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) |
1ceeaa5d | 51 | #:use-module (gnu packages ocaml) |
1ffa7090 | 52 | #:use-module (gnu packages perl) |
4bf9cb40 | 53 | #:use-module (gnu packages pkg-config) |
6d3896b9 | 54 | #:use-module (gnu packages pulseaudio) |
aae03c48 | 55 | #:use-module (gnu packages python) |
1d6589db | 56 | #:use-module (gnu packages python-xyz) |
5894b604 | 57 | #:use-module (gnu packages readline) |
b7194849 | 58 | #:use-module (gnu packages shells) |
8f9ac901 | 59 | #:use-module (gnu packages tex) |
f71f29ca | 60 | #:use-module (gnu packages texinfo) |
57497c57 | 61 | #:use-module (gnu packages xiph) |
fb8d1be8 | 62 | #:use-module (gnu packages xorg) |
c8d99608 | 63 | #:use-module (guix build-system ant) |
7569c5cb | 64 | #:use-module (guix build-system gnu) |
8f4b1dfb | 65 | #:use-module (guix build-system cmake) |
1d6589db | 66 | #:use-module (guix build-system python) |
5894b604 | 67 | #:use-module (guix download) |
c8d99608 | 68 | #:use-module (guix git-download) |
697eb65d | 69 | #:use-module (guix hg-download) |
5894b604 TGR |
70 | #:use-module ((guix licenses) #:prefix license:) |
71 | #:use-module (guix packages) | |
7569c5cb | 72 | #:use-module (guix utils)) |
2ed139c4 AE |
73 | |
74 | ||
75 | (define-public mpfrcx | |
76 | (package | |
77 | (name "mpfrcx") | |
5f8ea8e4 | 78 | (version "0.6") |
2ed139c4 AE |
79 | (source (origin |
80 | (method url-fetch) | |
81 | (uri (string-append | |
43a776e2 | 82 | "http://www.multiprecision.org/downloads/mpfrcx-" |
2ed139c4 AE |
83 | version ".tar.gz")) |
84 | (sha256 | |
85 | (base32 | |
5f8ea8e4 | 86 | "0gz5rma9al2jrifpknqkcnd9dkf8l05jcxy3s4ghwhd4y3h5dwia")))) |
2ed139c4 | 87 | (build-system gnu-build-system) |
878c8f3f AE |
88 | (propagated-inputs |
89 | `(("gmp" ,gmp) | |
90 | ("mpfr" ,mpfr) | |
91 | ("mpc" ,mpc))) ; Header files are included by mpfrcx.h. | |
35b9e423 | 92 | (synopsis "Arithmetic of polynomials over arbitrary precision numbers") |
2ed139c4 | 93 | (description |
35b9e423 | 94 | "Mpfrcx is a library for the arithmetic of univariate polynomials over |
2ed139c4 | 95 | arbitrary precision real (mpfr) or complex (mpc) numbers, without control |
35b9e423 | 96 | on the rounding. For the time being, only the few functions needed to |
2ed139c4 | 97 | implement the floating point approach to complex multiplication are |
35b9e423 | 98 | implemented. On the other hand, these comprise asymptotically fast |
e881752c | 99 | multiplication routines such as Toom–Cook and the FFT.") |
43a776e2 | 100 | (license license:lgpl3+) |
79d1550f | 101 | (home-page "http://www.multiprecision.org/mpfrcx/"))) |
2ed139c4 | 102 | |
7c5f6231 AE |
103 | (define-public gf2x |
104 | (package | |
105 | (name "gf2x") | |
106 | (version "1.2") | |
107 | (source (origin | |
108 | (method url-fetch) | |
109 | (uri (string-append | |
110 | "https://gforge.inria.fr/frs/download.php/file/36934/gf2x-" | |
111 | version ".tar.gz")) | |
112 | (sha256 | |
113 | (base32 | |
114 | "0d6vh1mxskvv3bxl6byp7gxxw3zzpkldrxnyajhnl05m0gx7yhk1")))) | |
115 | (build-system gnu-build-system) | |
116 | (synopsis "Arithmetic of polynomials over binary finite fields") | |
117 | (description | |
118 | "The gf2x library provides arithmetic of polynomials over finite fields | |
119 | of characteristic 2. It implements the multiplication, squaring and | |
120 | greatest common divisor operations.") | |
121 | (license license:gpl3+) | |
122 | (home-page "https://gforge.inria.fr/projects/gf2x/"))) | |
123 | ||
10b1f688 AE |
124 | (define-public cm |
125 | (package | |
126 | (name "cm") | |
4c09ec43 | 127 | (version "0.3.1") |
10b1f688 AE |
128 | (source (origin |
129 | (method url-fetch) | |
130 | (uri (string-append | |
4c09ec43 | 131 | "http://www.multiprecision.org/downloads/cm-" |
10b1f688 AE |
132 | version ".tar.gz")) |
133 | (sha256 | |
134 | (base32 | |
4c09ec43 | 135 | "0qq6b1kwb1byj8ws33ya5awq0ilkpm32037pi1l4cf2737fg9m42")))) |
10b1f688 AE |
136 | (build-system gnu-build-system) |
137 | (propagated-inputs | |
138 | `(("mpfrcx" ,mpfrcx) | |
139 | ("zlib" ,zlib))) ; Header files included from cm_common.h. | |
140 | (inputs | |
141 | `(("pari-gp" ,pari-gp))) | |
142 | (synopsis "CM constructions for elliptic curves") | |
143 | (description | |
144 | "The CM software implements the construction of ring class fields of | |
145 | imaginary quadratic number fields and of elliptic curves with complex | |
146 | multiplication via floating point approximations. It consists of libraries | |
147 | that can be called from within a C program and of executable command | |
148 | line applications.") | |
81b55bf7 | 149 | (license license:gpl3+) |
79d1550f | 150 | (home-page "http://www.multiprecision.org/cm/"))) |
10b1f688 | 151 | |
2ed139c4 AE |
152 | (define-public fplll |
153 | (package | |
1de48e8f | 154 | (name "fplll") |
82f983da | 155 | (version "5.3.3") |
1de48e8f NG |
156 | (source (origin |
157 | (method git-fetch) | |
158 | (uri (git-reference | |
b0e7b699 | 159 | (url "https://github.com/fplll/fplll") |
1de48e8f NG |
160 | (commit version))) |
161 | (file-name (git-file-name name version)) | |
162 | (sha256 | |
163 | (base32 | |
049a1714 AE |
164 | "06nyfidagp8pc2kfcw88ldgb2b1xm0a8z31n0sln7j72ihlmd8zj")) |
165 | (patches (search-patches "fplll-std-fenv.patch")))) | |
1de48e8f NG |
166 | (build-system gnu-build-system) |
167 | (native-inputs | |
168 | `(("autoconf" ,autoconf) | |
169 | ("automake" ,automake) | |
82f983da AE |
170 | ("libtool" ,libtool) |
171 | ("pkg-config" ,pkg-config))) | |
049a1714 | 172 | (propagated-inputs ; header files pulled in by fplll/defs.h |
1de48e8f NG |
173 | `(("gmp" ,gmp) |
174 | ("mpfr" ,mpfr))) | |
175 | (home-page "https://github.com/fplll/fplll") | |
176 | (synopsis "Library for LLL-reduction of euclidean lattices") | |
177 | (description | |
178 | "fplll contains implementations of several lattice algorithms. | |
179 | The implementation relies on floating-point orthogonalization, and LLL | |
180 | is central to the code, hence the name. | |
181 | ||
182 | It includes implementations of floating-point LLL reduction | |
183 | algorithms, offering different speed/guarantees ratios. It contains | |
184 | a @emph{wrapper} choosing the estimated best sequence of variants in | |
185 | order to provide a guaranteed output as fast as possible. In the case | |
186 | of the wrapper, the succession of variants is oblivious to the user. | |
187 | ||
188 | It includes an implementation of the BKZ reduction algorithm, | |
189 | including the BKZ-2.0 improvements (extreme enumeration | |
190 | pruning, pre-processing of blocks, early termination). Additionally, | |
191 | Slide reduction and self dual BKZ are supported. | |
192 | ||
193 | It also includes a floating-point implementation of the | |
194 | Kannan-Fincke-Pohst algorithm that finds a shortest non-zero lattice | |
195 | vector. For the same task, the GaussSieve algorithm is also available | |
196 | in fplll. Finally, it contains a variant of the enumeration algorithm | |
197 | that computes a lattice vector closest to a given vector belonging to | |
198 | the real span of the lattice.") | |
199 | (license license:lgpl2.1+))) | |
4e6b699d | 200 | |
25cbaa9e NG |
201 | (define-public python-fpylll |
202 | (package | |
203 | (name "python-fpylll") | |
28045580 | 204 | (version "0.5.2") |
25cbaa9e NG |
205 | (source |
