Commit | Line | Data |
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233e7676 | 1 | ;;; GNU Guix --- Functional package management for GNU |
3f074a21 | 2 | ;;; Copyright © 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019 Andreas Enge <andreas@enge.fr> |
4b0bf990 | 3 | ;;; Copyright © 2013, 2015, 2017, 2018 Ludovic Courtès <ludo@gnu.org> |
a733253b | 4 | ;;; Copyright © 2016, 2017, 2018, 2019, 2020 Nicolas Goaziou <mail@nicolasgoaziou.fr> |
69d5909e | 5 | ;;; Copyright © 2014, 2018 Mark H Weaver <mhw@netris.org> |
67f39dd5 | 6 | ;;; Copyright © 2016, 2018, 2019 Ricardo Wurmus <rekado@elephly.net> |
e188d2f8 | 7 | ;;; Copyright © 2017, 2020 Efraim Flashner <efraim@flashner.co.il> |
5144e314 | 8 | ;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr> |
f71f29ca | 9 | ;;; Copyright © 2017 Marius Bakke <mbakke@fastmail.com> |
eb6785cf | 10 | ;;; Copyright © 2017, 2019 Eric Bavier <bavier@member.fsf.org> |
06b2bc55 | 11 | ;;; Copyright © 2019 Mathieu Othacehe <m.othacehe@gmail.com> |
4c877704 | 12 | ;;; Copyright © 2020 Björn Höfling <bjoern.hoefling@bjoernhoefling.de> |
7cc9e1dc | 13 | ;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net> |
feba2c97 | 14 | ;;; Copyright © 2020 Vincent Legoll <vincent.legoll@gmail.com> |
d0337a22 | 15 | ;;; Copyright © 2020 Vinicius Monego <monego@posteo.net> |
2ed139c4 | 16 | ;;; |
233e7676 | 17 | ;;; This file is part of GNU Guix. |
2ed139c4 | 18 | ;;; |
233e7676 | 19 | ;;; GNU Guix is free software; you can redistribute it and/or modify it |
2ed139c4 AE |
20 | ;;; under the terms of the GNU General Public License as published by |
21 | ;;; the Free Software Foundation; either version 3 of the License, or (at | |
22 | ;;; your option) any later version. | |
23 | ;;; | |
233e7676 | 24 | ;;; GNU Guix is distributed in the hope that it will be useful, but |
2ed139c4 AE |
25 | ;;; WITHOUT ANY WARRANTY; without even the implied warranty of |
26 | ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the | |
27 | ;;; GNU General Public License for more details. | |
28 | ;;; | |
29 | ;;; You should have received a copy of the GNU General Public License | |
233e7676 | 30 | ;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>. |
2ed139c4 | 31 | |
1ffa7090 | 32 | (define-module (gnu packages algebra) |
59a43334 | 33 | #:use-module (gnu packages) |
14e6520e | 34 | #:use-module (gnu packages autotools) |
fdb513a7 | 35 | #:use-module (gnu packages bison) |
70770b93 | 36 | #:use-module (gnu packages check) |
10b1f688 | 37 | #:use-module (gnu packages compression) |
70770b93 | 38 | #:use-module (gnu packages cpp) |
99828fa7 | 39 | #:use-module (gnu packages documentation) |
f71f29ca | 40 | #:use-module (gnu packages ed) |
5894b604 | 41 | #:use-module (gnu packages flex) |
57497c57 NG |
42 | #:use-module (gnu packages fltk) |
43 | #:use-module (gnu packages gl) | |
aae03c48 | 44 | #:use-module (gnu packages graphviz) |
57497c57 | 45 | #:use-module (gnu packages image) |
c8d99608 | 46 | #:use-module (gnu packages java) |
d0337a22 | 47 | #:use-module (gnu packages llvm) |
aae03c48 | 48 | #:use-module (gnu packages maths) |
0fc54d4b | 49 | #:use-module (gnu packages mpi) |
5894b604 | 50 | #:use-module (gnu packages multiprecision) |
1ffa7090 | 51 | #:use-module (gnu packages perl) |
4bf9cb40 | 52 | #:use-module (gnu packages pkg-config) |
6d3896b9 | 53 | #:use-module (gnu packages pulseaudio) |
aae03c48 | 54 | #:use-module (gnu packages python) |
1d6589db | 55 | #:use-module (gnu packages python-xyz) |
5894b604 | 56 | #:use-module (gnu packages readline) |
b7194849 | 57 | #:use-module (gnu packages shells) |
8f9ac901 | 58 | #:use-module (gnu packages tex) |
f71f29ca | 59 | #:use-module (gnu packages texinfo) |
57497c57 | 60 | #:use-module (gnu packages xiph) |
fb8d1be8 | 61 | #:use-module (gnu packages xorg) |
c8d99608 | 62 | #:use-module (guix build-system ant) |
7569c5cb | 63 | #:use-module (guix build-system gnu) |
8f4b1dfb | 64 | #:use-module (guix build-system cmake) |
1d6589db | 65 | #:use-module (guix build-system python) |
5894b604 | 66 | #:use-module (guix download) |
c8d99608 | 67 | #:use-module (guix git-download) |
697eb65d | 68 | #:use-module (guix hg-download) |
5894b604 TGR |
69 | #:use-module ((guix licenses) #:prefix license:) |
70 | #:use-module (guix packages) | |
7569c5cb | 71 | #:use-module (guix utils)) |
2ed139c4 AE |
72 | |
73 | ||
74 | (define-public mpfrcx | |
75 | (package | |
76 | (name "mpfrcx") | |
5f8ea8e4 | 77 | (version "0.6") |
2ed139c4 AE |
78 | (source (origin |
79 | (method url-fetch) | |
80 | (uri (string-append | |
43a776e2 | 81 | "http://www.multiprecision.org/downloads/mpfrcx-" |
2ed139c4 AE |
82 | version ".tar.gz")) |
83 | (sha256 | |
84 | (base32 | |
5f8ea8e4 | 85 | "0gz5rma9al2jrifpknqkcnd9dkf8l05jcxy3s4ghwhd4y3h5dwia")))) |
2ed139c4 | 86 | (build-system gnu-build-system) |
878c8f3f AE |
87 | (propagated-inputs |
88 | `(("gmp" ,gmp) | |
89 | ("mpfr" ,mpfr) | |
90 | ("mpc" ,mpc))) ; Header files are included by mpfrcx.h. | |
35b9e423 | 91 | (synopsis "Arithmetic of polynomials over arbitrary precision numbers") |
2ed139c4 | 92 | (description |
35b9e423 | 93 | "Mpfrcx is a library for the arithmetic of univariate polynomials over |
2ed139c4 | 94 | arbitrary precision real (mpfr) or complex (mpc) numbers, without control |
35b9e423 | 95 | on the rounding. For the time being, only the few functions needed to |
2ed139c4 | 96 | implement the floating point approach to complex multiplication are |
35b9e423 | 97 | implemented. On the other hand, these comprise asymptotically fast |
e881752c | 98 | multiplication routines such as Toom–Cook and the FFT.") |
43a776e2 | 99 | (license license:lgpl3+) |
79d1550f | 100 | (home-page "http://www.multiprecision.org/mpfrcx/"))) |
2ed139c4 | 101 | |
7c5f6231 AE |
102 | (define-public gf2x |
103 | (package | |
104 | (name "gf2x") | |
105 | (version "1.2") | |
106 | (source (origin | |
107 | (method url-fetch) | |
108 | (uri (string-append | |
109 | "https://gforge.inria.fr/frs/download.php/file/36934/gf2x-" | |
110 | version ".tar.gz")) | |
111 | (sha256 | |
112 | (base32 | |
113 | "0d6vh1mxskvv3bxl6byp7gxxw3zzpkldrxnyajhnl05m0gx7yhk1")))) | |
114 | (build-system gnu-build-system) | |
115 | (synopsis "Arithmetic of polynomials over binary finite fields") | |
116 | (description | |
117 | "The gf2x library provides arithmetic of polynomials over finite fields | |
118 | of characteristic 2. It implements the multiplication, squaring and | |
119 | greatest common divisor operations.") | |
120 | (license license:gpl3+) | |
121 | (home-page "https://gforge.inria.fr/projects/gf2x/"))) | |
122 | ||
10b1f688 AE |
123 | (define-public cm |
124 | (package | |
125 | (name "cm") | |
81b55bf7 | 126 | (version "0.3") |
10b1f688 AE |
127 | (source (origin |
128 | (method url-fetch) | |
129 | (uri (string-append | |
130 | "http://www.multiprecision.org/cm/download/cm-" | |
131 | version ".tar.gz")) | |
132 | (sha256 | |
133 | (base32 | |
81b55bf7 | 134 | "1nf5kr0nqmhbzrsrinky18z0ighjpsmb5cr8zyg8jf04bfbyrfmc")))) |
10b1f688 AE |
135 | (build-system gnu-build-system) |
136 | (propagated-inputs | |
137 | `(("mpfrcx" ,mpfrcx) | |
138 | ("zlib" ,zlib))) ; Header files included from cm_common.h. | |
139 | (inputs | |
140 | `(("pari-gp" ,pari-gp))) | |
141 | (synopsis "CM constructions for elliptic curves") | |
142 | (description | |
143 | "The CM software implements the construction of ring class fields of | |
144 | imaginary quadratic number fields and of elliptic curves with complex | |
145 | multiplication via floating point approximations. It consists of libraries | |
146 | that can be called from within a C program and of executable command | |
147 | line applications.") | |
81b55bf7 | 148 | (license license:gpl3+) |
79d1550f | 149 | (home-page "http://www.multiprecision.org/cm/"))) |
10b1f688 | 150 | |
2ed139c4 AE |
151 | (define-public fplll |
152 | (package | |
1de48e8f | 153 | (name "fplll") |
b9ef0025 AE |
154 | ;; The most recent version 5.3.3 fails in the configure phase: |
155 | ;; ./configure: line 12956: syntax error near unexpected token `LIBQD,' | |
156 | ;; ./configure: line 12956: ` PKG_CHECK_MODULES(LIBQD, qd, have_libqd="yes",' | |
157 | ;; The error disappears when adding qd as an input; but this is | |
158 | ;; supposed to be an optional input. | |
159 | (version "5.3.2") | |
1de48e8f NG |
160 | (source (origin |
161 | (method git-fetch) | |
162 | (uri (git-reference | |
b0e7b699 | 163 | (url "https://github.com/fplll/fplll") |
1de48e8f NG |
164 | (commit version))) |
165 | (file-name (git-file-name name version)) | |
166 | (sha256 | |
167 | (base32 | |
b9ef0025 | 168 | "00iyz218ywspizjiimrjdcqvdqmrsb2367zyy3vkmypnf9i9l680")))) |
1de48e8f NG |
169 | (build-system gnu-build-system) |
170 | (native-inputs | |
171 | `(("autoconf" ,autoconf) | |
172 | ("automake" ,automake) | |
173 | ("libtool" ,libtool))) | |
174 | (inputs | |
175 | `(("gmp" ,gmp) | |
176 | ("mpfr" ,mpfr))) | |
177 | (home-page "https://github.com/fplll/fplll") | |
178 | (synopsis "Library for LLL-reduction of euclidean lattices") | |
179 | (description | |
180 | "fplll contains implementations of several lattice algorithms. | |
