;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015 Sou Bunnbu <iyzsong@gmail.com>
;;; Copyright © 2015, 2018 Mark H Weaver <mhw@netris.org>
-;;; Copyright © 2015, 2016, 2017, 2018, 2019 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2015 Fabian Harfert <fhmgufs@web.de>
;;; Copyright © 2016 Roel Janssen <roel@gnu.org>
;;; Copyright © 2016, 2018, 2020 Kei Kebreau <kkebreau@posteo.net>
;;; Copyright © 2016 Leo Famulari <leo@famulari.name>
;;; Copyright © 2016, 2017 Thomas Danckaert <post@thomasdanckaert.be>
;;; Copyright © 2017, 2018, 2019, 2020 Paul Garlick <pgarlick@tourbillion-technology.com>
-;;; Copyright © 2017 ng0 <ng0@n0.is>
+;;; Copyright © 2017 Nikita <nikita@n0.is>
;;; Copyright © 2017 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2017 Theodoros Foradis <theodoros@foradis.org>
;;; Copyright © 2017, 2019 Arun Isaac <arunisaac@systemreboot.net>
-;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Dave Love <me@fx@gnu.org>
-;;; Copyright © 2018, 2019 Jan Nieuwenhuizen <janneke@gnu.org>
+;;; Copyright © 2018, 2019, 2020 Jan Nieuwenhuizen <janneke@gnu.org>
;;; Copyright © 2018 Joshua Sierles, Nextjournal <joshua@nextjournal.com>
;;; Copyright © 2018 Nadya Voronova <voronovank@gmail.com>
;;; Copyright © 2018 Adam Massmann <massmannak@gmail.com>
;;; Copyright © 2020 R Veera Kumar <vkor@vkten.in>
;;; Copyright © 2020 Vincent Legoll <vincent.legoll@gmail.com>
;;; Copyright © 2020 Nicolò Balzarotti <nicolo@nixo.xyz>
+;;; Copyright © 2020 B. Wilson <elaexuotee@wilsonb.com>
+;;; Copyright © 2020 Vinicius Monego <monego@posteo.net>
;;;
;;; This file is part of GNU Guix.
;;;
(define-public qhull
(package
(name "qhull")
- (version "2015.2")
+ (version "2019.1")
(source (origin
(method url-fetch)
(uri (string-append "http://www.qhull.org/download/qhull-"
(car (string-split version #\.))
- "-src-7.2.0.tgz"))
+ "-src-7.3.2.tgz"))
(sha256
(base32
- "0dm4b2xr3asy6w74khq2zg4gf26zsy3qf9sq7pf7lmrvbj911c3q"))))
+ "1ys3vh3qq0v9lh452xb932vp63advds1pxk42lk7cc1niiar0y9b"))))
(build-system cmake-build-system)
(synopsis "Calculate convex hulls and related structures")
(description
(source (origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/cvxopt/cvxopt.git")
+ (url "https://github.com/cvxopt/cvxopt")
(commit version)))
(file-name (git-file-name name version))
(sha256
(arguments
(let ((system (%current-system)))
(cond
- ((string-prefix? "aarch64" system)
- ;; Some sparse matrix tests are failing on AArch64:
+ ((or (string-prefix? "aarch64" system)
+ (string-prefix? "powerpc" system))
+ ;; Some sparse matrix tests are failing on AArch64 and PowerPC:
;; https://lists.gnu.org/archive/html/bug-gsl/2020-04/msg00001.html
'(#:phases (modify-phases %standard-phases
(add-before 'check 'disable-failing-tests
numbers.")
(license license:gpl3+)))
+(define-public sleef
+ (package
+ (name "sleef")
+ (version "3.4.1")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/shibatch/sleef")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "1gvf7cfvszmgjrsqivwmyy1jnp3hy80dmszxx827lhjz8yqq5019"))))
+ (build-system cmake-build-system)
+ (arguments
+ '(#:configure-flags (list "-DCMAKE_BUILD_TYPE=Release"
+ (string-append "-DCMAKE_INSTALL_LIBDIR="
+ (assoc-ref %outputs "out")
+ "/lib")
+ (string-append "-DCMAKE_INSTALL_PREFIX="
+ (assoc-ref %outputs "out")))
+ #:phases
+ (modify-phases %standard-phases
+ ;; SLEEF generates a header library during the build process and writes
+ ;; to it via shell redirection. Make the checkout writable so the
+ ;; build can succeed.
