aboutsummaryrefslogtreecommitdiff
 
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2022 Andreas Enge <andreas@enge.fr>
;;; Copyright © 2013, 2015, 2017, 2018, 2021 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2016-2022 Nicolas Goaziou <mail@nicolasgoaziou.fr>
;;; Copyright © 2014, 2018 Mark H Weaver <mhw@netris.org>
;;; Copyright © 2016, 2018, 2019, 2021 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2017, 2020-2022 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2017–2021 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Marius Bakke <mbakke@fastmail.com>
;;; Copyright © 2017, 2019, 2021, 2022 Eric Bavier <bavier@posteo.net>
;;; Copyright © 2019 Mathieu Othacehe <m.othacehe@gmail.com>
;;; Copyright © 2020 Björn Höfling <bjoern.hoefling@bjoernhoefling.de>
;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net>
;;; Copyright © 2020 Vincent Legoll <vincent.legoll@gmail.com>
;;; Copyright © 2020, 2021 Vinicius Monego <monego@posteo.net>
;;; Copyright © 2021 Lars-Dominik Braun <ldb@leibniz-psychology.org>
;;; Copyright © 2022 Maxim Cournoyer <maxim.cournoyer@gmail.com>
;;;
;;; 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 algebra)
  #:use-module (gnu packages)
  #:use-module (gnu packages autotools)
  #:use-module (gnu packages bison)
  #:use-module (gnu packages boost)
  #:use-module (gnu packages check)
  #:use-module (gnu packages compression)
  #:use-module (gnu packages cpp)
  #:use-module (gnu packages documentation)
  #:use-module (gnu packages ed)
  #:use-module (gnu packages flex)
  #:use-module (gnu packages fltk)
  #:use-module (gnu packages gcc)
  #:use-module (gnu packages gl)
  #:use-module (gnu packages graphviz)
  #:use-module (gnu packages image)
  #:use-module (gnu packages java)
  #:use-module (gnu packages maths)
  #:use-module (gnu packages mpi)
  #:use-module (gnu packages multiprecision)
  #:use-module (gnu packages ocaml)
  #:use-module (gnu packages perl)
  #:use-module (gnu packages pkg-config)
  #:use-module (gnu packages pulseaudio)
  #:use-module (gnu packages python)
  #:use-module (gnu packages python-xyz)
  #:use-module (gnu packages readline)
  #:use-module (gnu packages shells)
  #:use-module (gnu packages tex)
  #:use-module (gnu packages texinfo)
  #:use-module (gnu packages xiph)
  #:use-module (gnu packages xml)
  #:use-module (gnu packages xorg)
  #:use-module (guix build-system ant)
  #:use-module (guix build-system gnu)
  #:use-module (guix build-system cmake)
  #:use-module (guix build-system python)
  #:use-module (guix build-system r)
  #:use-module (guix download)
  #:use-module (guix gexp)
  #:use-module (guix git-download)
  #:use-module (guix hg-download)
  #:use-module ((guix licenses) #:prefix license:)
  #:use-module (guix packages)
  #:use-module (guix utils)
  #:use-module (ice-9 match))


(define-public mpfrcx
  (package
   (name "mpfrcx")
   (version "0.6.3")
   (source (origin
            (method url-fetch)
            (uri (string-append
                  "http://www.multiprecision.org/downloads/mpfrcx-"
                  version ".tar.gz"))
            (sha256
             (base32
              "1545vgizpypqi2rrriad0ybqv0qwbn9zr0ibxpk00gha9ihv7acx"))))
   (build-system gnu-build-system)
   (propagated-inputs
     (list gmp mpfr mpc)) ; Header files are included by mpfrcx.h.
   (synopsis "Arithmetic of polynomials over arbitrary precision numbers")
   (description
    "Mpfrcx is a library for the arithmetic of univariate polynomials over
arbitrary precision real (mpfr) or complex (mpc) numbers, without control
on the rounding.  For the time being, only the few functions needed to
implement the floating point approach to complex multiplication are
implemented.  On the other hand, these comprise asymptotically fast
multiplication routines such as Toom–Cook and the FFT.")
   (license license:lgpl3+)
   (home-page "http://www.multiprecision.org/mpfrcx/")))

(define-public gf2x
  (package
    (name "gf2x")
    (version "1.3.0")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://gitlab.inria.fr/gf2x/gf2x")
                    (commit (string-append name "-" version))))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "04g5jg0i4vz46b4w2dvbmahwzi3k6b8g515mfw7im1inc78s14id"))))
    (build-system gnu-build-system)
    (native-inputs (list autoconf automake libtool))
    (synopsis "Arithmetic of polynomials over binary finite fields")
    (description
     "The gf2x library provides arithmetic of polynomials over finite fields
of characteristic 2.  It implements the multiplication, squaring and
greatest common divisor operations.")
    (home-page "https://gitlab.inria.fr/gf2x/gf2x")
    (license license:gpl3+)))

(define-public cm
  (package
   (name "cm")
   (version "0.4.0")
   (source (origin
            (method url-fetch)
            (uri (string-append
                  "http://www.multiprecision.org/downloads/cm-"
                  version ".tar.gz"))
            (sha256
             (base32
              "04l3inafql40n0r5rq8rmp21zplgdrzblil2kgkpx5s0jbs9i8rr"))))
   (build-system gnu-build-system)
   (propagated-inputs
     (list mpfrcx zlib)) ; Header files included from cm_common.h.
   (inputs
     (list pari-gp))
   (synopsis "CM constructions for elliptic curves")
   (description
    "The CM software implements the construction of ring class fields of
imaginary quadratic number fields and of elliptic curves with complex
multiplication via floating point approximations.  It consists of libraries
that can be called from within a C program and of executable command
line applications.")
   (license license:gpl3+)
   (home-page "http://www.multiprecision.org/cm/")))

(define-public fplll
  (package
    (name "fplll")
    (version "5.4.2")
    (source (origin
              (method git-fetch)
              (uri (git-reference
                    (url "https://github.com/fplll/fplll")
                    (commit version)))
              (file-name (git-file-name name version))
              (sha256
               (base32
                "0044nyfnwzgyfrsikbcbh00f54dd61hwn3fb6711rrskkfnw977a"))))
    (build-system gnu-build-system)
    (native-inputs
     (list autoconf automake libtool pkg-config))
    (propagated-inputs ; header files pulled in by fplll/defs.h
     (list gmp mpfr))
    (home-page "https://github.com/fplll/fplll")
    (synopsis "Library for LLL-reduction of euclidean lattices")
    (description
     "fplll contains implementations of several lattice algorithms.
The implementation relies on floating-point orthogonalization, and LLL
is central to the code, hence the name.

It includes implementations of floating-point LLL reduction
algorithms, offering different speed/guarantees ratios.  It contains
a @emph{wrapper} choosing the estimated best sequence of variants in
order to provide a guaranteed output as fast as possible.  In the case
of the wrapper, the succession of variants is oblivious to the user.

It includes an implementation of the BKZ reduction algorithm,
including the BKZ-2.0 improvements (extreme enumeration
pruning, pre-processing of blocks, early termination).  Additionally,
Slide reduction and self dual BKZ are supported.

