June 2020 - openSUSE Science - openSUSE Mailing Lists

Re: [opensuse-science] openmpi 4
by Egbert Eich 16 Jul '20

16 Jul '20

Hi Alin, Alin Marin Elena writes: > Hi, > > I see openmpi 4 is nicely in the science and hpc packages but nothing > else seems to be built against it. > > Is there any reason why we do not build against openmpi4? Well, mostly time, I'd guess - thing with higher priority. As sonn as I find time, I will do it - unless someone beats me to it ;) Cheers, Egbert. > > Regards, > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > -- > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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Re: [opensuse-science] openmpi 4
by Egbert Eich 01 Jul '20

01 Jul '20

Hi! Alin Marin Elena writes: > I can start looking into it if you point me to the dev repos to branch > from them. Thanks for the offer! Most relevant libraries would be in this project: https://build.opensuse.org/project/show/science The following packages in there use MPI and are 'environment module aware': scalapach petsc hdf5 netcdf netcdf-fortran adios mumps scotch hypre trilinos There are a few packages from other projects: multimedia:libs fftw3 science:HPC mpiP science:HPC imb > as far as I remember we shall just add one more option in a config file. Yes, almost. The job is fairly straight forward, not to say boring: you'd probably duplicate the openmpi3 setup in the spec file and _multibuild file. Some spec files may have macros to individually disable openmpi versions - you may want to duplicate these for openmpi4 as well, probably. If you want me to review, you may want to start with one and I will look it over once you've submitted it. Thanks! Cheers, Egbert. > > Regards, > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Tue, 23 Jun 2020 at 19:39, Egbert Eich <eich(a)suse.com> wrote: > > > > > > Hi Alin, > > > > Alin Marin Elena writes: > > > Hi, > > > > > > I see openmpi 4 is nicely in the science and hpc packages but nothing > > > else seems to be built against it. > > > > > > Is there any reason why we do not build against openmpi4? > > > > Well, mostly time, I'd guess - thing with higher priority. > > > > As sonn as I find time, I will do it - unless someone beats > > me to it ;) > > > > Cheers, > > Egbert. > > > > > > > > Regards, > > > Alin > > > > > > Without Questions there are no Answers! > > > ______________________________________________________________________ > > > Dr. Alin Marin ELENA > > > http://alin.elena.space/ > > > ______________________________________________________________________ > > > -- > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > -- > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > Tel: +49 911-740 53 0 https://www.suse.com > > ----------------------------------------------------------------------- > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > Geschaeftsfuehrer: Felix Imendoerffer > > (HRB 36809, AG Nürnberg) > > -- > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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Re: [opensuse-science] fftw3 wrong module dep on gnu-10
by Egbert Eich 24 Jun '20

24 Jun '20

Alin Marin Elena writes: > Hi, > > fftw3 provides the wrong dep on tumbleweed > > rpm -ql libfftw3_3_3_8-gnu-hpc > .... > /usr/share/lmod/moduledeps/gnu-9/fftw3 > /usr/share/lmod/moduledeps/gnu-9/fftw3/.version.3.3.8 > /usr/share/lmod/moduledeps/gnu-9/fftw3/3.3.8 > > I looked in multimedia:fftw3 but i fail to see any issue, i wonder if > there is a macro going astray. Are you referring to that this still is using gcc9 although we have gcc10 in TW already? There was likely an issue with a dependency somewhere so that gcc10 version has not been built yet. This should be ok now - fftw3 has built with gcc10 in oS:Factory: https://build.opensuse.org/package/show/openSUSE:Factory/fftw3 The library package from there correctly has: ... /usr/share/lmod/moduledeps/gnu-10/fftw3 /usr/share/lmod/moduledeps/gnu-10/fftw3/.version.3.3.8 /usr/share/lmod/moduledeps/gnu-10/fftw3/3.3.8 ... So the next TW update should have this fixed. Cheers, Egbert. > > Alin > > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > -- > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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Re: [opensuse-science] gnu7- gnu8- gnu9- in hpc
by Egbert Eich 24 Jun '20

