Hi Volker, I repeated on snapperkob, not via buildbot just as my own user:
real 125m41.153s user 208m24.169s sys 20m6.421s *************************************************************** Error building Sage. The following package(s) may have failed to build: package: r-3.1.1.p0 log file: /home/jan/sage-6.4/logs/pkgs/r-3.1.1.p0.log build directory: /home/jan/sage-6.4/local/var/tmp/sage/build/r-3.1.1.p0 The build directory may contain configuration files and other potentially helpful information. WARNING: if you now run 'make' again, the build directory will, by default, be deleted. Set the environment variable SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this. make: *** [build] Error 1 2 jan@snapperkob:~/sage-6.4$ I can try investigate what is different on muizenberg and snapperkob or my user on muizenberg & snapperkob. They are both Dell Optiplex, 64 bit, entirely up to date Ubuntu 14.04.1, though: snapperkob is a text-only server install muizenberg is a GUI full desktop install There is little difference underneath in ubuntu though. It is the same kernel. (the package linux-server depends on linux-generic which is also on the desktop, and depends on the actual kernel) They both have the Intel E8400 CPU. They both have 8G RAM. Comparing the logs for the two R builds, I found these differences in the configure parts, due to different packages available on the system: muizenberg (built successfully) R is now configured for x86_64-unknown-linux-gnu Source directory: . Installation directory: /srv/sysadm/sage/sage-6.4/local C compiler: gcc -std=gnu99 -g -O2 Fortran 77 compiler: gfortran -g -O2 C++ compiler: g++ C++ 11 compiler: g++ -std=c++11 Fortran 90/95 compiler: gfortran -g -O2 Obj-C compiler: Interfaces supported: External libraries: readline, ICU, lzma Additional capabilities: PNG, JPEG, TIFF, NLS, cairo Options enabled: shared R library, shared BLAS, R profiling Recommended packages: yes And snapperkob (failed): R is now configured for x86_64-unknown-linux-gnu Source directory: . Installation directory: /home/jan/sage-6.4/local C compiler: gcc -std=gnu99 -g -O2 Fortran 77 compiler: gfortran -g -O2 C++ compiler: g++ C++ 11 compiler: g++ -std=c++11 Fortran 90/95 compiler: gfortran -g -O2 Obj-C compiler: Interfaces supported: X11, tcltk External libraries: readline, BLAS(ATLAS), LAPACK(generic), ICU Additional capabilities: PNG, JPEG, NLS, cairo Options enabled: shared R library, R profiling Recommended packages: yes Can you think what I can change on snapperkob to test? BLAS or LAPACK perhaps? Regards, Jan On 20 November 2014 20:35, Jan Groenewald <j...@aims.ac.za> wrote: > Different machine: > > 0 root@muizenberg:/srv/sysadm/sage#dpkg -S > /usr/lib/x86_64-linux-gnu/libgomp.so.* > libgomp1:amd64: /usr/lib/x86_64-linux-gnu/libgomp.so.1 > libgomp1:amd64: /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 0 root@muizenberg:/srv/sysadm/sage#dpkg -l libgomp1 > Desired=Unknown/Install/Remove/Purge/Hold > | > Status=Not/Inst/Conf-files/Unpacked/halF-conf/Half-inst/trig-aWait/Trig-pend > |/ Err?=(none)/Reinst-required (Status,Err: uppercase=bad) > ||/ Name Version > Architecture Description > > +++-=======================================-========================-========================-=================================================================================== > ii libgomp1:amd64 4.8.2-19ubuntu1 > amd64 GCC OpenMP (GOMP) support library > 0 root@muizenberg:/srv/sysadm/sage# > > Same version: > > 0 jan@snapperkob:~/src$dpkg -S /usr/lib/x86_64-linux-gnu/libgomp.so.* > libgomp1:amd64: /usr/lib/x86_64-linux-gnu/libgomp.so.1 > libgomp1:amd64: /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 0 jan@snapperkob:~/src$dpkg -l libgomp1 > Desired=Unknown/Install/Remove/Purge/Hold > | > Status=Not/Inst/Conf-files/Unpacked/halF-conf/Half-inst/trig-aWait/Trig-pend > |/ Err?=(none)/Reinst-required (Status,Err: uppercase=bad) > ||/ Name Version > Architecture Description > > +++-=======================================-========================-========================-=================================================================================== > ii libgomp1:amd64 4.8.2-19ubuntu1 > amd64 GCC OpenMP (GOMP) support library > 0 jan@snapperkob:~/src$ > > Regards, > Jan > > > > On 20 November 2014 18:32, Volker Braun <vbraun.n...@gmail.com> wrote: > >> Is this on "snapperkob" or on a different machine? Do you >> have /usr/lib/x86_64-linux-gnu/libgomp.so.