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