It also includes a floating-point implementation of the
Kannan-Fincke-Pohst algorithm that finds a shortest non-zero lattice
vector.  For the same task, the GaussSieve algorithm is also available
in fplll.  Finally, it contains a variant of the enumeration algorithm
that computes a lattice vector closest to a given vector belonging to
the real span of the lattice.")
    (license license:l (let ((lxqt (lxqt-package config)))
    (map (lambda (name)
           ((package-direct-input-selector name) lxqt))
         '("lxqt-admin"))))

(define lxqt-desktop-service-type
  (service-type
   (name 'lxqt-desktop)
   (extensions
    (list (service-extension polkit-service-type
                             lxqt-polkit-settings)
          (service-extension profile-service-type
                             (compose list lxqt-package))))
   (default-value (lxqt-desktop-configuration))
   (description "Run LXQt desktop environment.")))


;;;
;;; Sugar desktop service.
;;;

(define-record-type* <sugar-desktop-configuration> sugar-desktop-configuration
  make-sugar-desktop-configuration
  sugar-desktop-configuration?
  (sugar sugar-package (default sugar))
  (gobject-introspection
   sugar-gobject-introspection (default gobject-introspection))
  (activities
   sugar-activities (default (list sugar-help-activity))))

(define (sugar-polkit-settings config)
  "Return the list of packages that provide polkit actions and rules."
  (list (sugar-package config)))

(define sugar-desktop-service-type
  (service-type
   (name 'sugar-desktop)
   (extensions
    (list (service-extension polkit-service-type
                             sugar-polkit-settings)
          (service-extension profile-service-type
                             (lambda (config)
                               (cons* (sugar-package config)
                                      (sugar-gobject-introspection config)
                                      (sugar-activities config))))))
   (default-value (sugar-desktop-configuration))
   (description "Run the Sugar desktop environment.")))


;;;
;;; X11 socket directory service
;;;

(define x11-socket-directory-service-type
  (let ((x11-socket-directory-shepherd-service
         (shepherd-service
          (documentation "Create @file{/tmp/.X11-unix} for XWayland.")
          (requirement '(file-systems))
          (provision '(x11-socket-directory))
          (one-shot? #t)
          (start #~(lambda _
                     (let ((directory "/tmp/.X11-unix"))
                       (mkdir-p directory)
                       (chmod directory #o1777)))))))
    (service-type
     (name 'x11-socket-directory-service)
     (extensions
      (list
       (service-extension shepherd-root-service-type
                          (compose
                           list
                           (const x11-socket-directory-shepherd-service)))))
     (default-value #f) ; no default value required
     (description
      "Create @file{/tmp/.X11-unix} for XWayland.  When using X11, libxcb
takes care of creating that directory however, when using XWayland, we
need to create it beforehand."))))

(define-deprecated x11-socket-directory-service
  x11-socket-directory-service-type
  ;; Return a service that creates /tmp/.X11-unix.  When using X11, libxcb
  ;; takes care of creating that directory.  However, when using XWayland, we
  ;; need to create beforehand.  Thus, create it unconditionally here.
  (service x11-socket-directory-service-type))


;;;
;;; Enlightenment desktop service.
;;;

(define-record-type* <enlightenment-desktop-configuration>
  enlightenment-desktop-configuration make-enlightenment-desktop-configuration
  enlightenment-desktop-configuration?
  ;; <package>
  (enlightenment        enlightenment-package
                        (default enlightenment)))

(define (enlightenment-privileged-programs enlightenment-desktop-configuration)
  (match-record enlightenment-desktop-configuration
      <enlightenment-desktop-configuration>
    (enlightenment)
    (map (lambda (program) (privileged-program (program program)
                                               (setuid? #t)))
         (list (file-append enlightenment
                            "/lib/enlightenment/utils/enlightenment_sys")
               (file-append enlightenment
                            "/lib/enlightenment/utils/enlightenment_system")
               (file-append enlightenment
                            "/lib/enlightenment/utils/enlightenment_ckpasswd")))))

(define enlightenment-desktop-service-type
  (service-type
   (name 'enlightenment-desktop)
   (extensions
    (list (service-extension dbus-root-service-type
                             (compose list
                                      (package-direct-input-selector
                                       "efl")
                                      enlightenment-package))
          (service-extension udev-service-type
                             (compose list
                                      (package-direct-input-selector
                                        "ddcutil")
                                      enlightenment-package))
          (service-extension privileged-program-service-type
                             enlightenment-privileged-programs)
          (service-extension profile-service-type
                             (compose list
                                      enlightenment-package))))
   (default-value (enlightenment-desktop-configuration))
   (description
    "Return a service that adds the @code{enlightenment} package to the system
profile, and extends dbus with the ability for @code{efl} to generate
thumbnails and privileges the programs which enlightenment needs to function
as expected.")))

;;;
;;; KDE Plasma desktop service.
;;;

(define-record-type* <plasma-desktop-configuration> plasma-desktop-configuration
  make-plasma-desktop-configuration
  plasma-desktop-configuration?
  (plasma-package plasma-package (default plasma)))

(define (plasma-polkit-settings config)
  "Return the list of KDE Plasma dependencies that provide polkit actions and
rules."
  (let ((plasma-plasma (plasma-package config)))
    (map (lambda (name)
           ((package-direct-input-selector name) plasma-plasma))
         '("plasma-desktop"
           "plasma-workspace"
           "plasma-disks"
           "kinfocenter"
           "libksysguard"
           "ktexteditor"
           "powerdevil"
           "plasma-firewall"))))

(define (plasma-dbus-service config)
  "Return the list of KDE Plasma dependencies that provide D-Bus services."
  (let ((plasma-plasma (plasma-package config)))
    (map (lambda (name)
           ((package-direct-input-selector name) plasma-plasma))
         '("plasma-desktop"
           "plasma-workspace"
           "kactivitymanagerd"
           "plasma-disks"
           "kinfocenter"
           "libksysguard"
           "ktexteditor"
           "powerdevil"
           "kwallet"
           "plasma-firewall"))))

;; see https://bugs.kde.org/show_bug.cgi?id=456210
;; if `kde' no exits, fallback to `other', and then unlock lockscreen not work,
;; so add it.
(define (plasma-pam-services config)
  (list (unix-pam-service "kde")))

(define plasma-desktop-service-type
  (service-type
   (name 'plasma-desktop)
   (description "Run the KDE Plasma desktop environment.")
   (default-value (plasma-desktop-configuration))
   (extensions
    (list (service-extension polkit-service-type
                             plasma-polkit-settings)
          (service-extension dbus-root-service-type
                             plasma-dbus-service)
          (service-extension pam-root-service-type
                             plasma-pam-services)
          (service-extension profile-service-type
                             (compose list
                                      plasma-package))))))


;;;
;;; inputattach-service-type
;;;

(define-record-type* <inputattach-configuration>
  inputattach-configuration
  make-inputattach-configuration
  inputattach-configuration?
  (device-type inputattach-configuration-device-type
               (default "wacom"))
  (device inputattach-configuration-device
          (default "/dev/ttyS0"))
  (baud-rate inputattach-configuration-baud-rate
             (default #f))
  (log-file inputattach-configuration-log-file
            (default #f)))

(define inputattach-shepherd-service
  (match-lambda
    (($ <inputattach-configuration> type device baud-rate log-file)
     (let ((args (append (if baud-rate
                             (list "--baud" (number->string baud-rate))
                             '())
                         (list (string-append "--" type)
                               device))))
       (list (shepherd-service
              (provision '(inputattach))
              (requirement '(udev))
              (documentation "inputattach daemon")
              (start #~(make-forkexec-constructor
                        (cons (string-append #$inputattach
                                             "/bin/inputattach")
                              (quote #$args))
                        #:log-file #$log-file))
              (stop #~(make-kill-destructor))))))))

(define inputattach-service-type
  (service-type
   (name 'inputattach)
   (extensions
    (list (service-extension shepherd-root-service-type
                             inputattach-shepherd-service)))
   (default-value (inputattach-configuration))
   (description "Return a service that runs inputattach on a device and
dispatches events from it.")))