206 | (origin | |
207 | ;; Pypi contains and older release, so we use a tagged release from | |
208 | ;; Github instead. | |
209 | (method git-fetch) | |
210 | (uri (git-reference | |
b0e7b699 | 211 | (url "https://github.com/fplll/fpylll") |
25cbaa9e | 212 | (commit (string-append version "dev")))) |
f1d4d79f | 213 | (file-name (git-file-name name version)) |
25cbaa9e NG |
214 | (sha256 |
215 | (base32 | |
28045580 | 216 | "1a25iibihph626jl4wbs4b77xc4a2c4nfc2ypscf9wpani3dnhjf")))) |
25cbaa9e NG |
217 | (build-system python-build-system) |
218 | (inputs | |
219 | `(("fplll" ,fplll) | |
220 | ("gmp" ,gmp) | |
221 | ("mpfr" ,mpfr) | |
222 | ("pari-gp" ,pari-gp))) | |
223 | (propagated-inputs | |
224 | `(("cysignals" ,python-cysignals) | |
225 | ("cython" ,python-cython) | |
226 | ("flake8" ,python-flake8) | |
227 | ("numpy" ,python-numpy) | |
228 | ("pytest" ,python-pytest))) | |
229 | (home-page "https://github.com/fplll/fpylll") | |
230 | (synopsis "Python interface for fplll") | |
231 | (description "fpylll is a Python wrapper for fplll.") | |
232 | (license license:gpl2+))) | |
233 | ||
90a6d47c AE |
234 | (define-public pari-gp |
235 | (package | |
67f39dd5 | 236 | (name "pari-gp") |
6657d739 | 237 | (version "2.13.0") |
67f39dd5 RW |
238 | (source (origin |
239 | (method url-fetch) | |
240 | (uri (string-append | |
241 | "https://pari.math.u-bordeaux.fr/pub/pari/unix/pari-" | |
242 | version ".tar.gz")) | |
243 | (sha256 | |
244 | (base32 | |
6657d739 | 245 | "14xs90wrw8mbdx08hxlbhiahp6kgjq6yh27zjw7fvhfjx5nr84f8")))) |
67f39dd5 RW |
246 | (build-system gnu-build-system) |
247 | (native-inputs | |
248 | `(("texlive" ,(texlive-union | |
f75aa97f | 249 | (list texlive-amsfonts))))) |
67f39dd5 RW |
250 | (inputs `(("gmp" ,gmp) |
251 | ("libx11" ,libx11) | |
252 | ("perl" ,perl) | |
253 | ("readline" ,readline))) | |
254 | (arguments | |
255 | '(#:make-flags '("all") | |
256 | #:test-target "dobench" | |
257 | #:phases | |
258 | (modify-phases %standard-phases | |
259 | (replace 'configure | |
260 | (lambda* (#:key outputs #:allow-other-keys) | |
261 | (invoke "./Configure" | |
262 | (string-append "--prefix=" | |
263 | (assoc-ref outputs "out")))))))) | |
264 | (synopsis "PARI/GP, a computer algebra system for number theory") | |
265 | (description | |
266 | "PARI/GP is a widely used computer algebra system designed for fast | |
90a6d47c AE |
267 | computations in number theory (factorisations, algebraic number theory, |
268 | elliptic curves...), but it also contains a large number of other useful | |
269 | functions to compute with mathematical entities such as matrices, | |
270 | polynomials, power series, algebraic numbers, etc., and a lot of | |
271 | transcendental functions. | |
272 | PARI is also available as a C library to allow for faster computations.") | |
67f39dd5 RW |
273 | (license license:gpl2+) |
274 | (home-page "https://pari.math.u-bordeaux.fr/"))) | |
ed9f9a77 | 275 | |
f854a8c1 AE |
276 | (define-public gp2c |
277 | (package | |
278 | (name "gp2c") | |
e239135c | 279 | (version "0.0.11pl4") |
f854a8c1 AE |
280 | (source (origin |
281 | (method url-fetch) | |
282 | (uri (string-append | |
eeb8b0e6 | 283 | "https://pari.math.u-bordeaux.fr/pub/pari/GP2C/gp2c-" |
f854a8c1 | 284 | version ".tar.gz")) |
324bdcd8 AE |
285 | (sha256 |
286 | (base32 | |
e239135c | 287 | "1cnnh7diqc97q76q5pyhpbljbhc0sz8mlrbqgiwi0sjkgh8iqsj0")))) |
f854a8c1 | 288 | (build-system gnu-build-system) |
c67ccedd | 289 | (native-inputs `(("perl" ,perl))) |
f854a8c1 AE |
290 | (inputs `(("pari-gp" ,pari-gp))) |
291 | (arguments | |
292 | '(#:configure-flags | |
293 | (list (string-append "--with-paricfg=" | |
294 | (assoc-ref %build-inputs "pari-gp") | |
295 | "/lib/pari/pari.cfg")))) | |
296 | (synopsis "PARI/GP, a computer algebra system for number theory") | |
297 | (description | |
298 | "PARI/GP is a widely used computer algebra system designed for fast | |
299 | computations in number theory (factorisations, algebraic number theory, | |
300 | elliptic curves...), but it also contains a large number of other useful | |
301 | functions to compute with mathematical entities such as matrices, | |
302 | polynomials, power series, algebraic numbers, etc., and a lot of | |
303 | transcendental functions. | |
304 | PARI is also available as a C library to allow for faster computations. | |
305 | ||
306 | GP2C, the GP to C compiler, translates GP scripts to PARI programs.") | |
9f51293c | 307 | (license license:gpl2) |
eeb8b0e6 | 308 | (home-page "https://pari.math.u-bordeaux.fr/"))) |
f854a8c1 | 309 | |
ddfb6280 TGR |
310 | (define fplll-4-cmh |
311 | (package | |
312 | (inherit fplll) | |
313 | (name "fplll") | |
314 | (version "4.0.4") | |
315 | (source | |
316 | (origin | |
317 | (method url-fetch) | |
318 | (uri (string-append | |
319 | "http://perso.ens-lyon.fr/damien.stehle/fplll/libfplll-" | |
320 | version ".tar.gz")) | |
321 | (sha256 | |
322 | (base32 "1cbiby7ykis4z84swclpysrljmqhfcllpkcbll1m08rzskgb1a6b")))))) | |
323 | ||
eea7cd75 AE |
324 | (define-public cmh |
325 | (package | |
326 | (name "cmh") | |
327 | (version "1.0") | |
328 | (source (origin | |
329 | (method url-fetch) | |
330 | (uri (string-append | |
331 | "https://gforge.inria.fr/frs/download.php/33497/cmh-" | |
332 | version ".tar.gz")) | |
333 | (sha256 | |
334 | (base32 | |
335 | "1a28xr9bs0igms0ik99x0w8lnb0jyfcmvyi26pbyh9ggcdivd33p")))) | |
336 | (build-system gnu-build-system) | |
337 | (inputs | |
338 | `(("gmp" ,gmp) | |
339 | ("mpfr" ,mpfr) | |
340 | ("mpc" ,mpc) | |
341 | ("mpfrcx" ,mpfrcx) | |
ddfb6280 | 342 | ("fplll" ,fplll-4-cmh) |
eea7cd75 AE |
343 | ("pari-gp" ,pari-gp))) |
344 | (synopsis "Igusa class polynomial computations") | |
345 | (description | |
346 | "The CMH software computes Igusa (genus 2) class polynomials, which | |
347 | parameterize the CM points in the moduli space of 2-dimensional abelian | |
348 | varieties, i.e. Jacobians of hyperelliptic curves. | |
349 | It can also be used to compute theta constants at arbitrary | |
350 | precision.") | |
351 | (license license:gpl3+) | |
e188d2f8 EF |
352 | (home-page |
353 | "https://gitlab.inria.fr/cmh/cmh#cmh-computation-of-genus-2-class-polynomials"))) | |
eea7cd75 | 354 | |
7fc0e3db | 355 | (define-public giac |
57497c57 | 356 | (package |
7fc0e3db | 357 | (name "giac") |
191a4ced | 358 | (version "1.6.0-31") |
a733253b NG |
359 | (source |
360 | (origin | |
361 | (method url-fetch) | |
362 | ;; "~parisse/giac" is not used because the maintainer regularly | |
363 | ;; overwrites the release tarball there, introducing a checksum | |
364 | ;; mismatch every time. See | |
365 | ;; <https://www-fourier.ujf-grenoble.fr/~parisse/debian/dists/stable/main/source/README> | |
366 | (uri (string-append "https://www-fourier.ujf-grenoble.fr/" | |
367 | "~parisse/debian/dists/stable/main/source/" | |
368 | "giac_" version ".tar.gz")) | |
369 | (sha256 | |
191a4ced | 370 | (base32 "1dr1y88sx2gzldn0zl6p8b1ngjjcmh89iv4kzyhi2cf74j3yw85m")))) |
57497c57 NG |
371 | (build-system gnu-build-system) |
372 | (arguments | |
af90cc45 NG |
373 | `(#:modules ((ice-9 ftw) |
374 | (guix build utils) | |
375 | (guix build gnu-build-system)) | |
376 | #:phases | |
57497c57 NG |
377 | (modify-phases %standard-phases |
378 | (add-after 'unpack 'patch-bin-cp | |
90d5ec55 | 379 | ;; Some Makefiles contain hard-coded "/bin/cp". |