181 | The implementation relies on floating-point orthogonalization, and LLL | |
182 | is central to the code, hence the name. | |
183 | ||
184 | It includes implementations of floating-point LLL reduction | |
185 | algorithms, offering different speed/guarantees ratios. It contains | |
186 | a @emph{wrapper} choosing the estimated best sequence of variants in | |
187 | order to provide a guaranteed output as fast as possible. In the case | |
188 | of the wrapper, the succession of variants is oblivious to the user. | |
189 | ||
190 | It includes an implementation of the BKZ reduction algorithm, | |
191 | including the BKZ-2.0 improvements (extreme enumeration | |
192 | pruning, pre-processing of blocks, early termination). Additionally, | |
193 | Slide reduction and self dual BKZ are supported. | |
194 | ||
195 | It also includes a floating-point implementation of the | |
196 | Kannan-Fincke-Pohst algorithm that finds a shortest non-zero lattice | |
197 | vector. For the same task, the GaussSieve algorithm is also available | |
198 | in fplll. Finally, it contains a variant of the enumeration algorithm | |
199 | that computes a lattice vector closest to a given vector belonging to | |
200 | the real span of the lattice.") | |
201 | (license license:lgpl2.1+))) | |
4e6b699d | 202 | |
25cbaa9e NG |
203 | (define-public python-fpylll |
204 | (package | |
205 | (name "python-fpylll") | |
206 | (version "0.4.1") | |
207 | (source | |
208 | (origin | |
209 | ;; Pypi contains and older release, so we use a tagged release from | |
210 | ;; Github instead. | |
211 | (method git-fetch) | |
212 | (uri (git-reference | |
b0e7b699 | 213 | (url "https://github.com/fplll/fpylll") |
25cbaa9e | 214 | (commit (string-append version "dev")))) |
f1d4d79f | 215 | (file-name (git-file-name name version)) |
25cbaa9e NG |
216 | (sha256 |
217 | (base32 | |
218 | "01x2sqdv0sbjj4g4waj0hj4rcn4bq7h17442xaqwbznym9azmn9w")))) | |
219 | (build-system python-build-system) | |
220 | (inputs | |
221 | `(("fplll" ,fplll) | |
222 | ("gmp" ,gmp) | |
223 | ("mpfr" ,mpfr) | |
224 | ("pari-gp" ,pari-gp))) | |
225 | (propagated-inputs | |
226 | `(("cysignals" ,python-cysignals) | |
227 | ("cython" ,python-cython) | |
228 | ("flake8" ,python-flake8) | |
229 | ("numpy" ,python-numpy) | |
230 | ("pytest" ,python-pytest))) | |
231 | (home-page "https://github.com/fplll/fpylll") | |
232 | (synopsis "Python interface for fplll") | |
233 | (description "fpylll is a Python wrapper for fplll.") | |
234 | (license license:gpl2+))) | |
235 | ||
90a6d47c AE |
236 | (define-public pari-gp |
237 | (package | |
67f39dd5 | 238 | (name "pari-gp") |
f916ac12 | 239 | (version "2.11.4") |
67f39dd5 RW |
240 | (source (origin |
241 | (method url-fetch) | |
242 | (uri (string-append | |
243 | "https://pari.math.u-bordeaux.fr/pub/pari/unix/pari-" | |
244 | version ".tar.gz")) | |
245 | (sha256 | |
246 | (base32 | |
f916ac12 | 247 | "070bjw4kg7r6lqs1hfs08n5fmjv90cpwflp3wr04hbrmyz28zj5z")))) |
67f39dd5 RW |
248 | (build-system gnu-build-system) |
249 | (native-inputs | |
250 | `(("texlive" ,(texlive-union | |
f75aa97f | 251 | (list texlive-amsfonts))))) |
67f39dd5 RW |
252 | (inputs `(("gmp" ,gmp) |
253 | ("libx11" ,libx11) | |
254 | ("perl" ,perl) | |
255 | ("readline" ,readline))) | |
256 | (arguments | |
257 | '(#:make-flags '("all") | |
258 | #:test-target "dobench" | |
259 | #:phases | |
260 | (modify-phases %standard-phases | |
261 | (replace 'configure | |
262 | (lambda* (#:key outputs #:allow-other-keys) | |
263 | (invoke "./Configure" | |
264 | (string-append "--prefix=" | |
265 | (assoc-ref outputs "out")))))))) | |
266 | (synopsis "PARI/GP, a computer algebra system for number theory") | |
267 | (description | |
268 | "PARI/GP is a widely used computer algebra system designed for fast | |
90a6d47c AE |
269 | computations in number theory (factorisations, algebraic number theory, |
270 | elliptic curves...), but it also contains a large number of other useful | |
271 | functions to compute with mathematical entities such as matrices, | |
272 | polynomials, power series, algebraic numbers, etc., and a lot of | |
273 | transcendental functions. | |
274 | PARI is also available as a C library to allow for faster computations.") | |
67f39dd5 RW |
275 | (license license:gpl2+) |
276 | (home-page "https://pari.math.u-bordeaux.fr/"))) | |
ed9f9a77 | 277 | |
f854a8c1 AE |
278 | (define-public gp2c |
279 | (package | |
280 | (name "gp2c") | |
e239135c | 281 | (version "0.0.11pl4") |
f854a8c1 AE |
282 | (source (origin |
283 | (method url-fetch) | |
284 | (uri (string-append | |
eeb8b0e6 | 285 | "https://pari.math.u-bordeaux.fr/pub/pari/GP2C/gp2c-" |
f854a8c1 | 286 | version ".tar.gz")) |
324bdcd8 AE |
287 | (sha256 |
288 | (base32 | |
e239135c | 289 | "1cnnh7diqc97q76q5pyhpbljbhc0sz8mlrbqgiwi0sjkgh8iqsj0")))) |
f854a8c1 | 290 | (build-system gnu-build-system) |
c67ccedd | 291 | (native-inputs `(("perl" ,perl))) |
f854a8c1 AE |
292 | (inputs `(("pari-gp" ,pari-gp))) |
293 | (arguments | |
294 | '(#:configure-flags | |
295 | (list (string-append "--with-paricfg=" | |
296 | (assoc-ref %build-inputs "pari-gp") | |
297 | "/lib/pari/pari.cfg")))) | |
298 | (synopsis "PARI/GP, a computer algebra system for number theory") | |
299 | (description | |
300 | "PARI/GP is a widely used computer algebra system designed for fast | |
301 | computations in number theory (factorisations, algebraic number theory, | |
302 | elliptic curves...), but it also contains a large number of other useful | |
303 | functions to compute with mathematical entities such as matrices, | |
304 | polynomials, power series, algebraic numbers, etc., and a lot of | |
305 | transcendental functions. | |
306 | PARI is also available as a C library to allow for faster computations. | |
307 | ||
308 | GP2C, the GP to C compiler, translates GP scripts to PARI programs.") | |
9f51293c | 309 | (license license:gpl2) |
eeb8b0e6 | 310 | (home-page "https://pari.math.u-bordeaux.fr/"))) |
f854a8c1 | 311 | |
ddfb6280 TGR |
312 | (define fplll-4-cmh |
313 | (package | |
314 | (inherit fplll) | |
315 | (name "fplll") | |
316 | (version "4.0.4") | |
317 | (source | |
318 | (origin | |
319 | (method url-fetch) | |
320 | (uri (string-append | |
321 | "http://perso.ens-lyon.fr/damien.stehle/fplll/libfplll-" | |
322 | version ".tar.gz")) | |
323 | (sha256 | |
324 | (base32 "1cbiby7ykis4z84swclpysrljmqhfcllpkcbll1m08rzskgb1a6b")))))) | |
325 | ||
eea7cd75 AE |
326 | (define-public cmh |
327 | (package | |
328 | (name "cmh") | |
329 | (version "1.0") | |
330 | (source (origin | |
331 | (method url-fetch) | |
332 | (uri (string-append | |
333 | "https://gforge.inria.fr/frs/download.php/33497/cmh-" | |
334 | version ".tar.gz")) | |
335 | (sha256 | |
336 | (base32 | |
337 | "1a28xr9bs0igms0ik99x0w8lnb0jyfcmvyi26pbyh9ggcdivd33p")))) | |
338 | (build-system gnu-build-system) | |
339 | (inputs | |
340 | `(("gmp" ,gmp) | |
341 | ("mpfr" ,mpfr) | |
342 | ("mpc" ,mpc) | |
343 | ("mpfrcx" ,mpfrcx) | |
ddfb6280 | 344 | ("fplll" ,fplll-4-cmh) |
eea7cd75 AE |
345 | ("pari-gp" ,pari-gp))) |
346 | (synopsis "Igusa class polynomial computations") | |
347 | (description | |
348 | "The CMH software computes Igusa (genus 2) class polynomials, which | |
349 | parameterize the CM points in the moduli space of 2-dimensional abelian | |
350 | varieties, i.e. Jacobians of hyperelliptic curves. | |
351 | It can also be used to compute theta constants at arbitrary | |
352 | precision.") | |
353 | (license license:gpl3+) | |
e188d2f8 EF |
354 | (home-page |
355 | "https://gitlab.inria.fr/cmh/cmh#cmh-computation-of-genus-2-class-polynomials"))) | |
eea7cd75 | 356 | |
7fc0e3db | 357 | (define-public giac |
57497c57 | 358 | (package |
7fc0e3db | 359 | (name "giac") |
41c32695 | 360 | (version "1.6.0-7") |
a733253b NG |
361 | (source |
362 | (origin | |
363 | (method url-fetch) | |
364 | ;; "~parisse/giac" is not used because the maintainer regularly | |
365 | ;; overwrites the release tarball there, introducing a checksum | |
366 | ;; mismatch every time. See | |
367 | ;; <https://www-fourier.ujf-grenoble.fr/~parisse/debian/dists/stable/main/source/README> | |
368 | (uri (string-append "https://www-fourier.ujf-grenoble.fr/" | |
369 | "~parisse/debian/dists/stable/main/source/" | |
370 | "giac_" version ".tar.gz")) | |
371 | (sha256 | |
41c32695 | 372 | (base32 "1pvgp137zcl0rbhdn1j41xxfml7fp771a7x4ph8qrhhlx0hxzn3p")))) |
57497c57 NG |
373 | (build-system gnu-build-system) |
374 | (arguments | |
af90cc45 NG |
375 | `(#:modules ((ice-9 ftw) |
376 | (guix build utils) | |
377 | (guix build gnu-build-system)) | |
378 | #:phases | |
57497c57 NG |
379 | (modify-phases %standard-phases |
380 | (add-after 'unpack 'patch-bin-cp | |
90d5ec55 | 381 | ;; Some Makefiles contain hard-coded "/bin/cp". |
57497c57 | 382 | (lambda _ |
57497c57 NG |
383 | (substitute* (find-files "doc" "^Makefile") |
384 | (("/bin/cp") (which "cp"))) | |
90d5ec55 NG |
385 | #t)) |
386 | (add-after 'unpack 'disable-failing-test | |
387 | ;; FIXME: Test failing. Not sure why. | |
388 | (lambda _ | |
389 | (substitute* "check/Makefile.in" | |
390 | (("chk_fhan11") "")) | |
