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;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2019 Andreas Enge <andreas@enge.fr>
;;; Copyright © 2019 Nicolas Goaziou <mail@nicolasgoaziou.fr>
;;; Copyright © 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net>
;;; Copyright © 2021 Efraim Flashner <efraim@flashner.co.il>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.

(define-module (gnu packages sagemath)
  #:use-module ((guix licenses) #:prefix license:)
  #:use-module (guix build-system copy)
  #:use-module (guix build-system cmake)
  #:use-module (guix build-system gnu)
  #:use-module (guix build-system python)
  #:use-module (guix build-system trivial)
  #:use-module (guix download)
  #:use-module (guix gexp)
  #:use-module (guix git-download)
  #:use-module (guix packages)
  #:use-module (guix utils)
  #:use-module (gnu packages)
  #:use-module (gnu packages algebra)
  #:use-module (gnu packages autotools)
  #:use-module (gnu packages base)
  #:use-module (gnu packages bdw-gc)
  #:use-module (gnu packages boost)
  #:use-module (gnu packages compression)
  #:use-module (gnu packages image)
  #:use-module (gnu packages lisp)
  #:use-module (gnu packages maths)
  #:use-module (gnu packages multiprecision)
  #:use-module (gnu packages pkg-config)
  #:use-module (gnu packages popt)
  #:use-module (gnu packages python)
  #:use-module (gnu packages python-xyz))


(define-public python-cypari2
  (package
    (name "python-cypari2")
    (version "2.1.2")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "cypari2" version))
       (sha256
        (base32
         "0ymc4i9y60aazscc1blivirkr1rflzz6akkmvfzyn5l7mgnlbk83"))))
    (build-system python-build-system)
    (native-inputs
     (list python-cython))
    (propagated-inputs
     (list python-cysignals))
    (inputs
     (list gmp pari-gp))
    (home-page "https://cypari2.readthedocs.io/")
    (synopsis
     "Python interface to the number theory library libpari")
    (description
     "Cypari2 provides a Python interface to the number theory library
PARI/GP.  It has been spun off from the SageMath mathematics software system,
but it can be used independently.")
    (license license:gpl2+)))

;; The stable version of the following package is not young enough to be
;; used with Sage, since it does not support cython; so we use a beta
;; release.
(define-public python-gmpy2
  (package
    (name "python-gmpy2")
    (version "2.1.0b1")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://github.com/aleaxit/gmpy")
                    (commit (string-append "gmpy2-" version))))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "0ljvnmhxqdfsp0yy4c2hynhk5sggm63kkqsq4iwq4k9vsnx2xm97"))))
    (build-system python-build-system)
    (native-inputs
     (list unzip))
    (inputs
     (list gmp mpfr mpc))
    (home-page "https://github.com/aleaxit/gmpy")
    (synopsis
     "GMP/MPIR, MPFR, and MPC interface to Python 2.6+ and 3.x")
    (description
     "This package provides a Python interface to the GNU multiprecision
libraries GMO, MPFR and MPC.")
    (license license:lgpl3+)))

(define-public cliquer
  (package
    (name "cliquer")
    (version "1.22")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://github.com/dimpase/autocliquer")
                    (commit (string-append "v" version))))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "00gcmrhi2fjn8b246w5a3b0pl7p6haxy5wjvd9kcqib1xanz59z4"))))
    (build-system gnu-build-system)
    (native-inputs (list autoconf automake libtool))
    (synopsis "C routines for finding cliques in weighted graphs")
    (description "Cliquer is a set of reentrant C routines for finding
cliques in a weighted or unweighted graph.  It uses an exact
branch-and-bound algorithm.  It can search for maximum or maximum-weight
cliques or cliques with size or weight within a given range, restrict the
search to maximal cliques, store cliques in memory and call a user-defined
function for every found clique.")
    (license license:gpl2+)
    (home-page "https://github.com/dimpase/autocliquer")))

(define-public libbraiding
  (package
    (name "libbraiding")
    (version "1.0")
    (source
     (origin
       (method git-fetch)
       (uri (git-reference
              (url (string-append "https://github.com/miguelmarco/"
                                  name))
              (commit version)))
       (file-name (git-file-name name version))
       (sha256
        (base32
         "0l68rikfr7k2l547gb3pp3g8cj5zzxwipm79xrb5r8ffj466ydxg"))))
    (build-system gnu-build-system)
    (native-inputs
     (list autoconf automake libtool))
    (synopsis "Computations with braid groups")
    (description "libbraiding performs computations with braid groups,
in particular it computes normal forms of group elements.")
    (license license:gpl2+)
    (home-page "https://github.com/miguelmarco/libbraiding")))