57497c57 | 380 | (lambda _ |
07c3c3ba NG |
381 | (substitute* (cons "micropython-1.12/xcas/Makefile" |
382 | (find-files "doc" "^Makefile")) | |
57497c57 | 383 | (("/bin/cp") (which "cp"))) |
90d5ec55 NG |
384 | #t)) |
385 | (add-after 'unpack 'disable-failing-test | |
386 | ;; FIXME: Test failing. Not sure why. | |
387 | (lambda _ | |
388 | (substitute* "check/Makefile.in" | |
389 | (("chk_fhan11") "")) | |
af90cc45 | 390 | #t)) |
9f73ac24 | 391 | (add-after 'install 'fix-doc |
af90cc45 | 392 | (lambda* (#:key outputs #:allow-other-keys) |
9f73ac24 NG |
393 | (let ((out (assoc-ref outputs "out"))) |
394 | ;; Most French documentation has a non-commercial | |
395 | ;; license, so we need to remove it. | |
396 | (with-directory-excursion (string-append out "/share/giac/doc/fr") | |
397 | (for-each delete-file-recursively | |
398 | '("cascas" "casexo" "casgeo" "casrouge" "cassim" | |
399 | "castor"))) | |
400 | ;; Remove duplicate documentation in | |
401 | ;; "%out/share/doc/giac/", where Xcas does not expect | |
402 | ;; to find it. | |
403 | (delete-file-recursively (string-append out "/share/doc/giac")) | |
404 | #t))) | |
405 | (add-after 'install 'remove-unnecessary-executable | |
406 | (lambda* (#:key outputs #:allow-other-keys) | |
407 | (let ((out (assoc-ref outputs "out"))) | |
408 | (delete-file (string-append out "/bin/xcasnew")) | |
409 | #t)))))) | |
57497c57 | 410 | (inputs |
07c3c3ba | 411 | ;; TODO: Add libnauty, unbundle "libmicropython.a". |
57497c57 | 412 | `(("fltk" ,fltk) |
6d3896b9 | 413 | ("glpk" ,glpk) |
57497c57 NG |
414 | ("gmp" ,gmp) |
415 | ("gsl" ,gsl) | |
416 | ("lapack" ,lapack) | |
417 | ("libao" ,ao) | |
4bd428a7 | 418 | ("libjpeg" ,libjpeg-turbo) |
57497c57 | 419 | ("libpng" ,libpng) |
6d3896b9 | 420 | ("libsamplerate" ,libsamplerate) |
57497c57 | 421 | ("libx11" ,libx11) |
99a00446 | 422 | ("libxinerama" ,libxinerama) |
57497c57 NG |
423 | ("libxft" ,libxft) |
424 | ("libxt" ,libxt) | |
425 | ("mesa" ,mesa) | |
426 | ("mpfi" ,mpfi) | |
427 | ("mpfr" ,mpfr) | |
428 | ("ntl" ,ntl) | |
429 | ("perl" ,perl) | |
430 | ("pari-gp" ,pari-gp) | |
9f73ac24 NG |
431 | ("tcsh" ,tcsh))) |
432 | (native-inputs | |
6d3896b9 NG |
433 | `(("bison" ,bison) |
434 | ("flex" ,flex) | |
1ceeaa5d | 435 | ("hevea" ,hevea) |
07c3c3ba | 436 | ("python" ,python-wrapper) |
6d3896b9 | 437 | ("readline" ,readline) |
a023ec6e | 438 | ("texlive" ,texlive-tiny))) |
57497c57 NG |
439 | (home-page "https://www-fourier.ujf-grenoble.fr/~parisse/giac.html") |
440 | (synopsis "Computer algebra system") | |
441 | (description | |
442 | "Giac/Xcas is a computer algebra system. It has a compatibility mode for | |
443 | maple, mupad and the TI89. It is available as a standalone program (graphic | |
444 | or text interfaces) or as a C++ library.") | |
445 | (license license:gpl3+))) | |
446 | ||
d7ab698a AE |
447 | (define-public flint |
448 | (package | |
449 | (name "flint") | |
eefa30c1 | 450 | (version "2.6.3") |
a8139e97 TGR |
451 | (source |
452 | (origin | |
453 | (method url-fetch) | |
454 | (uri (string-append "http://flintlib.org/flint-" version ".tar.gz")) | |
455 | (sha256 | |
eefa30c1 | 456 | (base32 "1qrf6hzbbmg7mhkhbb0bab8z2xpdnba5cj4kmmf72lzs0457a6nf")))) |
d7ab698a | 457 | (build-system gnu-build-system) |
d7c8bcc4 JK |
458 | (inputs |
459 | `(("ntl" ,ntl))) | |
df15d17d | 460 | (propagated-inputs |
d7ab698a | 461 | `(("gmp" ,gmp) |
df15d17d | 462 | ("mpfr" ,mpfr))) ; header files from both are included by flint/arith.h |
d7ab698a | 463 | (arguments |
fa0c1774 | 464 | `(#:parallel-tests? #f ; seems to be necessary on arm |
ad11974e | 465 | #:phases |
91430de6 | 466 | (modify-phases %standard-phases |
d7c8bcc4 JK |
467 | (add-before 'configure 'newer-c++ |
468 | (lambda _ | |
469 | (substitute* "configure" | |
470 | (("-ansi") "")) | |
471 | #t)) | |
91430de6 AE |
472 | (replace 'configure |
473 | (lambda* (#:key inputs outputs #:allow-other-keys) | |
474 | (let ((out (assoc-ref outputs "out")) | |
475 | (gmp (assoc-ref inputs "gmp")) | |
d7c8bcc4 JK |
476 | (mpfr (assoc-ref inputs "mpfr")) |
477 | (ntl (assoc-ref inputs "ntl"))) | |
fa0c1774 TGR |
478 | ;; Do not pass "--enable-fast-install", which makes the |
479 | ;; homebrew configure process fail. | |
50233d95 | 480 | (invoke "./configure" |
91430de6 AE |
481 | (string-append "--prefix=" out) |
482 | (string-append "--with-gmp=" gmp) | |
d7c8bcc4 JK |
483 | (string-append "--with-mpfr=" mpfr) |
484 | (string-append "--with-ntl=" ntl)) | |
50233d95 | 485 | #t)))))) |
d7ab698a AE |
486 | (synopsis "Fast library for number theory") |
487 | (description | |
488 | "FLINT is a C library for number theory. It supports arithmetic | |
489 | with numbers, polynomials, power series and matrices over many base | |
490 | rings, including multiprecision integers and rationals, integers | |
491 | modulo n, p-adic numbers, finite fields (prime and non-prime order) | |
492 | and real and complex numbers (via the Arb extension library). | |
493 | ||
494 | Operations that can be performed include conversions, arithmetic, | |
495 | GCDs, factoring, solving linear systems, and evaluating special | |
496 | functions. In addition, FLINT provides various low-level routines for | |
497 | fast arithmetic.") | |
eefa30c1 | 498 | (license license:lgpl2.1+) |
d7ab698a AE |
499 | (home-page "http://flintlib.org/"))) |
500 | ||
6b8e8285 AE |
501 | (define-public arb |
502 | (package | |
6aa54e23 | 503 | (name "arb") |
7dcf5296 | 504 | (version "2.18.1") |
6aa54e23 RW |
505 | (source (origin |
506 | (method git-fetch) | |
507 | (uri (git-reference | |
b0e7b699 | 508 | (url "https://github.com/fredrik-johansson/arb") |
6aa54e23 RW |
509 | (commit version))) |
510 | (file-name (git-file-name name version)) | |
511 | (sha256 | |
512 | (base32 | |
7dcf5296 | 513 | "15fx3dcbzgwddw9p1nysmx0dbh058afv5m8cj5pdjkcmcl7kw7z9")))) |
6aa54e23 RW |
514 | (build-system gnu-build-system) |
515 | (propagated-inputs | |
516 | `(("flint" ,flint))) ; flint.h is included by arf.h | |
517 | (inputs | |
518 | `(("gmp" ,gmp) | |
519 | ("mpfr" ,mpfr))) | |
520 | (arguments | |
521 | `(#:phases | |
522 | (modify-phases %standard-phases | |
523 | (replace 'configure | |
524 | (lambda* (#:key inputs outputs #:allow-other-keys) | |
525 | (let ((out (assoc-ref outputs "out")) | |
526 | (flint (assoc-ref inputs "flint")) | |
527 | (gmp (assoc-ref inputs "gmp")) | |
528 | (mpfr (assoc-ref inputs "mpfr"))) | |
faefa2ed TGR |
529 | ;; Do not pass "--enable-fast-install", which makes the |
530 | ;; homebrew configure process fail. | |
6aa54e23 RW |
531 | (invoke "./configure" |
532 | (string-append "--prefix=" out) | |
533 | (string-append "--with-flint=" flint) | |
534 | (string-append "--with-gmp=" gmp) | |
535 | (string-append "--with-mpfr=" mpfr)))))))) | |
536 | (synopsis "Arbitrary precision floating-point ball arithmetic") | |
537 | (description | |
538 | "Arb is a C library for arbitrary-precision floating-point ball | |
6b8e8285 AE |
539 | arithmetic. It supports efficient high-precision computation with |
540 | polynomials, power series, matrices and special functions over the | |
541 | real and complex numbers, with automatic, rigorous error control.") | |
6aa54e23 | 542 | (license license:lgpl2.1+) |
faefa2ed | 543 | (home-page "http://arblib.org"))) |
6b8e8285 | 544 | |
1d6589db AE |
545 | (define-public python-flint |