+ (add-after 'unpack 'make-git-checkout-writable
+ (lambda _
+ (for-each make-file-writable (find-files "."))
+ #t)))))
+ (inputs
+ `(("fftw" ,fftw)
+ ("gmp" ,gmp)
+ ("mpfr" ,mpfr)
+ ("openssl" ,openssl)))
+ (home-page "https://sleef.org/")
+ (synopsis "SIMD library for evaluating elementary functions and DFT")
+ (description
+ "SLEEF (SIMD Library for Evaluating Elementary Functions) is a library that
+implements vectorized versions of all C99 real floating point math functions.
+It can utilize SIMD instructions that are available on modern processors.")
+ (license (list license:boost1.0 ;sleef
+ license:cc-by4.0)))) ;simplex algorithm
+
(define-public glpk
(package
(name "glpk")
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/OkoSanto/GCTP.git")
+ (url "https://github.com/OkoSanto/GCTP")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(("(/gnu/store/)([a-Z0-9]*)" all prefix hash)
(string-append prefix (string-take hash 10) "...")))
#t))
- )))
+ (add-after 'install 'provide-absolute-libjpeg-reference
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out"))
+ (libjpeg (assoc-ref inputs "libjpeg")))
+ ;; libjpeg-turbo does not provide a .la file, so libtool is
+ ;; unable to add an absolute reference for -ljpeg in the .la
+ ;; files. Fix it manually to avoid having to propagate it.
+ (substitute* (find-files (string-append out "/lib") "\\.la$")
+ (("-ljpeg")
+ (string-append "-L" libjpeg "/lib -ljpeg")))
+ #t))))))
(home-page "https://www.hdfgroup.org/products/hdf4/")
(synopsis
"Library and multi-object file format for storing and managing data")
(jhdf (string-append lib "/jhdf.jar"))
(jhdf5 (string-append lib "/jhdf5.jar"))
(testjars
- (map (lambda (i)
- (string-append (assoc-ref inputs i)
- "/share/java/" i ".jar"))
- '("junit" "hamcrest-core" "slf4j-api" "slf4j-simple")))
+ (append
+ (map (lambda (i)
+ (string-append (assoc-ref inputs i)
+ "/share/java/" i ".jar"))
+ '("slf4j-api" "slf4j-simple"))
+ (list
+ (car (find-files (assoc-ref inputs "junit") "jar$"))
+ (car (find-files (assoc-ref inputs "hamcrest-core")
+ "jar$")))))
(class-path
(string-join `("." ,build-dir ,jhdf ,jhdf5 ,@testjars) ":")))
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/Blosc/hdf5-blosc.git")
+ (url "https://github.com/Blosc/hdf5-blosc")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(source (origin
(method url-fetch)
(uri (string-append
- "http://www.coin-or.org/download/source/Ipopt/Ipopt-"
+ "https://www.coin-or.org/download/source/Ipopt/Ipopt-"
version".tgz"))
(sha256
(base32
(inputs
;; TODO: Maybe add dependency on COIN-MUMPS, ASL, and HSL.
`(("lapack" ,lapack))) ;for both libblas and liblapack
- (home-page "http://www.coin-or.org")
+ (home-page "https://www.coin-or.org")
(synopsis "Large-scale nonlinear optimizer")
(description
"The Interior Point Optimizer (IPOPT) is a software package for
(define-public clp
(package
(name "clp")
- (version "1.17.1")
+ (version "1.17.6")
(source (origin
(method url-fetch)
(uri (string-append "https://www.coin-or.org/download/source/"
"Clp/Clp-" version ".tgz"))
(sha256
(base32
- "1wdg820g3iikf9344ijwsc8sy6c0m6im42bzzizm6rlmkvnmxhk9"))
+ "0ap1f0lxppa6pnbc4bg7ih7a96avwaki482nig8w5fr3vg9wvkzr"))
(modules '((guix build utils)))
(snippet
;; Make sure we don't use the bundled software.