(define-public libhomfly
  (package
    (name "libhomfly")
    (version "1.02r6")
    (source
     (origin
       (method git-fetch)
       (uri (git-reference
              (url (string-append "https://github.com/miguelmarco/"
                                  name))
              (commit version)))
       (file-name (git-file-name name version))
       (sha256
        (base32
         "0sv3cwrf9v9sb5a8wbhjmarxvya13ma3j8y8592f9ymxlk5y0ldk"))))
    (build-system gnu-build-system)
    (native-inputs
     (list autoconf automake libtool))
    (inputs
     (list libgc))
    (synopsis "Computation of homfly polynomials of links")
    (description "libhomfly computes homfly polynomials of links,
represented as strings.")
    (license license:public-domain)
    (home-page "https://github.com/miguelmarco/libhomfly")))

(define-public pynac
  (package
    (name "pynac")
    (version "0.7.26")
    (source
     (origin
       (method git-fetch)
       (uri (git-reference
              (url "https://github.com/pynac/pynac/")
              (commit (string-append "pynac-" version))))
       (file-name (git-file-name name version))
       (sha256
        (base32 "09d2p74x1arkydlxy6pw4p4byi7r8q7f29w373h4d8a215kadc6d"))))
    (build-system gnu-build-system)
    (native-inputs
     (list autoconf automake libtool pkg-config))
    (inputs
     (list flint gmp python singular))
    (synopsis "Sage fork of GiNaC")
    (description "Pynac is a derivative of the C++ library GiNaC, which
allows manipulation of symbolic expressions.  It currently provides the
backend for symbolic expressions in Sage.  The main difference between
Pynac and GiNaC is that Pynac relies on Sage to provide the operations
on numerical types, while GiNaC depends on CLN for this purpose.")
    (license license:gpl2+)
    (home-page "http://pynac.org/")))

;; Sage has become upstream of the following package.
(define-public zn-poly
  (package
    (name "zn-poly")
    (version "0.9.2")
    (source
     (origin
       (method git-fetch)
       (uri (git-reference
              (url (string-append "https://gitlab.com/sagemath/"
                                  "zn_poly.git/"))
              (commit version)))
       (file-name (git-file-name "zn_poly" version))
       (sha256
        (base32 "1wbc3apxcldxfcw1dnwnn7fvlfb6bwvlr8glvgv6hf79p9r2s4j0"))))
    (build-system gnu-build-system)
    (native-inputs
     `(("python" ,python-2)))
    (inputs
     (list gmp))
    (arguments
     `(#:phases
       (modify-phases %standard-phases
         (replace 'configure
           ;; The configure script chokes on --enable-fast-install.
           (lambda* (#:key inputs outputs #:allow-other-keys)
             (invoke "./configure"
                     (string-append "--prefix=" (assoc-ref outputs "out"))
                     "--cflags=-O3 -fPIC")))
         (add-before 'build 'prepare-build
           (lambda _
             (setenv "CC" "gcc")
             #t))
         (add-after 'build 'build-so
           (lambda _
             (invoke "make" "libzn_poly.so")))
         (add-after 'install 'install-so
           (lambda* (#:key outputs #:allow-other-keys)
             (let* ((out (assoc-ref outputs "out"))
                    (lib (string-append out "/lib"))
                    (soname (string-append "libzn_poly-" ,version ".so"))
                    (target (string-append lib "/" soname)))
               (install-file "libzn_poly.a" lib)
               (install-file soname lib)
               (symlink target
                        (string-append lib "/libzn_poly.so"))
               (symlink target
                        (string-append lib "/libzn_poly-"
                                       ,(version-major+minor version)
                                       ".so")))
             #t)))))
    (synopsis "Arithmetic for polynomials over Z/NZ")
    (description "zn_poly implements the arithmetic of polynomials the
coefficients of which are modular integers.")
    (license (list license:gpl2 license:gpl3)) ; dual licensed
    (home-page "https://gitlab.com/sagemath/zn_poly")))

