- openSUSE Science

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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[opensuse-science] boost
by Alin Marin Elena 06 Jun '20

06 Jun '20

Hi I am looking on tumbleweed at boost rpm -ql boost_1_71_0-gnu-openmpi3-hpc-devel seems to be still on gnu9... when default is gnu10... also any plans on getting openmpi4? 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] Disabling/removing SLE11_SP4, SLE12 and SLE15_SP0?
by Stefan Brüns 01 Apr '20

01 Apr '20

Hi everyone, I propose to remove the above three repositories from the science project: SLE11_SP4: - most packages fail or are unresolvable - the remaining packages may be inconsistent, as many dependencies fail to build. SLE12: - builds against Tool:SLE_12, so is a misnomer - SLE12_SP0 is out of maintenance - not in as bad a shape as SLE11_SP4, but still ... SLE15(_SP0): - there are SLE15_SP1 and SLE15_SP2 Kind regards, Stefan -- Stefan Brüns / Bergstraße 21 / 52062 Aachen home: +49 241 53809034 mobile: +49 151 50412019

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Re: [opensuse-science] HPC modules for non-default gcc versions
by Egbert Eich 02 Mar '20

02 Mar '20

Christian Neyers writes: > Hi all, > > we currently have the `gnu-compilers-hpc` package that mirrors the compiler > version of the "default" gcc package, i.e. version 7 currently in 15.0 and > 15.1. The spec file actually defines different flavours, but they are not > enabled in the _multibuild. > > Are there plans to enable them at some point? Or some issues holding it back? for Leap 15 and 15.1 this is actually under way: once the updates to gnu-compilers-hpc for SLE-HPC 15 and SLE-HPC 15 SP1 have gone thru QA and are released, this should show up as a Leap maintenance update automagically. Cheers, Egbert. -- 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] load boost module
by Egbert Eich 28 Feb '20

28 Feb '20

Yes, indeed :( Darn :(( I will see if I can find a fix quickly. Cheers, Egbert. Alin Marin Elena writes: > Hi Egbert, > > it works exactly as you say, but the openmpi3 version has no headers installed. > > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Fri, 28 Feb 2020 at 14:22, Egbert Eich <eich(a)suse.com> wrote: > > > > > > > > Hi Alin, > > > > this shouldn't be a problem - the directory is different: > > /usr/share/lmod/moduledeps/gnu-9/boost (serial) > > and > > /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost (openmpi3) > > > > If you do > > $ module load gnu > > you will get the serial version as > > /usr/share/lmod/moduledeps/gnu-9-openmpi-3 > > is not in the module search path. > > However, if you do > > $ module load gnu openmpi3 > > /usr/share/lmod/moduledeps/gnu-9-openmpi-3 will be prepended > > to the search path and you will get the openmpi3 variant. > > > > Doesn't this work for you? > > > > Cheers, > > Egbert. > > > > Alin Marin Elena writes: > > > Hi Egbert, > > > > > > also since you are at this, it seems modules have the same name for > > > serial and mpi, resulting in bad loading when you have mpi loaded.. > > > seen this with openmpi. > > > > > > Yours, > > > Alin > > > Without Questions there are no Answers! > > > ______________________________________________________________________ > > > Dr. Alin Marin ELENA > > > http://alin.elena.space/ > > > ______________________________________________________________________ > > > > > > On Fri, 28 Feb 2020 at 13:41, Egbert Eich <eich(a)suse.com> wrote: > > > > > > > > > > > > Hi Alin! > > > > > > > > Oops, you're right. The spec file looks wrong. > > > > Lemme fix this. > > > > > > > > Thanks a lot for the report! > > > > > > > > Cheers, > > > > Egbert. > > > > > > > > Alin Marin Elena writes: > > > > > Hi, > > > > > > > > > > I try to load boost module, hpc version with openmpi and i get the error below. > > > > > > > > > > cause is the [0-9] which wants to be escaped \[0-9\] > > > > > > > > > > module load boost > > > > > Lmod has detected the following error: > > > > > /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0: > > > > > (boost/1.71.0): invalid command name "0-9" > > > > > While processing the following module(s): > > > > > Module fullname Module Filename > > > > > --------------- --------------- > > > > > boost/1.71.0 /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0 > > > > > > > > > > > > > > > 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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Re: [opensuse-science] load boost module
by Egbert Eich 28 Feb '20

