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* */*: Discontinue Gentoo SuperH portMikle Kolyada2020-03-266-9/+9
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --ignore-arches Signed-off-by: Mikle Kolyada <zlogene@gentoo.org>
* sci-libs/gdal: Restrict to <app-text/poppler-0.85.0Andreas Sturmlechner2020-03-261-1/+1
| | | | | | Closes: https://bugs.gentoo.org/714826 Package-Manager: Portage-2.3.96, Repoman-2.3.22 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/geos: 3.8.1 version bumpAndreas Sturmlechner2020-03-262-0/+51
| | | | | Package-Manager: Portage-2.3.96, Repoman-2.3.22 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/openblas: version bump.Benda Xu2020-03-262-0/+128
| | | | | | Closes: https://bugs.gentoo.org/714598 Package-Manager: Portage-2.3.88, Repoman-2.3.18 Signed-off-by: Benda Xu <heroxbd@gentoo.org>
* sci-libs/m4ri: x86 stable wrt bug #714174Agostino Sarubbo2020-03-251-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/fplll: x86 stable wrt bug #714170Agostino Sarubbo2020-03-251-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/m4ri: ppc64 stable wrt bug #714174Agostino Sarubbo2020-03-251-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="ppc64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/m4ri: amd64 stable wrt bug #714174Agostino Sarubbo2020-03-251-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/fplll: amd64 stable wrt bug #714170Agostino Sarubbo2020-03-251-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/fftw: update live ebuild, migrate to CPU_FLAGS_PPCGeorgy Yakovlev2020-03-241-3/+3
| | | | | | | Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Georgy Yakovlev <gyakovlev@gentoo.org> Closes: https://github.com/gentoo/gentoo/pull/14975 Signed-off-by: Georgy Yakovlev <gyakovlev@gentoo.org>
* sci-libs/libbraiding: maintainer stabilize on amd64.Michael Orlitzky2020-03-241-1/+1
| | | | | | | | | This package doesn't have a test suite, so to spare the arch team a pointless build test, I've stabilized it myself on amd64. The library has been indirectly tested through SageMath. Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/gsl: x86 stable wrt bug #700196Agostino Sarubbo2020-03-221-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/gsl: ppc64 stable wrt bug #700196Agostino Sarubbo2020-03-221-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="ppc64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/ceres-solver: Drop USE c++11Andreas Sturmlechner2020-03-221-3/+4
| | | | | | Closes: https://bugs.gentoo.org/705192 Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/shapelib: Drop 1.4.0-r1 and 1.4.1Andreas Sturmlechner2020-03-213-78/+0
| | | | | Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/shapelib: arm64 stable (bug #707520)Mart Raudsepp2020-03-211-1/+1
| | | | | Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Mart Raudsepp <leio@gentoo.org>
* sci-libs/htslib: x86 stable wrt bug #713236Agostino Sarubbo2020-03-201-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/htslib: amd64 stable wrt bug #713236Agostino Sarubbo2020-03-201-2/+2
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/brial: new library for polynomials over boolean rings.Michael Orlitzky2020-03-193-0/+71
| | | | | | | | | | | | This library is maintained upstream and in the sage-on-gentoo overlay by François Bissey, but it is well-packaged and passes its tests. It is a dependency of SageMath, and the system copy will eventually be usable by Sage, so now is a good time to adopt it. The overlay ebuild was used with minimal changes. Closes: https://bugs.gentoo.org/713330 Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/indilib: 1.8.4 version bumpAndreas Sturmlechner2020-03-192-0/+57
| | | | | Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/ceres-solver: 1.14.0 version bump, EAPI-7 bump, cmake.eclassAndreas Sturmlechner2020-03-192-0/+101
| | | | | | | | | fix doc install path python3_7 + python3_8 Closes: https://bugs.gentoo.org/700294 Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/ceres-solver: Drop 1.11.0Andreas Sturmlechner2020-03-192-98/+0
| | | | | Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/matio: Version bump to 1.5.17David Seifert2020-03-162-0/+47
| | | | | | | | | | Bug: https://bugs.gentoo.org/603218 Bug: https://bugs.gentoo.org/678816 Bug: https://bugs.gentoo.org/679476 Bug: https://bugs.gentoo.org/695314 Bug: https://bugs.gentoo.org/711822 Package-Manager: Portage-2.3.94, Repoman-2.3.21 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-libs/libgeodecomp: Fix boost detectionKurt Kanzenbach2020-03-152-0/+93