af90cc45 | 391 | #t)) |
9f73ac24 | 392 | (add-after 'install 'fix-doc |
af90cc45 | 393 | (lambda* (#:key outputs #:allow-other-keys) |
9f73ac24 NG |
394 | (let ((out (assoc-ref outputs "out"))) |
395 | ;; Most French documentation has a non-commercial | |
396 | ;; license, so we need to remove it. | |
397 | (with-directory-excursion (string-append out "/share/giac/doc/fr") | |
398 | (for-each delete-file-recursively | |
399 | '("cascas" "casexo" "casgeo" "casrouge" "cassim" | |
400 | "castor"))) | |
401 | ;; Remove duplicate documentation in | |
402 | ;; "%out/share/doc/giac/", where Xcas does not expect | |
403 | ;; to find it. | |
404 | (delete-file-recursively (string-append out "/share/doc/giac")) | |
405 | #t))) | |
406 | (add-after 'install 'remove-unnecessary-executable | |
407 | (lambda* (#:key outputs #:allow-other-keys) | |
408 | (let ((out (assoc-ref outputs "out"))) | |
409 | (delete-file (string-append out "/bin/xcasnew")) | |
410 | #t)))))) | |
57497c57 | 411 | (inputs |
41c32695 | 412 | ;;; TODO: Add libnauty. |
57497c57 | 413 | `(("fltk" ,fltk) |
6d3896b9 | 414 | ("glpk" ,glpk) |
57497c57 NG |
415 | ("gmp" ,gmp) |
416 | ("gsl" ,gsl) | |
417 | ("lapack" ,lapack) | |
418 | ("libao" ,ao) | |
4bd428a7 | 419 | ("libjpeg" ,libjpeg-turbo) |
57497c57 | 420 | ("libpng" ,libpng) |
6d3896b9 | 421 | ("libsamplerate" ,libsamplerate) |
57497c57 | 422 | ("libx11" ,libx11) |
99a00446 | 423 | ("libxinerama" ,libxinerama) |
57497c57 NG |
424 | ("libxft" ,libxft) |
425 | ("libxt" ,libxt) | |
426 | ("mesa" ,mesa) | |
427 | ("mpfi" ,mpfi) | |
428 | ("mpfr" ,mpfr) | |
429 | ("ntl" ,ntl) | |
430 | ("perl" ,perl) | |
431 | ("pari-gp" ,pari-gp) | |
9f73ac24 NG |
432 | ("tcsh" ,tcsh))) |
433 | (native-inputs | |
6d3896b9 NG |
434 | `(("bison" ,bison) |
435 | ("flex" ,flex) | |
436 | ("readline" ,readline) | |
a023ec6e | 437 | ("texlive" ,texlive-tiny))) |
57497c57 NG |
438 | (home-page "https://www-fourier.ujf-grenoble.fr/~parisse/giac.html") |
439 | (synopsis "Computer algebra system") | |
440 | (description | |
441 | "Giac/Xcas is a computer algebra system. It has a compatibility mode for | |
442 | maple, mupad and the TI89. It is available as a standalone program (graphic | |
443 | or text interfaces) or as a C++ library.") | |
444 | (license license:gpl3+))) | |
445 | ||
d7ab698a AE |
446 | (define-public flint |
447 | (package | |
448 | (name "flint") | |
eefa30c1 | 449 | (version "2.6.3") |
a8139e97 TGR |
450 | (source |
451 | (origin | |
452 | (method url-fetch) | |
453 | (uri (string-append "http://flintlib.org/flint-" version ".tar.gz")) | |
454 | (sha256 | |
eefa30c1 | 455 | (base32 "1qrf6hzbbmg7mhkhbb0bab8z2xpdnba5cj4kmmf72lzs0457a6nf")))) |
d7ab698a | 456 | (build-system gnu-build-system) |
d7c8bcc4 JK |
457 | (inputs |
458 | `(("ntl" ,ntl))) | |
df15d17d | 459 | (propagated-inputs |
d7ab698a | 460 | `(("gmp" ,gmp) |
df15d17d | 461 | ("mpfr" ,mpfr))) ; header files from both are included by flint/arith.h |
d7ab698a | 462 | (arguments |
fa0c1774 | 463 | `(#:parallel-tests? #f ; seems to be necessary on arm |
ad11974e | 464 | #:phases |
91430de6 | 465 | (modify-phases %standard-phases |
d7c8bcc4 JK |
466 | (add-before 'configure 'newer-c++ |
467 | (lambda _ | |
468 | (substitute* "configure" | |
469 | (("-ansi") "")) | |
470 | #t)) | |
91430de6 AE |
471 | (replace 'configure |
472 | (lambda* (#:key inputs outputs #:allow-other-keys) | |
473 | (let ((out (assoc-ref outputs "out")) | |
474 | (gmp (assoc-ref inputs "gmp")) | |
d7c8bcc4 JK |
475 | (mpfr (assoc-ref inputs "mpfr")) |
476 | (ntl (assoc-ref inputs "ntl"))) | |
fa0c1774 TGR |
477 | ;; Do not pass "--enable-fast-install", which makes the |
478 | ;; homebrew configure process fail. | |
50233d95 | 479 | (invoke "./configure" |
91430de6 AE |
480 | (string-append "--prefix=" out) |
481 | (string-append "--with-gmp=" gmp) | |
d7c8bcc4 JK |
482 | (string-append "--with-mpfr=" mpfr) |
483 | (string-append "--with-ntl=" ntl)) | |
50233d95 | 484 | #t)))))) |
d7ab698a AE |
485 | (synopsis "Fast library for number theory") |
486 | (description | |
487 | "FLINT is a C library for number theory. It supports arithmetic | |
488 | with numbers, polynomials, power series and matrices over many base | |
489 | rings, including multiprecision integers and rationals, integers | |
490 | modulo n, p-adic numbers, finite fields (prime and non-prime order) | |
491 | and real and complex numbers (via the Arb extension library). | |
492 | ||
493 | Operations that can be performed include conversions, arithmetic, | |
494 | GCDs, factoring, solving linear systems, and evaluating special | |
495 | functions. In addition, FLINT provides various low-level routines for | |
496 | fast arithmetic.") | |
eefa30c1 | 497 | (license license:lgpl2.1+) |
d7ab698a AE |
498 | (home-page "http://flintlib.org/"))) |
499 | ||
6b8e8285 AE |
500 | (define-public arb |
501 | (package | |
6aa54e23 | 502 | (name "arb") |
7dcf5296 | 503 | (version "2.18.1") |
6aa54e23 RW |
504 | (source (origin |
505 | (method git-fetch) | |
506 | (uri (git-reference | |
b0e7b699 | 507 | (url "https://github.com/fredrik-johansson/arb") |
6aa54e23 RW |
508 | (commit version))) |
509 | (file-name (git-file-name name version)) | |
510 | (sha256 | |
511 | (base32 | |
7dcf5296 | 512 | "15fx3dcbzgwddw9p1nysmx0dbh058afv5m8cj5pdjkcmcl7kw7z9")))) |
6aa54e23 RW |
513 | (build-system gnu-build-system) |
514 | (propagated-inputs | |
515 | `(("flint" ,flint))) ; flint.h is included by arf.h | |
516 | (inputs | |
517 | `(("gmp" ,gmp) | |
518 | ("mpfr" ,mpfr))) | |
519 | (arguments | |
520 | `(#:phases | |
521 | (modify-phases %standard-phases | |
522 | (replace 'configure | |
523 | (lambda* (#:key inputs outputs #:allow-other-keys) | |
524 | (let ((out (assoc-ref outputs "out")) | |
525 | (flint (assoc-ref inputs "flint")) | |
526 | (gmp (assoc-ref inputs "gmp")) | |
527 | (mpfr (assoc-ref inputs "mpfr"))) | |
faefa2ed TGR |
528 | ;; Do not pass "--enable-fast-install", which makes the |
529 | ;; homebrew configure process fail. | |
6aa54e23 RW |
530 | (invoke "./configure" |
531 | (string-append "--prefix=" out) | |
532 | (string-append "--with-flint=" flint) | |
533 | (string-append "--with-gmp=" gmp) | |
534 | (string-append "--with-mpfr=" mpfr)))))))) | |
535 | (synopsis "Arbitrary precision floating-point ball arithmetic") | |
536 | (description | |
537 | "Arb is a C library for arbitrary-precision floating-point ball | |
6b8e8285 AE |
538 | arithmetic. It supports efficient high-precision computation with |
539 | polynomials, power series, matrices and special functions over the | |
540 | real and complex numbers, with automatic, rigorous error control.") | |
6aa54e23 | 541 | (license license:lgpl2.1+) |
faefa2ed | 542 | (home-page "http://arblib.org"))) |
6b8e8285 | 543 | |
1d6589db AE |
544 | (define-public python-flint |
545 | (package | |
546 | (name "python-flint") | |
547 | (version "0.3.0") | |
548 | (source (origin | |
549 | (method git-fetch) | |
550 | (uri (git-reference | |
b0e7b699 | 551 | (url "https://github.com/fredrik-johansson/python-flint") |
1d6589db AE |
552 | (commit version))) |
553 | (file-name (git-file-name name version)) | |
554 | (sha256 | |
555 | (base32 | |
556 | "1v0anazbj1cfi68nl2j6dbd31kgkc1563xmr0zk5xk3xj78569pw")) | |
557 | (patches (search-patches "python-flint-includes.patch")))) | |
558 | (build-system python-build-system) | |
559 | (native-inputs | |
560 | `(("python-cython" ,python-cython))) | |
561 | (propagated-inputs | |
562 | `(("python-numpy" ,python-numpy))) | |
563 | (inputs | |
564 | `(("arb" ,arb) | |
565 | ("flint" ,flint))) | |
566 | (synopsis "Python module wrapping ARB and FLINT") | |
567 | (description | |
568 | "Python-flint is a Python extension module wrapping FLINT | |
569 | (Fast Library for Number Theory) and Arb (arbitrary-precision ball | |
570 | arithmetic). It supports integers, rationals, modular integers, | |
571 | real and complex ball arithmetic, polynomials and matrices over all | |
572 | these types and other mathematical functions.") | |
573 | (license license:expat) | |
574 | (home-page "http://fredrikj.net/python-flint/"))) | |
575 | ||
14e6520e AE |
576 | (define-public ntl |
577 | (package | |
578 | (name "ntl") | |
d96ad7fa | 579 | (version "11.4.3") |
14e6520e AE |
580 | (source (origin |
581 | (method url-fetch) | |
d96ad7fa | 582 | (uri (string-append "https://shoup.net/ntl/ntl-" |
14e6520e | 583 | version ".tar.gz")) |
d96ad7fa JK |
584 | (sha256 |
585 | (base32 | |
586 | "1lisp3064rch3jaa2wrhy1s9kll7i3ka3d0y6lj6l3l4ckfcrhdp")) | |
587 | (modules '((guix build utils))) | |
588 | (snippet | |
589 | '(begin | |
590 | (delete-file-recursively "src/libtool-origin") | |
591 | #t)))) | |
14e6520e AE |
592 | (build-system gnu-build-system) |
593 | (native-inputs | |
594 | `(("libtool" ,libtool) | |
595 | ("perl" ,perl))) ; for configuration | |
14e6520e | 596 | (inputs |
d96ad7fa JK |
597 | `(("gmp" ,gmp) |
598 | ("gf2x" ,gf2x))) | |
14e6520e AE |
599 | (arguments |
600 | `(#:phases | |
601 | (modify-phases %standard-phases | |
602 | (replace 'configure | |
d96ad7fa | 603 | (lambda* (#:key inputs outputs #:allow-other-keys) |