28 Feb '20

Hi Alin, this shouldn't be a problem - the directory is different: /usr/share/lmod/moduledeps/gnu-9/boost (serial) and /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost (openmpi3) If you do $ module load gnu you will get the serial version as /usr/share/lmod/moduledeps/gnu-9-openmpi-3 is not in the module search path. However, if you do $ module load gnu openmpi3 /usr/share/lmod/moduledeps/gnu-9-openmpi-3 will be prepended to the search path and you will get the openmpi3 variant. Doesn't this work for you? Cheers, Egbert. Alin Marin Elena writes: > Hi Egbert, > > also since you are at this, it seems modules have the same name for > serial and mpi, resulting in bad loading when you have mpi loaded.. > seen this with openmpi. > > Yours, > Alin > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Fri, 28 Feb 2020 at 13:41, Egbert Eich <eich(a)suse.com> wrote: > > > > > > Hi Alin! > > > > Oops, you're right. The spec file looks wrong. > > Lemme fix this. > > > > Thanks a lot for the report! > > > > Cheers, > > Egbert. > > > > Alin Marin Elena writes: > > > Hi, > > > > > > I try to load boost module, hpc version with openmpi and i get the error below. > > > > > > cause is the [0-9] which wants to be escaped \[0-9\] > > > > > > module load boost > > > Lmod has detected the following error: > > > /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0: > > > (boost/1.71.0): invalid command name "0-9" > > > While processing the following module(s): > > > Module fullname Module Filename > > > --------------- --------------- > > > boost/1.71.0 /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0 > > > > > > > > > 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] load boost module
by Egbert Eich 28 Feb '20

28 Feb '20

Hi Alin! Oops, you're right. The spec file looks wrong. Lemme fix this. Thanks a lot for the report! Cheers, Egbert. Alin Marin Elena writes: > Hi, > > I try to load boost module, hpc version with openmpi and i get the error below. > > cause is the [0-9] which wants to be escaped \[0-9\] > > module load boost > Lmod has detected the following error: > /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0: > (boost/1.71.0): invalid command name "0-9" > While processing the following module(s): > Module fullname Module Filename > --------------- --------------- > boost/1.71.0 /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0 > > > 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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[opensuse-science] openmpi4
by Alin Marin Elena 28 Feb '20

28 Feb '20

Hi, any plans on adding openmpi4 in science? I expect some failures from older codes using it so may be a good idea. 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] load boost module
by Alin Marin Elena 28 Feb '20

28 Feb '20

Hi, I try to load boost module, hpc version with openmpi and i get the error below. cause is the [0-9] which wants to be escaped \[0-9\] module load boost Lmod has detected the following error: /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0: (boost/1.71.0): invalid command name "0-9" While processing the following module(s): Module fullname Module Filename --------------- --------------- boost/1.71.0 /usr/share/lmod/moduledeps/gnu-9-openmpi-3/boost/1.71.0 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] Build Repositores of project 'science' in OBS
by Egbert Eich 05 Dec '19

05 Dec '19

Christian Goll writes: > On 03.12.19 19:19, Egbert Eich wrote: > > > > Hi! > > > > looking at the project configuration of project 'science' in OBS > > I see > > - arch i586 is enabled for Factory and SUSE:SLE-11:SP4. > > To save build cycles this should probably be disabled by default: > > there is most likely not much scientiffic software around that > > is still used on 32bit. Where needed, this can be configured per > > package. > > - repository openSUSE_Tumbleweed points to the openSUSE:Factory > > which is confusing at best. Factory is not always in a consistent > > state and will trigger frequent rebuilds. I would suggest to > > 1. create a separate openSUSE_Factory repository whose build is > > disabled by default. If needed it can be enabled per package. > > 2. let openSUSE_Tumbleweed really point to a Tumbleweed build. > > - repository SLE_12 points to openSUSE:Tools repository SLE_12. > > Not sure what this was used for, it can probably be removed. > > > > Opinions? > > > > Cheers, > > Egbert. > > > Hello, > the same holds true for network:cluster which has a big overlap with > science. So there it should also be changed. > Yes, indeed. In fact, it should not have an overlap, but it also has a huge set of build targets - although I do remember cleaning up some. I did not see any further reply. If I don't see objections until next Monday, I will do the change. Cheers, Egbert. -- 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] Build Repositores of project 'science' in OBS
by Egbert Eich 04 Dec '19

