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 <+49%20234%203223485> >> 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 <+49%20234%203223485> >> >> 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 <+49%20234%203223485> >> >> > >> >> > 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 <+49%20234%203223485> >> >> > >> >> > 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 $LD_LIBRARY_PATH helps compiling >> gfan-0.6.2.p1. >> >> > >> >> > Next problem is with r-3.6.3: >> >> > The bzip2 from RHEL6 seem to be to old: >> >> > >> >> > [root@dlp762 Sage]# bzip2 --version bzip2, a block-sorting file >> >> > compressor. Version 1.0.5, 10-Dec-2007. >> >> > >> >> > Is there any option to use another version (built within sage)? >> >> > >> >> > >> >> > >> >> > make bzip2 >> >> > >> >> > >> >> > >> >> > >> >> > >> >> > >> >> > I include the error log. >> >> > >> >> > Regards, Klaus Hackenberg >> >> > >> >> > -- >> >> > Klaus Hackenberg >> >> > IT-Systeme und Software-Integration IT.SERVICES Ruhr-Universität >> >> > Bochum | 44780 Bochum >> >> > fon: +49 234 32 23485 <+49%20234%203223485> >> >> > http://www.it-services.rub.de/ >> >> > >> >> > >> >> > -----Ursprüngliche Nachricht----- >> >> > Von: sage-s...@googlegroups.com <sage-s...@googlegroups.com> >> >> > Im Auftrag von Dima Pasechnik >> >> > Gesendet: Freitag, 5. März 2021 15:58 >> >> > An: sage-support <sage-s...@googlegroups.com> >> >> > Betreff: Re: [sage-support] problem compiling sage 9.2 on RHEL 6 >> >> > >> >> > On Fri, Mar 5, 2021 at 2:30 PM 'Hackenberg, Klaus' via sage-support < >> sage-s...@googlegroups.com> wrote: >> >> > > >> >> > > High, >> >> > > >> >> > > I find the following >> >> > > >> >> > > [lsf@dlp762 Sage]$ 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 <+49%20234%203223485> >> >> > > 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 <+49%20234%203223485> >> >> > > > 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 <+49%20234%203223485> >> >> > > > > 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 <+49%20234%203223485> >> >> > > > > > 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 <+49%20234%203223485> >> >> > > > > > > >> >> > > > > > > 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 <+49%20234%203223485> >> >> > > > > > > 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 <+49%20234%203223485> >> >> > > > > > > > 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. >> >> > > > > > > > > To view this discussion on the web visit >> 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