(define-public brial
  (package
    (name "brial")
    (version "1.2.8")
    (source
    (origin
      (method git-fetch)
      (uri (git-reference
             (url "https://github.com/BRiAl/BRiAl/")
             (commit version)))
      (file-name (git-file-name name version))
      (sha256
       (base32 "0qhgckd4fvbs40jw14mvw89rccv94d3df27kipd27hxd4cx7y80y"))))
    (build-system gnu-build-system)
    (native-inputs
     (list autoconf automake libtool pkg-config))
    (inputs
     (list boost libpng m4ri))
    (arguments
    ;; We are missing the boost unit test framework.
     `(#:tests? #f
       #:configure-flags (list "--without-boost-unit-test-framework")))
    (synopsis "Arithmetic of polynomials over boolean rings")
    (description "BRiAl is the successor to  PolyBoRi maintained by the
Sage community.  Its core is a C++ library, which provides high-level data
types for Boolean polynomials and monomials, exponent vectors, as well as
for the underlying polynomial rings and subsets of the powerset of the
Boolean variables.  As a unique approach, binary decision diagrams are
used as internal storage type for polynomial structures.")
    (license license:gpl2+)
    (home-page "https://github.com/BRiAl/BRiAl/")))

(define-public lcalc
  (package
    (name "lcalc")
    (version "2.0.5")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://gitlab.com/sagemath/lcalc")
                    (commit version)))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "1rwyx292y3jbsp88wagn9nhl9z7wsnl2yrs5imxkbxq87pnrj5a7"))))
    (build-system gnu-build-system)
    (arguments
     (list #:configure-flags '(list "--with-pari")))
    (inputs (list pari-gp))
    (native-inputs (list autoconf automake libtool pkg-config gengetopt))
    (home-page "https://gitlab.com/sagemath/lcalc")
    (synopsis "C++ library for with L-functions")
    (description
     "Lcalc computes L-functions, in particular the Riemann zeta function and its
twists by quadratic characters.")
    (license license:gpl2+)))

(define-public ratpoints
  (package
    (name "ratpoints")
    (version "2.1.3")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "http://www.mathe2.uni-bayreuth.de/stoll/programs/"
                    "ratpoints-" version ".tar.gz"))
              (sha256
               (base32
                "0zhad84sfds7izyksbqjmwpfw4rvyqk63yzdjd3ysd32zss5bgf4"))
              (patches
               ;; Taken from
               ;; <https://git.sagemath.org/sage.git/plain/build/pkgs/ratpoints/patches/>
               (search-patches "ratpoints-sturm_and_rp_private.patch"))))
    (build-system gnu-build-system)
    (arguments
     `(#:test-target "test"
       #:make-flags
       (list (string-append "INSTALL_DIR=" (assoc-ref %outputs "out"))
             "CCFLAGS=-fPIC")
       #:phases
       (modify-phases %standard-phases
         (delete 'configure)            ;no configure script
         (add-before 'install 'create-install-directories
           (lambda* (#:key outputs #:allow-other-keys)
             (let ((out (assoc-ref outputs "out")))
               (mkdir-p out)
               (with-directory-excursion out
                 (for-each (lambda (d) (mkdir-p d))
                           '("bin" "include" "lib"))))
             #t)))))
    (inputs
     (list gmp))
    (home-page "http://www.mathe2.uni-bayreuth.de/stoll/programs/")
    (synopsis "Find rational points on hyperelliptic curves")
    (description "Ratpoints tries to find all rational points within
a given height bound on a hyperelliptic curve in a very efficient way,
by using an optimized quadratic sieve algorithm.")
    (license license:gpl2+)))

(define-public python-memory-allocator
  (package
    (name "python-memory-allocator")
    (version "0.1.3")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "memory_allocator" version))
              (sha256
               (base32
                "0qiijpv8zr7c5rjy64i4q3rb8qhn6v4yms5mza4p86y0w4m5r00k"))))
    (build-system python-build-system)
    (propagated-inputs (list python-cython))
    (home-page "https://github.com/sagemath/memory_allocator")
    (synopsis "An extension class to allocate memory easily with cython")
    (description "An extension class to allocate memory easily with cython")
    (license license:gpl3)))

(define-public python-pplpy
  (package
    (name "python-pplpy")
    (version "0.8.7")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "pplpy" version))
              (sha256
               (base32
                "1gfq5czkqxl395k06s77zij3xv7maiwagjvzmrpraxhsmvsd02sh"))))
    (build-system python-build-system)
    (inputs (list gmp
                  mpc
                  mpfr
                  pari-gp
                  ppl
                  python-cysignals
                  python-gmpy2))
    (native-inputs (list python-cython))
    (home-page "https://gitlab.com/videlec/pplpy")
    (synopsis "Python PPL wrapper")
    (description
     "This Python module pplpy provides a wrapper to the C++ Parma Polyhedra
Library (PPL).")
    (license license:gpl3)))

