatible MPIR, not "real" GMP. > (Perhaps MPIR is broken now beyond repair, and shoud not be used on RHEL > 6,I don't know) We're changing with in the coming 9.3, see > https://trac.sagemath.org/ticket/30752 > Meanwhile please do > > make mpir-clean > ./configure --with-mp=gmp > make -j4 > > > On Thu, Mar 4, 2021 at 2:06 PM 'Hackenberg, Klaus' via sage-support < > sage-support@googlegroups.com> wrote: > > > > High, > > > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > > using the commands > > > > ./configure > > make -j4 > > > > and ran into the same error. > > > > gmp binaries are build automatically > > > > ls -lrt sage-9.2/local/lib/*gmp* > > -rwxr-xr-x 1 lsf lsf 3342817 Mar 4 12:35 > sage-9.2/local/lib/libgmp.so.23.0.3 > > lrwxrwxrwx 1 lsf lsf 16 Mar 4 12:35 > sage-9.2/local/lib/libgmp.so.23 -> libgmp.so.23.0.3 > > lrwxrwxrwx 1 lsf lsf 16 Mar 4 12:35 sage-9.2/local/lib/libgmp.so > -> libgmp.so.23.0.3 > > -rwxr-xr-x 1 lsf lsf 318950 Mar 4 12:36 > sage-9.2/local/lib/libgmpxx.so.8.4.3 > > lrwxrwxrwx 1 lsf lsf 17 Mar 4 12:36 > sage-9.2/local/lib/libgmpxx.so.8 -> libgmpxx.so.8.4.3 > > lrwxrwxrwx 1 lsf lsf 17 Mar 4 12:36 sage-9.2/local/lib/libgmpxx.so > -> libgmpxx.so.8.4.3 > > -rw-r--r-- 1 lsf lsf 6804714 Mar 4 12:36 sage-9.2/local/lib/libgmp.a > > -rw-r--r-- 1 lsf lsf 796188 Mar 4 12:36 > > sage-9.2/local/lib/libgmpxx.a -rwxr-xr-x 1 lsf lsf 955210 Mar 4 12:43 > sage-9.2/local/lib/libcddgmp.so.0.0.0 > > lrwxrwxrwx 1 lsf lsf 18 Mar 4 12:43 > sage-9.2/local/lib/libcddgmp.so.0 -> libcddgmp.so.0.0.0 > > lrwxrwxrwx 1 lsf lsf 18 Mar 4 12:43 > sage-9.2/local/lib/libcddgmp.so -> libcddgmp.so.0.0.0 > > -rw-r--r-- 1 lsf lsf 1532644 Mar 4 12:43 > > sage-9.2/local/lib/libcddgmp.a > > > > I attach the error log file. > > > > Regards, Klaus Hackenberg > > > > -- > > Klaus Hackenberg > > IT-Systeme und Software-Integration > > IT.SERVICES > > Ruhr-Universität Bochum | 44780 Bochum > > fon: +49 234 32 23485 > > http://www.it-services.rub.de/ > > > > > > -Ursprüngliche Nachricht- > > Von: sage-support@googlegroups.com Im > > Auftrag von Dima Pasechnik > > Gesendet: Mittwoch, 3. März 2021 18:28 > > An: sage-support > > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > On Wed, Mar 3, 2021 at
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
Please post the top-level config.log, then we'll see more details about GMP. In Sage 9.2, if you do ./configure without arguments, Sage is building a GMP-compatible MPIR, not "real" GMP. (Perhaps MPIR is broken now beyond repair, and shoud not be used on RHEL 6,I don't know) We're changing with in the coming 9.3, see https://trac.sagemath.org/ticket/30752 Meanwhile please do make mpir-clean ./configure --with-mp=gmp make -j4 On Thu, Mar 4, 2021 at 2:06 PM 'Hackenberg, Klaus' via sage-support wrote: > > High, > > I startet in a fresh directory sage-9.2 (from sage-9.2.tag.gz) > using the commands > > ./configure > make -j4 > > and ran into the same error. > > gmp binaries are build automatically > > ls -lrt sage-9.2/local/lib/*gmp* > -rwxr-xr-x 1 lsf lsf 3342817 Mar 4 12:35 sage-9.2/local/lib/libgmp.so.23.0.3 > lrwxrwxrwx 1 lsf lsf 16 Mar 4 12:35 sage-9.2/local/lib/libgmp.so.23 -> > libgmp.so.23.0.3 > lrwxrwxrwx 1 lsf lsf 16 Mar 4 12:35 sage-9.2/local/lib/libgmp.so -> > libgmp.so.23.0.3 > -rwxr-xr-x 1 lsf lsf 318950 Mar 4 12:36 sage-9.2/local/lib/libgmpxx.so.8.4.3 > lrwxrwxrwx 1 lsf lsf 17 Mar 4 12:36 sage-9.2/local/lib/libgmpxx.so.8 -> > libgmpxx.so.8.4.3 > lrwxrwxrwx 1 lsf lsf 17 Mar 4 12:36 sage-9.2/local/lib/libgmpxx.so -> > libgmpxx.so.8.4.3 > -rw-r--r-- 1 lsf lsf 6804714 Mar 4 12:36 sage-9.2/local/lib/libgmp.a > -rw-r--r-- 1 lsf lsf 796188 Mar 4 12:36 sage-9.2/local/lib/libgmpxx.a > -rwxr-xr-x 1 lsf lsf 955210 Mar 4 12:43 > sage-9.2/local/lib/libcddgmp.so.0.0.0 > lrwxrwxrwx 1 lsf lsf 18 Mar 4 12:43 sage-9.2/local/lib/libcddgmp.so.0 > -> libcddgmp.so.0.0.0 > lrwxrwxrwx 1 lsf lsf 18 Mar 4 12:43 sage-9.2/local/lib/libcddgmp.so -> > libcddgmp.so.0.0.0 > -rw-r--r-- 1 lsf lsf 1532644 