14e6520e | 604 | (chdir "src") |
d96ad7fa | 605 | (invoke "./configure" |
14e6520e | 606 | (string-append "PREFIX=" (assoc-ref outputs "out")) |
d96ad7fa JK |
607 | (string-append "LIBTOOL=" (assoc-ref inputs "libtool") "/bin/libtool") |
608 | ;; set the library prefixes explicitly so that they get | |
609 | ;; embedded in the .la file | |
610 | (string-append "GMP_PREFIX=" (assoc-ref inputs "gmp")) | |
611 | (string-append "GF2X_PREFIX=" (assoc-ref inputs "gf2x")) | |
14e6520e AE |
612 | ;; Do not build especially for the build machine. |
613 | "NATIVE=off" | |
d96ad7fa JK |
614 | "NTL_GF2X_LIB=on" |
615 | "SHARED=on")))))) | |
14e6520e AE |
616 | (synopsis "C++ library for number theory") |
617 | (description | |
618 | "NTL is a C++ library providing data structures and algorithms | |
619 | for manipulating signed, arbitrary length integers, and for vectors, | |
620 | matrices, and polynomials over the integers and over finite fields.") | |
621 | (license license:gpl2+) | |
d96ad7fa | 622 | (home-page "https://shoup.net/ntl/"))) |
14e6520e | 623 | |
aae03c48 AE |
624 | (define-public singular |
625 | (package | |
626 | (name "singular") | |
33209660 | 627 | (version "4.1.3p2") |
f35c3bbb KK |
628 | (source |
629 | (origin | |
630 | (method url-fetch) | |
631 | (uri | |
632 | (string-append "http://www.mathematik.uni-kl.de/ftp/pub/Math/" | |
633 | "Singular/SOURCES/" | |
634 | (string-join | |
635 | (string-split | |
636 | (string-trim-right version #\p | |
637 | 0 (1- (string-length version))) | |
638 | #\.) "-") | |
639 | "/singular-" version ".tar.gz")) | |
640 | (sha256 (base32 | |
33209660 | 641 | "1524yrni7gh0hir5ckridq671q5s6avfjdsdyahj51kzdl3wcypf")))) |
aae03c48 AE |
642 | (build-system gnu-build-system) |
643 | (native-inputs | |
644 | `(("doxygen" ,doxygen) | |
645 | ("graphviz" ,graphviz) | |
646 | ("perl" ,perl))) | |
647 | (inputs | |
648 | `(("cddlib" ,cddlib) | |
649 | ("gmp" ,gmp) | |
650 | ("flint" ,flint) | |
651 | ("mpfr" ,mpfr) | |
652 | ("ntl" ,ntl) | |
653 | ("python" ,python-2) | |
654 | ("readline" ,readline))) | |
655 | (arguments | |
656 | `(#:configure-flags | |
657 | (list (string-append "--with-ntl=" | |
658 | (assoc-ref %build-inputs "ntl"))))) | |
659 | (synopsis "Computer algebra system for polynomial computations") | |
660 | (description | |
661 | "Singular is a computer algebra system for polynomial computations, | |
662 | with special emphasis on commutative and non-commutative algebra, algebraic | |
663 | geometry and singularity theory.") | |
664 | ;; Singular itself is dual licensed gpl2 or gpl3, but some of the | |
665 | ;; libraries with which it links are licensed under lgpl3+, so the | |
666 | ;; combined work becomes gpl3. See COPYING in the source code. | |
667 | (license license:gpl3) | |
668 | (home-page "http://www.singular.uni-kl.de/index.php"))) | |
669 | ||
57c9c349 AE |
670 | (define-public gmp-ecm |
671 | (package | |
672 | (name "gmp-ecm") | |
7d15cf17 | 673 | (version "7.0.4") |
57c9c349 | 674 | (source (origin |
7d15cf17 TGR |
675 | (method url-fetch) |
676 | ;; Use the ‘Latest version’ link for a stable URI across releases. | |
677 | (uri (string-append "https://gforge.inria.fr/frs/download.php/" | |
678 | "latestfile/160/ecm-" version ".tar.gz")) | |
679 | (sha256 (base32 | |
680 | "0hxs24c2m3mh0nq1zz63z3sb7dhy1rilg2s1igwwcb26x3pb7xqc")))) | |
57c9c349 AE |
681 | (build-system gnu-build-system) |
682 | (inputs | |
683 | `(("gmp" ,gmp))) | |
684 | (arguments | |
685 | `(#:configure-flags '("--enable-shared" | |
686 | ;; Disable specific assembly routines, which depend | |
687 | ;; on the subarchitecture of the build machine, | |
688 | ;; and use gmp instead. | |
689 | "--disable-asm-redc"))) | |
690 | (synopsis "Integer factorization library using the elliptic curve method") | |
691 | (description | |
692 | "GMP-ECM factors integers using the elliptic curve method (ECM) as well | |
693 | as the P-1 and P+1 algorithms. It provides a library and a stand-alone | |
694 | binary.") | |
695 | ;; Most files are under lgpl3+, but some are under gpl3+ or gpl2+, | |
696 | ;; so the combined work is under gpl3+. | |
697 | (license license:gpl3+) | |
698 | (home-page "http://ecm.gforge.inria.fr/"))) | |
699 | ||
ed9f9a77 LC |
700 | (define-public bc |
701 | (package | |
702 | (name "bc") | |
f71f29ca | 703 | (version "1.07.1") |
ed9f9a77 LC |
704 | (source (origin |
705 | (method url-fetch) | |
706 | (uri (string-append "mirror://gnu/bc/bc-" version ".tar.gz")) | |
707 | (sha256 | |
708 | (base32 | |
06b2bc55 MO |
709 | "0amh9ik44jfg66csyvf4zz1l878c4755kjndq9j0270akflgrbb2")) |
710 | (patches (search-patches "bc-fix-cross-compilation.patch")))) | |
ed9f9a77 | 711 | (build-system gnu-build-system) |
f71f29ca | 712 | (native-inputs |
06b2bc55 MO |
713 | `(("automake" ,automake) |
714 | ("autoconf" ,autoconf) | |
715 | ("ed" ,ed) | |
f71f29ca MB |
716 | ("flex" ,flex) |
717 | ("texinfo" ,texinfo))) | |
ed9f9a77 | 718 | (arguments |
f71f29ca | 719 | '(#:configure-flags |
06b2bc55 MO |
720 | (list "--with-readline") |
721 | #:phases | |
722 | (modify-phases %standard-phases | |
723 | (add-after 'unpack 'autogen | |
724 | (lambda _ | |
725 | (invoke "autoreconf" "-vif")))))) | |
6fd52309 | 726 | (home-page "https://www.gnu.org/software/bc/") |
f50d2669 | 727 | (synopsis "Arbitrary precision numeric processing language") |
ed9f9a77 | 728 | (description |
a22dc0c4 LC |
729 | "bc is an arbitrary precision numeric processing language. It includes |
730 | an interactive environment for evaluating mathematical statements. Its | |
731 | syntax is similar to that of C, so basic usage is familiar. It also includes | |
732 | \"dc\", a reverse-polish calculator.") | |
9f51293c | 733 | (license license:gpl2+))) |
37e6cdcd | 734 | |
2a9b10c7 RW |
735 | ;; The original kiss-fft does not have a complete build system and does not |
736 | ;; build any shared libraries. This is a fork used by Extempore. | |
737 | (define-public kiss-fft-for-extempore | |
738 | (package | |
739 | (name "kiss-fft-for-extempore") | |
740 | (version "1.3.0") | |
741 | (source (origin | |
9774fac4 RW |
742 | (method git-fetch) |
743 | (uri (git-reference | |
b0e7b699 | 744 | (url "https://github.com/extemporelang/kiss_fft") |
9774fac4 RW |
745 | (commit version))) |
746 | (file-name (git-file-name name version)) | |
2a9b10c7 RW |
747 | (sha256 |
748 | (base32 | |
9774fac4 | 749 | "0jasbmqy4wkqrqx3w64s1dfmj34875xmsl72mb26aa4hpyn14bi2")))) |
2a9b10c7 RW |
750 | (build-system cmake-build-system) |
751 | (arguments `(#:tests? #f)) ; no tests included | |
39162ee4 RW |
752 | ;; Extempore refuses to build on architectures other than x86_64 |
753 | (supported-systems '("x86_64-linux")) | |
2a9b10c7 RW |
754 | (home-page "https://github.com/extemporelang/kiss_fft") |
755 | (synopsis "Mixed-radix Fast Fourier Transform") | |
756 | (description | |
757 | "Kiss FFT attempts to be a reasonably efficient, moderately useful FFT | |
758 | that can use fixed or floating data types and can easily be incorporated into | |
759 | a C program.") | |
760 | (license license:bsd-3))) | |
761 | ||
37e6cdcd LC |
762 | (define-public fftw |
763 | (package | |
764 | (name "fftw") | |
bdb74478 | 765 | (version "3.3.8") |
37e6cdcd LC |
766 | (source (origin |
767 | (method url-fetch) | |
768 | (uri (string-append "ftp://ftp.fftw.org/pub/fftw/fftw-" | |
769 | version".tar.gz")) | |
770 | (sha256 | |
771 | (base32 | |
bdb74478 | 772 | "00z3k8fq561wq2khssqg0kallk0504dzlx989x3vvicjdqpjc4v1")))) |
37e6cdcd LC |
773 | (build-system gnu-build-system) |
774 | (arguments | |
65bb2279 | 775 | `(#:configure-flags |
69d5909e MW |
776 | '("--enable-shared" "--enable-openmp" "--enable-threads" |
777 | ,@(let ((system (or (%current-target-system) (%current-system)))) | |
778 | ;; Enable SIMD extensions for codelets. See details at: | |
779 | ;; <http://fftw.org/fftw3_doc/Installation-on-Unix.html>. | |
780 | (cond | |
781 | ((string-prefix? "x86_64" system) | |
782 | '("--enable-sse2" "--enable-avx" "--enable-avx2" | |
783 | "--enable-avx512" "--enable-avx-128-fma")) | |
784 | ((string-prefix? "i686" system) | |
785 | '("--enable-sse2")) | |
786 | ((string-prefix? "aarch64" system) | |
787 | ;; Note that fftw supports NEON on 32-bit ARM only when | |
788 | ;; compiled for single-precision. | |
789 | '("--enable-neon")) | |
790 | (else | |
791 | '()))) | |
65bb2279 EB |
792 | ;; By default '-mtune=native' is used. However, that may cause the |
793 | ;; use of ISA extensions (e.g. AVX) that are not necessarily | |
794 | ;; available on the user's machine when that package is built on a | |
795 | ;; different machine. | |
796 | "ax_cv_c_flags__mtune_native=no"))) | |
37e6cdcd LC |
797 | (native-inputs `(("perl" ,perl))) |
798 | (home-page "http://fftw.org") | |
799 | (synopsis "Computing the discrete Fourier transform") | |
800 | (description | |
801 | "FFTW is a C subroutine library for computing the discrete Fourier | |
802 | transform (DFT) in one or more dimensions, of arbitrary input size, and of | |
803 | both real and complex data (as well as of even/odd data---i.e. the discrete | |
804 | cosine/ sine transforms or DCT/DST).") | |