24 Jun '20

Alin Marin Elena writes: > Hi, > > I see in the spec files gnu7- gnu80.... > > I noticed they are not really consistent across > > for example gnu7- and gnu- only in multimedia fftw3 but a lot more of > them in science:scalapack This is more an oversight. These were added mainly to allow building these libraries with newer-than-stock compilers on Leap and SLE. We have never really followed up on this as it would have made the number of packages to ship explode. In order to determine for which libraries this actually makes sense, we'd have to create meaningful benchmarks for each. All this still builds for a 'stock CPU' ie none of these builds are able to take advantage of the nice optimization features newer (or specific) CPUs are providing. Cheers, Egbert. > > Regards, > Alin > > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > -- > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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Re: [opensuse-science] openmpi 4
by Egbert Eich 24 Jun '20

24 Jun '20

Alin Marin Elena writes: > Hi Egbert, > > I think I missed the do not build macro. can you please have a look at it? > I have duplicated the ompi3 one for the moment. You've added the: %{?DisOMPI4} you don't necessarily have to define these macros. We usually use them to disable builds for certain SLE flavors so we don't have to change the _multibuild file constantly. So you could use it to disable the build for SLE-15 (where no openmpi4 is built for in the devel project). For SLE maintenance updates we'd have to set it to anything <= SLE-15-SP2 - (unless we decide to introduce openmpi4 to SLE-15-SP2). So, there is no need to define the macros now - the %{?..} makes sure it is expanded only when defined. Cheers, Egbert. > > Regards, > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Wed, 24 Jun 2020 at 06:21, Egbert Eich <eich(a)suse.com> wrote: > > > > Hi Alin! > > > > Alin Marin Elena writes: > > > Thanks Egbert! > > > > > > i had a look at hdf5... > > > > > > https://build.opensuse.org/package/show/home:ealin:branches:science/hdf5 > > > > > > there are few unresolvables which are think are ok, since probably > > > openmpi4 is not build for all platforms. > > > > looks good! > > Please add a changelog entry ('osc vc') commit it ('osc ci') and > > submit the results ('osc sr') to science/hdf5. > > > > Thanks a lot! > > > > Cheers, > > Egbert. > > > > > > Regards, > > > Alin > > > > > > Without Questions there are no Answers! > > > ______________________________________________________________________ > > > Dr. Alin Marin ELENA > > > http://alin.elena.space/ > > > ______________________________________________________________________ > > > > > > On Tue, 23 Jun 2020 at 20:08, Egbert Eich <eich(a)suse.com> wrote: > > > > > > > > > > > > Hi! > > > > > > > > Alin Marin Elena writes: > > > > > I can start looking into it if you point me to the dev repos to branch > > > > > from them. > > > > > > > > Thanks for the offer! > > > > > > > > Most relevant libraries would be in this project: > > > > https://build.opensuse.org/project/show/science > > > > The following packages in there use MPI and are > > > > 'environment module aware': > > > > scalapach > > > > petsc > > > > hdf5 > > > > netcdf > > > > netcdf-fortran > > > > adios > > > > mumps > > > > scotch > > > > hypre > > > > trilinos > > > > > > > > There are a few packages from other projects: > > > > > > > > multimedia:libs fftw3 > > > > science:HPC mpiP > > > > science:HPC imb > > > > > > > > > > > > > as