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/tpaviot/oce.git")
+ (url "https://github.com/tpaviot/oce")
(commit (string-append "OCE-" version))))
(file-name (git-file-name name version))
(patches (search-patches "opencascade-oce-glibc-2.26.patch"))
(source (origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/gerddie/maxflow.git")
+ (url "https://github.com/gerddie/maxflow")
(commit version)))
(file-name (git-file-name name version))
(sha256
bindings to almost all functions of SLEPc.")
(license license:bsd-3)))
+(define-public metamath
+ (package
+ (name "metamath")
+ (version "0.183")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/metamath/metamath-exe")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "1jjf4fy6j53i40dh0yv0f9sngnw4gs24cig99vsg3q0303pwrhg7"))))
+ (build-system gnu-build-system)
+ (native-inputs
+ `(("autoconf" ,autoconf)
+ ("automake" ,automake)))
+ (home-page "http://us.metamath.org/")
+ (synopsis "Proof verifier based on a minimalistic formalism")
+ (description
+ "Metamath is a tiny formal language and that can express theorems in
+abstract mathematics, with an accompyaning @command{metamath} executable that
+verifies databases of these proofs. There is a public database,
+@url{https://github.com/metamath/set.mm, set.mm}, implementing first-order
+logic and Zermelo-Frenkel set theory with Choice, along with a large swath of
+associated, high-level theorems, e.g.@: the fundamental theorem of arithmetic,
+the Cauchy-Schwarz inequality, Stirling's formula, etc. See the Metamath
+book.")
+ (license license:gpl2+)))
+
(define-public mumps
(package
(name "mumps")
(define-public ruby-asciimath
(package
(name "ruby-asciimath")
- (version "1.0.4")
+ (version "2.0.1")
(source
(origin
(method url-fetch)
(uri (rubygems-uri "asciimath" version))
(sha256
(base32
- "1d80kiph5mc78zps7si1hv48kv4k12mzaq8jk5kb3pqpjdr72qmc"))))
+ "1aapydwwkydbwgz07n7ma3a5jy9n3v0shy6q6j8mi4wr3crhx45a"))))
(build-system ruby-build-system)
- (arguments
- '(#:phases
- (modify-phases %standard-phases
- ;; Apply this patch
- ;; https://github.com/asciidoctor/asciimath/commit/1c06fdc8086077f4785479f78b0823a4a72d7948
- (add-after 'unpack 'patch-remove-spurious-backslashes
- (lambda _
- (substitute* "spec/parser_spec.rb"
- (("\\\\\"")
- "\""))
- #t)))))
(native-inputs
- `(("bundler" ,bundler)
+ `(("ruby-nokogiri" ,ruby-nokogiri)
("ruby-rspec" ,ruby-rspec)))
(synopsis "AsciiMath parsing and conversion library")
(description
(define-public maxima
(package
(name "maxima")
- (version "5.43.0")
+ (version "5.44.0")
(source
(origin
(method url-fetch)
version "-source/" name "-" version ".tar.gz"))
(sha256
(base32
- "0xyahp4c6509haxh4n1swiqm3421gplkdisa0zypclh3252sbzfw"))
+ "1v6jr5s6hhj6r18gfk6hgxk2qd6z1dxkrjq9ss2z1y6sqi45wgyr"))
(patches (search-patches "maxima-defsystem-mkdir.patch"))))
(build-system gnu-build-system)
(inputs
(define-public wxmaxima
(package
(name "wxmaxima")
- (version "20.03.1")
+ (version "20.04.0")
(source
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/wxMaxima-developers/wxmaxima.git")
+ (url "https://github.com/wxMaxima-developers/wxmaxima")
(commit (string-append "Version-" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "09ciip0wkahps5jdsqqr72bwjrd15bacw38zp23v3hm71xfk8hky"))))