(define-public primecount
  (package
    (name "primecount")
    (version "7.4")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://github.com/kimwalisch/primecount/")
                    (commit (string-append "v" version))))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "1dnkkmszc2knrrqmfbwf96ajxd7rpmaw0b8dx6z5r0f9w1wx7ak4"))))
    (build-system cmake-build-system)
    (arguments '(#:configure-flags (list "-DBUILD_SHARED_LIBS=ON" "-DBUILD_TESTS=ON")))
    (home-page "https://github.com/kimwalisch/primecount/")
    (synopsis "Fast prime counting function implementations")
    (description "primecount is a command-line program and C/C++ library that counts the number
of primes ≤ x (maximum 10^31) using highly optimized implementations of the
combinatorial prime counting algorithms.")
    (license license:bsd-2)))

(define-public python-primecountpy
  (package
    (name "python-primecountpy")
    (version "0.1.0")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "primecountpy" version))
              (sha256
               (base32
                "0xh6zx5zw5scy7jygqirks9y6z4zyfm0zjfp8nd6dw0m471przkq"))))
    (build-system python-build-system)
    (arguments (list #:phases #~(modify-phases %standard-phases
                                  (add-before 'build 'set-cflags
                                    (lambda _
                                      (setenv "CFLAGS" "-fopenmp")
                                      (setenv "CXXFLAGS" "-fopenmp"))))))
    (inputs (list pari-gp primecount))
    (propagated-inputs (list python-cysignals python-cython))
    (home-page "https://github.com/dimpase/primecountpy")
    (synopsis "Cython interface for C++ primecount library")
    (description "Cython interface for C++ primecount library")
    (license license:gpl3)))

(define-public python-lrcalc
  (package
    (name "python-lrcalc")
    (version "2.1")
    (source (origin
              (method url-fetch)
              (uri (pypi-uri "lrcalc" version))
              (sha256
               (base32
                "1adassfjalsdsngy01c37835qsx3gj0jx9cinc9b91x4xnd51873"))))
    (build-system python-build-system)
    (inputs (list lrcalc))
    (native-inputs (list python-cython))
    (home-page "https://math.rutgers.edu/~asbuch/lrcalc")
    (synopsis "Littlewood-Richardson Calculator bindings")
    (description "Littlewood-Richardson Calculator bindings")
    (license license:gpl3+)))

(define-public palp
  (package
    (name "palp")
    (version "2.20")
    (source (origin
              (method url-fetch)
              (uri (string-append "http://hep.itp.tuwien.ac.at/~kreuzer/CY/palp/palp-" version ".tar.gz"))
              (sha256
               (base32
                "1q1cl3vpdir16szy0jcadysydcrjp48hqxyx42kr8g9digkqjgkj"))))
    (build-system gnu-build-system)
    (arguments
     (list #:make-flags #~(list (string-append "CC=" #$(cc-for-target)))
           #:tests? #f                  ; no tests
           #:phases #~(modify-phases %standard-phases
                        (delete 'configure)
                        (replace 'install
                          (lambda _
                            (for-each
                             (lambda (name)
                               (install-file name (string-append #$output "/bin")))
                             '("class.x" "cws.x" "mori.x" "nef.x" "poly.x")))))))
    (home-page "http://hep.itp.tuwien.ac.at/~kreuzer/CY/CYpalp.html")
    (synopsis "Package for Analyzing Lattice Polytopes")
    (description synopsis)
    (license license:gpl3)))

(define-public gfan
  (package
    (name "gfan")
    (version "0.6.2")
    (source (origin
              (method url-fetch)
              (uri (string-append "https://users-math.au.dk/jensen/software/gfan/gfan" version ".tar.gz"))
              (sha256
               (base32
                "02pihqb1lb76a0xbfwjzs1cd6ay3ldfxsm8dvsbl6qs3vkjxax56"))))
    (build-system gnu-build-system)
    (arguments
     (list #:make-flags #~(list (string-append "PREFIX=" #$output)
                                (string-append "CC=" #$(cc-for-target))
                                (string-append "CXX=" #$(cxx-for-target)))
           #:phases #~(modify-phases %standard-phases
                        (delete 'configure)
                        (add-before 'build 'fix-cddlib-include
                          (lambda _
                            (substitute* '("src/lp_cdd.cpp" "src/gfanlib_zcone.cpp" "src/app_librarytest.cpp")
                              (("^#include \"cdd/") "#include \"cddlib/")))))))
    (inputs (list cddlib gmp))
    (home-page "https://users-math.au.dk/jensen/software/gfan/gfan.html")
    (synopsis "Software package for computing Gröbner fans and tropical varieties")
    (description synopsis)
    (license license:gpl2+)))