;;;
;;; gnome-keyring-service-type
;;;

(define-record-type* <gnome-keyring-configuration> gnome-keyring-configuration
  make-gnome-keyring-configuration
  gnome-keyring-configuration?
  (keyring gnome-keyring-package (default gnome-keyring))
  (pam-services gnome-keyring-pam-services (default '(("gdm-password" . login)
                                                      ("passwd" . passwd)))))

(define (pam-gnome-keyring config)
  (define (%pam-keyring-entry . arguments)
    (pam-entry
     (control "optional")
     (module (file-append (gnome-keyring-package config)
                          "/lib/security/pam_gnome_keyring.so"))
     (arguments arguments)))

  (list
   (pam-extension
    (transformer
     (lambda (service)
       (case (assoc-ref (gnome-keyring-pam-services config)
                        (pam-service-name service))
         ((login)
          (pam-service
           (inherit service)
           (auth (append (pam-service-auth service)
                         (list (%pam-keyring-entry))))
           (session (append (pam-service-session service)
                            (list (%pam-keyring-entry "auto_start"))))))
         ((passwd)
          (pam-service
           (inherit service)
           (password (append (pam-service-password service)
                             (list (%pam-keyring-entry))))))
         (else service)))))))

(define gnome-keyring-service-type
  (service-type
   (name 'gnome-keyring)
   (extensions (list
                (service-extension pam-root-service-type pam-gnome-keyring)))
   (default-value (gnome-keyring-configuration))
   (description "Return a service, that adds the @code{gnome-keyring} package
to the system profile and extends PAM with entries using
@code{pam_gnome_keyring.so}, unlocking a user's login keyring when they log in
or setting its password with passwd.")))


;;;
;;; polkit-wheel-service -- Allow wheel group to perform admin actions
;;;

(define polkit-wheel
  (file-union
   "polkit-wheel"
   `(("share/polkit-1/rules.d/wheel.rules"
      ,(plain-file
        "wheel.rules"
        "polkit.addAdminRule(function(action, subject) {
    return [\"unix-group:wheel\"];
});
")))))

(define polkit-wheel-service
  (simple-service 'polkit-wheel polkit-service-type (list polkit-wheel)))


;;;
;;; seatd-service-type -- minimal seat management daemon
;;;

(define (seatd-group-sanitizer group-or-name)
  (match group-or-name
    ((? user-group? group) group)
    ((? string? group-name) (user-group (name group-name) (system? #t)))
    (_ (leave (G_ "seatd: '~a' is not a valid group~%") group-or-name))))

(define-record-type* <seatd-configuration> seatd-configuration
  make-seatd-configuration
  seatd-configuration?
  (seatd seatd-package (default seatd))
  (group seatd-group                    ; string | <user-group>
         (default "seat")
         (sanitize seatd-group-sanitizer))
  (socket seatd-socket (default "/run/seatd.sock"))
  (logfile seatd-logfile (default "/var/log/seatd.log"))
  (loglevel seatd-loglevel (default "info")))

(define (seatd-shepherd-service config)
  (list (shepherd-service
         (documentation "Minimal seat management daemon")
         (requirement '())
         ;; TODO: once cgroups is separate dependency
         ;; here we should depend on it rather than elogind
         (provision '(seatd elogind))
         (start #~(make-forkexec-constructor
                   (list #$(file-append (seatd-package config) "/bin/seatd")
                         "-g" #$(user-group-name (seatd-group config)))
                   #:environment-variables
                   (list (string-append "SEATD_LOGLEVEL="
                                        #$(seatd-loglevel config))
                         (string-append "SEATD_DEFAULTPATH="
                                        #$(seatd-socket config)))
                   #:log-file #$(seatd-logfile config)))
         (stop #~(make-kill-destructor)))))

(define seatd-accounts
  (match-lambda (($ <seatd-configuration> _ group) (list group))))

(define seatd-environment
  (match-lambda
    (($ <seatd-configuration> _ _ socket)
     `(("SEATD_SOCK" . ,socket)))))

(define seatd-service-type
  (service-type
   (name 'seatd)
   (description "Seat management takes care of mediating access
to shared devices (graphics, input), without requiring the
applications needing access to be root.")
   (extensions
    (list
     (service-extension account-service-type seatd-accounts)
     (service-extension session-environment-service-type seatd-environment)
     ;; TODO: once cgroups is separate dependency we should not mount it here
     ;; for now it is mounted here, because elogind mounts it
     (service-extension file-system-service-type (const %control-groups))
     (service-extension shepherd-root-service-type seatd-shepherd-service)))
   (default-value (seatd-configuration))))


;;;
;;; The default set of desktop services.
;;;

(define* (desktop-services-for-system #:optional
                                      (system (or (%current-target-system)
                                                  (%current-system))))
  ;; List of services typically useful for a "desktop" use case.

  ;; Since GDM depends on Rust (gdm -> gnome-shell -> gjs -> mozjs -> rust)
  ;; and Rust is currently unavailable on non-x86_64 platforms, default to
  ;; SDDM there (FIXME).
  (cons* (if (string-prefix? "x86_64" system)
             (service gdm-service-type)
             (service sddm-service-type))

         ;; Screen lockers are a pretty useful thing and these are small.
         (service screen-locker-service-type
                  (screen-locker-configuration
                   (name "slock")
                   (program (file-append slock "/bin/slock"))))
         (service screen-locker-service-type
                  (screen-locker-configuration
                   (name "xlock")
                   (program (file-append xlockmore "/bin/xlock"))))

         ;; Add udev rules for MTP devices so that non-root users can access
         ;; them.
         (simple-service 'mtp udev-service-type (list libmtp))
         ;; Add udev rules for scanners.
         (service sane-service-type)
         ;; Add polkit rules, so that non-root users in the wheel group can
         ;; perform administrative tasks (similar to "sudo").
         polkit-wheel-service

         ;; Allow desktop users to also mount NTFS and NFS file systems
         ;; without root.
         (simple-service 'mount-setuid-helpers setuid-program-service-type
                         (map (lambda (program)
                                (privileged-program
                                 (program program)
                                 (setuid? #t)))
                              (list (file-append nfs-utils "/sbin/mount.nfs")
                               (file-append ntfs-3g "/sbin/mount.ntfs-3g"))))

         ;; This is a volatile read-write file system mounted at /var/lib/gdm,
         ;; to avoid GDM stale cache and permission issues.
         gdm-file-system-service

         ;; The global fontconfig cache directory can sometimes contain
         ;; stale entries, possibly referencing fonts that have been GC'd,
         ;; so mount it read-only.
         fontconfig-file-system-service

         ;; NetworkManager and its applet.
         (service network-manager-service-type)
         (service wpa-supplicant-service-type)    ;needed by NetworkManager
         (simple-service 'network-manager-applet
                         profile-service-type
                         (list network-manager-applet))
         (service modem-manager-service-type)
         (service usb-modeswitch-service-type)