| | | | | | | | | | | | | | When hpx is installed libgeodecomp tries to use the boost libraries detected by hpx. That doesn't work, because the wrong variables are referenced and hpx uses fewer boost libraries than libgeodecomp. So remove that and use the system boost libraries in all cases. Closes: https://bugs.gentoo.org/686294 Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Kurt Kanzenbach <kurt@kmk-computers.de> Closes: https://github.com/gentoo/gentoo/pull/14855 Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/libgeodecomp: Add current versionKurt Kanzenbach2020-03-154-0/+409
| | | | | | | | | Version v0.4.0 is quite old. Thus it makes sense to add the possibility to build from the current source code. Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Kurt Kanzenbach <kurt@kmk-computers.de> Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/libgeodecomp: Add homepage to official repositoryKurt Kanzenbach2020-03-151-1/+3
| | | | | | | | Add homepage to official source code repository. Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Kurt Kanzenbach <kurt@kmk-computers.de> Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/libgeodecomp: Sort options and dependenciesKurt Kanzenbach2020-03-151-6/+6
| | | | | | | | Sort options and dependencies alphanumerically. Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Kurt Kanzenbach <kurt@kmk-computers.de> Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/libgeodecomp: Remove unnecessary boost versionKurt Kanzenbach2020-03-151-1/+1
| | | | | | | | The check for boost>=1.48 is nowadays always true. Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Kurt Kanzenbach <kurt@kmk-computers.de> Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/avogadrolibs: Bump to 1.93.0Pacho Ramos2020-03-143-0/+101
| | | | | | Closes: https://bugs.gentoo.org/652918 Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Pacho Ramos <pacho@gentoo.org>
* sci-libs/spglib: Add spglib, needed by Avogadro2Pacho Ramos2020-03-143-0/+42
| | | | | Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Pacho Ramos <pacho@gentoo.org>
* sci-libs/eccodes: new ebuild/upstream replacement for libbufrStephen Arnold2020-03-093-0/+105
| | | | | | | | * provides multi-language bindings and GRIB/BUFR C library * obsoletes bugs #695486 and #709408 Package-Manager: Portage-2.3.67, Repoman-2.3.17 Signed-off-by: Steve Arnold <nerdboy@gentoo.org>
* sci-libs/symengine: x86 stable wrt bug #711872Agostino Sarubbo2020-03-091-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/symengine: amd64 stable wrt bug #711872Agostino Sarubbo2020-03-091-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-libs/symengine: Drop 0.5.0 (r0)Andreas Sturmlechner2020-03-081-80/+0
| | | | | Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/symengine: Add missing USE flint dependencyAndreas Sturmlechner2020-03-081-0/+81
| | | | | | Closes: https://bugs.gentoo.org/711878 Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/symengine: Drop 0.3.0-r1 and 0.4.0Andreas Sturmlechner2020-03-083-156/+0
| | | | | Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/symengine: Fix unused cmake var warningAndreas Sturmlechner2020-03-081-1/+2
| | | | | | Closes: https://bugs.gentoo.org/659512 Package-Manager: Portage-2.3.93, Repoman-2.3.20 Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
* sci-libs/hdf5: add unsupported useflagAlessandro Barbieri2020-03-082-0/+107
| | | | | | | | | | | | | this will allow unsupported combinations of useflags such as MPI + CXX. link mpi when using mpi. Closes: https://bugs.gentoo.org/710986 Closes: https://github.com/gentoo/gentoo/pull/14821 Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Alessandro Barbieri <lssndrbarbieri@gmail.com> Signed-off-by: Benda Xu <heroxbd@gentoo.org>
* sci-libs/lapack: readd deprecated functions.Alessandro Barbieri2020-03-082-0/+93
| | | | | | | | | Reported-By: leoricupero@gmail.com Closes: https://bugs.gentoo.org/702254 Closes: https://github.com/gentoo/gentoo/pull/14803 Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Alessandro Barbieri <lssndrbarbieri@gmail.com> Signed-off-by: Benda Xu <heroxbd@gentoo.org>
* sci-libs/scipy: added ~arm64 keywordRoy Bamford2020-03-071-1/+1