546 | (package | |
547 | (name "python-flint") | |
548 | (version "0.3.0") | |
549 | (source (origin | |
550 | (method git-fetch) | |
551 | (uri (git-reference | |
b0e7b699 | 552 | (url "https://github.com/fredrik-johansson/python-flint") |
1d6589db AE |
553 | (commit version))) |
554 | (file-name (git-file-name name version)) | |
555 | (sha256 | |
556 | (base32 | |
557 | "1v0anazbj1cfi68nl2j6dbd31kgkc1563xmr0zk5xk3xj78569pw")) | |
558 | (patches (search-patches "python-flint-includes.patch")))) | |
559 | (build-system python-build-system) | |
560 | (native-inputs | |
561 | `(("python-cython" ,python-cython))) | |
562 | (propagated-inputs | |
563 | `(("python-numpy" ,python-numpy))) | |
564 | (inputs | |
565 | `(("arb" ,arb) | |
566 | ("flint" ,flint))) | |
567 | (synopsis "Python module wrapping ARB and FLINT") | |
568 | (description | |
569 | "Python-flint is a Python extension module wrapping FLINT | |
570 | (Fast Library for Number Theory) and Arb (arbitrary-precision ball | |
571 | arithmetic). It supports integers, rationals, modular integers, | |
572 | real and complex ball arithmetic, polynomials and matrices over all | |
573 | these types and other mathematical functions.") | |
574 | (license license:expat) | |
575 | (home-page "http://fredrikj.net/python-flint/"))) | |
576 | ||
14e6520e AE |
577 | (define-public ntl |
578 | (package | |
579 | (name "ntl") | |
d96ad7fa | 580 | (version "11.4.3") |
14e6520e AE |
581 | (source (origin |
582 | (method url-fetch) | |
d96ad7fa | 583 | (uri (string-append "https://shoup.net/ntl/ntl-" |
14e6520e | 584 | version ".tar.gz")) |
d96ad7fa JK |
585 | (sha256 |
586 | (base32 | |
587 | "1lisp3064rch3jaa2wrhy1s9kll7i3ka3d0y6lj6l3l4ckfcrhdp")) | |
588 | (modules '((guix build utils))) | |
589 | (snippet | |
590 | '(begin | |
591 | (delete-file-recursively "src/libtool-origin") | |
592 | #t)))) | |
14e6520e AE |
593 | (build-system gnu-build-system) |
594 | (native-inputs | |
595 | `(("libtool" ,libtool) | |
596 | ("perl" ,perl))) ; for configuration | |
14e6520e | 597 | (inputs |
d96ad7fa JK |
598 | `(("gmp" ,gmp) |
599 | ("gf2x" ,gf2x))) | |
14e6520e AE |
600 | (arguments |
601 | `(#:phases | |
602 | (modify-phases %standard-phases | |
603 | (replace 'configure | |
d96ad7fa | 604 | (lambda* (#:key inputs outputs #:allow-other-keys) |
14e6520e | 605 | (chdir "src") |
d96ad7fa | 606 | (invoke "./configure" |
14e6520e | 607 | (string-append "PREFIX=" (assoc-ref outputs "out")) |
d96ad7fa JK |
608 | (string-append "LIBTOOL=" (assoc-ref inputs "libtool") "/bin/libtool") |
609 | ;; set the library prefixes explicitly so that they get | |
610 | ;; embedded in the .la file | |
611 | (string-append "GMP_PREFIX=" (assoc-ref inputs "gmp")) | |
612 | (string-append "GF2X_PREFIX=" (assoc-ref inputs "gf2x")) | |
14e6520e AE |
613 | ;; Do not build especially for the build machine. |
614 | "NATIVE=off" | |
d96ad7fa JK |
615 | "NTL_GF2X_LIB=on" |
616 | "SHARED=on")))))) | |
14e6520e AE |
617 | (synopsis "C++ library for number theory") |
618 | (description | |
619 | "NTL is a C++ library providing data structures and algorithms | |
620 | for manipulating signed, arbitrary length integers, and for vectors, | |
621 | matrices, and polynomials over the integers and over finite fields.") | |
622 | (license license:gpl2+) | |
d96ad7fa | 623 | (home-page "https://shoup.net/ntl/"))) |
14e6520e | 624 | |
aae03c48 AE |
625 | (define-public singular |
626 | (package | |
627 | (name "singular") | |
33209660 | 628 | (version "4.1.3p2") |
f35c3bbb KK |
629 | (source |
630 | (origin | |
631 | (method url-fetch) | |
632 | (uri | |
633 | (string-append "http://www.mathematik.uni-kl.de/ftp/pub/Math/" | |
634 | "Singular/SOURCES/" | |
635 | (string-join | |
636 | (string-split | |
637 | (string-trim-right version #\p | |
638 | 0 (1- (string-length version))) | |
639 | #\.) "-") | |
640 | "/singular-" version ".tar.gz")) | |
641 | (sha256 (base32 | |
33209660 | 642 | "1524yrni7gh0hir5ckridq671q5s6avfjdsdyahj51kzdl3wcypf")))) |
aae03c48 AE |
643 | (build-system gnu-build-system) |
644 | (native-inputs | |
645 | `(("doxygen" ,doxygen) | |
646 | ("graphviz" ,graphviz) | |
647 | ("perl" ,perl))) | |
648 | (inputs | |
649 | `(("cddlib" ,cddlib) | |
650 | ("gmp" ,gmp) | |
651 | ("flint" ,flint) | |
652 | ("mpfr" ,mpfr) | |
653 | ("ntl" ,ntl) | |
654 | ("python" ,python-2) | |
655 | ("readline" ,readline))) | |
656 | (arguments | |
657 | `(#:configure-flags | |
658 | (list (string-append "--with-ntl=" | |
659 | (assoc-ref %build-inputs "ntl"))))) | |
660 | (synopsis "Computer algebra system for polynomial computations") | |
661 | (description | |
662 | "Singular is a computer algebra system for polynomial computations, | |
663 | with special emphasis on commutative and non-commutative algebra, algebraic | |
664 | geometry and singularity theory.") | |
665 | ;; Singular itself is dual licensed gpl2 or gpl3, but some of the | |
666 | ;; libraries with which it links are licensed under lgpl3+, so the | |
667 | ;; combined work becomes gpl3. See COPYING in the source code. | |
668 | (license license:gpl3) | |
669 | (home-page "http://www.singular.uni-kl.de/index.php"))) | |
670 | ||
57c9c349 AE |
671 | (define-public gmp-ecm |
672 | (package | |
673 | (name "gmp-ecm") | |
7d15cf17 | 674 | (version "7.0.4") |
57c9c349 | 675 | (source (origin |
7d15cf17 TGR |
676 | (method url-fetch) |
677 | ;; Use the ‘Latest version’ link for a stable URI across releases. | |
678 | (uri (string-append "https://gforge.inria.fr/frs/download.php/" | |
679 | "latestfile/160/ecm-" version ".tar.gz")) | |
680 | (sha256 (base32 | |
681 | "0hxs24c2m3mh0nq1zz63z3sb7dhy1rilg2s1igwwcb26x3pb7xqc")))) | |
57c9c349 AE |
682 | (build-system gnu-build-system) |
683 | (inputs | |
684 | `(("gmp" ,gmp))) | |
685 | (arguments | |
686 | `(#:configure-flags '("--enable-shared" | |
687 | ;; Disable specific assembly routines, which depend | |
688 | ;; on the subarchitecture of the build machine, | |
689 | ;; and use gmp instead. | |
690 | "--disable-asm-redc"))) | |
691 | (synopsis "Integer factorization library using the elliptic curve method") | |
692 | (description | |
693 | "GMP-ECM factors integers using the elliptic curve method (ECM) as well | |
694 | as the P-1 and P+1 algorithms. It provides a library and a stand-alone | |
695 | binary.") | |
696 | ;; Most files are under lgpl3+, but some are under gpl3+ or gpl2+, | |
697 | ;; so the combined work is under gpl3+. | |
698 | (license license:gpl3+) | |
699 | (home-page "http://ecm.gforge.inria.fr/"))) | |
700 | ||
ed9f9a77 LC |
701 | (define-public bc |
702 | (package | |
703 | (name "bc") | |
f71f29ca | 704 | (version "1.07.1") |
ed9f9a77 LC |
705 | (source (origin |
706 | (method url-fetch) | |
707 | (uri (string-append "mirror://gnu/bc/bc-" version ".tar.gz")) | |
708 | (sha256 | |
709 | (base32 | |
06b2bc55 MO |
710 | "0amh9ik44jfg66csyvf4zz1l878c4755kjndq9j0270akflgrbb2")) |
711 | (patches (search-patches "bc-fix-cross-compilation.patch")))) | |
ed9f9a77 | 712 | (build-system gnu-build-system) |
f71f29ca | 713 | (native-inputs |
06b2bc55 MO |
714 | `(("automake" ,automake) |
715 | ("autoconf" ,autoconf) | |
716 | ("ed" ,ed) | |
f71f29ca MB |
717 | ("flex" ,flex) |
718 | ("texinfo" ,texinfo))) | |
ed9f9a77 | 719 | (arguments |
f71f29ca | 720 | '(#:configure-flags |
06b2bc55 MO |
721 | (list "--with-readline") |