04 Dec '19

Hi! looking at the project configuration of project 'science' in OBS I see - arch i586 is enabled for Factory and SUSE:SLE-11:SP4. To save build cycles this should probably be disabled by default: there is most likely not much scientiffic software around that is still used on 32bit. Where needed, this can be configured per package. - repository openSUSE_Tumbleweed points to the openSUSE:Factory which is confusing at best. Factory is not always in a consistent state and will trigger frequent rebuilds. I would suggest to 1. create a separate openSUSE_Factory repository whose build is disabled by default. If needed it can be enabled per package. 2. let openSUSE_Tumbleweed really point to a Tumbleweed build. - repository SLE_12 points to openSUSE:Tools repository SLE_12. Not sure what this was used for, it can probably be removed. Opinions? Cheers, Egbert. -- Egbert Eich (Res. & Dev.) SUSE LINUX GmbH SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 http://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] gsl
by Egbert Eich 17 Nov '19

17 Nov '19

Alin Marin Elena writes: > thank you Christian, seems to be solved now. > one other thing I noticed is the fact the so number is 25 but the library is 2.6 Looks like an omission with the last package update. Thanks for reporting! Cheers, Egbert. > > Alin > > Without Questions there are no Answers! > ______________________________________________________________________ > Dr. Alin Marin ELENA > http://alin.elena.space/ > ______________________________________________________________________ > > On Fri, 15 Nov 2019 at 09:56, Christian Goll <CGoll(a)suse.de> wrote: > > > > On 14.11.19 17:28, Christian Goll wrote: > > > > > > > > > On 14.11.19 16:35, Alin Marin Elena wrote: > > >> Hi, > > >> > > >> here is what I have > > >> > > >> Loading repository data... > > >> Reading installed packages... > > >> > > >> S | Name | Type | Version | Arch | > > >> Repository > > >> ---+-------------------------+---------+----------+--------+------------------------------------------------------------ > > >> > > >> i+ | gsl-gnu-hpc-devel | package | 2.6-30.7 | noarch | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | gsl_2_6-gnu-hpc-devel | package | 2.6-30.7 | x86_64 | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | gsl_2_6-gnu-hpc-module | package | 2.6-30.7 | noarch | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | libgsl25 | package | 2.6-30.6 | x86_64 | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | libgsl_2_6-gnu-hpc | package | 2.6-30.7 | x86_64 | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | libgslcblas0 | package | 2.6-30.6 | x86_64 | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> i+ | libgslcblas_2_6-gnu-hpc | package | 2.6-30.7 | x86_64 | Software > > >> for Scientists and Engineers (openSUSE_Tumbleweed) > > >> > > >> with repo > > >> 23 | science | Software for Scientists and > > >> Engineers (openSUSE_Tumbleweed) | Yes | > > >> (r ) > > >> Yes | Yes | 99 | rpm-md | > > >> http://download.opensuse.org/repositories/science/openSUSE_Tumbleweed/ > > >> | > > >> > > > > > > In the science project %hpc_libdir is expanded to > > > /usr/lib/hpc/gnu9/gsl/2.6/lib > > > where in Factory it is > > > /usr/lib/hpc/gnu9/gsl/2.6/lib64 > > > I will investigate this further. > > > > > > kind regards, > > > Christian > > > > > The problem here is the expansion of %hpc_libdir which is expanded > > either to: > > * /usr/lib/hpc/gnu9/gsl/2.6/lib, if the rpm is built remotely in the > > open build service, where the module rpm is taken from the 32bit built > > * /usr/lib/hpc/gnu9/gsl/2.6/lib64, if the rpm is built locally with osc > > build , where the module rpm is taken from the 64bit built. > > The fix is to move the module rpm from noarch to x86_64. I will do that. > > > > kind regards, > > Christian > > > > > > > > -- > > Christian Goll > > CGoll(a)suse.de > > > > SUSE Software Solutions Germany GmbH > > Maxfeldstr. 5 > > 90409 Nürnberg > > Germany > > > > (HRB 36809, AG Nürnberg) > > > > Geschäftsführer: Felix Imendörffer > > -- > > To unsubscribe, e-mail: opensuse-science+unsubscribe(a)opensuse.org > > To contact the owner, e-mail: opensuse-science+owner(a)opensuse.org > > > -- > 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 LINUX GmbH SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 http://www.suse.com ----------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer HRB 247165 (AG Muenchen) -- 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] boost and openmpi3
by Egbert Eich 17 Nov '19

