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 <sage-support@googlegroups.com> 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 <sage-support@googlegroups.com> Im Auftrag > von Dima Pasechnik > Gesendet: Sonntag, 7. März 2021 21:37 > An: sage-support <sage-support@googlegroups.com> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > > > > > On Sun, 7 Mar 2021, 20:33 Matthias Koeppe, <matthiaskoe...@gmail.com> 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 <sage-s...@googlegroups.com> Im Auftrag von > Dima Pasechnik > Gesendet: Samstag, 6. März 2021 16:13 > An: sage-support <sage-s...@googlegroups.com> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > > On Sat, Mar 6, 2021 at 10:36 AM Dima Pasechnik <dim...@gmail.com> 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 > >> http://www.it-services.rub.de/ > >> > >> -----Ursprüngliche Nachricht----- > >> Von: sage-s...@googlegroups.com <sage-s...@googlegroups.com> Im > >> Auftrag von Dima Pasechnik > >> Gesendet: Samstag, 6. März 2021 01:08 > >> An: sage-support <sage-s...@googlegroups.com>; Matthias Koeppe > >> <mko...@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-s...@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-s...@googlegroups.com <sage-s...@googlegroups.com> > >> > Im Auftrag von Dima Pasechnik > >> > Gesendet: Freitag, 5. März 2021 18:00 > >> > An: sage-support <sage-s...@googlegroups.com> > >> > 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, > >> > <sage-s...@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_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 > >> > > >> > > >> > > >> > 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-s...@googlegroups.com <sage-s...@googlegroups.com> > >> > Im Auftrag von Dima Pasechnik > >> > Gesendet: Freitag, 5. März 2021 17:30 > >> > An: sage-support <sage-s...@googlegroups.com> > >> > 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-s...@googlegroups.com> wrote: > >> > > >> > High, > >> > > >> > adding /usr/local/Gcc/lib64 to $LD_LIBRARY_PATH helps compiling > >> > gfan-0.6.2.p1. > >> > > >> > Next problem is with r-3.6.3: > >> > The bzip2 from RHEL6 seem to be to old: > >> > > >> > [root@dlp762 Sage]# bzip2 --version bzip2, a block-sorting file > >> > compressor. Version 1.0.5, 10-Dec-2007. > >> > > >> > Is there any option to use another version (built within sage)? > >> > > >> > > >> > > >> > make bzip2 > >> > > >> > > >> > > >> > > >> > > >> > > >> > I include the error log. > >> > > >> > Regards, Klaus Hackenberg > >> > > >> > -- > >> > Klaus Hackenberg > >> > IT-Systeme und Software-Integration IT.SERVICES Ruhr-Universität > >> > Bochum | 44780 Bochum > >> > fon: +49 234 32 23485 > >> > http://www.it-services.rub.de/ > >> > > >> > > >> > -----Ursprüngliche Nachricht----- > >> > Von: sage-s...@googlegroups.com <sage-s...@googlegroups.com> > >> > Im Auftrag von Dima Pasechnik > >> > Gesendet: Freitag, 5. März 2021 15:58 > >> > An: sage-support <sage-s...@googlegroups.com> > >> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 > >> > > >> > On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support > >> > <sage-s...@googlegroups.com> wrote: > >> > > > >> > > High, > >> > > > >> > > I find the following > >> > > > >> > > [lsf@dlp762 Sage]$ echo $PATH > >> > > /usr/local/Gcc/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/loc > >> > > al/ bi n:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > >> > > [lsf@dlp762 Sage]$ > >> > > [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/.li > >> > > bs/ > >> > > 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-s...@googlegroups.com > >> > > <sage-s...@googlegroups.com> Im Auftrag von Dima Pasechnik > >> > > Gesendet: Freitag, 5. März 2021 15:08 > >> > > An: sage-support <sage-s...@googlegroups.com> > >> > > 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-s...@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 23485 > >> > > > http://www.it-services.rub.de/ > >> > > > > >> > > > > >> > > > -----Ursprüngliche Nachricht----- > >> > > > Von: sage-s...@googlegroups.com > >> > > > <sage-s...@googlegroups.com> Im Auftrag von Dima Pasechnik > >> > > > Gesendet: Freitag, 5. März 2021 12:45 > >> > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > 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 > >> > > > <sage-s...@googlegroups.com> 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-s...@googlegroups.com > >> > > > > <sage-s...@googlegroups.com> Im Auftrag von Dima Pasechnik > >> > > > > Gesendet: Freitag, 5. März 2021 11:31 > >> > > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > > 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 <sage-s...@googlegroups.com> wrote: > >> > > > > > > >> > > > > > High, > >> > > > > > > >> > > > > > I installed python 3.9.2 in /usr/local/Python and added > >> > > > > > it to PATH variable > >> > > > > > > >> > > > > > [lsf@dlp762 root]$ echo $PATH > >> > > > > > /usr/local/Python/bin:/usr/lib64/qt-3.3/bin:/usr/local/sbin > >> > > > > > :/u sr /l oc al > >> > > > > > /bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin > >> > > > > > [lsf@dlp762 root]$ 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-s...@googlegroups.com > >> > > > > > <sage-s...@googlegroups.com> Im Auftrag von Dima > >> > > > > > Pasechnik > >> > > > > > Gesendet: Donnerstag, 4. März 2021 18:53 > >> > > > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > > > 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 <sage-s...@googlegroups.com> 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_boo > >> > > > > > tst > >> > > > > > ra > >> > > > > > p/ > >> > > > > > un > >> > > > > > co > >> > > > > > 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/ > >> > > > > > > > >> > > > > > > > >> > > > > > > > >> > > > > > > Von: sage-s...@googlegroups.com > >> > > > > > > <sage-s...@googlegroups.com> Im Auftrag von Dima > >> > > > > > > Pasechnik > >> > > > > > > Gesendet: Donnerstag, 4. März 2021 17:18 > >> > > > > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > > > > 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 > >> > > > > > > http://www.it-services.rub.de/ > >> > > > > > > > >> > > > > > > > >> > > > > > > -----Ursprüngliche Nachricht----- > >> > > > > > > Von: sage-s...@googlegroups.com > >> > > > > > > <sage-s...@googlegroups.com> Im Auftrag von Dima > >> > > > > > > Pasechnik > >> > > > > > > Gesendet: Donnerstag, 4. März 2021 15:57 > >> > > > > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > > > > 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-s...@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-s...@googlegroups.com > >> > > > > > > > <sage-s...@googlegroups.com> Im Auftrag von Dima > >> > > > > > > > Pasechnik > >> > > > > > > > Gesendet: Mittwoch, 3. März 2021 18:28 > >> > > > > > > > An: sage-support <sage-s...@googlegroups.com> > >> > > > > > > > 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 <sage-s...@googlegroups.com> 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...@googlegroups.com. > >> > > 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