         ;; The D-Bus clique.
         (service avahi-service-type)
         (service udisks-service-type)
         (service upower-service-type)
         (service accountsservice-service-type)
         (service cups-pk-helper-service-type)
         (service colord-service-type)
         (service geoclue-service-type)
         (service polkit-service-type)
         (service elogind-service-type)
         (service dbus-root-service-type)

         (service ntp-service-type)

         (service x11-socket-directory-service-type)

         (service pulseaudio-service-type)
         (service alsa-service-type)

         %base-services))

(define-syntax %desktop-services
  (identifier-syntax (desktop-services-for-system)))

;;; desktop.scm ends here
generated by cgit
umeric processing language") (description "bc is an arbitrary precision numeric processing language. It includes an interactive environment for evaluating mathematical statements. Its syntax is similar to that of C, so basic usage is familiar. It also includes \"dc\", a reverse-polish calculator.") (license license:gpl2+))) ;; The original kiss-fft does not have a complete build system and does not ;; build any shared libraries. This is a fork used by Extempore. (define-public kiss-fft-for-extempore (package (name "kiss-fft-for-extempore") (version "1.3.0") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/extemporelang/kiss_fft") (commit version))) (file-name (git-file-name name version)) (sha256 (base32 "0jasbmqy4wkqrqx3w64s1dfmj34875xmsl72mb26aa4hpyn14bi2")))) (build-system cmake-build-system) (arguments `(#:tests? #f)) ; no tests included ;; Extempore refuses to build on architectures other than x86_64 (supported-systems '("x86_64-linux")) (home-page "https://github.com/extemporelang/kiss_fft") (synopsis "Mixed-radix Fast Fourier Transform") (description "Kiss FFT attempts to be a reasonably efficient, moderately useful FFT that can use fixed or floating data types and can easily be incorporated into a C program.") (license license:bsd-3))) (define-public fftw (package (name "fftw") (version "3.3.8") (source (origin (method url-fetch) (uri (string-append "ftp://ftp.fftw.org/pub/fftw/fftw-" version".tar.gz")) (sha256 (base32 "00z3k8fq561wq2khssqg0kallk0504dzlx989x3vvicjdqpjc4v1")))) (build-system gnu-build-system) (arguments `(#:configure-flags '("--enable-shared" "--enable-openmp" "--enable-threads" ,@(let ((system (or (%current-target-system) (%current-system)))) ;; Enable SIMD extensions for codelets. See details at: ;; <http://fftw.org/fftw3_doc/Installation-on-Unix.html>. (cond ((string-prefix? "x86_64" system) '("--enable-sse2" "--enable-avx" "--enable-avx2" "--enable-avx512" "--enable-avx-128-fma")) ((string-prefix? "i686" system) '("--enable-sse2")) ((string-prefix? "aarch64" system) ;; Note that fftw supports NEON on 32-bit ARM only when ;; compiled for single-precision. '("--enable-neon")) (else '()))) ;; By default '-mtune=native' is used. However, that may cause the ;; use of ISA extensions (e.g. AVX) that are not necessarily ;; available on the user's machine when that package is built on a ;; different machine. "ax_cv_c_flags__mtune_native=no"))) (native-inputs (list perl)) (home-page "http://fftw.org") (synopsis "Computing the discrete Fourier transform") (description "FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data---i.e. the discrete cosine/ sine transforms or DCT/DST).") (license license:gpl2+))) (define-public fftwf (package/inherit fftw (name "fftwf") (arguments (substitute-keyword-arguments (package-arguments fftw) ((#:configure-flags fftw-configure-flags) `(cons* "--enable-single" ,@(if (string-prefix? "arm" (or (%current-target-system) (%current-system))) ;; fftw supports NEON on 32-bit ARM only when compiled ;; for single-precision, so add it here. '("--enable-neon") '()) ,fftw-configure-flags)))) (description (string-append (package-description fftw) " Single-precision version.")))) (define-public fftw-openmpi (package/inherit fftw (name "fftw-openmpi") (inputs `(("openmpi" ,openmpi) ,@(package-inputs fftw))) (arguments (substitute-keyword-arguments (package-arguments fftw) ((#:configure-flags cf) `(cons "--enable-mpi" ,cf)) ((#:phases phases '%standard-phases) `(modify-phases ,phases (add-before 'check 'mpi-setup ,%openmpi-setup))))) (description (string-append (package-description fftw) " With OpenMPI parallelism support.")))) (define-public java-la4j (package (name "java-la4j") (version "0.6.0") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/vkostyukov/la4j") (commit version))) (file-name (string-append name "-" version "-checkout")) (sha256 (base32 "1qir8dr978cfvz9k12m2kbdwpyf6cqdf1d0ilb7lnkhbgq5i53w3")))) (build-system ant-build-system) (arguments `(#:jar-name "la4j.jar" #:jdk ,icedtea-8 #:test-exclude (list "**/Abstract*.java" "**/MatrixTest.java" "**/DenseMatrixTest.java" "**/SparseMatrixTest.java" "**/VectorTest.java" "**/SparseVectorTest.java" "**/DenseVectorTest.java"))) (native-inputs (list java-junit java-hamcrest-core)) (home-page "http://la4j.org/") (synopsis "Java library that provides Linear Algebra primitives and algorithms") (description "The la4j library is a Java library that provides Linear Algebra primitives (matrices and vectors) and algorithms. The key features of the la4j library are: @itemize @item No dependencies and tiny size @item Fluent object-oriented/functional API @item Sparse (CRS, CCS) and dense (1D/2D arrays) matrices @item Linear systems solving (Gaussian, Jacobi, Zeidel, Square Root, Sweep and other) @item Matrices decomposition (Eigenvalues/Eigenvectors, SVD, QR, LU, Cholesky and other) @item MatrixMarket/CSV IO formats support for matrices and vectors @end itemize\n") (license license:asl2.0))) (define-public java-jlargearrays (package (name "java-jlargearrays") (version "1.6") (source (origin (method url-fetch) (uri (string-append "https://repo1.maven.org/maven2/" "pl/edu/icm/JLargeArrays/" version "/JLargeArrays-" version "-sources.jar")) (file-name (string-append name "-" version ".jar")) (sha256 (base32 "0v05iphpxbjnd7f4jf1rlqq3m8hslhcm0imdbsgxr20pi3xkaf2a")))) (build-system ant-build-system) (arguments `(#:jar-name "jlargearrays.jar" #:tests? #f ; tests are not included in the release archive #:jdk ,icedtea-8)) (propagated-inputs (list java-commons-math3)) (home-page "https://gitlab.com/ICM-VisLab/JLargeArrays") (synopsis "Library of one-dimensional arrays that can store up to 263 elements") (description "JLargeArrays is a Java library of one-dimensional arrays that can store up to 263 elements.") (license license:bsd-2))) (define-public java-jtransforms (package (name "java-jtransforms") (version "3.1") (source (origin (method url-fetch) (uri (string-append "https://repo1.maven.org/maven2/" "com/github/wendykierp/JTransforms/" version "/JTransforms-" version "-sources.jar")) (sha256 (base32 "1haw5m8shv5srgcpwkl853dz8bv6h90bzlhcps6mdpb4cixjirsg")))) (build-system ant-build-system) (arguments `(#:jar-name "jtransforms.jar" #:tests? #f ; tests are not included in the release archive #:jdk ,icedtea-8)) (propagated-inputs (list java-commons-math3 