far as I remember we shall just add one more option in a config file. > > > > > > > > Yes, almost. > > > > The job is fairly straight forward, not to say boring: > > > > you'd probably duplicate the openmpi3 setup in the spec file > > > > and _multibuild file. > > > > Some spec files may have macros to individually disable openmpi > > > > versions - you may want to duplicate these for openmpi4 as well, > > > > probably. > > > > > > > > If you want me to review, you may want to start with one and I will look > > > > it over once you've submitted it. > > > > > > > > Thanks! > > > > > > > > Cheers, > > > > Egbert. > > > > > > > > > > > > > > Regards, > > > > > Alin > > > > > > > > > > Without Questions there are no Answers! > > > > > ______________________________________________________________________ > > > > > Dr. Alin Marin ELENA > > > > > http://alin.elena.space/ > > > > > ______________________________________________________________________ > > > > > > > > > > On Tue, 23 Jun 2020 at 19:39, Egbert Eich <eich(a)suse.com> wrote: > > > > > > > > > > > > > > > > > > Hi Alin, > > > > > > > > > > > > Alin Marin Elena writes: > > > > > > > Hi, > > > > > > > > > > > > > > I see openmpi 4 is nicely in the science and hpc packages but nothing > > > > > > > else seems to be built against it. > > > > > > > > > > > > > > Is there any reason why we do not build against openmpi4? > > > > > > > > > > > > Well, mostly time, I'd guess - thing with higher priority. > > > > > > > > > > > > As sonn as I find time, I will do it - unless someone beats > > > > > > me to it ;) > > > > > > > > > > > > Cheers, > > > > > > Egbert. > > > > > > > > > > > > > > > > > > > > Regards, > > > > > > > Alin > > > > > > > > > > > > > > Without Questions there are no Answers! > > > > > > > ______________________________________________________________________ > > > > > > > Dr. Alin Marin ELENA > > > > > > > http://alin.elena.space/ > > > > > > > ______________________________________________________________________ > > > > > > > -- > > > > > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > > > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > > > > > > > > > -- > > > > > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > > > > > Tel: +49 911-740 53 0 https://www.suse.com > > > > > > ----------------------------------------------------------------------- > > > > > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > > > > > Geschaeftsfuehrer: Felix Imendoerffer > > > > > > (HRB 36809, AG Nürnberg) > > > > > > -- > > > > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > > > > > > > > > > > -- > > > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > > > Tel: +49 911-740 53 0 https://www.suse.com > > > > ----------------------------------------------------------------------- > > > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > > > Geschaeftsfuehrer: Felix Imendoerffer > > > > (HRB 36809, AG Nürnberg) > > > > -- > > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > > > > > -- > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > Tel: +49 911-740 53 0 https://www.suse.com > > ----------------------------------------------------------------------- > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > Geschaeftsfuehrer: Felix Imendoerffer > > (HRB 36809, AG Nürnberg) > > -- > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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[opensuse-science] fftw3 wrong module dep on gnu-10
by Alin Marin Elena 24 Jun '20