+ (base32 "0vrjxzfgmjdzm1rgl0crz4b4badl14jwh032y3xkcdvjl5j67lp3"))))
(build-system cmake-build-system)
(native-inputs
`(("gettext" ,gettext-minimal)
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/beltoforion/muparser.git")
+ (url "https://github.com/beltoforion/muparser")
(commit (string-append "v" upstream-version))))
(file-name (git-file-name name version))
(sha256
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/JuliaLang/openlibm.git")
+ (url "https://github.com/JuliaLang/openlibm")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/JuliaLang/openspecfun.git")
+ (url "https://github.com/JuliaLang/openspecfun")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/DrTimothyAldenDavis/SuiteSparse.git")
+ (url "https://github.com/DrTimothyAldenDavis/SuiteSparse")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(define-public xaos
(package
(name "xaos")
- (version "3.6")
+ (version "4.0")
(source (origin
- (method url-fetch)
- (uri (string-append "mirror://sourceforge/xaos/XaoS/" version
- "/xaos-" version ".tar.gz"))
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/xaos-project/XaoS")
+ (commit (string-append "release-" version))))
+ (file-name (git-file-name name version))
(sha256
(base32
- "15cd1cx1dyygw6g2nhjqq3bsfdj8sj8m4va9n75i0f3ryww3x7wq"))))
+ "00110p5xscjsmn7avfqgydn656zbmdj3l3y2fpv9b4ihzpid8n7a"))))
(build-system gnu-build-system)
- (native-inputs `(("gettext" ,gettext-minimal)))
+ (native-inputs `(("gettext" ,gettext-minimal)
+ ("qtbase" ,qtbase)
+ ("qttools" ,qttools)))
(inputs `(("libx11" ,libx11)
("zlib" ,zlib)
("libpng" ,libpng)
("gsl" ,gsl)))
+ ;; The upstream project file ("XaoS.pro") and the Makefile it generates are
+ ;; not enough for this package to install properly. These phases fix that.
(arguments
`(#:tests? #f ;no "check" target
- #:make-flags '("LOCALEDIR=$DATAROOTDIR/locale")))
+ #:phases
+ (modify-phases %standard-phases
+ (add-before 'configure 'make-qt-deterministic
+ (lambda _
+ ;; Make Qt deterministic.
+ (setenv "QT_RCC_SOURCE_DATE_OVERRIDE" "1")
+ #t))
+ (replace 'configure
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out")))
+ ;; The DESTDIR is originally set to install the xaos binary to
+ ;; the "bin" folder inside the build directory. Setting make
+ ;; flags doesn't seem to change this.
+ (substitute* "XaoS.pro"
+ (("DESTDIR.*$")
+ (string-append "DESTDIR=" out "/bin")))
+ (substitute* "src/include/config.h"
+ (("/usr/share/XaoS")
+ (string-append out "/share/XaoS")))
+ (invoke "qmake"))))
+ (add-after 'install 'install-data
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let* ((out (assoc-ref outputs "out"))
+ (share (string-append out "/share")))
+ (mkdir-p share)
+ (for-each
+ (lambda (folder)
+ (copy-recursively folder
+ (string-append share "/XaoS/" folder)))
+ '("catalogs" "examples" "tutorial"))
+ (install-file "xdg/xaos.png"
+ (string-append share "/pixmaps"))
+ (install-file "xdg/xaos.desktop"
+ (string-append share "/applications")))
+ #t)))))
(synopsis "Real-time fractal zoomer")
(description "GNU XaoS is a graphical program that generates fractal
patterns and allows you to zoom in and out of them infinitely in a fluid,
continuous manner. It also includes tutorials that help to explain how fractals
are built. It can generate many different fractal types such as the Mandelbrot
set.")