java-jlargearrays)) (home-page "https://github.com/wendykierp/JTransforms") (synopsis "Multithreaded FFT library written in pure Java") (description "JTransforms is a multithreaded FFT library written in pure Java. Currently, four types of transforms are available: @dfn{Discrete Fourier Transform} (DFT), @dfn{Discrete Cosine Transform} (DCT), @dfn{Discrete Sine Transform} (DST) and @dfn{Discrete Hartley Transform} (DHT).") (license license:bsd-2))) (define-public lmfit (package (name "lmfit") (version "8.2.2") (source (origin (method git-fetch) (uri (git-reference (url "https://jugit.fz-juelich.de/mlz/lmfit.git") (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 (base32 "00bch77a6qgnw6vzsjn2a42n8n683ih3xm0wpr454jxa15hw78vf")))) (build-system cmake-build-system) (native-inputs (list perl)) ; for pod2man (home-page "https://jugit.fz-juelich.de/mlz/lmfit") (synopsis "Levenberg-Marquardt minimization and least-squares fitting") (description "lmfit is a C library for Levenberg-Marquardt least-squares minimization and curve fitting. It is mature code, based on decades-old algorithms from the FORTRAN library MINPACK.") (license license:bsd-2))) (define-public symengine (package (name "symengine") (version "0.9.0") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/symengine/symengine") (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 (base32 "17b6byrhk0bgvarqmg92nrrqhzll9as6x1smghmyq2h9xc373ap4")))) (build-system cmake-build-system) (arguments '(#:configure-flags ;; These are the suggested build options in the README. '("-DCMAKE_BUILD_TYPE=Release" "-DWITH_GMP=on" "-DWITH_MPFR=on" "-DWITH_MPC=on" "-DINTEGER_CLASS=flint" "-DWITH_SYMENGINE_THREAD_SAFE=on" "-DBUILD_SHARED_LIBS=on"))) ;also build libsymengine (inputs (list flint gmp mpc mpfr)) (home-page "https://github.com/symengine/symengine") (synopsis "Fast symbolic manipulation library") (description "SymEngine is a standalone fast C++ symbolic manipulation library. Optional thin wrappers allow usage of the library from other languages.") (license (list license:expat ;SymEngine license:bsd-3)))) ;3rd party code (define-public ginac (package (name "ginac") (version "1.8.1") (source (origin (method url-fetch) (uri (string-append "https://www.ginac.de/ginac-" version ".tar.bz2")) (sha256 (base32 "1az1ypfcny4jdz0mic1kywwa9nynr547cl5s7zpn2w0qdfymssgi")))) (build-system gnu-build-system) (arguments `(#:configure-flags (list "--disable-static"))) (native-inputs `(("bison" ,bison) ("flex" ,flex) ("pkg-config" ,pkg-config) ("python" ,python-wrapper))) ; Python is required (inputs (list cln readline)) (home-page "https://www.ginac.de/") (synopsis "Library for symbolic computation") (description "GiNaC is a C++ library for symbolic computation. Contrary to other CAS it does not try to provide extensive algebraic capabilities and a simple programming language but instead accepts a given language (C++) and extends it by a set of algebraic capabilities.") (license license:gpl2+))) (define-public eigen (package (name "eigen") (version "3.4.0") (source (origin (method git-fetch) (uri (git-reference (url "https://gitlab.com/libeigen/eigen.git") (commit version))) (sha256 (base32 "0k1c4qnymwwvm68rv6s0cyk08xbw65ixvwqccsh36c2axcqk3znp")) (file-name (git-file-name name version)) (patches (search-patches "eigen-fix-strict-aliasing-bug.patch")) (modules '((guix build utils))) (snippet ;; There are 3 test failures in the "unsupported" directory, ;; but maintainers say it's a known issue and it's unsupported ;; anyway, so just skip them. '(begin (substitute* "unsupported/CMakeLists.txt" (("add_subdirectory\\(test.*") "# Do not build the tests for unsupported features.\n")) #t)))) (build-system cmake-build-system) (arguments `(;; Turn off debugging symbols to save space. #:build-type "Release" #:modules ((ice-9 match) (guix build utils) (guix build cmake-build-system)) #:phases (modify-phases %standard-phases (add-after 'unpack 'disable-some-tests ;; Not all platforms are well supported by the test suite. (lambda _ ,@(match (%current-system) ("i686-linux" `((substitute* "test/CMakeLists.txt" ((".*packetmath.*") "")))) ("aarch64-linux" `((substitute* "test/CMakeLists.txt" ((".*array_cwise.*") "") ((".*vectorization_logic.*") "")))) ("armhf-linux" `((substitute* "test/CMakeLists.txt" ((".*geo_quaternion.*") "") ((".*jacobisvd.*") "") ((".*packetmath.*") "") ((".*prec_inverse.*") "") ((".*qr_colpivoting.*") "") ((".*vectorization_logic.*") "")))) ("riscv64-linux" `((substitute* "test/CMakeLists.txt" ((".*array_cwise.*") "") ((".*geo_quaternion.*") "")))) (_ '((display "No tests to disable on this architecture.\n")))))) (replace 'check (lambda* (#:key tests? #:allow-other-keys) (let* ((cores (parallel-job-count)) (dash-j (format #f "-j~a" cores))) (when tests? (setenv "EIGEN_SEED" "1") ;for reproducibility ;; First build the tests, in parallel. See ;; <http://eigen.tuxfamily.org/index.php?title=Tests>. (invoke "make" "buildtests" dash-j) ;; Then run 'CTest' with -V so we get more ;; details upon failure. (invoke "ctest" "-V" dash-j)))))))) (home-page "https://eigen.tuxfamily.org") (synopsis "C++ template library for linear algebra") (description "Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms. It provides an elegant API based on \"expression templates\". It is versatile: it supports all matrix sizes, all standard numeric types, various matrix decompositions and geometry features, and more.") ;; Most of the code is MPLv2, with a few files under LGPLv2.1+ or BSD-3. ;; See 'COPYING.README' for details. (license license:mpl2.0))) (define-public eigen-benchmarks (package (inherit eigen) (name "eigen-benchmarks") (arguments '(#:phases (modify-phases %standard-phases (delete 'configure) (replace 'build (lambda* (#:key outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) (bin (string-append out "/bin"))) (define (compile file) (format #t "compiling '~a'...~%" file) (let ((target (string-append bin "/" (basename file ".cpp")))) (invoke "c++" "-o" target file "-I" ".." "-O2" "-g" "-lopenblas" "-Wl,--as-needed"))) (mkdir-p bin) (with-directory-excursion "bench" ;; There are more benchmarks, of varying quality. ;; Here we pick some that appear to be useful. (for-each compile '("benchBlasGemm.cpp" "benchCholesky.cpp" ;;"benchEigenSolver.cpp" "benchFFT.cpp" "benchmark-blocking-sizes.cpp")))))) (delete 'install)))) (inputs (list boost openblas)) ;; Mark as tunable to take advantage of SIMD code in Eigen. (properties '((tunable? . #t))) (synopsis "Micro-benchmarks of the Eigen linear algebra library"))) (define-public eigen-for-tensorflow (let ((changeset "fd6845384b86") (revision "1")) (package (inherit eigen) (name "eigen-for-tensorflow") (version (string-append "3.3.5-" revision "." changeset)) (source (origin (method hg-fetch) (uri (hg-reference (url "https://bitbucket.org/eigen/eigen") (changeset changeset))) (sha256 (base32 "12cwgah63wqwb66xji048hcxc1z5zjg8a7701zlia5zbilnnk1n5")) (file-name (string-append name "-" version "-checkout")) (modules '((guix build utils))) (snippet ;; There are 3 test failures in the "unsupported" directory, ;; but maintainers say it's a known issue and it's unsupported ;; anyway, so just skip them. '(begin (substitute* "unsupported/CMakeLists.txt" (("add_subdirectory\\(test.