17 Nov '19

Should be easy to add. This has just not been on the radar. Cheers, Egbert. Alin Marin Elena writes: > Any reason why openmpi3 is not available with boots? > > 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 LINUX GmbH SUSE Labs - Project Manager HPC Tel: +49 911-740 53 0 http://www.suse.com ----------------------------------------------------------------- SUSE Software Solutions Germany GmbH, Maxfeldstrasse 5, 90409 Nuernberg Geschaeftsfuehrer: Felix Imendoerffer HRB 247165 (AG Muenchen) -- 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] boost and openmpi3
by Alin Marin Elena 16 Nov '19

16 Nov '19

Any reason why openmpi3 is not available with boots? 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] valgrind enable mpi
by Alin Marin Elena 16 Nov '19

16 Nov '19

Hi, would be nice to have a valgrind with mpi enabled... various flavours. 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] gsl
by Alin Marin Elena 16 Nov '19

16 Nov '19

Hi, recently I have installed on tumbleweed gsl 2.6. the module associated with it seems to be wrong , LD_LIBRARY_PATH is not correct shall be /usr/lib/hpc/gnu9/gsl/2.6/lib64/ and of course other that use the same path. =========================== whatis("Name: gsl built with gnu toolchain ") whatis("Version: 2.6 ") whatis("Category: runtime library ") whatis("Description: GNU Scientific Library ") whatis("https://www.gnu.org/software/gsl/ ") prepend_path("PATH","/usr/lib/hpc/gnu9/gsl/2.6/bin") prepend_path("LD_LIBRARY_PATH","/usr/lib/hpc/gnu9/gsl/2.6/lib") setenv("GSL_DIR","/usr/lib/hpc/gnu9/gsl/2.6") setenv("GSL_BIN","/usr/lib/hpc/gnu9/gsl/2.6/bin") setenv("GSL_LIB","/usr/lib/hpc/gnu9/gsl/2.6/lib") prepend_path("LIBRARY_PATH","/usr/lib/hpc/gnu9/gsl/2.6/lib") prepend_path("MANPATH","/usr/lib/hpc/gnu9/gsl/2.6/share/man") prepend_path("INFOPATH","/usr/lib/hpc/gnu9/gsl/2.6/share/info") prepend_path("CPATH","/usr/lib/hpc/gnu9/gsl/2.6/include") prepend_path("C_INCLUDE_PATH","/usr/lib/hpc/gnu9/gsl/2.6/include") prepend_path("CPLUS_INCLUDE_PATH","/usr/lib/hpc/gnu9/gsl/2.6/include") prepend_path("INCLUDE","/usr/lib/hpc/gnu9/gsl/2.6/include") prepend_path("PKG_CONFIG_PATH","/usr/lib/hpc/gnu9/gsl/2.6/lib/pkgconfig") setenv("GSL_INC","/usr/lib/hpc/gnu9/gsl/2.6/include") family("gsl") help([[ This module loads the gsl library built with the gnu compiler toolchain. Version 2.6 ]]) ============= 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] HPC modules for non-default gcc versions
by Christian Neyers 27 Sep '19

27 Sep '19

Hi all, we currently have the `gnu-compilers-hpc` package that mirrors the compiler version of the "default" gcc package, i.e. version 7 currently in 15.0 and 15.1. The spec file actually defines different flavours, but they are not enabled in the _multibuild. Are there plans to enable them at some point? Or some issues holding it back? Cheers -- 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] [Package request] Tracker
by andythe_great 21 Sep '19

21 Sep '19

I would like to have Tracker be included in the repo. https://www.physlets.org/tracker/ Tracker is a free video analysis and modeling tool built on the Open Source Physics (OSP) Java framework. It is designed to be used in physics education. I have use Tracker myself before, I can say that it is very useful in education to study the motion of objects with camera. -- 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 and cmake broken
by Alin Marin Elena 30 Aug '19

30 Aug '19

Hi, trying to use the provide fftw3 cmake files provided it fails with CMake Error at /usr/lib/hpc/gnu9/fftw3/3.3.8/lib64/cmake/fftw3/FFTW3Config.cmake:13 (include): include could not find load file: /usr/lib/hpc/gnu9/fftw3/3.3.8/lib64/cmake/fftw3/FFTW3LibraryDepends.cmake Call Stack (most recent call first): CMakeLists.txt:7 (find_package) this is due to configure being used to install it. solution 1: use cmake to build it so the autogenerated file is done correcty solution 2: do not package cmake bits since they are broken. 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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