(define-public flintqs
  (package
    (name "flintqs")
    (version "1.0")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://github.com/sagemath/FlintQS")
                    (commit (string-append "v" version))))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "1f0lnayz6j6qgasx8pbq61d2fqam0wwhsmh6h15l4vq58l1vvbwj"))))
    (build-system gnu-build-system)
    (arguments
     (list #:phases #~(modify-phases %standard-phases
                        (add-after 'unpack 'create-changelog
                          (lambda _
                            (with-output-to-file "ChangeLog"
                              (lambda () (display ""))))))))
    (inputs (list gmp))
    (native-inputs (list autoconf automake))
    (home-page "https://github.com/sagemath/FlintQS")
    (synopsis "Highly optimized multi-polynomial quadratic sieve for integer
factorization")
    (description synopsis)
    (license license:gpl2)))

(define-public tachyon
  (package
    (name "tachyon")
    (version "0.99.5")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "http://jedi.ks.uiuc.edu/~johns/raytracer/files/" version
                    "/tachyon-" version ".tar.gz"))
              (sha256
               (base32
                "1xd6h5d4v6dsnm6w46bdcr15fwkcz44p8dncymfry50i4c83q809"))
              (patches (search-patches "tachyon-make-arch.patch"))))
    (build-system gnu-build-system)
    (arguments
     (list #:tests? #f ; no tests
           #:make-flags #~(list "linux-thr"
                                (string-append "CC=" #$(cc-for-target))
                                (string-append "AR=" #$(ar-for-target)))
           #:phases #~(modify-phases %standard-phases
                        (delete 'configure)
                        (add-after 'unpack 'cd-to-src
                          (lambda _
                            (chdir "unix")))
                        (add-before 'build 'enable-png-jpeg-support
                          (lambda* (#:key inputs #:allow-other-keys)
                            (substitute* "Make-config"
                              (("USEJPEG=") "USEJPEG = -DUSEJPEG")
                              (("JPEGLIB=") "JPEGLIB = -ljpeg")
                              (("USEPNG=") "USEPNG = -DUSEPNG")
                              (("PNGLIB=") "PNGLIB = -lpng -lz"))))
                        (add-before 'build 'fix-paths
                          (lambda* (#:key inputs #:allow-other-keys)
                            (substitute* "Make-config"
                              (("SHELL=/bin/sh")
                               (string-append "SHELL=" (search-input-file inputs "/bin/sh"))))))
                        (replace 'install
                          (lambda _
                            (install-file "../compile/tachyon"
                                          (string-append #$output "/bin"))
                            (install-file "../compile/libtachyon.a"
                                          (string-append #$output "/lib")))))))
    (inputs (list libjpeg-turbo libpng))
    (home-page "http://jedi.ks.uiuc.edu/~johns/raytracer/")
    (synopsis "Multithreaded ray tracing software")
    (description synopsis)
    (license license:bsd-3)))

(define-public sagemath-data-conway-polynomials
  (let
      ((install-py-origin
        (origin
          (method url-fetch)
          (uri
           "https://raw.githubusercontent.com/sagemath/sage/9.6/build/pkgs/conway_polynomials/spkg-install.py")
          (sha256 (base32
                   "1bwnqasnyv793hxg29viing4dnliz29grkhldsirq19d509yk1fs")))))
    (package
      (name "sagemath-data-conway-polynomials")
      (version "0.5")
      (source (origin
                (method url-fetch)
                (uri (string-append
                      "https://mirrors.mit.edu/sage/spkg/upstream/conway_polynomials/conway_polynomials-"
                      version ".tar.bz2"))
                (sha256
                 (base32
                  "05zb1ly9x2bbscqv0jgc45g48xx77mfs7qdbqhn4ihmihn57iwnq"))))
      (build-system trivial-build-system)
      (arguments
       (list #:modules '((guix build utils))
             #:builder #~(begin
                           (use-modules (guix build utils))

                           (setenv "PATH"
                                   (string-append #+(file-append bzip2 "/bin")
                                                  ":"
                                                  #+(file-append tar "/bin")
                                                  ":"
                                                  #+(file-append python "/bin")))
                           (setenv "SAGE_SHARE" (string-append #$output "/share"))
                           (setenv "PYTHONPATH" (getcwd))