*") "# Do not build the tests for unsupported features.\n")))))) (arguments (substitute-keyword-arguments (package-arguments eigen) ((#:phases phases) `(modify-phases ,phases (delete 'disable-some-tests))))) (native-inputs (list gcc-7))))) (define-public eigen-for-tensorflow-lite ;; This commit was taken from ;; tensorflow/lite/tools/cmake/modules/eigen.cmake (let ((commit "d10b27fe37736d2944630ecd7557cefa95cf87c9") (revision "1")) (package (inherit eigen) (name "eigen-for-tensorflow-lite") (version (git-version "3.3.7" revision commit)) (source (origin (method git-fetch) (uri (git-reference (url "https://gitlab.com/libeigen/eigen") (commit commit))) (sha256 (base32 "0v8a20cwvwmp3hw4275b37frw33v92z0mr8f4dn6y8k0rz92hrrf")) (file-name (git-file-name name version)) (modules '((guix build utils))) (snippet ;; Ther are test failures in the "unsupported" directory, but ;; maintainers say it's unsupported anyway, so just skip ;; them. '(begin (substitute* "unsupported/CMakeLists.txt" (("add_subdirectory\\(test.*") "# Do not build the tests for unsupported features.\n")))))) (arguments (substitute-keyword-arguments (package-arguments eigen) ((#:phases phases) `(modify-phases ,phases (delete 'disable-some-tests)))))))) (define-public xtensor (package (name "xtensor") (version "0.24.0") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/xtensor-stack/xtensor") (commit version))) (sha256 (base32 "14fpzwdq26p2fqdrmc78hny9pp09k9c53jnwlh7f8x54ikzm23c2")) (file-name (git-file-name name version)))) (build-system cmake-build-system) (native-inputs (list doctest googletest xtl)) (arguments `(#:configure-flags '("-DBUILD_TESTS=ON") #:test-target "xtest")) (home-page "https://xtensor.readthedocs.io/en/latest/") (synopsis "C++ tensors with broadcasting and lazy computing") (description "xtensor is a C++ library meant for numerical analysis with multi-dimensional array expressions. xtensor provides: @itemize @item an extensible expression system enabling lazy broadcasting. @item an API following the idioms of the C++ standard library. @item tools to manipulate array expressions and build upon xtensor. @end itemize") (license license:bsd-3))) (define-public xtensor-benchmark (package (inherit xtensor) (name "xtensor-benchmark") (arguments `(#:configure-flags (list "-DBUILD_BENCHMARK=ON" "-DDOWNLOAD_GBENCHMARK=OFF") #:tests? #f #:phases (modify-phases %standard-phases (add-after 'unpack 'remove-march=native (lambda _ (substitute* "benchmark/CMakeLists.txt" (("-march=native\"") "\"")))) (add-after 'unpack 'link-with-googlebenchmark (lambda _ (substitute* "benchmark/CMakeLists.txt" (("find_package\\(benchmark.*" all) (string-append all "\n" "set(GBENCHMARK_LIBRARIES benchmark)\n"))))) (replace 'build (lambda _ (invoke "make" "benchmark_xtensor" "-j" (number->string (parallel-job-count))))) (replace 'install (lambda* (#:key outputs #:allow-other-keys) ;; Install nothing but the executable. (let ((out (assoc-ref outputs "out"))) (install-file "benchmark/benchmark_xtensor" (string-append out "/bin")))))))) (synopsis "Benchmarks of the xtensor library") (native-inputs '()) (inputs (modify-inputs (package-native-inputs xtensor) (prepend googlebenchmark xsimd))) ;; Mark as tunable to take advantage of SIMD code in xsimd/xtensor. (properties '((tunable? . #t))))) (define-public gap (package (name "gap") (version "4.11.1") (source (origin (method url-fetch) (uri (string-append "https://files.gap-system.org/gap-" (version-major+minor version) "/tar.gz/gap-" version ".tar.gz")) (sha256 (base32 "01535s81h254zcs84zi95xqmhvvn6fn9qss8761myxc2gpdcadb6")) (modules '((guix build utils) (ice-9 ftw) (srfi srfi-1))) (snippet '(begin ;; Delete the external gmp and zlib libraries ;; and a subdirectory not needed for our build. (for-each delete-file-recursively '("extern" "hpcgap")) ;; Delete a failing test. ;; FIXME: This might be fixed in the next release, see ;; https://github.com/gap-system/gap/issues/3292 (delete-file "tst/testinstall/dir.tst") ;; Delete all packages except for a fixed list, ;; given by their names up to version numbers. (with-directory-excursion "pkg" (for-each delete-file-recursively (lset-difference (lambda (all keep) (string-prefix? keep all)) (scandir ".") '("." ".." ;; Necessary packages. "GAPDoc-" "primgrp-" "SmallGrp-" ; artistic2.0 "transgrp" ; artistic2.0 for data, ; gpl2 or gpl3 for code ;; Optional packages. "alnuth-" "AutoDoc-" "automata-" "autpgrp-" "crime-" "crisp-" ; bsd-2 "ctbllib" ; gpl3+ "datastructures" "FactInt-" "fga" "format" "groupoids-" "guarana" "idrel-" "images-" ; mpl2.0 "IntPic-" "io-" ; gpl3+ "irredsol-" ; bsd-2 "laguna-" "liering-" "MapClass-" "nilmat-" "NumericalSgps-" "OpenMath-" "orb-" ; gpl3+ "polenta-" "polycyclic-" "radiroot-" "repsn-" "resclasses-" "simpcomp" "sophus-" "tomlib-" "unipot-" "utils-")))))))) (build-system gnu-build-system) (inputs (list gmp readline zlib)) (arguments `(#:modules ((ice-9 ftw) (srfi srfi-26) (guix build gnu-build-system) (guix build utils)) #:phases (modify-phases %standard-phases (add-after 'build 'build-packages ;; Compile all packages that have not been deleted by the ;; code snippet above. (lambda _ (setenv "CONFIG_SHELL" (which "bash")) (with-directory-excursion "pkg" (invoke "../bin/BuildPackages.sh")))) (add-after 'build-packages 'build-doc ;; The documentation is bundled, but we create it from source. (lambda _ (with-directory-excursion "doc" (invoke "./make_doc")))) (replace 'install (lambda* (#:key outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) (bin (string-append out "/bin")) (prog (string-append bin "/gap")) (prog-real (string-append bin "/.gap-real")) (share (string-append out "/share/gap"))) ;; Install only the gap binary; the gac compiler is left ;; for maybe later. "Wrap" it in a shell script that calls ;; the binary with the correct parameter. ;; The make target install-bin is supposed to do that, but ;; is not currently working. (mkdir-p bin) (copy-file "gap" prog-real) (call-with-output-file prog (lambda (port) (format port "#!~a~%exec ~a -l ~a \"$@\"~%" (which "bash") prog-real share))) (chmod prog #o755) ;; Install the headers and library, which are needed by Sage. (invoke "make" "install-headers") (install-file "gen/config.h" (string-append out "/include/gap")) (invoke "make" "install-libgap") ;; Remove information on the build directory from sysinfo.gap. (substitute* "sysinfo.gap" (("GAP_BIN_DIR=\".*\"") "GAP_BIN_DIR=\"\"") (("GAP_LIB_DIR=\".*\"") "GAP_LIB_DIR=\"\"") (("GAP_CPPFLAGS=\".