[PATCH] add parmetis

DoneSubmitted by Franck Pérignon.
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3 participants
  • Franck Pérignon
  • Leo Famulari
  • Ludovic Courtès
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unassigned
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normal
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Franck Pérignon wrote on 6 Apr 11:39 +0200
(address . guix-patches@gnu.org)
F54E8E4E-1750-4BB9-9676-8E70195ECDFF@univ-grenoble-alpes.fr
Hello,
the attached file adds parmetis (http://glaros.dtc.umn.edu/gkhome/metis/parmetis/overview)in guix, saved in gnu/packages/math.scm
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Leo Famulari wrote on 6 Apr 19:43 +0200
Re: [bug#47613] [PATCH]  add parmetis
(name . Franck Pérignon)(address . Franck.Perignon@univ-grenoble-alpes.fr)(address . 47613@debbugs.gnu.org)
YGyd353ZxjBzLw29@jasmine.lan
Subject: [PATCH] [PATCH] Add parmetis
Thanks!

+ (build-system cmake-build-system)+ (native-inputs `(("gcc" ,gcc)+ ("openmpi" ,openmpi)))
GCC is made available via the cmake-build-system, so I think we couldleave it out of native-inputs. Or am I missing something?
+ (arguments+ `(#:tests? #f ;no tests+ #:configure-flags `("-DSHARED=ON"+ ,"-DCMAKE_C_COMPILER=mpicc"+ ,"-DCMAKE_CXX_COMPILER=mpic++"+ ,"-DCMAKE_VERBOSE_MAKEFILE=1"+ ,(string-append "-DGKLIB_PATH=../parmetis-4.0.3/metis/GKlib")+ ,(string-append "-DMETIS_PATH=../parmetis-4.0.3/metis" ))))
We can avoid hard-coding the version string here, like this:
------
Toggle diff (51 lines)diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scmindex bdfa051db1..f0ebdd6009 100644--- a/gnu/packages/maths.scm+++ b/gnu/packages/maths.scm@@ -3348,8 +3348,10 @@ schemes.") ,"-DCMAKE_C_COMPILER=mpicc" ,"-DCMAKE_CXX_COMPILER=mpic++" ,"-DCMAKE_VERBOSE_MAKEFILE=1"- ,(string-append "-DGKLIB_PATH=../parmetis-4.0.3/metis/GKlib")- ,(string-append "-DMETIS_PATH=../parmetis-4.0.3/metis" ))))+ ,(string-append "-DGKLIB_PATH=../parmetis-"+ ,(package-version this-version) "/metis/GKlib"))+ ,(string-append "-DMETIS_PATH=../parmetis-"+ ,(package-version this-version) "/metis")))) (home-page "http://glaros.dtc.umn.edu/gkhome/metis/parmetis/overview") (synopsis "Parallel Graph Partitioning and Fill-reducing Matrix Ordering") (description------
+ (license license:asl2.0)))
There is a problem with the licensing, however. In the source code,LICENSE.txt contains this:
------Copyright & License Notice--------------------------
The ParMETIS package is copyrighted by the Regents of the University of Minnesota. It can be freely used for educational and research purposes by non-profit institutions and US government agencies only. Other organizations are allowed to use ParMETIS only for evaluation purposes, and any further uses will require prior approval. The software may not be sold or redistributed without prior approval. One may make copies of the software for their use provided that the copies, are not sold or distributed, are used under the same terms and conditions.
As unestablished research software, this code is provided on an ``as is'' basis without warranty of any kind, either expressed orimplied. The downloading, or executing any part of this softwareconstitutes an implicit agreement to these terms. These terms and conditions are subject to change at any time without prior notice.------
I saw in 'metis/Changelog' that a relicensing to Apache 2 was done forthe "metis" program in version 5.0.3. But, this is "parmetis", version4.0.3.
If the copyright owners intend to release this as free software, theyneed to change the 'LICENSE.txt' file.
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Franck Pérignon wrote on 7 Apr 16:02 +0200
Re: [bug#47613] [PATCH] add parmetis
(name . Leo Famulari)(address . leo@famulari.name)(address . 47613@debbugs.gnu.org)
345E7B86-C347-4EC5-83AB-7D0C6D800489@univ-grenoble-alpes.fr
Thanks for the review (of this and of scotch-shared)
Yes, you’re right, gcc native-inputs can be removed and yes, it’s probably better to avoid hard-coding version stringA new patch is attached that works for me.