9f51293c | 805 | (license license:gpl2+))) |
7569c5cb EB |
806 | |
807 | (define-public fftwf | |
808 | (package (inherit fftw) | |
809 | (name "fftwf") | |
810 | (arguments | |
811 | (substitute-keyword-arguments (package-arguments fftw) | |
69d5909e MW |
812 | ((#:configure-flags fftw-configure-flags) |
813 | `(cons* "--enable-single" | |
814 | ,@(if (string-prefix? "arm" (or (%current-target-system) | |
815 | (%current-system))) | |
816 | ;; fftw supports NEON on 32-bit ARM only when compiled | |
817 | ;; for single-precision, so add it here. | |
818 | '("--enable-neon") | |
819 | '()) | |
820 | ,fftw-configure-flags)))) | |
7569c5cb EB |
821 | (description |
822 | (string-append (package-description fftw) | |
823 | " Single-precision version.")))) | |
e5c66f8c EB |
824 | |
825 | (define-public fftw-openmpi | |
826 | (package (inherit fftw) | |
827 | (name "fftw-openmpi") | |
828 | (inputs | |
829 | `(("openmpi" ,openmpi) | |
830 | ,@(package-inputs fftw))) | |
831 | (arguments | |
832 | (substitute-keyword-arguments (package-arguments fftw) | |
833 | ((#:configure-flags cf) | |
eb6785cf EB |
834 | `(cons "--enable-mpi" ,cf)) |
835 | ((#:phases phases '%standard-phases) | |
836 | `(modify-phases ,phases | |
837 | (add-before 'check 'mpi-setup | |
838 | ,%openmpi-setup))))) | |
e5c66f8c EB |
839 | (description |
840 | (string-append (package-description fftw) | |
841 | " With OpenMPI parallelism support.")))) | |
8f4b1dfb | 842 | |
c8d99608 RW |
843 | (define-public java-la4j |
844 | (package | |
845 | (name "java-la4j") | |
846 | (version "0.6.0") | |
847 | (source (origin | |
848 | (method git-fetch) | |
849 | (uri (git-reference | |
b0e7b699 | 850 | (url "https://github.com/vkostyukov/la4j") |
c8d99608 RW |
851 | (commit version))) |
852 | (file-name (string-append name "-" version "-checkout")) | |
853 | (sha256 | |
854 | (base32 | |
855 | "1qir8dr978cfvz9k12m2kbdwpyf6cqdf1d0ilb7lnkhbgq5i53w3")))) | |
856 | (build-system ant-build-system) | |
857 | (arguments | |
858 | `(#:jar-name "la4j.jar" | |
859 | #:jdk ,icedtea-8 | |
860 | #:test-exclude (list "**/Abstract*.java" | |
861 | "**/MatrixTest.java" | |
862 | "**/DenseMatrixTest.java" | |
863 | "**/SparseMatrixTest.java" | |
864 | "**/VectorTest.java" | |
865 | "**/SparseVectorTest.java" | |
866 | "**/DenseVectorTest.java"))) | |
867 | (native-inputs | |
868 | `(("java-junit" ,java-junit) | |
869 | ("java-hamcrest-core" ,java-hamcrest-core))) | |
870 | (home-page "http://la4j.org/") | |
871 | (synopsis "Java library that provides Linear Algebra primitives and algorithms") | |
872 | (description "The la4j library is a Java library that provides Linear | |
873 | Algebra primitives (matrices and vectors) and algorithms. The key features of | |
874 | the la4j library are: | |
875 | ||
876 | @itemize | |
877 | @item No dependencies and tiny size | |
878 | @item Fluent object-oriented/functional API | |
879 | @item Sparse (CRS, CCS) and dense (1D/2D arrays) matrices | |
880 | @item Linear systems solving (Gaussian, Jacobi, Zeidel, Square Root, Sweep and other) | |
881 | @item Matrices decomposition (Eigenvalues/Eigenvectors, SVD, QR, LU, Cholesky and other) | |
882 | @item MatrixMarket/CSV IO formats support for matrices and vectors | |
883 | @end itemize\n") | |
884 | (license license:asl2.0))) | |
885 | ||
24074b0b RW |
886 | (define-public java-jlargearrays |
887 | (package | |
888 | (name "java-jlargearrays") | |
889 | (version "1.6") | |
890 | (source (origin | |
891 | (method url-fetch) | |
9f5eeb87 BH |
892 | (uri (string-append "https://repo1.maven.org/maven2/" |
893 | "pl/edu/icm/JLargeArrays/" | |
24074b0b RW |
894 | version "/JLargeArrays-" version |
895 | "-sources.jar")) | |
896 | (file-name (string-append name "-" version ".jar")) | |
897 | (sha256 | |
898 | (base32 | |
899 | "0v05iphpxbjnd7f4jf1rlqq3m8hslhcm0imdbsgxr20pi3xkaf2a")))) | |
900 | (build-system ant-build-system) | |
901 | (arguments | |
902 | `(#:jar-name "jlargearrays.jar" | |
903 | #:tests? #f ; tests are not included in the release archive | |
904 | #:jdk ,icedtea-8)) | |
905 | (propagated-inputs | |
906 | `(("java-commons-math3" ,java-commons-math3))) | |
907 | (home-page "https://gitlab.com/ICM-VisLab/JLargeArrays") | |
908 | (synopsis "Library of one-dimensional arrays that can store up to 263 elements") | |
909 | (description "JLargeArrays is a Java library of one-dimensional arrays | |
910 | that can store up to 263 elements.") | |
911 | (license license:bsd-2))) | |
912 | ||
4e92911c RW |
913 | (define-public java-jtransforms |
914 | (package | |
915 | (name "java-jtransforms") | |
916 | (version "3.1") | |
917 | (source (origin | |
918 | (method url-fetch) | |
4c877704 BH |
919 | (uri (string-append "https://repo1.maven.org/maven2/" |
920 | "com/github/wendykierp/JTransforms/" | |
4e92911c RW |
921 | version "/JTransforms-" version "-sources.jar")) |
922 | (sha256 | |
923 | (base32 | |
924 | "1haw5m8shv5srgcpwkl853dz8bv6h90bzlhcps6mdpb4cixjirsg")))) | |
925 | (build-system ant-build-system) | |
926 | (arguments | |
927 | `(#:jar-name "jtransforms.jar" | |
928 | #:tests? #f ; tests are not included in the release archive | |
929 | #:jdk ,icedtea-8)) | |
930 | (propagated-inputs | |
931 | `(("java-commons-math3" ,java-commons-math3) | |
932 | ("java-jlargearrays" ,java-jlargearrays))) | |
933 | (home-page "https://github.com/wendykierp/JTransforms") | |
934 | (synopsis "Multithreaded FFT library written in pure Java") | |
935 | (description "JTransforms is a multithreaded FFT library written in pure | |
936 | Java. Currently, four types of transforms are available: @dfn{Discrete | |
937 | Fourier Transform} (DFT), @dfn{Discrete Cosine Transform} (DCT), @dfn{Discrete | |
938 | Sine Transform} (DST) and @dfn{Discrete Hartley Transform} (DHT).") | |
939 | (license license:bsd-2))) | |
940 | ||
feba2c97 VL |
941 | (define-public lmfit |
942 | (package | |
943 | (name "lmfit") | |
944 | (version "8.2.2") | |
945 | (source (origin | |
946 | (method git-fetch) | |
947 | (uri (git-reference | |
948 | (url "https://jugit.fz-juelich.de/mlz/lmfit.git") | |
949 | (commit (string-append "v" version)))) | |
950 | (file-name (git-file-name name version)) | |
951 | (sha256 | |
952 | (base32 | |
953 | "00bch77a6qgnw6vzsjn2a42n8n683ih3xm0wpr454jxa15hw78vf")))) | |
954 | (build-system cmake-build-system) | |
955 | (native-inputs | |
956 | `(("perl" ,perl))) ; for pod2man | |
957 | (home-page "https://jugit.fz-juelich.de/mlz/lmfit") | |
958 | (synopsis "Levenberg-Marquardt minimization and least-squares fitting") | |
959 | (description "lmfit is a C library for Levenberg-Marquardt least-squares | |
960 | minimization and curve fitting. It is mature code, based on decades-old | |
961 | algorithms from the FORTRAN library MINPACK.") | |
962 | (license license:bsd-2))) | |
963 | ||
d0337a22 VM |
964 | (define-public symengine |
965 | (package | |
966 | (name "symengine") | |
967 | (version "0.6.0") | |
968 | (source | |
969 | (origin | |
af0307a0 NG |
970 | (method git-fetch) |
971 | (uri (git-reference | |
b0e7b699 | 972 | (url "https://github.com/symengine/symengine") |
af0307a0 NG |
973 | (commit (string-append "v" version)))) |
974 | (file-name (git-file-name name version)) | |
975 | (sha256 | |
976 | (base32 "129iv9maabmb42ylfdv0l0g94mcbf3y4q3np175008rcqdr8z6h1")))) | |
d0337a22 VM |
977 | (build-system cmake-build-system) |
978 | (arguments | |
af0307a0 NG |
979 | '(#:configure-flags |
980 | ;; These are the suggested build options in the README. | |
d0337a22 VM |
981 | '("-DCMAKE_BUILD_TYPE=Release" |
982 | "-DWITH_GMP=on" | |
983 | "-DWITH_MPFR=on" | |
984 | "-DWITH_MPC=on" | |
985 | "-DINTEGER_CLASS=flint" | |
986 | "-DWITH_LLVM=on" | |
987 | "-DWITH_SYMENGINE_THREAD_SAFE=on" | |
af0307a0 | 988 | "-DBUILD_SHARED_LIBS=on"))) ;also build libsymengine |
d0337a22 VM |
989 | (native-inputs |
990 | `(("llvm" ,llvm))) | |
991 | (inputs | |
992 | `(("flint" ,flint) | |
993 | ("gmp" ,gmp) | |
994 | ("mpc" ,mpc) | |
995 | ("mpfr" ,mpfr))) | |
996 | (home-page "https://github.com/symengine/symengine") | |
997 | (synopsis "Fast symbolic manipulation library") | |
af0307a0 NG |
998 | (description |
999 | "SymEngine is a standalone fast C++ symbolic manipulation library. | |
1000 | Optional thin wrappers allow usage of the library from other languages.") | |
1001 | (license (list license:expat ;SymEngine | |
1002 | license:bsd-3)))) ;3rd party code | |
d0337a22 | 1003 | |
8f4b1dfb LC |
1004 | (define-public eigen |
1005 | (package | |
1006 | (name "eigen") | |
5144e314 | 1007 | (version "3.3.7") |
8f4b1dfb LC |
1008 | (source (origin |
1009 | (method url-fetch) | |
1010 | (uri (string-append "https://bitbucket.org/eigen/eigen/get/" | |
9b268f12 | 1011 | version ".tar.bz2")) |
8f4b1dfb LC |
1012 | (sha256 |
1013 | (base32 | |
5144e314 | 1014 | "1km3fyfzyqfdvmnl79drps3fjwnz3zbh0c7l34mfbqyvvs8cy4wz")) |
2abcc935 | 1015 | (file-name (string-append name "-" version ".tar.bz2")) |
5144e314 | 1016 | (patches (search-patches "eigen-stabilise-sparseqr-test.patch")) |
8f4b1dfb LC |
1017 | (modules '((guix build utils))) |
1018 | (snippet | |
1019 | ;; There are 3 test failures in the "unsupported" directory, | |