722 | #:phases | |
723 | (modify-phases %standard-phases | |
724 | (add-after 'unpack 'autogen | |
725 | (lambda _ | |
726 | (invoke "autoreconf" "-vif")))))) | |
6fd52309 | 727 | (home-page "https://www.gnu.org/software/bc/") |
f50d2669 | 728 | (synopsis "Arbitrary precision numeric processing language") |
ed9f9a77 | 729 | (description |
a22dc0c4 LC |
730 | "bc is an arbitrary precision numeric processing language. It includes |
731 | an interactive environment for evaluating mathematical statements. Its | |
732 | syntax is similar to that of C, so basic usage is familiar. It also includes | |
733 | \"dc\", a reverse-polish calculator.") | |
9f51293c | 734 | (license license:gpl2+))) |
37e6cdcd | 735 | |
2a9b10c7 RW |
736 | ;; The original kiss-fft does not have a complete build system and does not |
737 | ;; build any shared libraries. This is a fork used by Extempore. | |
738 | (define-public kiss-fft-for-extempore | |
739 | (package | |
740 | (name "kiss-fft-for-extempore") | |
741 | (version "1.3.0") | |
742 | (source (origin | |
9774fac4 RW |
743 | (method git-fetch) |
744 | (uri (git-reference | |
b0e7b699 | 745 | (url "https://github.com/extemporelang/kiss_fft") |
9774fac4 RW |
746 | (commit version))) |
747 | (file-name (git-file-name name version)) | |
2a9b10c7 RW |
748 | (sha256 |
749 | (base32 | |
9774fac4 | 750 | "0jasbmqy4wkqrqx3w64s1dfmj34875xmsl72mb26aa4hpyn14bi2")))) |
2a9b10c7 RW |
751 | (build-system cmake-build-system) |
752 | (arguments `(#:tests? #f)) ; no tests included | |
39162ee4 RW |
753 | ;; Extempore refuses to build on architectures other than x86_64 |
754 | (supported-systems '("x86_64-linux")) | |
2a9b10c7 RW |
755 | (home-page "https://github.com/extemporelang/kiss_fft") |
756 | (synopsis "Mixed-radix Fast Fourier Transform") | |
757 | (description | |
758 | "Kiss FFT attempts to be a reasonably efficient, moderately useful FFT | |
759 | that can use fixed or floating data types and can easily be incorporated into | |
760 | a C program.") | |
761 | (license license:bsd-3))) | |
762 | ||
37e6cdcd LC |
763 | (define-public fftw |
764 | (package | |
765 | (name "fftw") | |
bdb74478 | 766 | (version "3.3.8") |
37e6cdcd LC |
767 | (source (origin |
768 | (method url-fetch) | |
769 | (uri (string-append "ftp://ftp.fftw.org/pub/fftw/fftw-" | |
770 | version".tar.gz")) | |
771 | (sha256 | |
772 | (base32 | |
bdb74478 | 773 | "00z3k8fq561wq2khssqg0kallk0504dzlx989x3vvicjdqpjc4v1")))) |
37e6cdcd LC |
774 | (build-system gnu-build-system) |
775 | (arguments | |
65bb2279 | 776 | `(#:configure-flags |
69d5909e MW |
777 | '("--enable-shared" "--enable-openmp" "--enable-threads" |
778 | ,@(let ((system (or (%current-target-system) (%current-system)))) | |
779 | ;; Enable SIMD extensions for codelets. See details at: | |
780 | ;; <http://fftw.org/fftw3_doc/Installation-on-Unix.html>. | |
781 | (cond | |
782 | ((string-prefix? "x86_64" system) | |
783 | '("--enable-sse2" "--enable-avx" "--enable-avx2" | |
784 | "--enable-avx512" "--enable-avx-128-fma")) | |
785 | ((string-prefix? "i686" system) | |
786 | '("--enable-sse2")) | |
787 | ((string-prefix? "aarch64" system) | |
788 | ;; Note that fftw supports NEON on 32-bit ARM only when | |
789 | ;; compiled for single-precision. | |
790 | '("--enable-neon")) | |
791 | (else | |
792 | '()))) | |
65bb2279 EB |
793 | ;; By default '-mtune=native' is used. However, that may cause the |
794 | ;; use of ISA extensions (e.g. AVX) that are not necessarily | |
795 | ;; available on the user's machine when that package is built on a | |
796 | ;; different machine. | |
797 | "ax_cv_c_flags__mtune_native=no"))) | |
37e6cdcd LC |
798 | (native-inputs `(("perl" ,perl))) |
799 | (home-page "http://fftw.org") | |
800 | (synopsis "Computing the discrete Fourier transform") | |
801 | (description | |
802 | "FFTW is a C subroutine library for computing the discrete Fourier | |
803 | transform (DFT) in one or more dimensions, of arbitrary input size, and of | |
804 | both real and complex data (as well as of even/odd data---i.e. the discrete | |
805 | cosine/ sine transforms or DCT/DST).") | |
9f51293c | 806 | (license license:gpl2+))) |
7569c5cb EB |
807 | |
808 | (define-public fftwf | |
809 | (package (inherit fftw) | |
810 | (name "fftwf") | |
811 | (arguments | |
812 | (substitute-keyword-arguments (package-arguments fftw) | |
69d5909e MW |
813 | ((#:configure-flags fftw-configure-flags) |
814 | `(cons* "--enable-single" | |
815 | ,@(if (string-prefix? "arm" (or (%current-target-system) | |
816 | (%current-system))) | |
817 | ;; fftw supports NEON on 32-bit ARM only when compiled | |
818 | ;; for single-precision, so add it here. | |
819 | '("--enable-neon") | |
820 | '()) | |
821 | ,fftw-configure-flags)))) | |
7569c5cb EB |
822 | (description |
823 | (string-append (package-description fftw) | |
824 | " Single-precision version.")))) | |
e5c66f8c EB |
825 | |
826 | (define-public fftw-openmpi | |
827 | (package (inherit fftw) | |
828 | (name "fftw-openmpi") | |
829 | (inputs | |
830 | `(("openmpi" ,openmpi) | |
831 | ,@(package-inputs fftw))) | |
832 | (arguments | |
833 | (substitute-keyword-arguments (package-arguments fftw) | |
834 | ((#:configure-flags cf) | |
eb6785cf EB |
835 | `(cons "--enable-mpi" ,cf)) |
836 | ((#:phases phases '%standard-phases) | |
837 | `(modify-phases ,phases | |
838 | (add-before 'check 'mpi-setup | |
839 | ,%openmpi-setup))))) | |
e5c66f8c EB |
840 | (description |
841 | (string-append (package-description fftw) | |
842 | " With OpenMPI parallelism support.")))) | |
8f4b1dfb | 843 | |
c8d99608 RW |
844 | (define-public java-la4j |
845 | (package | |
846 | (name "java-la4j") | |
847 | (version "0.6.0") | |
848 | (source (origin | |
849 | (method git-fetch) | |
850 | (uri (git-reference | |
b0e7b699 | 851 | (url "https://github.com/vkostyukov/la4j") |
c8d99608 RW |
852 | (commit version))) |
853 | (file-name (string-append name "-" version "-checkout")) | |
854 | (sha256 | |
855 | (base32 | |
856 | "1qir8dr978cfvz9k12m2kbdwpyf6cqdf1d0ilb7lnkhbgq5i53w3")))) | |
857 | (build-system ant-build-system) | |
858 | (arguments | |
859 | `(#:jar-name "la4j.jar" | |
860 | #:jdk ,icedtea-8 | |
861 | #:test-exclude (list "**/Abstract*.java" | |
862 | "**/MatrixTest.java" | |
863 | "**/DenseMatrixTest.java" | |
864 | "**/SparseMatrixTest.java" | |
865 | "**/VectorTest.java" | |
866 | "**/SparseVectorTest.java" | |
867 | "**/DenseVectorTest.java"))) | |
868 | (native-inputs | |
869 | `(("java-junit" ,java-junit) | |
870 | ("java-hamcrest-core" ,java-hamcrest-core))) | |
871 | (home-page "http://la4j.org/") | |
872 | (synopsis "Java library that provides Linear Algebra primitives and algorithms") | |
873 | (description "The la4j library is a Java library that provides Linear | |
874 | Algebra primitives (matrices and vectors) and algorithms. The key features of | |
875 | the la4j library are: | |
876 | ||
877 | @itemize | |
878 | @item No dependencies and tiny size | |
879 | @item Fluent object-oriented/functional API | |
880 | @item Sparse (CRS, CCS) and dense (1D/2D arrays) matrices | |
881 | @item Linear systems solving (Gaussian, Jacobi, Zeidel, Square Root, Sweep and other) | |
882 | @item Matrices decomposition (Eigenvalues/Eigenvectors, SVD, QR, LU, Cholesky and other) | |
883 | @item MatrixMarket/CSV IO formats support for matrices and vectors | |
884 | @end itemize\n") | |