Regarding the license, I missed this. Is it possible to directly attached the LICENSE.txt in the guix recipe ? If so, what’s the proper syntax ?
Thanks
Toggle quote (78 lines)> Le 6 avr. 2021 à 19:43, Leo Famulari <leo@famulari.name> a écrit :> > Subject: [PATCH] [PATCH] Add parmetis> > Thanks!> > > + (build-system cmake-build-system)> + (native-inputs `(("gcc" ,gcc)> + ("openmpi" ,openmpi)))> > GCC is made available via the cmake-build-system, so I think we could> leave it out of native-inputs. Or am I missing something?>
> + (arguments> + `(#:tests? #f ;no tests> + #:configure-flags `("-DSHARED=ON"> + ,"-DCMAKE_C_COMPILER=mpicc"> + ,"-DCMAKE_CXX_COMPILER=mpic++"> + ,"-DCMAKE_VERBOSE_MAKEFILE=1"> + ,(string-append "-DGKLIB_PATH=../parmetis-4.0.3/metis/GKlib")> + ,(string-append "-DMETIS_PATH=../parmetis-4.0.3/metis" ))))> > We can avoid hard-coding the version string here, like this:> > ------> diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm> index bdfa051db1..f0ebdd6009 100644> --- a/gnu/packages/maths.scm> +++ b/gnu/packages/maths.scm> @@ -3348,8 +3348,10 @@ schemes.")> ,"-DCMAKE_C_COMPILER=mpicc"> ,"-DCMAKE_CXX_COMPILER=mpic++"> ,"-DCMAKE_VERBOSE_MAKEFILE=1"> - ,(string-append "-DGKLIB_PATH=../parmetis-4.0.3/metis/GKlib")> - ,(string-append "-DMETIS_PATH=../parmetis-4.0.3/metis" ))))> + ,(string-append "-DGKLIB_PATH=../parmetis-"> + ,(package-version this-version) "/metis/GKlib"))> + ,(string-append "-DMETIS_PATH=../parmetis-"> + ,(package-version this-version) "/metis"))))> (home-page "http://glaros.dtc.umn.edu/gkhome/metis/parmetis/overview")> (synopsis "Parallel Graph Partitioning and Fill-reducing Matrix Ordering")> (description> ------> > + (license license:asl2.0)))> > There is a problem with the licensing, however. In the source code,> LICENSE.txt contains this:> > ------> Copyright & License Notice> --------------------------> > The ParMETIS package is copyrighted by the Regents of the > University of Minnesota. It can be freely used for educational and > research purposes by non-profit institutions and US government > agencies only. Other organizations are allowed to use ParMETIS > only for evaluation purposes, and any further uses will require prior > approval. The software may not be sold or redistributed without prior > approval. One may make copies of the software for their use provided > that the copies, are not sold or distributed, are used under the same > terms and conditions.> > As unestablished research software, this code is provided on an > ``as is'' basis without warranty of any kind, either expressed or> implied. The downloading, or executing any part of this software> constitutes an implicit agreement to these terms. These terms and > conditions are subject to change at any time without prior notice.> ------> > I saw in 'metis/Changelog' that a relicensing to Apache 2 was done for> the "metis" program in version 5.0.3. But, this is "parmetis", version> 4.0.3.> > If the copyright owners intend to release this as free software, they> need to change the 'LICENSE.txt' file.
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Ludovic Courtès wrote on 8 Apr 09:16 +0200
Re: bug#47613: [PATCH] add parmetis
(name . Franck Pérignon)(address . Franck.Perignon@univ-grenoble-alpes.fr)
87blapfdpn.fsf_-_@gnu.org
Hi Franck,
Franck Pérignon <Franck.Perignon@univ-grenoble-alpes.fr> skribis:
Toggle quote (2 lines)> Regarding the license, I missed this. Is it possible to directly attached the LICENSE.txt in the guix recipe ? If so, what’s the proper syntax ?
Guix proper only includes free software:
https://guix.gnu.org/manual/en/html_node/Software-Freedom.html
So I’m afraid we cannot get Parmetis in Guix until it’s free (it wouldbe interesting to discuss this with the authors). :-/
Thanks,Ludo’.
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Ludovic Courtès wrote on 9 Apr 17:58 +0200
control message for bug #47613
(address . control@debbugs.gnu.org)
87o8en4fhk.fsf@gnu.org
tags 47613 fixedclose 47613 quit
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