24 Jun '20

Hi, fftw3 provides the wrong dep on tumbleweed rpm -ql libfftw3_3_3_8-gnu-hpc .... /usr/share/lmod/moduledeps/gnu-9/fftw3 /usr/share/lmod/moduledeps/gnu-9/fftw3/.version.3.3.8 /usr/share/lmod/moduledeps/gnu-9/fftw3/3.3.8 I looked in multimedia:fftw3 but i fail to see any issue, i wonder if there is a macro going astray. Alin Without Questions there are no Answers! ______________________________________________________________________ Dr. Alin Marin ELENA http://alin.elena.space/ ______________________________________________________________________ -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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[opensuse-science] gnu7- gnu8- gnu9- in hpc
by Alin Marin Elena 24 Jun '20

24 Jun '20

Hi, I see in the spec files gnu7- gnu80.... I noticed they are not really consistent across for example gnu7- and gnu- only in multimedia fftw3 but a lot more of them in science:scalapack Regards, Alin Without Questions there are no Answers! ______________________________________________________________________ Dr. Alin Marin ELENA http://alin.elena.space/ ______________________________________________________________________ -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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Re: [opensuse-science] openmpi 4
by Egbert Eich 24 Jun '20

24 Jun '20

Hi Alin! Alin Marin Elena writes: > Thanks Egbert! > > i had a look at hdf5... > > https://build.opensuse.org/package/show/home:ealin:branches:science/hdf5 > > there are few unresolvables which are think are ok, since probably > openmpi4 is not build for all platforms. looks good! Please add a changelog entry ('osc vc') commit it ('osc ci') and submit the results ('osc sr') to science/hdf5. Thanks a lot! Cheers, Egbert. > > Regards, > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Tue, 23 Jun 2020 at 20:08, Egbert Eich <eich(a)suse.com> wrote: > > > > > > Hi! > > > > Alin Marin Elena writes: > > > I can start looking into it if you point me to the dev repos to branch > > > from them. > > > > Thanks for the offer! > > > > Most relevant libraries would be in this project: > > https://build.opensuse.org/project/show/science > > The following packages in there use MPI and are > > 'environment module aware': > > scalapach > > petsc > > hdf5 > > netcdf > > netcdf-fortran > > adios > > mumps > > scotch > > hypre > > trilinos > > > > There are a few packages from other projects: > > > > multimedia:libs fftw3 > > science:HPC mpiP > > science:HPC imb > > > > > > > as far as I remember we shall just add one more option in a config file. > > > > Yes, almost. > > The job is fairly straight forward, not to say boring: > > you'd probably duplicate the openmpi3 setup in the spec file > > and _multibuild file. > > Some spec files may have macros to individually disable openmpi > > versions - you may want to duplicate these for openmpi4 as well, > > probably. > > > > If you want me to review, you may want to start with one and I will look > > it over once you've submitted it. > > > > Thanks! > > > > Cheers, > > Egbert. > > > > > > > > Regards, > > > Alin > > > > > > Without Questions there are no Answers! > > > ______________________________________________________________________ > > > Dr. Alin Marin ELENA > > > http://alin.elena.space/ > > > ______________________________________________________________________ > > > > > > On Tue, 23 Jun 2020 at 19:39, Egbert Eich <eich(a)suse.com> wrote: > > > > > > > > > > > > Hi Alin, > > > > > > > > Alin Marin Elena writes: > > > > > Hi, > > > > > > > > > > I see openmpi 4 is nicely in the science and hpc packages but nothing > > > > > else seems to be built against it. > > > > > > > > > > Is there any reason why we do not build against openmpi4? > > > > > > > > Well, mostly time, I'd guess - thing with higher priority. > > > > > > > > As sonn as I find time, I will do it - unless someone beats > > > > me to it ;) > > > > > > > > Cheers, > > > > Egbert. > > > > > > > > > > > > > > Regards, > > > > > Alin > > > > > > > > > > Without Questions there are no Answers! > > > > > ______________________________________________________________________ > > > > > Dr. Alin Marin ELENA > > > > > http://alin.elena.space/ > > > > > ______________________________________________________________________ > > > > > -- > > > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > > > > > -- > > > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > > > Tel: +49 911-740 53 0 https://www.suse.com > > > > ----------------------------------------------------------------------- > > > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > > > Geschaeftsfuehrer: Felix Imendoerffer > > > > (HRB 36809, AG Nürnberg) > > > > -- > > > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > > > > > > -- > > Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC > > Tel: +49 911-740 53 0 https://www.suse.com > > ----------------------------------------------------------------------- > > SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg > > Geschaeftsfuehrer: Felix Imendoerffer > > (HRB 36809, AG Nürnberg) > > -- > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > -- Egbert Eich (Res. & Dev.) SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 https://www.suse.com ----------------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer (HRB 36809, AG Nürnberg) -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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[opensuse-science] openmpi 4
by Alin Marin Elena 23 Jun '20

23 Jun '20

Hi, I see openmpi 4 is nicely in the science and hpc packages but nothing else seems to be built against it. Is there any reason why we do not build against openmpi4? Regards, Alin Without Questions there are no Answers! ______________________________________________________________________ Dr. Alin Marin ELENA http://alin.elena.space/ ______________________________________________________________________ -- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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[opensuse-science] Bumping ROOT version from 5.34/38 (2018) to 6.20/04 (2020)
by Steinhagen, Ralph Dr. 09 Jun '20

09 Jun '20

Hi, I like the fact that the OpenSuse Science repository exists. Lot's of tools that I otherwise would need to regularly recompile by hand. I was wondering whether this is still actively maintained and/or how to ask for bumping a version of a particular package? I am looking in particular for the v6 version of CERN's ROOT package (Tumbleweed) with most of its sub-modules enabled... Any help would be much appreciated! Thanks in advance. Kind regards, Ralph-- To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org

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