                           (invoke "tar" "-xvf" #$source)
                           (symlink (string-append "conway_polynomials-" #$version) "src")
                           (invoke "python3" (assoc-ref %build-inputs "install-py")))))
      (inputs `(("install-py" ,install-py-origin)))
      (home-page
       "https://www.math.rwth-aachen.de/~Frank.Luebeck/data/ConwayPol/index.html")
      (synopsis "Tables of Conway polynomials over finite fields")
      (description synopsis)
      ;; no idea, Arch claims gpl, debian gpl2+??
      (license #f))))

(define-public sagemath-data-elliptic-curves
  (let
      ((install-py-origin
        (origin
          (method url-fetch)
          (uri
           "https://raw.githubusercontent.com/sagemath/sage/9.6/build/pkgs/elliptic_curves/spkg-install.py")
          (sha256 (base32
                   "116g684i6mvs11fvb6fzfsr4fn903axn31vigdyb8bgpf8l4hvc5")))))
    (package
      (name "sagemath-data-elliptic-curves")
      (version "0.8.1")
      (source (origin
                (method url-fetch)
                (uri (string-append
                      "https://mirrors.mit.edu/sage/spkg/upstream/elliptic_curves/elliptic_curves-"
                      version ".tar.bz2"))
                (sha256
                 (base32
                  "0l7xh4abw5sb4d37r0ylr3vwb88fpx2zrvfm5ql0c7yrv5q59fjz"))))
      (build-system trivial-build-system)
      (arguments
       (list #:modules '((guix build utils))
             #:builder #~(begin
                           (use-modules (guix build utils))

                           (setenv "PATH"
                                   (string-append #+(file-append bzip2 "/bin")
                                                  ":"
                                                  #+(file-append tar "/bin") ":"
                                                  #+(file-append python "/bin")))
                           (setenv "SAGE_SHARE" (string-append #$output "/share"))
                           (setenv "PYTHONPATH" (getcwd))

                           (invoke "tar" "-xvf" #$source)
                           (symlink (string-append "elliptic_curves-" #$version) "src")
                           (invoke "python3" (assoc-ref %build-inputs "install-py")))))
      (inputs `(("install-py" ,install-py-origin)))
      (home-page "https://johncremona.github.io/ecdata/")
      (synopsis "Databases of elliptic curves")
      (description synopsis)
      ;; no idea, Arch claims gpl, alledgedly is part of
      ;; https://github.com/JohnCremona/ecdata Artistic 2.0
      (license #f))))

(define-public sagemath-data-combinatorial-designs
  (package
    (name "sagemath-data-combinatorial-designs")
    (version "20140630")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "https://mirrors.mit.edu/sage/spkg/upstream/combinatorial_designs/combinatorial_designs-"
                    version
                    ".tar.bz2"))
              (sha256
               (base32
                "0bj8ngiq59hipa6izi6g5ph5akmy4cbk0vlsb0wa67f7grnnqj69"))))
    (build-system copy-build-system)
    (arguments '(#:install-plan '(("." "share/combinatorial_designs/"))))
    (home-page "https://www.sagemath.org")
    (synopsis "Data for Combinatorial Designs")
    (description synopsis)
    ;; Sage claims public domain
    (license #f)))

(define-public sagemath-data-graphs
  (package
    (name "sagemath-data-graphs")
    (version "202110214")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "https://mirrors.mit.edu/sage/spkg/upstream/graphs/graphs-"
                    version
                    ".tar.bz2"))
              (sha256
               (base32
                "0h9p5wrxips51x6vpfiiaqzp9j004nwppzc9qc2iaqakk06pq8q7"))))
    (build-system copy-build-system)
    (arguments '(#:install-plan '(("." "share/graphs"))))
    (home-page "https://github.com/jasongrout/graph_database") ;; correct?
    (synopsis "A database of graphs")
    (description synopsis)
    ;; Arch says gpl
    (license #f)))