*\"") "GAP_CPPFLAGS=\"\"")) (invoke "make" "install-gaproot") ;; Copy the directory of compiled packages; the make target ;; install-pkg is currently empty. (copy-recursively "pkg" (string-append share "/pkg")))))))) (home-page "https://www.gap-system.org/") (synopsis "System for computational group theory") (description "GAP is a system for computational discrete algebra, with particular emphasis on computational group theory. It provides a programming language, a library of thousands of functions implementing algebraic algorithms written in the GAP language as well as large data libraries of algebraic objects.") ;; Some packages have different licenses (effectively forcing the ;; combined work to be licensed as gpl3+); if this is the case, this ;; is mentioned above next to their name. ;; Some packages have no license mentioned explicitly; supposedly this ;; means that the gpl2+ licence of GAP itself applies, but to be on the ;; safe side, we drop them for now. (license license:gpl2+))) (define-public gappa (package (name "gappa") (version "1.4.1") (source (origin (method git-fetch) (uri (git-reference (url "https://gitlab.inria.fr/gappa/gappa") (commit (string-append name "-" version)))) (file-name (git-file-name name version)) (sha256 (base32 "0vfggzilc0gicrhqypmlx30ccrdkmyg22zzn46988c28xi9rcicj")))) (build-system gnu-build-system) (arguments (list #:phases #~(modify-phases %standard-phases (add-after 'unpack 'patch-remake-shell (lambda _ (substitute* "remake.cpp" (("/bin/sh") (which "sh"))))) (replace 'build (lambda _ (invoke "./remake" "-s" "-d"))) (replace 'install (lambda _ (invoke "./remake" "-s" "-d" "install"))) (replace 'check (lambda* (#:key tests? #:allow-other-keys) (when tests? (invoke "./remake" "check"))))))) (native-inputs (list autoconf automake bison flex libtool)) (inputs (list boost gmp mpfr)) (home-page "https://gitlab.inria.fr/gappa/gappa") (synopsis "Proof generator for arithmetic properties") (description "Gappa is a tool intended to help verifying and formally proving properties on numerical programs dealing with floating-point or fixed-point arithmetic. It has been used to write robust floating-point filters for CGAL and it is used to certify elementary functions in CRlibm. While Gappa is intended to be used directly, it can also act as a backend prover for the Why3 software verification platform or as an automatic tactic for the Coq proof assistant.") (license (list license:gpl3+ license:cecill)))) ; either/or (define-public givaro (package (name "givaro") (version "4.1.1") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/linbox-team/givaro") (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 (base32 "11wz57q6ijsvfs5r82masxgr319as92syi78lnl9lgdblpc6xigk")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool)) (propagated-inputs (list gmp)) ; gmp++.h includes gmpxx.h (synopsis "Algebraic computations with exact rings and fields") (description "Givaro is a C++ library implementing the basic arithmetic of various algebraic objects: prime fields, extension fields, finite fields, finite rings, polynomials, algebraic numbers, arbitrary precision integers and rationals (C++ wrappers over gmp), fixed precision integers. It also provides data-structures and templated classes for the manipulation of compound objects, such as vectors, matrices and univariate polynomials.") (license license:cecill-b) (home-page "https://github.com/linbox-team/givaro"))) (define-public fflas-ffpack (package (name "fflas-ffpack") (version "2.4.3") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/linbox-team/fflas-ffpack") (commit version))) (file-name (git-file-name name version)) (sha256 (base32 "1ynbjd72qrwp0b4kpn0p5d7gddpvj8dlb5fwdxajr5pvkvi3if74")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool pkg-config)) (inputs (list openblas)) (propagated-inputs (list givaro)) ; required according to the .pc file (arguments `(#:configure-flags (list (string-append "--with-blas-libs=" (assoc-ref %build-inputs "openblas") "/lib/libopenblas.so")))) (synopsis "C++ library for linear algebra over finite fields") (description "FFLAS-FFPACK is a C++ template library for basic linear algebra operations over a finite field. FFLAS (Finite Field Linear Algebra Subprograms) provides the implementation of a subset of routines of the numerical BLAS; it also supports sparse matrix-vector products. FFPACK (Finite Field Linear Algebra Package) is inspired by the LAPACK library to provide functionalities of higher level, using the kernel of a BLAS. Additionally, it provides routines specific to exact linear algebra, such as the row echelon form.") (license license:lgpl2.1+) (home-page "https://linbox-team.github.io/fflas-ffpack/"))) (define-public linbox (package (name "linbox") (version "1.6.3") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/linbox-team/linbox") (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 (base32 "10j6dspbsq7d2l4q3y0c1l1xwmaqqba2fxg59q5bhgk9h5d7q571")) (patches (search-patches "linbox-fix-pkgconfig.patch")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool pkg-config)) (propagated-inputs (list fflas-ffpack)) (synopsis "C++ library for linear algebra over exact rings") (description "LinBox is a C++ template library for exact linear algebra computation with dense, sparse, and structured matrices over the integers and over finite fields.") (license license:lgpl2.1+) (home-page "https://linbox-team.github.io/linbox/"))) (define-public m4ri (package (name "m4ri") (version "20140914") (source (origin (method git-fetch) (uri (git-reference (url "https://bitbucket.org/malb/m4ri") (commit (string-append "release-" version)))) (file-name (git-file-name name version)) (sha256 (base32 "0xfg6pffbn8r1s0y7bn9b8i55l00d41dkmhrpf7pwk53qa3achd3")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool pkg-config)) (inputs (list libpng)) (synopsis "Arithmetic of dense matrices over F_2") (description "M4RI is a library for fast arithmetic with dense matrices over F2. The name M4RI comes from the first implemented algorithm: The Method of the Four Russians inversion algorithm published by Gregory Bard. This algorithm in turn is named after the Method of the Four Russians multiplication algorithm.") (license license:gpl2+) (home-page "https://bitbucket.org/malb/m4ri/"))) (define-public symmetrica (package (name "symmetrica") (version "2.0") (source (origin (method url-fetch/tarbomb) (uri (let ((v (string-join (string-split version #\.) "_"))) (string-append "http://www.algorithm.uni-bayreuth.de/" "en/research/SYMMETRICA/" "SYM" v "_tar.gz"))) (sha256 (base32 "1qhfrbd5ybb0sinl9pad64rscr08qvlfzrzmi4p4hk61xn6phlmz")) ;; Taken from <https://git.sagemath.org/sage.git/plain/build/pkgs/symmetrica/patches/> (patches (search-patches "symmetrica-bruch.patch" "symmetrica-int32.patch" "symmetrica-return_values.patch" "symmetrica-sort_sum_rename.patch")))) (build-system gnu-build-system) (arguments `(#:tests? #f ;no test #:phases (modify-phases %standard-phases (add-after 'unpack 'fix-makefile (lambda _ (substitute* "makefile" (("cc -c") "gcc -c -fPIC")) #t)) (add-after 'fix-makefile 'turn-off-banner (lambda _ (substitute* "de.c" (("(INT no_banner = )FALSE" _ pre) (string-append pre "TRUE"))) #t)) (delete 'configure) ;no configure script (replace 'install ;no install target (lambda* (#:key outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) (lib (string-append out "/lib")) (inc (string-append out "/include/symmetrica")) (doc (string-append out "/share/doc/symmetrica-" ,version)) (static "libsymmetrica.a")) ;; Build static library. (apply invoke "ar" "crs" static (find-files "." "\\.o$")) (invoke "ranlib" static) ;; Install static library and headers. (for-each (lambda (f) (install-file f inc)) (find-files "." "\\.h$")) (install-file "libsymmetrica.a" lib) ;; Install documentation. (for-each (lambda (f) (install-file f doc)) (find-files "." "\\.doc$")) #t)))))) (home-page "http://www.algorithm.uni-bayreuth.de/en/research/SYMMETRICA/") (synopsis "Combinatoric C Library") (description "Symmetrica is a library for combinatorics. It has support for the representation theory of the symmetric group and related groups, combinatorics of tableaux, symmetric functions and polynomials, Schubert polynomials, and the representation theory of Hecke algebras of type A_n.") (license license:public-domain))) (define-public m4rie (package (name "m4rie") (version "20150908") (source (origin (method git-fetch) (uri (git-reference (url "https://bitbucket.org/malb/m4rie") (commit (string-append "release-" version)))) (file-name (git-file-name name version)) (sha256 (base32 "0r8lv46qx5mkz5kp3ay2jnsp0mbhlqr5z2z220wdk73wdshcznss")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool)) (inputs (list m4ri)) (synopsis "Arithmetic of dense matrices over F_{2^e}") (description "M4RI is a library for fast arithmetic with dense matrices over finite fields of characteristic 2. So it extends the functionality of M4RI from F_2 to F_{2^e}.") (license license:gpl2+) (home-page "https://bitbucket.org/malb/m4rie/"))) (define-public eclib (package (name "eclib") (version "20220621") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/JohnCremona/eclib/") (commit version))) (file-name (git-file-name name version)) (sha256 (base32 "07wbkzmn6w0hrv2vim7f0il7k59ccc66x5vnn623xkmhfw32b3nz")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool)) (inputs (list ntl pari-gp)) (synopsis "Ranks of elliptic curves and modular symbols") (description "The eclib package includes mwrank (for 2-descent on elliptic curves over Q) and modular symbol code; it has been written by John Cremona to compute his elliptic curve database.") (license license:gpl2+) (home-page (string-append "http://homepages.warwick.ac.uk/staff/" "J.E.Cremona/mwrank/index.html")))) (define-public lrcalc (package (name "lrcalc") (version "2.1") (source (origin (method git-fetch) (uri (git-reference (url "https://bitbucket.org/asbuch/lrcalc") (commit (string-append "lrcalc-" version)))) (file-name (git-file-name name version)) (sha256 (base32 "0s3amf3z75hnrjyszdndrvk4wp5p630dcgyj341i6l57h43d1p4k")))) (build-system gnu-build-system) (native-inputs (list autoconf automake libtool)) (synopsis "Littlewood-Richardson calculator in algebraic combinatorics") (description "The Littlewood-Richardson Calculator (lrcalc) is a program designed to compute Littlewood-Richardson coefficients. It computes single Littlewood-Richardson coefficients, products of Schur functions, or skew Schur functions. In addition it computes products in the small quantum cohomology ring of a Grassmann variety. The software package also includes a program that performs fast computation of the more general multiplicative structure constants of Schubert polynomials.") (license license:gpl2+) (home-page "https://sites.math.rutgers.edu/~asbuch/lrcalc/"))) (define-public iml (package (name "iml") (version "1.0.5") (source (origin (method url-fetch) (uri (string-append "http://www.cs.uwaterloo.ca/~astorjoh/iml-" version ".tar.bz2")) (sha256 (base32 "0akwhhz9b40bz6lrfxpamp7r7wkk48p455qbn04mfnl9a1l6db8x")))) (build-system gnu-build-system) (inputs `(("gmp" ,gmp) ("cblas" ,openblas))) ; or any other BLAS library; the documentation ; mentions ATLAS in particular (arguments `(#:configure-flags (list "--enable-shared" (string-append "--with-gmp-include=" (assoc-ref %build-inputs "gmp") "/include") (string-append "--with-gmp-lib=" (assoc-ref %build-inputs "gmp") "/lib") "--with-cblas=-lopenblas" (string-append "--with-cblas-include=" (assoc-ref %build-inputs "cblas") "/include") (string-append "--with-cblas-lib=" (assoc-ref %build-inputs "cblas") "/lib")))) (home-page "https://cs.uwaterloo.ca/~astorjoh/iml.html") (synopsis "Solver for systems of linear equations over the integers") (description "IML is a C library implementing algorithms for computing exact solutions to dense systems of linear equations over the integers. Currently, IML provides the following functionality: @itemize @item Nonsingular rational system solving: compute the unique rational solution X to the system AX=B, where A and B are integer matrices, A nonsingular. @item Compute the right nullspace or kernel of an integer matrix. @item Certified linear system solving: compute a minimal denominator solution x to a system Ax=b, where b is an integer vector and A is an integer matrix with arbitrary shape and rank profile. @end itemize In addition, IML provides some low level routines for a variety of mod p matrix operations: computing the row-echelon form, determinant, rank profile, and inverse of a mod p matrix. These mod p routines are not general purpose; they require that p satisfy some preconditions based on the dimension of the input matrix (usually p should be prime and should be no more than about 20 bits long).") (license license:bsd-3))) (define-public r-dtt (package (name "r-dtt") (version "0.1-2") (source (origin (method url-fetch) (uri (cran-uri "dtt" version)) (sha256 (base32 "0n8gj5iylfagdbaqirpykb01a9difsy4zl6qq55f0ghvazxqdvmn")))) (properties `((upstream-name . "dtt"))) (build-system r-build-system) (home-page "http://www.r-project.org") (synopsis "Discrete Trigonometric Transforms") (description "This package provides functions for 1D and 2D Discrete Cosine Transform (@dfn{DCT}), Discrete Sine Transform (@dfn{DST}) and Discrete Hartley Transform (@dfn{DHT}).") (license license:gpl2+))) (define-public sollya (package (name "sollya") (version "8.0") (source (origin (method url-fetch) (uri (string-append "https://www.sollya.org/releases/" "sollya-" version "/sollya-" version ".tar.bz2")) (sha256 (base32 "1sf1cjcr6x035n97l64ppzb9pzq5568h7waz0zfc3120894gcnjz")))) (build-system gnu-build-system) (inputs (list fplll gmp gnuplot libxml2 mpfi mpfr)) (arguments `(#:configure-flags (list (string-append "--docdir=${datadir}/doc/sollya-" ,version)) #:phases (modify-phases %standard-phases (add-after 'unpack 'patch-test-shebang (lambda _ (substitute* (list "tests-tool/Makefile.in" "tests-lib/Makefile.in") (("#!/bin/sh") (string-append "#!" (which "sh")))) #t)) (add-before 'build 'patch-gnuplot-reference (lambda _ (substitute* "general.c" (("\"gnuplot\"") (string-append "\"" (which "gnuplot") "\""))) #t))))) (home-page "https://www.sollya.org") (synopsis "Development environment for safe floating-point code") (description "Sollya is a computer program whose purpose is to provide an environment for safe floating-point code development. It is particularly targeted to the automated implementation of mathematical floating-point libraries (libm). Amongst other features, it offers a certified infinity norm, an automatic polynomial implementer, and a fast Remez algorithm.") (license license:cecill-c)))
generated by cgit