1020 | ;; but maintainers say it's a known issue and it's unsupported | |
1021 | ;; anyway, so just skip them. | |
1137d85b | 1022 | '(begin |
44884a9d RW |
1023 | (substitute* "unsupported/CMakeLists.txt" |
1024 | (("add_subdirectory\\(test.*") | |
1025 | "# Do not build the tests for unsupported features.\n")) | |
6cbee49d | 1026 | #t)))) |
8f4b1dfb LC |
1027 | (build-system cmake-build-system) |
1028 | (arguments | |
1029 | '(;; Turn off debugging symbols to save space. | |
1030 | #:build-type "Release" | |
1031 | ||
354f4fe2 | 1032 | #:phases (modify-phases %standard-phases |
ef8742ea | 1033 | (replace 'check |
354f4fe2 | 1034 | (lambda _ |
354f4fe2 LC |
1035 | (let* ((cores (parallel-job-count)) |
1036 | (dash-j (format #f "-j~a" cores))) | |
1137d85b | 1037 | (setenv "EIGEN_SEED" "1") ;for reproducibility |
ef8742ea LC |
1038 | ;; First build the tests, in parallel. See |
1039 | ;; <http://eigen.tuxfamily.org/index.php?title=Tests>. | |
fbe9c80f | 1040 | (invoke "make" "buildtests" dash-j) |
8f4b1dfb | 1041 | |
fbe9c80f TGR |
1042 | ;; Then run 'CTest' with -V so we get more |
1043 | ;; details upon failure. | |
1044 | (invoke "ctest" "-V" dash-j))))))) | |
eeb8b0e6 | 1045 | (home-page "https://eigen.tuxfamily.org") |
8f4b1dfb LC |
1046 | (synopsis "C++ template library for linear algebra") |
1047 | (description | |
1048 | "Eigen is a C++ template library for linear algebra: matrices, vectors, | |
1049 | numerical solvers, and related algorithms. It provides an elegant API based | |
1050 | on \"expression templates\". It is versatile: it supports all matrix sizes, | |
1051 | all standard numeric types, various matrix decompositions and geometry | |
1052 | features, and more.") | |
1053 | ||
1054 | ;; Most of the code is MPLv2, with a few files under LGPLv2.1+ or BSD-3. | |
1055 | ;; See 'COPYING.README' for details. | |
9f51293c | 1056 | (license license:mpl2.0))) |
70770b93 | 1057 | |
697eb65d RW |
1058 | (define-public eigen-for-tensorflow |
1059 | (let ((changeset "fd6845384b86") | |
1060 | (revision "1")) | |
1061 | (package (inherit eigen) | |
1062 | (name "eigen-for-tensorflow") | |
1063 | (version (string-append "3.3.5-" revision "." changeset)) | |
1064 | (source (origin | |
1065 | (method hg-fetch) | |
1066 | (uri (hg-reference | |
1067 | (url "https://bitbucket.org/eigen/eigen") | |
1068 | (changeset changeset))) | |
1069 | (sha256 | |
1070 | (base32 | |
1071 | "12cwgah63wqwb66xji048hcxc1z5zjg8a7701zlia5zbilnnk1n5")) | |
1072 | (file-name (string-append name "-" version "-checkout")) | |
1073 | (modules '((guix build utils))) | |
1074 | (snippet | |
1075 | ;; There are 3 test failures in the "unsupported" directory, | |
1076 | ;; but maintainers say it's a known issue and it's unsupported | |
1077 | ;; anyway, so just skip them. | |
1078 | '(begin | |
1079 | (substitute* "unsupported/CMakeLists.txt" | |
1080 | (("add_subdirectory\\(test.*") | |
1081 | "# Do not build the tests for unsupported features.\n")) | |
1082 | #t))))))) | |
1083 | ||
70770b93 FT |
1084 | (define-public xtensor |
1085 | (package | |
1086 | (name "xtensor") | |
4e6568ce | 1087 | (version "0.20.10") |
70770b93 | 1088 | (source (origin |
e1ecaa83 KK |
1089 | (method git-fetch) |
1090 | (uri (git-reference | |
b0e7b699 | 1091 | (url "https://github.com/QuantStack/xtensor") |
e1ecaa83 | 1092 | (commit version))) |
70770b93 FT |
1093 | (sha256 |
1094 | (base32 | |
4e6568ce | 1095 | "1fmv2hpx610xwhxrndfsfvlbqfyk4l3gi5q5d7pa9m82kblxjj9l")) |
e1ecaa83 | 1096 | (file-name (git-file-name name version)))) |
70770b93 FT |
1097 | (build-system cmake-build-system) |
1098 | (native-inputs | |
1099 | `(("googletest" ,googletest) | |
1100 | ("xtl" ,xtl))) | |
1101 | (arguments | |
1102 | `(#:configure-flags | |
1103 | '("-DBUILD_TESTS=ON") | |
1104 | #:test-target "xtest")) | |
3b1ccad0 | 1105 | (home-page "https://quantstack.net/xtensor") |
70770b93 FT |
1106 | (synopsis "C++ tensors with broadcasting and lazy computing") |
1107 | (description "xtensor is a C++ library meant for numerical analysis with | |
1108 | multi-dimensional array expressions. | |
1109 | ||
1110 | xtensor provides: | |
1111 | @itemize | |
1112 | @item an extensible expression system enabling lazy broadcasting. | |
1113 | @item an API following the idioms of the C++ standard library. | |
1114 | @item tools to manipulate array expressions and build upon xtensor. | |
1115 | @end itemize") | |
1116 | (license license:bsd-3))) | |
3f074a21 AE |
1117 | |
1118 | (define-public gap | |
1119 | (package | |
1120 | (name "gap") | |
c8a227df | 1121 | (version "4.10.2") |
3f074a21 AE |
1122 | (source |
1123 | (origin | |
1124 | (method url-fetch) | |
1125 | (uri (string-append "https://www.gap-system.org/pub/gap/gap-" | |
1126 | (version-major+minor version) | |
1127 | "/tar.bz2/gap-" | |
1128 | version | |
1129 | ".tar.bz2")) | |
1130 | (sha256 | |
c8a227df | 1131 | (base32 "0cp6ddk0469zzv1m1vair6gm27ic6c5m77ri8rn0znq3gaps6x94")) |
3f074a21 AE |
1132 | (modules '((guix build utils) (ice-9 ftw) (srfi srfi-1))) |
1133 | (snippet | |
1134 | '(begin | |
1135 | ;; Delete the external gmp and zlib libraries | |
1136 | ;; and a subdirectory not needed for our build. | |
1137 | (for-each delete-file-recursively | |
1138 | '("extern" "hpcgap")) | |
1139 | ;; Delete a failing test. | |
1140 | ;; FIXME: This might be fixed in the next release, see | |
1141 | ;; https://github.com/gap-system/gap/issues/3292 | |
1142 | (delete-file "tst/testinstall/dir.tst") | |
1143 | ;; Delete all packages except for a fixed list. | |
1144 | (with-directory-excursion "pkg" | |
1145 | (for-each delete-file-recursively | |
1146 | (lset-difference string=? (scandir ".") | |
1147 | '("." ".." | |
1148 | ;; Necessary packages. | |
1149 | "GAPDoc-1.6.2" | |
1150 | "primgrp-3.3.2" | |
1151 | "SmallGrp-1.3" ; artistic2.0 | |
1152 | "transgrp" ; artistic2.0 for data, | |
1153 | ; gpl2 or gpl3 for code | |
1154 | ;; Recommanded package. | |
1155 | "io-4.5.4" ; gpl3+ | |
1156 | ;; Optional packages, searched for at start, | |
1157 | ;; and their depedencies. | |
1158 | "alnuth-3.1.0" | |
3f074a21 AE |
1159 | "autpgrp-1.10" |
1160 | "crisp-1.4.4" ; bsd-2 | |
bf95a142 | 1161 | "ctbllib" ; gpl3+ according to doc/chap0.txt |
3f074a21 AE |
1162 | "FactInt-1.6.2" |
1163 | "fga" | |
1164 | "irredsol-1.4" ; bsd-2 | |
bf95a142 | 1165 | "laguna-3.9.2" |
3f074a21 AE |
1166 | "polenta-1.3.8" |
1167 | "polycyclic-2.14" | |
1168 | "radiroot-2.8" | |
1169 | "resclasses-4.7.1" | |
1170 | "sophus-1.24" | |
bf95a142 AE |
1171 | "tomlib-1.2.7" ; gpl2+, clarified in the git repository |
1172 | ; and the next release | |
3f074a21 AE |
1173 | "utils-0.59")))) |
1174 | #t)))) | |
1175 | (build-system gnu-build-system) | |
1176 | (inputs | |
1177 | `(("gmp" ,gmp) | |
1178 | ("zlib" ,zlib))) | |
1179 | (arguments | |
bf95a142 AE |
1180 | `(#:modules ((ice-9 ftw) |
1181 | (srfi srfi-26) | |
1182 | (guix build gnu-build-system) | |
1183 | (guix build utils)) | |
1184 | #:phases | |
3f074a21 AE |
1185 | (modify-phases %standard-phases |
1186 | (add-after 'build 'build-packages | |
1187 | ;; Compile all packages that have not been deleted by the | |
1188 | ;; code snippet above. | |
1189 | (lambda _ | |
1190 | (setenv "CONFIG_SHELL" (which "bash")) | |
1191 | (with-directory-excursion "pkg" | |
1192 | (invoke "../bin/BuildPackages.sh") | |
1193 | #t))) | |
1194 | (add-after 'build-packages 'build-doc | |
1195 | ;; The documentation is bundled, but we create it from source. | |
1196 | (lambda _ | |
1197 | (with-directory-excursion "doc" | |
1198 | (invoke "./make_doc")) | |
1199 | #t)) | |
3f074a21 AE |
1200 | (replace 'install |
1201 | (lambda* (#:key outputs #:allow-other-keys) | |
1202 | (let* ((out (assoc-ref outputs "out")) | |
1203 | (bin (string-append out "/bin")) | |
bf95a142 | 1204 | (lib (string-append out "/lib")) |
3f074a21 AE |
1205 | (prog (string-append bin "/gap")) |
1206 | (prog-real (string-append bin "/.gap-real")) | |
1207 | (share (string-append out "/share/gap")) | |
bf95a142 AE |
1208 | (include (string-append out "/include/gap")) |
1209 | (include-hpc (string-append include "/hpc"))) | |
3f074a21 AE |
1210 | ;; Install only the gap binary; the gac compiler is left |
1211 | ;; for maybe later. "Wrap" it in a shell script that calls | |
1212 | ;; the binary with the correct parameter. | |
1213 | (mkdir-p bin) | |
1214 | (copy-file "gap" prog-real) | |
1215 | (call-with-output-file prog | |
1216 | (lambda (port) | |
1217 | (format port | |
1218 | "#!~a~%exec ~a -l ~a \"$@\"~%" | |
1219 | (which "bash") | |
1220 | prog-real | |
1221 | share))) | |
1222 | (chmod prog #o755) | |
bf95a142 AE |
1223 | ;; Install the headers, which are needed by Sage. The |
1224 | ;; Makefile target "install-headers" was available in | |
1225 | ;; gap-4.10.0, but has been commented out in gap-4.10.1. | |
1226 | (mkdir-p include-hpc) | |
3f074a21 | 1227 | (install-file "gen/config.h" include) |
bf95a142 AE |
1228 | (let ((file-name-predicate-without-stat |
1229 | (lambda (regex) | |
1230 | (cut (file-name-predicate regex) <> #f)))) | |
1231 | (with-directory-excursion "src" | |
1232 | (for-each | |
1233 | (cut install-file <> include) | |
