Also, sqlite has been updated in sagemath 9.0, as well as we have there https://trac.sagemath.org/ticket/28511 which is meant to help with skew clock issues.
On Wed, 25 Mar 2020, 14:42 Dima Pasechnik, <dimp...@gmail.com> wrote: > > > On Wed, 25 Mar 2020, 14:19 Kashif Bari, <kashb...@gmail.com> wrote: > >> I do not believe I I have permissions to build on a disk physically in >> the machine being used. >> > > you may ask for, at least, explaining that you have a problem with skew > timestamps. > > > The scratch folder is where I was told to install any software that I wish >> to use. The home directory that I have is not large enough to install >> anything. >> >> On Tue, Mar 24, 2020 at 8:43 PM Dima Pasechnik <dimp...@gmail.com> wrote: >> >>> >>> >>> On Wed, 25 Mar 2020, 02:21 Kashif Bari, <kashb...@gmail.com> wrote: >>> >>>> Hi Dima, >>>> >>>> I am building locally, as this is a university cluster and I only have >>>> access to my local directories. >>>> >>> >>> by "local" I mean the filesystem on a disk physically in the machine you >>> are using, >>> as opposed to a networked file system, often used on HPC clusters. >>> >>> HPC clusters usually give users space for their home directories on >>> networked file systems, and for "scratch" partitions too. >>> >>> >>>> Unfortunately, this did not resolve the issue and this line was added >>>> to my output: >>>> >>>> [sqlite-3270100] configure: WARNING: unrecognized options: >>>> --disable-maintainer-mode >>>> >>>> In the log file, it still has this as the last error: >>>> >>>> configure: error: in >>>> `/scratch/user/kbari/sage-8.9/local/var/tmp/sage/build/sqlite-3270100/src': >>>> configure: error: C compiler cannot create executables >>>> >>>> Best, >>>> Kash >>>> >>>> On Tue, Mar 24, 2020 at 7:53 AM Dima Pasechnik <dimp...@gmail.com> >>>> wrote: >>>> >>>>> On Tue, Mar 24, 2020 at 4:51 PM Kashif Bari <kashb...@gmail.com> >>>>> wrote: >>>>> > >>>>> > I believe I was able to resolve the issue with mpc-1.1.0 by loading >>>>> a more recent version of the texinfo package! Hopefully others who have >>>>> this issue will be able to resolve it similarly. >>>>> > >>>>> > However, I ended up running into this issue when running make again: >>>>> > >>>>> > Error building Sage. >>>>> > >>>>> > The following package(s) may have failed to build (not necessarily >>>>> > during this run of 'make all-start'): >>>>> > >>>>> > * package: sqlite-3270100 >>>>> > log file: /scratch/user/kbari/sage-8.9/logs/pkgs/sqlite-3270100.log >>>>> > build directory: >>>>> /scratch/user/kbari/sage-8.9/local/var/tmp/sage/build/sqlite-3270100 >>>>> > >>>>> > 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: *** [all-start] Error 1 >>>>> > >>>>> >>>>> this is a familiar problem, due to skew clocks on your system, I >>>>> suppose. >>>>> Is /scratch/ a local filesystem? If not, you'd better try building on >>>>> a local filesystem. >>>>> (the problem is that sq >>>>> In the upcoming release one should be able to use sqlite from the >>>>> system, >>>>> thanks to https://trac.sagemath.org/ticket/29002 >>>>> >>>>> One way around this should be to change the line >>>>> >>>>> sdh_configure >>>>> >>>>> near the bottom of build/pkgs/sqlite/spkg-install >>>>> >>>>> to be >>>>> >>>>> sdh_configure --disable-maintainer-mode >>>>> >>>>> and try again running make again. >>>>> >>>>> (This change should make sqlite's ./configure less sensitive to skew >>>>> clock) >>>>> >>>>> HTH, >>>>> Dima >>>>> >>>>> >>>>> >>>>> > It seems CentOS doesn't like when I install Sage! Thank you all once >>>>> again for all your helpful comments! >>>>> > >>>>> > On Wed, Mar 18, 2020 at 11:33 PM Dima Pasechnik <dimp...@gmail.com> >>>>> wrote: >>>>> >> >>>>> >> On Thu, Mar 19, 2020 at 12:25 PM Kashif Bari <kashb...