885 | (license license:asl2.0))) | |
886 | ||
24074b0b RW |
887 | (define-public java-jlargearrays |
888 | (package | |
889 | (name "java-jlargearrays") | |
890 | (version "1.6") | |
891 | (source (origin | |
892 | (method url-fetch) | |
9f5eeb87 BH |
893 | (uri (string-append "https://repo1.maven.org/maven2/" |
894 | "pl/edu/icm/JLargeArrays/" | |
24074b0b RW |
895 | version "/JLargeArrays-" version |
896 | "-sources.jar")) | |
897 | (file-name (string-append name "-" version ".jar")) | |
898 | (sha256 | |
899 | (base32 | |
900 | "0v05iphpxbjnd7f4jf1rlqq3m8hslhcm0imdbsgxr20pi3xkaf2a")))) | |
901 | (build-system ant-build-system) | |
902 | (arguments | |
903 | `(#:jar-name "jlargearrays.jar" | |
904 | #:tests? #f ; tests are not included in the release archive | |
905 | #:jdk ,icedtea-8)) | |
906 | (propagated-inputs | |
907 | `(("java-commons-math3" ,java-commons-math3))) | |
908 | (home-page "https://gitlab.com/ICM-VisLab/JLargeArrays") | |
909 | (synopsis "Library of one-dimensional arrays that can store up to 263 elements") | |
910 | (description "JLargeArrays is a Java library of one-dimensional arrays | |
911 | that can store up to 263 elements.") | |
912 | (license license:bsd-2))) | |
913 | ||
4e92911c RW |
914 | (define-public java-jtransforms |
915 | (package | |
916 | (name "java-jtransforms") | |
917 | (version "3.1") | |
918 | (source (origin | |
919 | (method url-fetch) | |
4c877704 BH |
920 | (uri (string-append "https://repo1.maven.org/maven2/" |
921 | "com/github/wendykierp/JTransforms/" | |
4e92911c RW |
922 | version "/JTransforms-" version "-sources.jar")) |
923 | (sha256 | |
924 | (base32 | |
925 | "1haw5m8shv5srgcpwkl853dz8bv6h90bzlhcps6mdpb4cixjirsg")))) | |
926 | (build-system ant-build-system) | |
927 | (arguments | |
928 | `(#:jar-name "jtransforms.jar" | |
929 | #:tests? #f ; tests are not included in the release archive | |
930 | #:jdk ,icedtea-8)) | |
931 | (propagated-inputs | |
932 | `(("java-commons-math3" ,java-commons-math3) | |
933 | ("java-jlargearrays" ,java-jlargearrays))) | |
934 | (home-page "https://github.com/wendykierp/JTransforms") | |
935 | (synopsis "Multithreaded FFT library written in pure Java") | |
936 | (description "JTransforms is a multithreaded FFT library written in pure | |
937 | Java. Currently, four types of transforms are available: @dfn{Discrete | |
938 | Fourier Transform} (DFT), @dfn{Discrete Cosine Transform} (DCT), @dfn{Discrete | |
939 | Sine Transform} (DST) and @dfn{Discrete Hartley Transform} (DHT).") | |
940 | (license license:bsd-2))) | |
941 | ||
feba2c97 VL |
942 | (define-public lmfit |
943 | (package | |
944 | (name "lmfit") | |
945 | (version "8.2.2") | |
946 | (source (origin | |
947 | (method git-fetch) | |
948 | (uri (git-reference | |
949 | (url "https://jugit.fz-juelich.de/mlz/lmfit.git") | |
950 | (commit (string-append "v" version)))) | |
951 | (file-name (git-file-name name version)) | |
952 | (sha256 | |
953 | (base32 | |
954 | "00bch77a6qgnw6vzsjn2a42n8n683ih3xm0wpr454jxa15hw78vf")))) | |
955 | (build-system cmake-build-system) | |
956 | (native-inputs | |
957 | `(("perl" ,perl))) ; for pod2man | |
958 | (home-page "https://jugit.fz-juelich.de/mlz/lmfit") | |
959 | (synopsis "Levenberg-Marquardt minimization and least-squares fitting") | |
960 | (description "lmfit is a C library for Levenberg-Marquardt least-squares | |
961 | minimization and curve fitting. It is mature code, based on decades-old | |
962 | algorithms from the FORTRAN library MINPACK.") | |
963 | (license license:bsd-2))) | |
964 | ||
d0337a22 VM |
965 | (define-public symengine |
966 | (package | |
967 | (name "symengine") | |
968 | (version "0.6.0") | |
969 | (source | |
970 | (origin | |
af0307a0 NG |
971 | (method git-fetch) |
972 | (uri (git-reference | |
b0e7b699 | 973 | (url "https://github.com/symengine/symengine") |
af0307a0 NG |
974 | (commit (string-append "v" version)))) |
975 | (file-name (git-file-name name version)) | |
976 | (sha256 | |
977 | (base32 "129iv9maabmb42ylfdv0l0g94mcbf3y4q3np175008rcqdr8z6h1")))) | |
d0337a22 VM |
978 | (build-system cmake-build-system) |
979 | (arguments | |
af0307a0 NG |
980 | '(#:configure-flags |
981 | ;; These are the suggested build options in the README. | |
d0337a22 VM |
982 | '("-DCMAKE_BUILD_TYPE=Release" |
983 | "-DWITH_GMP=on" | |
984 | "-DWITH_MPFR=on" | |
985 | "-DWITH_MPC=on" | |
986 | "-DINTEGER_CLASS=flint" | |
987 | "-DWITH_LLVM=on" | |
988 | "-DWITH_SYMENGINE_THREAD_SAFE=on" | |
af0307a0 | 989 | "-DBUILD_SHARED_LIBS=on"))) ;also build libsymengine |
d0337a22 VM |
990 | (native-inputs |
991 | `(("llvm" ,llvm))) | |
992 | (inputs | |
993 | `(("flint" ,flint) | |
994 | ("gmp" ,gmp) | |
995 | ("mpc" ,mpc) | |
996 | ("mpfr" ,mpfr))) | |
997 | (home-page "https://github.com/symengine/symengine") | |
998 | (synopsis "Fast symbolic manipulation library") | |
af0307a0 NG |
999 | (description |
1000 | "SymEngine is a standalone fast C++ symbolic manipulation library. | |
1001 | Optional thin wrappers allow usage of the library from other languages.") | |
1002 | (license (list license:expat ;SymEngine | |
1003 | license:bsd-3)))) ;3rd party code | |
d0337a22 | 1004 | |
8f4b1dfb LC |
1005 | (define-public eigen |
1006 | (package | |
1007 | (name "eigen") | |
2d2ac742 | 1008 | (version "3.3.8") |
8f4b1dfb LC |
1009 | (source (origin |
1010 | (method url-fetch) | |
57797b85 EF |
1011 | (uri (list |
1012 | (string-append "https://bitbucket.org/eigen/eigen/get/" | |
1013 | version ".tar.bz2") | |
1014 | (string-append "mirror://debian/pool/main/e/eigen3/eigen3_" | |
1015 | version ".orig.tar.bz2"))) | |
8f4b1dfb LC |
1016 | (sha256 |
1017 | (base32 | |
2d2ac742 | 1018 | "1vxrsncfnkyq6gwxpsannpryp12mk7lc8f42ybvz3saf7icwc582")) |
2abcc935 | 1019 | (file-name (string-append name "-" version ".tar.bz2")) |
ba902a15 TGR |
1020 | (patches (search-patches "eigen-remove-openmp-error-counting.patch" |
1021 | "eigen-stabilise-sparseqr-test.patch")) | |
8f4b1dfb LC |
1022 | (modules '((guix build utils))) |
1023 | (snippet | |
1024 | ;; There are 3 test failures in the "unsupported" directory, | |
1025 | ;; but maintainers say it's a known issue and it's unsupported | |
1026 | ;; anyway, so just skip them. | |
1137d85b | 1027 | '(begin |
44884a9d RW |
1028 | (substitute* "unsupported/CMakeLists.txt" |
1029 | (("add_subdirectory\\(test.*") | |
1030 | "# Do not build the tests for unsupported features.\n")) | |
6cbee49d | 1031 | #t)))) |
8f4b1dfb LC |
1032 | (build-system cmake-build-system) |
1033 | (arguments | |
1034 | '(;; Turn off debugging symbols to save space. | |
1035 | #:build-type "Release" | |
1036 | ||
354f4fe2 | 1037 | #:phases (modify-phases %standard-phases |
ef8742ea | 1038 | (replace 'check |
354f4fe2 | 1039 | (lambda _ |
354f4fe2 LC |
1040 | (let* ((cores (parallel-job-count)) |
1041 | (dash-j (format #f "-j~a" cores))) | |
1137d85b | 1042 | (setenv "EIGEN_SEED" "1") ;for reproducibility |
ef8742ea LC |
1043 | ;; First build the tests, in parallel. See |
1044 | ;; <http://eigen.tuxfamily.org/index.php?title=Tests>. | |
fbe9c80f | 1045 | (invoke "make" "buildtests" dash-j) |
8f4b1dfb | 1046 | |
fbe9c80f TGR |
1047 | ;; Then run 'CTest' with -V so we get more |
1048 | ;; details upon failure. | |
1049 | (invoke "ctest" "-V" dash-j))))))) | |
eeb8b0e6 | 1050 | (home-page "https://eigen.tuxfamily.org") |
8f4b1dfb LC |