1234 | (scandir "." | |
1235 | (file-name-predicate-without-stat ".*\\.h$")))) | |
1236 | (with-directory-excursion "src/hpc" | |
1237 | (for-each | |
1238 | (cut install-file <> include-hpc) | |
1239 | (scandir "." | |
1240 | (file-name-predicate-without-stat ".*\\.h$"))))) | |
1241 | ;; Install the library, which is needed by Sage. The | |
1242 | ;; Makefile target "install-libgap" was available in | |
1243 | ;; gap-4.10.0, but has been commented out in gap-4.10.1. | |
1244 | ;; Compared to the Makefile, which used libtool, the | |
1245 | ;; following approach of copying files and making symlinks | |
1246 | ;; is rather pedestrian. There is hope that some later | |
1247 | ;; version of gap reinstates and completes the install | |
1248 | ;; targets. | |
1249 | (invoke "make" "libgap.la") | |
1250 | (install-file "libgap.la" lib) | |
1251 | (install-file ".libs/libgap.so.0.0.0" lib) | |
1252 | (symlink "libgap.so.0.0.0" (string-append lib "/libgap.so")) | |
1253 | (symlink "libgap.so.0.0.0" (string-append lib "/libgap.so.0")) | |
3f074a21 AE |
1254 | ;; Install a certain number of files and directories to |
1255 | ;; SHARE, where the wrapped shell script expects them. | |
1256 | ;; Remove information on the build directory from sysinfo.gap. | |
1257 | (substitute* "sysinfo.gap" | |
1258 | (("GAP_BIN_DIR=\".*\"") "GAP_BIN_DIR=\"\"") | |
1259 | (("GAP_LIB_DIR=\".*\"") "GAP_LIB_DIR=\"\"") | |
1260 | (("GAP_CPPFLAGS=\".*\"") "GAP_CPPFLAGS=\"\"")) | |
1261 | (install-file "sysinfo.gap" share) | |
1262 | (copy-recursively "grp" (string-append share "/grp")) | |
1263 | (copy-recursively "pkg" (string-append share "/pkg")) | |
1264 | ;; The following is not the C library libgap.so, but a | |
1265 | ;; library of GAP code. | |
1266 | (copy-recursively "lib" (string-append share "/lib")) | |
1267 | ;; The gap binary looks for documentation inside SHARE. | |
1268 | (copy-recursively "doc" (string-append share "/doc"))) | |
1269 | #t))))) | |
1270 | (home-page "https://www.gap-system.org/") | |
1271 | (synopsis | |
1272 | "System for computational group theory") | |
1273 | (description | |
1274 | "GAP is a system for computational discrete algebra, with particular | |
1275 | emphasis on computational group theory. It provides a programming language, | |
1276 | a library of thousands of functions implementing algebraic algorithms | |
1277 | written in the GAP language as well as large data libraries of algebraic | |
1278 | objects.") | |
1279 | ;; Some packages have different licenses (effectively forcing the | |
1280 | ;; combined work to be licensed as gpl3+); if this is the case, this | |
1281 | ;; is mentioned above next to their name. | |
1282 | ;; Some packages have no license mentioned explicitly; supposedly this | |
1283 | ;; means that the gpl2+ licence of GAP itself applies, but to be on the | |
1284 | ;; safe side, we drop them for now. | |
1285 | (license license:gpl2+))) | |
f0fbb31d AE |
1286 | |
1287 | (define-public givaro | |
1288 | (package | |
1289 | (name "givaro") | |
1290 | (version "4.1.1") | |
1291 | (source (origin | |
1292 | (method git-fetch) | |
1293 | (uri (git-reference | |
1294 | (url "https://github.com/linbox-team/givaro") | |
1295 | (commit (string-append "v" version)))) | |
1296 | (file-name (git-file-name name version)) | |
1297 | (sha256 | |
1298 | (base32 | |
1299 | "11wz57q6ijsvfs5r82masxgr319as92syi78lnl9lgdblpc6xigk")))) | |
1300 | (build-system gnu-build-system) | |
1301 | (native-inputs | |
1302 | `(("autoconf" ,autoconf) | |
1303 | ("automake" ,automake) | |
1304 | ("libtool" ,libtool))) | |
1305 | (propagated-inputs | |
1306 | `(("gmp" ,gmp))) ; gmp++.h includes gmpxx.h | |
f0fbb31d AE |
1307 | (synopsis "Algebraic computations with exact rings and fields") |
1308 | (description | |
1309 | "Givaro is a C++ library implementing the basic arithmetic of various | |
1310 | algebraic objects: prime fields, extension fields, finite fields, finite | |
1311 | rings, polynomials, algebraic numbers, arbitrary precision integers and | |
1312 | rationals (C++ wrappers over gmp), fixed precision integers. It also | |
1313 | provides data-structures and templated classes for the manipulation of | |
1314 | compound objects, such as vectors, matrices and univariate polynomials.") | |
1315 | (license license:cecill-b) | |
1316 | (home-page "https://github.com/linbox-team/givaro"))) | |
4bf9cb40 AE |
1317 | |
1318 | (define-public fflas-ffpack | |
1319 | (package | |
1320 | (name "fflas-ffpack") | |
1321 | (version "2.4.3") | |
1322 | (source (origin | |
1323 | (method git-fetch) | |
1324 | (uri (git-reference | |
1325 | (url "https://github.com/linbox-team/fflas-ffpack") | |
1326 | (commit version))) | |
1327 | (file-name (git-file-name name version)) | |
1328 | (sha256 | |
1329 | (base32 | |
1330 | "1ynbjd72qrwp0b4kpn0p5d7gddpvj8dlb5fwdxajr5pvkvi3if74")))) | |
1331 | (build-system gnu-build-system) | |
1332 | (native-inputs | |
1333 | `(("autoconf" ,autoconf) | |
1334 | ("automake" ,automake) | |
1335 | ("libtool" ,libtool) | |
1336 | ("pkg-config" ,pkg-config))) | |
1337 | (inputs | |
1338 | `(("openblas" ,openblas))) | |
1339 | (propagated-inputs | |
1340 | `(("givaro" ,givaro))) ; required according to the .pc file | |
1341 | (arguments | |
1342 | `(#:configure-flags | |
1343 | (list (string-append "--with-blas-libs=" | |
1344 | (assoc-ref %build-inputs "openblas") | |
778d6b52 | 1345 | "/lib/libopenblas.so")))) |
4bf9cb40 AE |
1346 | (synopsis "C++ library for linear algebra over finite fields") |
1347 | (description | |
1348 | "FFLAS-FFPACK is a C++ template library for basic linear algebra | |
1349 | operations over a finite field. | |
1350 | FFLAS (Finite Field Linear Algebra Subprograms) provides the implementation | |
1351 | of a subset of routines of the numerical BLAS; it also supports sparse | |
1352 | matrix-vector products. | |
1353 | FFPACK (Finite Field Linear Algebra Package) is inspired by the LAPACK | |
1354 | library to provide functionalities of higher level, using the kernel | |
1355 | of a BLAS. Additionally, it provides routines specific to exact linear | |
1356 | algebra, such as the row echelon form.") | |
1357 | (license license:lgpl2.1+) | |
1358 | (home-page "https://linbox-team.github.io/fflas-ffpack/"))) | |
a612f866 AE |
1359 | |
1360 | (define-public linbox | |
1361 | (package | |
1362 | (name "linbox") | |
1363 | (version "1.6.3") | |
1364 | (source (origin | |
1365 | (method git-fetch) | |
1366 | (uri (git-reference | |
1367 | (url "https://github.com/linbox-team/linbox") | |
1368 | (commit (string-append "v" version)))) | |
1369 | (file-name (git-file-name name version)) | |
1370 | (sha256 | |
1371 | (base32 | |
781d03f1 JK |
1372 | "10j6dspbsq7d2l4q3y0c1l1xwmaqqba2fxg59q5bhgk9h5d7q571")) |
1373 | (patches (search-patches "linbox-fix-pkgconfig.patch")))) | |
a612f866 AE |
1374 | (build-system gnu-build-system) |
1375 | (native-inputs | |
1376 | `(("autoconf" ,autoconf) | |
1377 | ("automake" ,automake) | |
1378 | ("libtool" ,libtool) | |
1379 | ("pkg-config" ,pkg-config))) | |
781d03f1 | 1380 | (propagated-inputs |
a612f866 | 1381 | `(("fflas-ffpack" ,fflas-ffpack))) |
a612f866 AE |
1382 | (synopsis "C++ library for linear algebra over exact rings") |
1383 | (description | |
1384 | "LinBox is a C++ template library for exact linear algebra computation | |
1385 | with dense, sparse, and structured matrices over the integers and over | |
1386 | finite fields.") | |
1387 | (license license:lgpl2.1+) | |
1388 | (home-page "https://linbox-team.github.io/linbox/"))) | |
37edfb0f AE |
1389 | |
1390 | (define-public m4ri | |
1391 | (package | |
1392 | (name "m4ri") | |
1393 | (version "20140914") | |
1394 | (source (origin | |
1395 | (method git-fetch) | |
1396 | (uri (git-reference | |
1397 | (url "https://bitbucket.org/malb/m4ri") | |
1398 | (commit (string-append "release-" version)))) | |
1399 | (file-name (git-file-name name version)) | |
1400 | (sha256 | |
1401 | (base32 | |
1402 | "0xfg6pffbn8r1s0y7bn9b8i55l00d41dkmhrpf7pwk53qa3achd3")))) | |
1403 | (build-system gnu-build-system) | |
1404 | (native-inputs | |
1405 | `(("autoconf" ,autoconf) | |
1406 | ("automake" ,automake) | |
1407 | ("libtool" ,libtool) | |
1408 | ("pkg-config" ,pkg-config))) | |
1409 | (inputs | |
1410 | `(("libpng" ,libpng))) | |
1411 | (synopsis "Arithmetic of dense matrices over F_2") | |
1412 | (description "M4RI is a library for fast arithmetic with dense matrices | |
1413 | over F2. The name M4RI comes from the first implemented algorithm: The | |
1414 | Method of the Four Russians inversion algorithm published by Gregory Bard. | |
1415 | This algorithm in turn is named after the Method of the Four Russians | |
1416 | multiplication algorithm.") | |
1417 | (license license:gpl2+) | |
1418 | (home-page "https://bitbucket.org/malb/m4ri/"))) | |
ab398380 | 1419 | |
75a73bb0 NG |
1420 | (define-public symmetrica |
1421 | (package | |
1422 | (name "symmetrica") | |
1423 | (version "2.0") | |
1424 | (source (origin | |
1425 | (method url-fetch/tarbomb) | |
1426 | (uri (let ((v (string-join (string-split version #\.) "_"))) | |