@gmail.com> >>>>> wrote: >>>>> >> > >>>>> >> > Thank you, Dima, I was able to load the texinfo package before I >>>>> did make and I believe this resolved my issue with mpfr. However, I ran >>>>> into the same issue with mpc-1.1.0 now instead of mpfr. >>>>> >> >>>>> >> hmm, the same? If you have now makeinfo installed, it should be a >>>>> >> different issue. >>>>> >> >>>>> >> > >>>>> >> > I currently have sage 8.9 installed on my personal laptop, so I >>>>> figured I would stick with the same version that I know my code runs on. >>>>> >> > >>>>> >> > On Wed, Mar 18, 2020 at 9:56 PM Dima Pasechnik <dimp...@gmail.com> >>>>> wrote: >>>>> >> >> >>>>> >> >> mpfr needs makeinfo program to be installed. This is a pretty >>>>> standard thing, >>>>> >> >> which on Centos is in texinfo package >>>>> >> >> >>>>> https://centos.pkgs.org/7/centos-x86_64/texinfo-5.1-5.el7.x86_64.rpm.html >>>>> >> >> >>>>> >> >> >>>>> >> >> By the way, why are you building Sage 8.9, and not 9.0? >>>>> >> >> >>>>> >> >> On Thu, Mar 19, 2020 at 7:00 AM Kashif Bari <kashb...@gmail.com> >>>>> wrote: >>>>> >> >> > >>>>> >> >> > I am trying to install Sage version 8.9 on the High >>>>> performance cluster at my university, which runs Linux (CentOS 7). I am >>>>> installing to my local "scratch" folder since I do not have administrative >>>>> permissions. I am trying to install from source code as the pre-built >>>>> binaries are for Ubuntu and Debian and did not work for me and I was >>>>> unsure >>>>> if they would work on CentOS 7. I was able to run ./configure without any >>>>> issues and then when i did make, I received the following log file >>>>> (attached) and error: >>>>> >> >> > >>>>> >> >> > Error building Sage. >>>>> >> >> > >>>>> >> >> > The following package(s) may have failed to build (not >>>>> necessarily >>>>> >> >> > during this run of 'make all-start'): >>>>> >> >> > >>>>> >> >> > * package: mpfr-4.0.1.p0 >>>>> >> >> > log file: >>>>> /scratch/user/kbari/sage-8.9/logs/pkgs/mpfr-4.0.1.p0.log >>>>> >> >> > build directory: >>>>> /scratch/user/kbari/sage-8.9/local/var/tmp/sage/build/mpfr-4.0.1.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[1]: *** [all-start] Error 1 >>>>> >> >> > make[1]: Leaving directory `/scratch/user/kbari/sage-8.9' >>>>> >> >> > make: *** [all] Error 2 >>>>> >> >> > >>>>> >> >> > >>>>> >> >> > I have tried to contact the help and support for the cluster, >>>>> but they do not know much about Sage. Any help would be greatly >>>>> appreciated! Thank you for your time! >>>>> >> >> > >>>>> >> >> > -- >>>>> >> >> > 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/9d94553b-f5b0-435b-93c5-7724c3422cc3%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/CAAWYfq0p1Z5t8KZmWvPqdqstOS77eaLveTs5w8qsOXp6EwK67w%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/CAJoD6MJFKbvovOSj_zLpBohUPtaPFYP%3Dpx8XKza5Lhb%2ByAiqFA%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/CAAWYfq1iCUYRzukvrD95DKgg%3DtJhLoDHcDEmZiddwG%2BGADCDgg%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/CAJoD6M%2BXkyeCsj9wpgCfVXU52YMoOrLUMZ1Je4F7in4orW1iqw%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/CAAWYfq31HJwhzkzSwAVzG32d_ahfPARm%3DHja41ze%3D3yxC5F10w%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/CAJoD6MLgEfp_0WHwA2GpQykbMoij5UUi-nyeYvDwmbTfe6CJZg%40mail.gmail.com >>>> <https://groups.google.com/d/msgid/sage-support/CAJoD6MLgEfp_0WHwA2GpQykbMoij5UUi-nyeYvDwmbTfe6CJZg%40mail.gmail.com?utm_medium=email&utm_source=footer> >>>> . >>>> >>> -- >>> 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/CAAWYfq2svfW3SQDi%2BOUW%3DGF4eMjvQvOG5HU0fBb7Jh-5siGBgQ%40mail.gmail.com >>> <https://groups.google.com/d/msgid/sage-support/CAAWYfq2svfW3SQDi%2BOUW%3DGF4eMjvQvOG5HU0fBb7Jh-5siGBgQ%40mail.gmail.com?utm_medium=email&utm_source=footer> >>> . >>> >> -- >> 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/CAJoD6MKLZtAd1bkA0qLKzcuLt5gQ11%3D7FYkUaUzB-JRGLMEZ6A%40mail.gmail.com >> <https://groups.google.com/d/msgid/sage-support/CAJoD6MKLZtAd1bkA0qLKzcuLt5gQ11%3D7FYkUaUzB-JRGLMEZ6A%40mail.gmail.com?utm_medium=email&utm_source=footer> >> . >> > -- You received this message because you are subscribed to the Google Groups "sage-support" group. 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