- (home-page "https://www.gnu.org/software/xaos/")
+ (home-page "https://xaos-project.github.io/")
(license license:gpl2+)))
(define-public hypre
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/LLNL/hypre.git")
+ (url "https://github.com/LLNL/hypre")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(define-public z3
(package
(name "z3")
- (version "4.8.7")
+ (version "4.8.8")
(home-page "https://github.com/Z3Prover/z3")
(source (origin
(method git-fetch)
(file-name (git-file-name name version))
(sha256
(base32
- "0hprcdwhhyjigmhhk6514m71bnmvqci9r8gglrqilgx424r6ff7q"))))
+ "1rn538ghqwxq0v8i6578j8mflk6fyv0cp4hjfqynzvinjbps56da"))))
(build-system gnu-build-system)
(arguments
`(#:imported-modules ((guix build python-build-system)
(source (origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/elemental/Elemental.git")
+ (url "https://github.com/elemental/Elemental")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(define-public mcrl2
(package
(name "mcrl2")
- (version "201908.0")
+ (version "202006.0")
(source (origin
(method url-fetch)
(uri (string-append
version ".tar.gz"))
(sha256
(base32
- "1i4xgl2d5fgiz1mwi50cyfkrrcpm8nxfayfjgmhq7chs58wlhfsz"))))
+ "167ryrzk1a2j53c2j198jlxa98amcaym070gkcj730619gymv5zl"))))
(inputs
`(("boost" ,boost)
("glu" ,glu)
(define-public nauty
(package
(name "nauty")
- (version "2.6r12")
- (source (origin
- (method url-fetch)
- (uri (string-append
- "https://pallini.di.uniroma1.it/"
- "nauty" (string-join (string-split version #\.) "")
- ".tar.gz"))
- (sha256
- (base32
- "1p4mxf8q5wm47nxyskxbqwa5p1vvkycv1zgswvnk9nsn6vff0al6"))))
+ (version "2.7r1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://pallini.di.uniroma1.it/"
+ "nauty" (string-join (string-split version #\.) "") ".tar.gz"))
+ (sha256
+ (base32 "0xsfqfcknbd6g6wzpa5l7crmmk3bf3zjh37rhylq6b20dqcmvjkn"))))
(build-system gnu-build-system)
(outputs '("out" "lib"))
(arguments
`(#:test-target "checks"
+ #:configure-flags '("--enable-generic") ;prevent -march-native
#:phases
(modify-phases %standard-phases
;; Default make target does not build all available
(include (string-append lib-output "/include/nauty"))
(lib (string-append lib-output "/lib/nauty")))
(for-each (lambda (f) (install-file f bin))
- '("dreadnaut" "NRswitchg" "addedgeg" "amtog" "biplabg"
- "blisstog" "bliss2dre" "catg" "checks6" "complg"
- "converseg" "copyg" "countg" "cubhamg" "deledgeg"
- "delptg" "directg" "dretodot" "dretog" "genbg"
+ '("addedgeg" "amtog" "assembleg" "biplabg" "blisstog"
+ "bliss2dre" "catg" "checks6" "complg" "converseg"
+ "copyg" "countg" "cubhamg" "deledgeg" "delptg"
+ "directg" "dreadnaut" "dretodot" "dretog" "genbg"
"genbgL" "geng" "genquarticg" "genrang" "genspecialg"
"gentourng" "gentreeg" "hamheuristic" "labelg"
"linegraphg" "listg" "multig" "newedgeg" "pickg"
"planarg" "ranlabg" "shortg" "showg" "subdivideg"
- "sumlines" "twohamg" "vcolg" "watercluster2"))
+ "sumlines" "twohamg" "underlyingg" "vcolg"
+ "watercluster2" "NRswitchg"))
(for-each (lambda (f) (install-file f include))
(find-files "." "\\.h$"))
(for-each (lambda (f) (install-file f lib))
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/niklasso/minisat.git")
+ (url "https://github.com/niklasso/minisat")
(commit commit)))
(file-name (string-append name "-" version "-checkout"))
(sha256
multi-purpose GUI desktop calculator. It provides basic and advanced
functionality. Features include customizable functions, unit calculations,
and conversions, physical constants, symbolic calculations (including
-integrals and equations), arbitrary precision, uncertainity propagation,
+integrals and equations), arbitrary precision, uncertainty propagation,
interval arithmetic, plotting.")
(license license:gpl2+)))
HCoop / jackhill / guix / guix.git / blobdiff