Mar 4 12:43 sage-9.2/local/lib/libcddgmp.a > > I attach the error log file. > > Regards, Klaus Hackenberg > > -- > Klaus Hackenberg > IT-Systeme und Software-Integration > IT.SERVICES > Ruhr-Universität Bochum | 44780 Bochum > fon: +49 234 32 23485 > http://www.it-services.rub.de/ > > > -Ursprüngliche Nachricht----- > Von: sage-support@googlegroups.com Im Auftrag > von Dima Pasechnik > Gesendet: Mittwoch, 3. März 2021 18:28 > An: sage-support > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Wed, Mar 3, 2021 at 5:15 PM 'Klaus Hackenberg' via sage-support > wrote: > > > > High, > > I tried to compile sage 9.2 on a server running RHEL 6. > > I use gcc 9.2.0 to compile and the following commands > > > > ./configure --with-gmp=gmp > might be in error. > > What did you mean to achieve by '--with-gmp=gmp' ? By default Sage will look > for a systemwide GMP installation and try to use it (else it will build its > own) But Sage needs GMP version 6.1, at least. Most probably what you have on > the 10-years old RHEL 6 is still GMP version 4, so it won't fly. > > You probably want to force building GMP rather than much iffier MPIR, so > you'd probably need '--with-mp=gmp' in this case. > > > > > make -j4 > > > > ppl-1.2 fails to compile whith the attached error log file. > > Do you have any idea what's going wrong and how to fix it? > > Regards, Klaus Hackenberg > > > > -- > > You received this message because you are subscribed to the Google Groups > > "sage-support" group. > > To unsubscribe from this group and stop receiving emails from it, send an > > email to sage-support+unsubscr...@googlegroups.com. > > To view this discussion on the web visit > > https://groups.google.com/d/msgid/sage-support/e1713003-dbe6-475b-9ffd-214d005cfec5n%40googlegroups.com. > > -- > You received this message because you are subscribed to a topic in the Google > Groups "sage-support" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/sage-support/GniJKQ0MaMY/unsubscribe. > To unsubscribe from this group and all its topics, send an email to > sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/CAAWYfq0i67G3DRu4oeLSTegkFw0Dr-FtFVHnpQShXze%3DSi7h5g%40mail.gmail.com. > > -- > You received this message because you are subscribed to the Google Groups > "sage-support" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/e501b240a4bc4e2f96d0440c10d06199%40ruhr-uni-bochum.de. -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/CAAWYfq3663awZ35af7%3D2ROLRkWF_%2B8w7dM41BCk9c2jGU7kAoQ%40mail.gmail.com.
Re: [sage-support] problem compiling sage 9.2 on RHEL 6
On Wed, Mar 3, 2021 at 5:15 PM 'Klaus Hackenberg' via sage-support wrote: > > High, > I tried to compile sage 9.2 on a server running RHEL 6. > I use gcc 9.2.0 to compile and the following commands > > ./configure --with-gmp=gmp might be in error. What did you mean to achieve by '--with-gmp=gmp' ? By default Sage will look for a systemwide GMP installation and try to use it (else it will build its own) But Sage needs GMP version 6.1, at least. Most probably what you have on the 10-years old RHEL 6 is still GMP version 4, so it won't fly. You probably want to force building GMP rather than much iffier MPIR, so you'd probably need '--with-mp=gmp' in this case. > make -j4 > > ppl-1.2 fails to compile whith the attached error log file. > Do you have any idea what's going wrong and how to fix it? > Regards, Klaus Hackenberg > > -- > You received this message because you are subscribed to the Google Groups > "sage-support" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-support+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-support/e1713003-dbe6-475b-9ffd-214d005cfec5n%40googlegroups.com. -- You received this message because you are subscribed to the Google Groups "sage-support" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-support+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/sage-support/CAAWYfq0i67G3DRu4oeLSTegkFw0Dr-FtFVHnpQShXze%3DSi7h5g%40mail.gmail.com.