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Roy Bamford <neddyseagoon@gentoo.org> Signed-off-by: Michał Górny <mgorny@gentoo.org>
* sci-libs/arpack: added ~arm64 keywordRoy Bamford2020-03-071-2/+2
| | | | | | Package-Manager: Portage-2.3.89, Repoman-2.3.20 Signed-off-by: Roy Bamford <neddyseagoon@gentoo.org> Signed-off-by: Michał Górny <mgorny@gentoo.org>
* sci-libs/m4rie: new package for matrices over GF(2^e) with "e" small.Michael Orlitzky2020-03-063-0/+62
| | | | | | | | | | | | The m4rie package is an extension of sci-libs/m4ri. It is used by SageMath, which can now detect and use the system copy of m4rie. Its inclusion therefore prevents pointless rebuilds of m4rie by users of SageMath on Gentoo. The ebuild was imported from the sage-on-gentoo overlay where François Bissey has been maintaining it. Closes: https://bugs.gentoo.org/711498 Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/cantera: 2.4.0-r4 fix sci-libs/sundials-5.1.0 compatibilitySergey Torokhov2020-03-052-2/+2
| | | | | | | | | | | | | | | As cantera-2.4.0-r3 was stabilized against sci-libs/sundials-3.2.0 therefore the changes allowing to build cantera agains sundials-5.1.0 don't affect the stability and avoid of dublicate patches with trivial changes. Revision bump to -r4 saving stabilization. The Sundials 5.1 has the same CVODES API as Sundials 4.0, 4.1, 5.0 so there is no any additional changes required to to build Cantera against Sundials 5.1 except allowing in configuration check. Signed-off-by: Sergey Torokhov <torokhov-s-a@yandex.ru> Closes: https://github.com/gentoo/gentoo/pull/14801 Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/sundials: 5.1.0 version bumpSergey Torokhov2020-03-053-0/+87
| | | | | | | | | | | | | | The following changes within ebuild were made: - FORTRAN_STANDARD=90 changed to FORTRAN_STANDARD="77 90" (with comment that "FFLAGS and FCFLAGS if set should e equal", otherwhise the cmake configurations error takes place); - sorted inherit items; - cmake-utils eclass replaced by cmake eclass; - assignment of KLU_LIBRARY cmake variable moved to use condition expression. Signed-off-by: Sergey Torokhov <torokhov-s-a@yandex.ru> Signed-off-by: Joonas Niilola <juippis@gentoo.org>
* sci-libs/umfpack: new version 5.7.9.Michael Orlitzky2020-03-022-0/+32
| | | | | | | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. The dependency on cholmod probably needs some USE flags, because the previous version dependend on !minimal. I can't figure out which of the modules implied by !minimal are necessary, though, now that the flags have been separated out. Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/spqr: new version 2.0.9.Michael Orlitzky2020-03-023-0/+38
| | | | | | | | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. This version uses a "partition" USE flag instead of "metis", to more closely match the terminology used upstream and by sci-libs/cholmod. Bug: https://bugs.gentoo.org/492484 Bug: https://bugs.gentoo.org/586582 Bug: https://bugs.gentoo.org/654548 Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/cholmod: new version 3.0.13.Michael Orlitzky2020-03-023-1/+73
| | | | | | | | | | | | | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. This new version also refactors the package's USE flags, because USE=minimal was being used to control the installation of several different modules that all do different things. It's much better for users to have three individual flags that control those options. Moreover, with USE=minimal, there was a conflict between the "minimal" and "metis" flags; both would try to control the --with-partition option. Finally, the "metis" USE flag was dropped in favor of the name "partition". Closes: https://bugs.gentoo.org/526910 Closes: https://bugs.gentoo.org/682838 Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/ccolamd: new version 2.9.6.Michael Orlitzky2020-03-022-0/+23
| | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/cxsparse: new version 3.2.0.Michael Orlitzky2020-03-023-0/+50
| | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
* sci-libs/klu: new version 1.3.9.Michael Orlitzky2020-03-022-0/+28
| | | | | | | | | | Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey whose sage-on-gentoo ebuilds I'm using. There's a newer release (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing. Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Michael Orlitzky <mjo@gentoo.org>