diff options
Diffstat (limited to 'gnu/packages/maths.scm')
| -rw-r--r-- | gnu/packages/maths.scm | 229 |
1 files changed, 114 insertions, 115 deletions
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm index 07f9e177e9..a4e25e2ee3 100644 --- a/gnu/packages/maths.scm +++ b/gnu/packages/maths.scm @@ -30,7 +30,7 @@ ;;; Copyright © 2018 Eric Brown <brown@fastmail.com> ;;; Copyright © 2018, 2021 Julien Lepiller <julien@lepiller.eu> ;;; Copyright © 2018 Amin Bandali <bandali@gnu.org> -;;; Copyright © 2019, 2021, 2022 Nicolas Goaziou <mail@nicolasgoaziou.fr> +;;; Copyright © 2019, 2021-2023 Nicolas Goaziou <mail@nicolasgoaziou.fr> ;;; Copyright © 2019 Steve Sprang <scs@stevesprang.com> ;;; Copyright © 2019 Robert Smith <robertsmith@posteo.net> ;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net> @@ -815,7 +815,7 @@ LP/MIP solver is included in the package.") (list (@ (gnu packages base) which))) ; for the tests (inputs (list glpk gmp)) - (home-page "http://www.4ti2.de/") + (home-page "https://4ti2.github.io") (synopsis "Mathematical tool suite for problems on linear spaces") (description "4ti2 implements algorithms for solving algebraic, geometric and @@ -830,29 +830,30 @@ integer programming problems and computes Markov bases for statistics.") (version "0.94m") (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/cddlib/cddlib") - (commit version))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "09s8323h5w9j6mpl1yc6lm770dkskfxd2ayyafkcjllmnncxzfa0")))) + (method git-fetch) + (uri (git-reference + (url "https://github.com/cddlib/cddlib") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "09s8323h5w9j6mpl1yc6lm770dkskfxd2ayyafkcjllmnncxzfa0")))) (build-system gnu-build-system) (inputs (list gmp)) - (native-inputs (list autoconf - automake - libtool - texlive-amsfonts - texlive-dvips-l3backend - texlive-graphics - texlive-latex-l3backend - texlive-tiny)) + (native-inputs + (list autoconf + automake + libtool + (texlive-updmap.cfg + (list texlive-amsfonts + texlive-graphics + texlive-l3backend + texlive-l3backend)))) (arguments (list #:configure-flags - #~(list (string-append "--docdir=" #$output - "/share/doc/" #$name "-" #$version)))) + #~(list (string-append "--docdir=" #$output + "/share/doc/" #$name "-" #$version)))) (home-page "https://www.inf.ethz.ch/personal/fukudak/cdd_home/index.html") (synopsis "Library for convex hulls and extreme rays of polyhedra") (description @@ -974,7 +975,7 @@ halfspaces) or by their double description with both representations.") (define-public arpack-ng (package (name "arpack-ng") - (version "3.8.0") + (version "3.9.0") (home-page "https://github.com/opencollab/arpack-ng") (source (origin (method git-fetch) @@ -982,10 +983,11 @@ halfspaces) or by their double description with both representations.") (file-name (git-file-name name version)) (sha256 (base32 - "0l7as5z6xvbxly8alam9s4kws70952qq35a6vkljzayi4b9gbklx")))) - (build-system gnu-build-system) + "09smxilyn8v9xs3kpx3nlj2s7ql3v8z40mpc09kccbb6smyd35iv")) + (patches (search-patches "arpack-ng-propagate-rng-state.patch")))) + (build-system cmake-build-system) (native-inputs - (list autoconf automake libtool pkg-config)) + (list pkg-config)) (inputs (list eigen lapack gfortran)) (synopsis "Fortran subroutines for solving eigenvalue problems") @@ -999,16 +1001,16 @@ large scale eigenvalue problems.") (package (inherit arpack-ng) (name "arpack-ng-openmpi") (inputs - `(("mpi" ,openmpi) - ,@(package-inputs arpack-ng))) + (modify-inputs (package-inputs arpack-ng) + (prepend openmpi))) (arguments (substitute-keyword-arguments (package-arguments arpack-ng) - ((#:configure-flags _ '()) - ''("--enable-mpi")) - ((#:phases phases '%standard-phases) - `(modify-phases ,phases - (add-before 'check 'mpi-setup - ,%openmpi-setup))))) + ((#:configure-flags _ #~()) + #~'("-DMPI=ON")) + ((#:phases phases #~%standard-phases) + #~(modify-phases #$phases + (add-before 'check 'mpi-setup + #$%openmpi-setup))))) (synopsis "Fortran subroutines for solving eigenvalue problems with MPI"))) (define-public lapack @@ -1237,7 +1239,7 @@ in the terminal or with an external viewer.") (base32 "1kzmj4yyxvlxqzqbrw6sx6dnvhj1zzqnciyb8ryzy6mdrb3pj4lk")))) (build-system gnu-build-system) (native-inputs - (list pkg-config texlive-tiny)) + (list pkg-config (texlive-updmap.cfg))) (inputs (list cairo gd lua pango readline)) (arguments @@ -1947,7 +1949,7 @@ the resulting text.") ;; FIXME: Even though the fonts are available dvips complains: ;; "Font cmmi10 not found; characters will be left blank." (native-inputs - `(("texlive" ,texlive-tiny) + `(("texlive" ,(texlive-updmap.cfg)) ("ghostscript" ,ghostscript) ("doxygen" ,doxygen))) (home-page "https://itpp.sourceforge.net") @@ -4492,14 +4494,14 @@ full text searching.") (define-public armadillo (package (name "armadillo") - (version "9.100.5") + (version "12.4.1") (source (origin (method url-fetch) (uri (string-append "mirror://sourceforge/arma/armadillo-" version ".tar.xz")) (sha256 (base32 - "1ka1vd9fcmvp12qkcm4888dkfqwnalvv00x04wy29f3nx3qwczby")))) + "15zkvjbdxiiazhvh0g6y0ig9pgc4rvwnzplmnkx9dffz4xfn69w1")))) (build-system cmake-build-system) (arguments `(#:tests? #f)) ; no test target (inputs @@ -5777,49 +5779,44 @@ set.") python python-breathe python-sphinx - (texlive-updmap.cfg (list texlive-adjustbox - texlive-alphalph - texlive-amsfonts - texlive-bibtex - texlive-capt-of - texlive-caption - texlive-cm - texlive-courier - texlive-enumitem - texlive-etoolbox - texlive-fancyhdr - texlive-fancyvrb - texlive-helvetic - texlive-jknappen - texlive-sectsty - texlive-tex-gyre - texlive-wasy - texlive-xcolor - texlive-xypic - texlive-generic-listofitems - texlive-latex-cmap - texlive-latex-colortbl - texlive-latex-etoc - texlive-latex-float - texlive-latex-fncychap - texlive-latex-framed - texlive-latex-geometry - texlive-latex-hanging - texlive-hyperref - texlive-latex-multirow - texlive-latex-natbib - texlive-latex-needspace - texlive-latex-newunicodechar - texlive-latex-parskip - texlive-latex-stackengine - texlive-latex-tabulary - texlive-latex-tocloft - texlive-latex-upquote - texlive-latex-varwidth - texlive-titlesec - texlive-ulem - texlive-wasysym - texlive-wrapfig)))) + (texlive-updmap.cfg + (list texlive-adjustbox + texlive-alphalph + texlive-capt-of + texlive-caption + texlive-cmap + texlive-courier + texlive-enumitem + texlive-etoc + texlive-etoolbox + texlive-fancyvrb + texlive-float + texlive-fncychap + texlive-framed + texlive-hanging + texlive-helvetic + texlive-jknapltx + texlive-latexmk + texlive-listofitems + texlive-multirow + texlive-natbib + texlive-needspace + texlive-newunicodechar + texlive-parskip + texlive-sectsty + texlive-stackengine + texlive-tabulary + texlive-tex-gyre + texlive-titlesec + texlive-tocloft + texlive-ulem + texlive-upquote + texlive-varwidth + texlive-wasy + texlive-wasysym + texlive-wrapfig + texlive-xcolor + texlive-xypic)))) (inputs (list openblas lapack)) (arguments @@ -5936,45 +5933,45 @@ supports compressed MAT files, as well as newer (version 7.3) MAT files.") (define-public vc (package (name "vc") - (version "1.4.2") + (version "1.4.3") (source - (origin (method url-fetch) - (uri (string-append "https://github.com/VcDevel/Vc/releases/" - "download/" version "/Vc-" version ".tar.gz")) - (sha256 - (base32 - "0lirdqzcxys9walz04bllsphydynk7973aimd5k1h1qbwi8z3lsh")))) + (origin + (method url-fetch) + (uri (string-append "https://github.com/VcDevel/Vc/releases/" + "download/" version "/Vc-" version ".tar.gz")) + (sha256 + (base32 "0zq37r8yisd4dwlb024l10wk2yq9kisa4xm79ia1ggrz7w2s13lq")))) (build-system cmake-build-system) (arguments - '(#:configure-flags - '("-DBUILD_TESTING=ON" - ;; By default, Vc will optimize for the CPU of the build machine. - ;; Setting this to "none" makes it create portable