(define-public sagemath-data-polytopes-db
  (package
    (name "sagemath-data-polytopes-db")
    (version "20170220")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "https://mirrors.mit.edu/sage/spkg/upstream/polytopes/polytopes-"
                    version
                    ".tar.bz2"))
              (sha256
               (base32
                "1q0cd811ilhax4dsj9y5p7z8prlalqr7k9mzq178c03frbgqny6b"))))
    (build-system copy-build-system)
    (arguments '(#:install-plan '(("." "share/reflexive_polytopes"))))
    (home-page "https://www.sagemath.org")
    (synopsis "Lists of 2- and 3-dimensional reflexive polytopes")
    (description synopsis)
    ;; Sage says gpl
    (license #f)))

debug log:

solving 1f5c51bf86 ...
found 1f5c51bf86 in https://yhetil.org/guix-patches/844f866923ceb072887afd1a79208df9f62905c0.1659973115.git.guix@ikherbers.com/
found 037d42b1dc in https://yhetil.org/guix-patches/cac5af4a83aaaf3746cd8d7fdcb4566eeec1902b.1659973115.git.guix@ikherbers.com/
found da7194c490 in https://yhetil.org/guix-patches/dd27c079972cc395bbc7c4daa88b942464e238aa.1659973115.git.guix@ikherbers.com/
found d4450d5d46 in https://yhetil.org/guix-patches/3c321223f64adb272aa9b446180236e24ee23673.1659973115.git.guix@ikherbers.com/
found 2d82c9ae2e in https://yhetil.org/guix-patches/7314b2386dcd862d4405340ab7b3e27dac24df6b.1659973115.git.guix@ikherbers.com/
found 4ffc3fb9ba in https://yhetil.org/guix-patches/b895c20277e3d07aa9f38e6179f69af5843054f6.1659973115.git.guix@ikherbers.com/
found b59c93f13a in https://yhetil.org/guix-patches/16ce3f083a66df96e4559aa2b1a0212d4046dc81.1659973115.git.guix@ikherbers.com/
found 474af8f246 in https://yhetil.org/guix-patches/18be26da58bdc8030e932797f4734a56546b4c7a.1659973115.git.guix@ikherbers.com/
found adffd881e1 in https://yhetil.org/guix-patches/00fd185a226c1748f798d767cb4b312663be2375.1659973115.git.guix@ikherbers.com/
found 16810a2d2b in https://yhetil.org/guix-patches/9098133eb9de62cfae8fda11888ce464a463eff8.1659973115.git.guix@ikherbers.com/
found d8b70e6f23 in https://yhetil.org/guix-patches/a5aba7fd11e67e43802eab00ce3608b58e255714.1659973115.git.guix@ikherbers.com/
found 20cc1f3589 in https://yhetil.org/guix-patches/398cd1ff61a29526e276b9d3fd8f3f91afc5e6f6.1659973115.git.guix@ikherbers.com/
found 335d98d9f4 in https://yhetil.org/guix-patches/4b6d43aae30a919993773f511c6097b0268a3c53.1658595756.git.guix@ikherbers.com/ ||
	https://yhetil.org/guix-patches/02d359414dd0b7091c5875ae37f4a2adfe466584.1659973115.git.guix@ikherbers.com/
found 2e9de70e4a in https://yhetil.org/guix-patches/612568de06686815affc8ea7eaa12523e53e9ca1.1659973115.git.guix@ikherbers.com/ ||
	https://yhetil.org/guix-patches/9e76f5f7308040e7e28ab6643eabe5be55674876.1658595756.git.guix@ikherbers.com/
found 1237ff8e04 in https://yhetil.org/guix-patches/8fad623072b4075781f6936fd1a324950886023c.1658595756.git.guix@ikherbers.com/ ||
	https://yhetil.org/guix-patches/55e1d58de2c6d3109c1c6e33644cefe8fb122f49.1659973115.git.guix@ikherbers.com/
found b29620a946 in https://yhetil.org/guix-patches/a92553c08f12f536582ab3a4ea5bf914c94ed38c.1658595756.git.guix@ikherbers.com/ ||
	https://yhetil.org/guix-patches/66b99e72c66e3aed984b5c48c3d8d95f86987f2c.1659973115.git.guix@ikherbers.com/
found 75720f31a5 in https://yhetil.org/guix-patches/3cf16c89d261aae63fbf9b4965e1b676d76e9609.1658595756.git.guix@ikherbers.com/ ||
	https://yhetil.org/guix-patches/786a15803950a03fa7f47abe8e3457c4d7d611f4.1659973115.git.guix@ikherbers.com/
found 7f76f8912b in https://git.savannah.gnu.org/cgit/guix.git
preparing index
index prepared:
100644 7f76f8912bf832d37a388b349680a09efe665e1c	gnu/packages/sagemath.scm

applying [1/17] https://yhetil.org/guix-patches/3cf16c89d261aae63fbf9b4965e1b676d76e9609.1658595756.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 7f76f8912b..75720f31a5 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

skipping https://yhetil.org/guix-patches/786a15803950a03fa7f47abe8e3457c4d7d611f4.1659973115.git.guix@ikherbers.com/ for 75720f31a5
index at:
100644 75720f31a5c3a883634505a32a3a0e9a2bd5dd10	gnu/packages/sagemath.scm