1427 | (string-append "http://www.algorithm.uni-bayreuth.de/" | |
1428 | "en/research/SYMMETRICA/" | |
1429 | "SYM" v "_tar.gz"))) | |
1430 | (sha256 | |
1431 | (base32 | |
1432 | "1qhfrbd5ybb0sinl9pad64rscr08qvlfzrzmi4p4hk61xn6phlmz")) | |
1433 | ;; Taken from <https://git.sagemath.org/sage.git/plain/build/pkgs/symmetrica/patches/> | |
1434 | (patches (search-patches "symmetrica-bruch.patch" | |
1435 | "symmetrica-int32.patch" | |
1436 | "symmetrica-return_values.patch" | |
1437 | "symmetrica-sort_sum_rename.patch")))) | |
1438 | (build-system gnu-build-system) | |
1439 | (arguments | |
1440 | `(#:tests? #f ;no test | |
1441 | #:phases | |
1442 | (modify-phases %standard-phases | |
1443 | (add-after 'unpack 'fix-makefile | |
1444 | (lambda _ | |
1445 | (substitute* "makefile" | |
e6eafd42 | 1446 | (("cc -c") "gcc -c -fPIC")) |
75a73bb0 NG |
1447 | #t)) |
1448 | (add-after 'fix-makefile 'turn-off-banner | |
1449 | (lambda _ | |
1450 | (substitute* "de.c" | |
1451 | (("(INT no_banner = )FALSE" _ pre) (string-append pre "TRUE"))) | |
1452 | #t)) | |
1453 | (delete 'configure) ;no configure script | |
1454 | (replace 'install ;no install target | |
1455 | (lambda* (#:key outputs #:allow-other-keys) | |
1456 | (let* ((out (assoc-ref outputs "out")) | |
1457 | (lib (string-append out "/lib")) | |
1458 | (inc (string-append out "/include/symmetrica")) | |
1459 | (doc (string-append out "/share/doc/symmetrica-" ,version)) | |
1460 | (static "libsymmetrica.a")) | |
1461 | ;; Build static library. | |
1462 | (apply invoke "ar" "crs" static (find-files "." "\\.o$")) | |
1463 | (invoke "ranlib" static) | |
1464 | ;; Install static library and headers. | |
1465 | (for-each (lambda (f) (install-file f inc)) | |
1466 | (find-files "." "\\.h$")) | |
1467 | (install-file "libsymmetrica.a" lib) | |
1468 | ;; Install documentation. | |
1469 | (for-each (lambda (f) (install-file f doc)) | |
1470 | (find-files "." "\\.doc$")) | |
1471 | #t)))))) | |
1472 | (home-page "http://www.algorithm.uni-bayreuth.de/en/research/SYMMETRICA/") | |
1473 | (synopsis "Combinatoric C Library") | |
1474 | (description "Symmetrica is a library for combinatorics. It has support | |
1475 | for the representation theory of the symmetric group and related groups, | |
1476 | combinatorics of tableaux, symmetric functions and polynomials, Schubert | |
1477 | polynomials, and the representation theory of Hecke algebras of type A_n.") | |
1478 | (license license:public-domain))) | |
6cbedbd2 AE |
1479 | |
1480 | (define-public m4rie | |
1481 | (package | |
1482 | (name "m4rie") | |
1483 | (version "20150908") | |
1484 | (source (origin | |
1485 | (method git-fetch) | |
1486 | (uri (git-reference | |
1487 | (url "https://bitbucket.org/malb/m4rie") | |
1488 | (commit (string-append "release-" version)))) | |
1489 | (file-name (git-file-name name version)) | |
1490 | (sha256 | |
1491 | (base32 | |
1492 | "0r8lv46qx5mkz5kp3ay2jnsp0mbhlqr5z2z220wdk73wdshcznss")))) | |
1493 | (build-system gnu-build-system) | |
1494 | (native-inputs | |
1495 | `(("autoconf" ,autoconf) | |
1496 | ("automake" ,automake) | |
1497 | ("libtool" ,libtool))) | |
1498 | (inputs | |
1499 | `(("m4ri" ,m4ri))) | |
1500 | (synopsis "Arithmetic of dense matrices over F_{2^e}") | |
1501 | (description "M4RI is a library for fast arithmetic with dense matrices | |
1502 | over finite fields of characteristic 2. So it extends the functionality | |
1503 | of M4RI from F_2 to F_{2^e}.") | |
1504 | (license license:gpl2+) | |
1505 | (home-page "https://bitbucket.org/malb/m4rie/"))) | |
66c67e7b AE |
1506 | |
1507 | (define-public eclib | |
1508 | (package | |
1509 | (name "eclib") | |
9a5f35fe | 1510 | (version "20190909") |
66c67e7b AE |
1511 | (source (origin |
1512 | (method git-fetch) | |
1513 | (uri (git-reference | |
1514 | (url "https://github.com/JohnCremona/eclib/") | |
1515 | (commit (string-append "v" version)))) | |
1516 | (file-name (git-file-name name version)) | |
1517 | (sha256 | |
1518 | (base32 | |
9a5f35fe | 1519 | "1gw27lqc3f525n8qdcmr2nyn16y9g10z9f6dnmckyyxcdzvhq35n")))) |
66c67e7b AE |
1520 | (build-system gnu-build-system) |
1521 | (native-inputs | |
1522 | `(("autoconf" ,autoconf) | |
1523 | ("automake" ,automake) | |
1524 | ("libtool" ,libtool))) | |
1525 | (inputs | |
d96ad7fa | 1526 | `(("ntl" ,ntl) |
66c67e7b AE |
1527 | ("pari-gp" ,pari-gp))) |
1528 | (synopsis "Ranks of elliptic curves and modular symbols") | |
1529 | (description "The eclib package includes mwrank (for 2-descent on | |
1530 | elliptic curves over Q) and modular symbol code; it has been written by | |
1531 | John Cremona to compute his elliptic curve database.") | |
1532 | (license license:gpl2+) | |
1533 | (home-page (string-append "http://homepages.warwick.ac.uk/staff/" | |
1534 | "J.E.Cremona/mwrank/index.html")))) | |
197ebc36 AE |
1535 | |
1536 | (define-public lrcalc | |
1537 | (package | |
1538 | (name "lrcalc") | |
1539 | (version "1.2") | |
1540 | (source (origin | |
1541 | (method git-fetch) | |
1542 | (uri (git-reference | |
1543 | (url "https://bitbucket.org/asbuch/lrcalc") | |
1544 | (commit (string-append "lrcalc-" version)))) | |
1545 | (file-name (git-file-name name version)) | |
1546 | (sha256 | |
1547 | (base32 | |
88f913e8 AE |
1548 | "1c12d04jdyxkkav4ak8d1aqrv594gzihwhpxvc6p9js0ry1fahss")) |
1549 | (patches (search-patches "lrcalc-includes.patch")))) | |
197ebc36 AE |
1550 | (build-system gnu-build-system) |
1551 | (native-inputs | |
1552 | `(("autoconf" ,autoconf) | |
1553 | ("automake" ,automake) | |
1554 | ("libtool" ,libtool))) | |
1555 | (arguments | |
1556 | `(#:phases | |
1557 | (modify-phases %standard-phases | |
1558 | (add-before 'build 'fix-permission | |
1559 | (lambda _ | |
1560 | (chmod "lrcalc.maple.src" #o644) | |
1561 | #t))))) | |
1562 | (synopsis "Littlewood-Richardson calculator in algebraic combinatorics") | |
1563 | (description "The Littlewood-Richardson Calculator (lrcalc) is a | |
1564 | program designed to compute Littlewood-Richardson coefficients. It computes | |
1565 | single Littlewood-Richardson coefficients, products of Schur functions, or | |
1566 | skew Schur functions. In addition it computes products in the small quantum | |
1567 | cohomology ring of a Grassmann variety. The software package also includes | |
1568 | a program that performs fast computation of the more general multiplicative | |
1569 | structure constants of Schubert polynomials.") | |
1570 | (license license:gpl2+) | |
1e30dff3 | 1571 | (home-page "https://sites.math.rutgers.edu/~asbuch/lrcalc/"))) |
eacf2983 AE |
1572 | |
1573 | (define-public iml | |
1574 | (package | |
1575 | (name "iml") | |
1576 | (version "1.0.5") | |
1577 | (source | |
1578 | (origin | |
1579 | (method url-fetch) | |
1580 | (uri (string-append "http://www.cs.uwaterloo.ca/~astorjoh/iml-" | |
1581 | version ".tar.bz2")) | |
1582 | (sha256 | |
1583 | (base32 | |
1584 | "0akwhhz9b40bz6lrfxpamp7r7wkk48p455qbn04mfnl9a1l6db8x")))) | |
1585 | (build-system gnu-build-system) | |
1586 | (inputs | |
1587 | `(("gmp", gmp) | |
1588 | ("cblas" ,openblas))) ; or any other BLAS library; the documentation | |
1589 | ; mentions ATLAS in particular | |
1590 | (arguments | |
1591 | `(#:configure-flags | |
1592 | (list | |
c68ec87c | 1593 | "--enable-shared" |
eacf2983 AE |
1594 | (string-append "--with-gmp-include=" |
1595 | (assoc-ref %build-inputs "gmp") "/include") | |
1596 | (string-append "--with-gmp-lib=" | |
1597 | (assoc-ref %build-inputs "gmp") "/lib") | |
1598 | "--with-cblas=-lopenblas" | |
1599 | (string-append "--with-cblas-include=" | |
1600 | (assoc-ref %build-inputs "cblas") "/include") | |
1601 | (string-append "--with-cblas-lib=" | |
1602 | (assoc-ref %build-inputs "cblas") "/lib")))) | |
1603 | (home-page "https://cs.uwaterloo.ca/~astorjoh/iml.html") | |
1604 | (synopsis | |
1605 | "Solver for systems of linear equations over the integers") | |
1606 | (description | |
1607 | "IML is a C library implementing algorithms for computing exact | |
1608 | solutions to dense systems of linear equations over the integers. | |
1609 | Currently, IML provides the following functionality: | |
1610 | ||
1611 | @itemize | |
1612 | @item Nonsingular rational system solving: | |
1613 | compute the unique rational solution X to the system AX=B, where A and B | |
1614 | are integer matrices, A nonsingular. | |
1615 | @item Compute the right nullspace or kernel of an integer matrix. | |
1616 | @item Certified linear system solving: | |
1617 | compute a minimal denominator solution x to a system Ax=b, where b is an | |
1618 | integer vector and A is an integer matrix with arbitrary shape and | |
1619 | rank profile. | |
1620 | @end itemize | |
1621 | ||
1622 | In addition, IML provides some low level routines for a variety of mod p | |
1623 | matrix operations: computing the row-echelon form, determinant, rank | |
1624 | profile, and inverse of a mod p matrix. These mod p routines are not | |
1625 | general purpose; they require that p satisfy some preconditions based on | |
1626 | the dimension of the input matrix (usually p should be prime and should be | |
1627 | no more than about 20 bits long).") | |
1628 | (license license:bsd-3))) |