binaries. See - ;; "cmake/OptimizeForArchitecture.cmake". - "-DTARGET_ARCHITECTURE=none") - #:phases (modify-phases %standard-phases - (add-after 'unpack 'copy-testdata - (lambda* (#:key inputs native-inputs #:allow-other-keys) - (let ((testdata (assoc-ref (or native-inputs inputs) - "testdata"))) - (copy-recursively testdata "tests/testdata") - #t)))))) + (list + #:configure-flags + #~(list "-DBUILD_TESTING=ON" + ;; By default, Vc will optimize for the CPU of the build machine. + ;; Setting this to "none" makes it create portable binaries. See + ;; "cmake/OptimizeForArchitecture.cmake". + "-DTARGET_ARCHITECTURE=none") + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'copy-testdata + (lambda _ + (copy-recursively #$(this-package-native-input "testdata") + "tests/testdata")))))) (native-inputs `(("virtest" ,virtest) ;; This is a submodule in the git project, but not part of the ;; released sources. See the git branch for the commit to take. - ("testdata" ,(let ((commit "9ada1f34d6a41f1b5553d6223f277eae72c039d3")) - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/VcDevel/vc-testdata") - (commit "9ada1f34d6a41f1b5553d6223f277eae72c039d3"))) - (file-name (git-file-name "vc-testdata" - (string-take commit 7))) - (sha256 - (base32 - "1hkhqib03qlcq412ym2dciynfxcdr2ygqhnplz4l1vissr1wnqn2"))))))) + ("testdata" + ,(let ((commit "9ada1f34d6a41f1b5553d6223f277eae72c039d3")) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/VcDevel/vc-testdata") + (commit "9ada1f34d6a41f1b5553d6223f277eae72c039d3"))) + (file-name (git-file-name "vc-testdata" (string-take commit 7))) + (sha256 + (base32 + "1hkhqib03qlcq412ym2dciynfxcdr2ygqhnplz4l1vissr1wnqn2"))))))) (synopsis "SIMD vector classes for C++") (description "Vc provides portable, zero-overhead C++ types for explicitly data-parallel programming. It is a library designed to ease explicit @@ -6133,7 +6130,7 @@ find_package(louvain_communities)") (inputs (list btor2tools boost cryptominisat louvain-community sqlite)) (native-inputs (list googletest pkg-config python-wrapper)) - (home-page "http://boolector.github.io/") + (home-page "https://boolector.github.io") (synopsis "Bitvector-based theory solver") (description "Boolector is a @acronym{SMT, satisfiability modulo theories} solver for the theories of fixed-size bit-vectors, arrays and uninterpreted @@ -7686,7 +7683,7 @@ optimized algorithms and implementation.") (version "1.9.9") (source (origin (method url-fetch) - (uri (string-append "http://fmv.jku.at/aiger/aiger-" + (uri (string-append "https://fmv.jku.at/aiger/aiger-" version ".tar.gz")) (sha256 (base32 @@ -7725,7 +7722,7 @@ optimized algorithms and implementation.") (for-each (lambda (f) (install-file f incl)) (find-files "." "\\.h$")))))))) (inputs (list gzip)) - (home-page "http://fmv.jku.at/aiger") + (home-page "https://fmv.jku.at/aiger") (synopsis "Utilities for And-Inverter Graphs") (description "AIGER is a format, library and set of utilities for @acronym{AIG, And-Inverter Graphs}s. The focus is on conversion utilities and a @@ -7757,7 +7754,7 @@ generic reader and writer API.") (lambda* (#:key tests? #:allow-other-keys) (when tests? (invoke "sh" "test/runtests.sh"))))))) - (home-page "http://boolector.github.io/") + (home-page "https://boolector.github.io") (synopsis "Parser for BTOR2 format") (description "This package provides a parser for the BTOR2 format used by Boolector.") @@ -8175,6 +8172,8 @@ of C, Java, or Ada programs.") (build-system ocaml-build-system) (arguments `(#:tests? #f; no test target in Makefile + #:configure-flags + (list "--enable-verbosemake") ; to aid debugging #:phases (modify-phases %standard-phases (add-before 'configure 'export-shell @@ -8182,7 +8181,7 @@ of C, Java, or Ada programs.") (setenv "CONFIG_SHELL" (search-input-file inputs "/bin/sh"))))))) (inputs - (list gmp)) + (list gmp zlib)) (propagated-inputs (list ocaml-biniou ocaml-easy-format |