applying [2/17] https://yhetil.org/guix-patches/a92553c08f12f536582ab3a4ea5bf914c94ed38c.1658595756.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 75720f31a5..b29620a946 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

skipping https://yhetil.org/guix-patches/66b99e72c66e3aed984b5c48c3d8d95f86987f2c.1659973115.git.guix@ikherbers.com/ for b29620a946
index at:
100644 b29620a94640e513c7ecccf3acf3cb7eb9daca1d	gnu/packages/sagemath.scm

applying [3/17] https://yhetil.org/guix-patches/8fad623072b4075781f6936fd1a324950886023c.1658595756.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index b29620a946..1237ff8e04 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

skipping https://yhetil.org/guix-patches/55e1d58de2c6d3109c1c6e33644cefe8fb122f49.1659973115.git.guix@ikherbers.com/ for 1237ff8e04
index at:
100644 1237ff8e04699999469b83a8824afc166833c4fe	gnu/packages/sagemath.scm

applying [4/17] https://yhetil.org/guix-patches/612568de06686815affc8ea7eaa12523e53e9ca1.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 1237ff8e04..2e9de70e4a 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

skipping https://yhetil.org/guix-patches/9e76f5f7308040e7e28ab6643eabe5be55674876.1658595756.git.guix@ikherbers.com/ for 2e9de70e4a
index at:
100644 2e9de70e4abc23c6b32e0da8186910bc19aaf2eb	gnu/packages/sagemath.scm

applying [5/17] https://yhetil.org/guix-patches/4b6d43aae30a919993773f511c6097b0268a3c53.1658595756.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 2e9de70e4a..335d98d9f4 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

skipping https://yhetil.org/guix-patches/02d359414dd0b7091c5875ae37f4a2adfe466584.1659973115.git.guix@ikherbers.com/ for 335d98d9f4
index at:
100644 335d98d9f4b0c2cf83d88d668f74e6fb0e9939a3	gnu/packages/sagemath.scm

applying [6/17] https://yhetil.org/guix-patches/398cd1ff61a29526e276b9d3fd8f3f91afc5e6f6.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 335d98d9f4..20cc1f3589 100644


applying [7/17] https://yhetil.org/guix-patches/a5aba7fd11e67e43802eab00ce3608b58e255714.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 20cc1f3589..d8b70e6f23 100644


applying [8/17] https://yhetil.org/guix-patches/9098133eb9de62cfae8fda11888ce464a463eff8.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index d8b70e6f23..16810a2d2b 100644


applying [9/17] https://yhetil.org/guix-patches/00fd185a226c1748f798d767cb4b312663be2375.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 16810a2d2b..adffd881e1 100644


applying [10/17] https://yhetil.org/guix-patches/18be26da58bdc8030e932797f4734a56546b4c7a.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index adffd881e1..474af8f246 100644


applying [11/17] https://yhetil.org/guix-patches/16ce3f083a66df96e4559aa2b1a0212d4046dc81.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 474af8f246..b59c93f13a 100644


applying [12/17] https://yhetil.org/guix-patches/b895c20277e3d07aa9f38e6179f69af5843054f6.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index b59c93f13a..4ffc3fb9ba 100644


applying [13/17] https://yhetil.org/guix-patches/7314b2386dcd862d4405340ab7b3e27dac24df6b.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 4ffc3fb9ba..2d82c9ae2e 100644


applying [14/17] https://yhetil.org/guix-patches/3c321223f64adb272aa9b446180236e24ee23673.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 2d82c9ae2e..d4450d5d46 100644


applying [15/17] https://yhetil.org/guix-patches/dd27c079972cc395bbc7c4daa88b942464e238aa.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index d4450d5d46..da7194c490 100644


applying [16/17] https://yhetil.org/guix-patches/cac5af4a83aaaf3746cd8d7fdcb4566eeec1902b.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index da7194c490..037d42b1dc 100644


applying [17/17] https://yhetil.org/guix-patches/844f866923ceb072887afd1a79208df9f62905c0.1659973115.git.guix@ikherbers.com/
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index 037d42b1dc..1f5c51bf86 100644

Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.
Checking patch gnu/packages/sagemath.scm...
Applied patch gnu/packages/sagemath.scm cleanly.

index at:
100644 1f5c51bf868ba39ffb0a92ab8a3be0da29b275f5	gnu/packages/sagemath.scm

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