1051 | (synopsis "C++ template library for linear algebra") |
1052 | (description | |
1053 | "Eigen is a C++ template library for linear algebra: matrices, vectors, | |
1054 | numerical solvers, and related algorithms. It provides an elegant API based | |
1055 | on \"expression templates\". It is versatile: it supports all matrix sizes, | |
1056 | all standard numeric types, various matrix decompositions and geometry | |
1057 | features, and more.") | |
1058 | ||
1059 | ;; Most of the code is MPLv2, with a few files under LGPLv2.1+ or BSD-3. | |
1060 | ;; See 'COPYING.README' for details. | |
9f51293c | 1061 | (license license:mpl2.0))) |
70770b93 | 1062 | |
697eb65d RW |
1063 | (define-public eigen-for-tensorflow |
1064 | (let ((changeset "fd6845384b86") | |
1065 | (revision "1")) | |
1066 | (package (inherit eigen) | |
1067 | (name "eigen-for-tensorflow") | |
1068 | (version (string-append "3.3.5-" revision "." changeset)) | |
1069 | (source (origin | |
1070 | (method hg-fetch) | |
1071 | (uri (hg-reference | |
1072 | (url "https://bitbucket.org/eigen/eigen") | |
1073 | (changeset changeset))) | |
1074 | (sha256 | |
1075 | (base32 | |
1076 | "12cwgah63wqwb66xji048hcxc1z5zjg8a7701zlia5zbilnnk1n5")) | |
1077 | (file-name (string-append name "-" version "-checkout")) | |
1078 | (modules '((guix build utils))) | |
1079 | (snippet | |
1080 | ;; There are 3 test failures in the "unsupported" directory, | |
1081 | ;; but maintainers say it's a known issue and it's unsupported | |
1082 | ;; anyway, so just skip them. | |
1083 | '(begin | |
1084 | (substitute* "unsupported/CMakeLists.txt" | |
1085 | (("add_subdirectory\\(test.*") | |
1086 | "# Do not build the tests for unsupported features.\n")) | |
1087 | #t))))))) | |
1088 | ||
70770b93 FT |
1089 | (define-public xtensor |
1090 | (package | |
1091 | (name "xtensor") | |
4e6568ce | 1092 | (version "0.20.10") |
70770b93 | 1093 | (source (origin |
e1ecaa83 KK |
1094 | (method git-fetch) |
1095 | (uri (git-reference | |
7c30e234 | 1096 | (url "https://github.com/xtensor-stack/xtensor") |
e1ecaa83 | 1097 | (commit version))) |
70770b93 FT |
1098 | (sha256 |
1099 | (base32 | |
4e6568ce | 1100 | "1fmv2hpx610xwhxrndfsfvlbqfyk4l3gi5q5d7pa9m82kblxjj9l")) |
e1ecaa83 | 1101 | (file-name (git-file-name name version)))) |
70770b93 FT |
1102 | (build-system cmake-build-system) |
1103 | (native-inputs | |
1104 | `(("googletest" ,googletest) | |
1105 | ("xtl" ,xtl))) | |
1106 | (arguments | |
1107 | `(#:configure-flags | |
1108 | '("-DBUILD_TESTS=ON") | |
1109 | #:test-target "xtest")) | |
7c30e234 | 1110 | (home-page "https://xtensor.readthedocs.io/en/latest/") |
70770b93 FT |
1111 | (synopsis "C++ tensors with broadcasting and lazy computing") |
1112 | (description "xtensor is a C++ library meant for numerical analysis with | |
1113 | multi-dimensional array expressions. | |
1114 | ||
1115 | xtensor provides: | |
1116 | @itemize | |
1117 | @item an extensible expression system enabling lazy broadcasting. | |
1118 | @item an API following the idioms of the C++ standard library. | |
1119 | @item tools to manipulate array expressions and build upon xtensor. | |
1120 | @end itemize") | |
1121 | (license license:bsd-3))) | |
3f074a21 AE |
1122 | |
1123 | (define-public gap | |
1124 | (package | |
1125 | (name "gap") | |
42ed5317 | 1126 | (version "4.11.0") |
3f074a21 AE |
1127 | (source |
1128 | (origin | |
1129 | (method url-fetch) | |
42ed5317 | 1130 | (uri (string-append "https://files.gap-system.org/gap-" |
3f074a21 AE |
1131 | (version-major+minor version) |
1132 | "/tar.bz2/gap-" | |
1133 | version | |
1134 | ".tar.bz2")) | |
1135 | (sha256 | |
42ed5317 | 1136 | (base32 "00l6hvy4iggnlrib4vp805sxdm3j7n3hzpv5zs9hbiiavh80l1xz")) |
3f074a21 AE |
1137 | (modules '((guix build utils) (ice-9 ftw) (srfi srfi-1))) |
1138 | (snippet | |
1139 | '(begin | |
1140 | ;; Delete the external gmp and zlib libraries | |
1141 | ;; and a subdirectory not needed for our build. | |
1142 | (for-each delete-file-recursively | |
1143 | '("extern" "hpcgap")) | |
1144 | ;; Delete a failing test. | |
1145 | ;; FIXME: This might be fixed in the next release, see | |
1146 | ;; https://github.com/gap-system/gap/issues/3292 | |
1147 | (delete-file "tst/testinstall/dir.tst") | |
42ed5317 AE |
1148 | ;; Delete all packages except for a fixed list, |
1149 | ;; given by their names up to version numbers. | |
3f074a21 AE |
1150 | (with-directory-excursion "pkg" |
1151 | (for-each delete-file-recursively | |
42ed5317 AE |
1152 | (lset-difference |
1153 | (lambda (all keep) (string-prefix? keep all)) | |
1154 | (scandir ".") | |
3f074a21 AE |
1155 | '("." ".." |
1156 | ;; Necessary packages. | |
42ed5317 AE |
1157 | "GAPDoc-" |
1158 | "primgrp-" | |
1159 | "SmallGrp-" ; artistic2.0 | |
1160 | "transgrp" ; artistic2.0 for data, | |
1161 | ; gpl2 or gpl3 for code | |
1162 | ;; Recommended package. | |
1163 | "io-" ; gpl3+ | |
3f074a21 AE |
1164 | ;; Optional packages, searched for at start, |
1165 | ;; and their depedencies. | |
42ed5317 AE |
1166 | "alnuth-" |
1167 | "autpgrp-" | |
1168 | "crisp-" ; bsd-2 | |
1169 | "ctbllib" ; gpl3+, clarified in the next release; | |
1170 | ; see | |
1171 | ; http://www.math.rwth-aachen.de/~Thomas.Breuer/ctbllib/README.md | |
1172 | "FactInt-" | |
3f074a21 | 1173 | "fga" |
42ed5317 AE |
1174 | "irredsol-" ; bsd-2 |
1175 | "laguna-" | |
1176 | "polenta-" | |
1177 | "polycyclic-" | |
1178 | "radiroot-" | |
1179 | "resclasses-" | |
1180 | "sophus-" | |
1181 | "tomlib-" | |
1182 | "utils-")))) | |
3f074a21 AE |
1183 | #t)))) |
1184 | (build-system gnu-build-system) | |
1185 | (inputs | |
1186 | `(("gmp" ,gmp) | |
42ed5317 | 1187 | ("readline" ,readline) |
3f074a21 AE |
1188 | ("zlib" ,zlib))) |
1189 | (arguments | |
bf95a142 AE |
1190 | `(#:modules ((ice-9 ftw) |
1191 | (srfi srfi-26) | |
1192 | (guix build gnu-build-system) | |
1193 | (guix build utils)) | |
1194 | #:phases | |
3f074a21 AE |
1195 | (modify-phases %standard-phases |
1196 | (add-after 'build 'build-packages | |
1197 | ;; Compile all packages that have not been deleted by the | |
1198 | ;; code snippet above. | |
1199 | (lambda _ | |
1200 | (setenv "CONFIG_SHELL" (which "bash")) | |
1201 | (with-directory-excursion "pkg" | |
1202 | (invoke "../bin/BuildPackages.sh") | |
1203 | #t))) | |
1204 | (add-after 'build-packages 'build-doc | |
1205 | ;; The documentation is bundled, but we create it from source. | |
1206 | (lambda _ | |
1207 | (with-directory-excursion "doc" | |
1208 | (invoke "./make_doc")) | |
1209 | #t)) | |
3f074a21 AE |
1210 | (replace 'install |
1211 | (lambda* (#:key outputs #:allow-other-keys) | |
1212 | (let* ((out (assoc-ref outputs "out")) | |
1213 | (bin (string-append out "/bin")) | |
1214 | (prog (string-append bin "/gap")) | |
1215 | (prog-real (string-append bin "/.gap-real")) | |
42ed5317 | 1216 | (share (string-append out "/share/gap"))) |
3f074a21 AE |
1217 | ;; Install only the gap binary; the gac compiler is left |
1218 | ;; for maybe later. "Wrap" it in a shell script that calls | |
1219 | ;; the binary with the correct parameter. | |
42ed5317 AE |
1220 | ;; The make target install-bin is supposed to do that, but |
1221 | ;; is not currently working. | |
3f074a21 AE |
1222 | (mkdir-p bin) |
1223 | (copy-file "gap" prog-real) | |
1224 | (call-with-output-file prog | |
1225 | (lambda (port) | |
1226 | (format port | |