* and if yes, which version? >> >> >> >> On Thursday, November 20, 2014 12:02:18 PM UTC, pipedream wrote: >>> >>> Hi >>> >>> I rebuilt sage from a cleanly unpacked source tree on Ubuntu 14.04, and >>> it still did not fail on R >>> >>> >>> export SAGE_INSTALL_GCC=yes >>> make >>> ... >>> Successfully installed r-3.1.1.p0 >>> >>> I'd like to assist running any tests to get this fixed. >>> >>> Regards, >>> Jan >>> >>> >>> On 19 November 2014 09:09, Jan Groenewald <j...@aims.ac.za> wrote: >>> >>>> Hi >>>> >>>> I did >>>> >>>> $SAGE_INSTALL_GCC=yes make >>>> >>>> in the already built source tree, and it seemed to rebuild the relevant >>>> parts without failing. Is that enough or should I try it in a cleanly >>>> unpacked source tree? >>>> >>>> Regards, >>>> Jan >>>> >>>> >>>> On 18 November 2014 15:56, Jan Groenewald <j...@aims.ac.za> wrote: >>>> >>>>> Will do. >>>>> >>>>> Regards, >>>>> Jan >>>>> >>>>> >>>>> On 18 November 2014 15:29, Volker Braun <vbrau...@gmail.com> wrote: >>>>> >>>>>> Try building with SAGE_INSTALL_GCC=yes, I'm pretty sure this is >>>>>> causing the problem. >>>>>> >>>>>> On Tuesday, November 18, 2014 11:56:03 AM UTC, pipedream wrote: >>>>>>> >>>>>>> Hi >>>>>>> >>>>>>> This is strange, the error I see is: >>>>>>> >>>>>>> /home/buildbot/build/sage/snapperkob/sage_git/build/local/var/tmp/sage/build/r-3.1.1.p0/src/bin/exec/R: >>>>>>> /usr/lib/x86_64-linux-gnu/libgomp.so.1: version `GOMP_4.0' not found >>>>>>> (required by >>>>>>> /home/buildbot/build/sage/snapperkob/sage_git/build/local/var/tmp/sage/build/r-3.1.1.p0/src/lib/libR.so) >>>>>>> >>>>>>> I have the same version of libgomp1 (4.8.2-19ubuntu1) installed on >>>>>>> my 14.04 64bit desktop as that builder (snapperkob) and yet sage 6.4 >>>>>>> built >>>>>>> succesfully on my desktop yesterday: >>>>>>> >>>>>>> "Successfully installed r-3.1.1.p0" >>>>>>> >>>>>>> Regards, >>>>>>> Jan >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> On 18 November 2014 13:22, Volker Braun <vbrau...@gmail.com> wrote: >>>>>>> >>>>>>>> The build failed because R insists on using openmp for some reason, >>>>>>>> but the openmp libraries are not installed (or of the wrong version): >>>>>>>> >>>>>>>> http://build.sagedev.org/release/builders/Zbin%20%20fast% >>>>>>>> 20AIMS%20snapperkob%20%28Ubuntu%2014.04%20x86_64%29%20binary >>>>>>>> /builds/1/steps/compile_2/logs/r-project >>>>>>>> >>>>>>>> >>>>>>>> On Tuesday, November 18, 2014 5:00:26 AM UTC, pipedream wrote: >>>>>>>>> >>>>>>>>> Hi >>>>>>>>> >>>>>>>>> I do not see the 14.04 Ubuntu binaries here. >>>>>>>>> http://boxen.math.washington.edu/home/sagemath/sage-mirror/l >>>>>>>>> inux/64bit/index.html >>>>>>>>> >>>>>>>>> Are they not automatically generated? >>>>>>>>> >>>>>>>>> Regards, >>>>>>>>> Jan >>>>>>>>> >>>>>>>>> On 17 November 2014 17:17, kcrisman <kcri...@gmail.com> wrote: >>>>>>>>> >>>>>>>>>> The release notes have a broken link in them: >>>>>>>>>>> >>>>>>>>>>> http://boxen.math.washington.edu/home/release/sage-6.4/ >>>>>>>>>>> tickets.html >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>> Yes, that has been reported before... >>>>>>>>>> >>>>>>>>>> By the way, Jeroen, I think I finished all the changes I'm going >>>>>>>>>> to for now. Long-term, it would be fun to do some database thingie >>>>>>>>>> to >>>>>>>>>> standardize names of a few very frequent contributors who have them >>>>>>>>>> in a >>>>>>>>>> couple different formats. >>>>>>>>>> >>>>>>>>>> >>> -- >>> .~. >>> /V\ Jan Groenewald >>> /( )\ www.aims.ac.za >>> ^^-^^ >>> >> -- >> You received this message because you are subscribed to the Google Groups >> "sage-release" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to sage-release+unsubscr...@googlegroups.com. >> To post to this group, send email to sage-release@googlegroups.com. >> Visit this group at http://groups.google.com/group/sage-release. >> For more options, visit https://groups.google.com/d/optout. >> > > > > -- > .~. > /V\ Jan Groenewald > /( )\ www.aims.ac.za > ^^-^^ > -- .~. /V\ Jan Groenewald /( )\ www.aims.ac.za ^^-^^ -- You received this message because you are subscribed to the Google Groups "sage-release" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-release+unsubscr...@googlegroups.com. To post to this group, send email to sage-release@googlegroups.com. Visit this group at http://groups.google.com/group/sage-release. For more options, visit https://groups.google.com/d/optout.