1227 | "#!~a~%exec ~a -l ~a \"$@\"~%" | |
1228 | (which "bash") | |
1229 | prog-real | |
1230 | share))) | |
1231 | (chmod prog #o755) | |
42ed5317 AE |
1232 | ;; Install the headers and library, which are needed by Sage. |
1233 | (invoke "make" "install-headers") | |
1234 | (invoke "make" "install-libgap") | |
3f074a21 AE |
1235 | ;; Remove information on the build directory from sysinfo.gap. |
1236 | (substitute* "sysinfo.gap" | |
1237 | (("GAP_BIN_DIR=\".*\"") "GAP_BIN_DIR=\"\"") | |
1238 | (("GAP_LIB_DIR=\".*\"") "GAP_LIB_DIR=\"\"") | |
1239 | (("GAP_CPPFLAGS=\".*\"") "GAP_CPPFLAGS=\"\"")) | |
42ed5317 AE |
1240 | (invoke "make" "install-gaproot") |
1241 | ;; Copy the directory of compiled packages; the make target | |
1242 | ;; install-pkg is currently empty. | |
1243 | (copy-recursively "pkg" (string-append share "/pkg"))) | |
3f074a21 AE |
1244 | #t))))) |
1245 | (home-page "https://www.gap-system.org/") | |
1246 | (synopsis | |
1247 | "System for computational group theory") | |
1248 | (description | |
1249 | "GAP is a system for computational discrete algebra, with particular | |
1250 | emphasis on computational group theory. It provides a programming language, | |
1251 | a library of thousands of functions implementing algebraic algorithms | |
1252 | written in the GAP language as well as large data libraries of algebraic | |
1253 | objects.") | |
1254 | ;; Some packages have different licenses (effectively forcing the | |
1255 | ;; combined work to be licensed as gpl3+); if this is the case, this | |
1256 | ;; is mentioned above next to their name. | |
1257 | ;; Some packages have no license mentioned explicitly; supposedly this | |
1258 | ;; means that the gpl2+ licence of GAP itself applies, but to be on the | |
1259 | ;; safe side, we drop them for now. | |
1260 | (license license:gpl2+))) | |
f0fbb31d AE |
1261 | |
1262 | (define-public givaro | |
1263 | (package | |
1264 | (name "givaro") | |
1265 | (version "4.1.1") | |
1266 | (source (origin | |
1267 | (method git-fetch) | |
1268 | (uri (git-reference | |
1269 | (url "https://github.com/linbox-team/givaro") | |
1270 | (commit (string-append "v" version)))) | |
1271 | (file-name (git-file-name name version)) | |
1272 | (sha256 | |
1273 | (base32 | |
1274 | "11wz57q6ijsvfs5r82masxgr319as92syi78lnl9lgdblpc6xigk")))) | |
1275 | (build-system gnu-build-system) | |
1276 | (native-inputs | |
1277 | `(("autoconf" ,autoconf) | |
1278 | ("automake" ,automake) | |
1279 | ("libtool" ,libtool))) | |
1280 | (propagated-inputs | |
1281 | `(("gmp" ,gmp))) ; gmp++.h includes gmpxx.h | |
f0fbb31d AE |
1282 | (synopsis "Algebraic computations with exact rings and fields") |
1283 | (description | |
1284 | "Givaro is a C++ library implementing the basic arithmetic of various | |
1285 | algebraic objects: prime fields, extension fields, finite fields, finite | |
1286 | rings, polynomials, algebraic numbers, arbitrary precision integers and | |
1287 | rationals (C++ wrappers over gmp), fixed precision integers. It also | |
1288 | provides data-structures and templated classes for the manipulation of | |
1289 | compound objects, such as vectors, matrices and univariate polynomials.") | |
1290 | (license license:cecill-b) | |
1291 | (home-page "https://github.com/linbox-team/givaro"))) | |
4bf9cb40 AE |
1292 | |
1293 | (define-public fflas-ffpack | |
1294 | (package | |
1295 | (name "fflas-ffpack") | |
1296 | (version "2.4.3") | |
1297 | (source (origin | |
1298 | (method git-fetch) | |
1299 | (uri (git-reference | |
1300 | (url "https://github.com/linbox-team/fflas-ffpack") | |
1301 | (commit version))) | |
1302 | (file-name (git-file-name name version)) | |
1303 | (sha256 | |
1304 | (base32 | |
1305 | "1ynbjd72qrwp0b4kpn0p5d7gddpvj8dlb5fwdxajr5pvkvi3if74")))) | |
1306 | (build-system gnu-build-system) | |
1307 | (native-inputs | |
1308 | `(("autoconf" ,autoconf) | |
1309 | ("automake" ,automake) | |
1310 | ("libtool" ,libtool) | |
1311 | ("pkg-config" ,pkg-config))) | |
1312 | (inputs | |
1313 | `(("openblas" ,openblas))) | |
1314 | (propagated-inputs | |
1315 | `(("givaro" ,givaro))) ; required according to the .pc file | |
1316 | (arguments | |
1317 | `(#:configure-flags | |
1318 | (list (string-append "--with-blas-libs=" | |
1319 | (assoc-ref %build-inputs "openblas") | |
778d6b52 | 1320 | "/lib/libopenblas.so")))) |
4bf9cb40 AE |
1321 | (synopsis "C++ library for linear algebra over finite fields") |
1322 | (description | |
1323 | "FFLAS-FFPACK is a C++ template library for basic linear algebra | |
1324 | operations over a finite field. | |
1325 | FFLAS (Finite Field Linear Algebra Subprograms) provides the implementation | |
1326 | of a subset of routines of the numerical BLAS; it also supports sparse | |
1327 | matrix-vector products. | |
1328 | FFPACK (Finite Field Linear Algebra Package) is inspired by the LAPACK | |
1329 | library to provide functionalities of higher level, using the kernel | |
1330 | of a BLAS. Additionally, it provides routines specific to exact linear | |
1331 | algebra, such as the row echelon form.") | |
1332 | (license license:lgpl2.1+) | |
1333 | (home-page "https://linbox-team.github.io/fflas-ffpack/"))) | |
a612f866 AE |
1334 | |
1335 | (define-public linbox | |
1336 | (package | |
1337 | (name "linbox") | |
1338 | (version "1.6.3") | |
1339 | (source (origin | |
1340 | (method git-fetch) | |
1341 | (uri (git-reference | |
1342 | (url "https://github.com/linbox-team/linbox") | |
1343 | (commit (string-append "v" version)))) | |
1344 | (file-name (git-file-name name version)) | |
1345 | (sha256 | |
1346 | (base32 | |
781d03f1 JK |
1347 | "10j6dspbsq7d2l4q3y0c1l1xwmaqqba2fxg59q5bhgk9h5d7q571")) |
1348 | (patches (search-patches "linbox-fix-pkgconfig.patch")))) | |
a612f866 AE |
1349 | (build-system gnu-build-system) |
1350 | (native-inputs | |
1351 | `(("autoconf" ,autoconf) | |
1352 | ("automake" ,automake) | |
1353 | ("libtool" ,libtool) | |
1354 | ("pkg-config" ,pkg-config))) | |
781d03f1 | 1355 | (propagated-inputs |
a612f866 | 1356 | `(("fflas-ffpack" ,fflas-ffpack))) |
a612f866 AE |
1357 | (synopsis "C++ library for linear algebra over exact rings") |
1358 | (description | |
1359 | "LinBox is a C++ template library for exact linear algebra computation | |
1360 | with dense, sparse, and structured matrices over the integers and over | |
1361 | finite fields.") | |
1362 | (license license:lgpl2.1+) | |
1363 | (home-page "https://linbox-team.github.io/linbox/"))) | |
37edfb0f AE |
1364 | |
1365 | (define-public m4ri | |
1366 | (package | |
1367 | (name "m4ri") | |
1368 | (version "20140914") | |
1369 | (source (origin | |
1370 | (method git-fetch) | |
1371 | (uri (git-reference | |
1372 | (url "https://bitbucket.org/malb/m4ri") | |
1373 | (commit (string-append "release-" version)))) | |
1374 | (file-name (git-file-name name version)) | |
1375 | (sha256 | |
1376 | (base32 | |
1377 | "0xfg6pffbn8r1s0y7bn9b8i55l00d41dkmhrpf7pwk53qa3achd3")))) | |
1378 | (build-system gnu-build-system) | |
1379 | (native-inputs | |
1380 | `(("autoconf" ,autoconf) | |
1381 | ("automake" ,automake) | |
1382 | ("libtool" ,libtool) | |
1383 | ("pkg-config" ,pkg-config))) | |
1384 | (inputs | |
1385 | `(("libpng" ,libpng))) | |
1386 | (synopsis "Arithmetic of dense matrices over F_2") | |
1387 | (description "M4RI is a library for fast arithmetic with dense matrices | |
1388 | over F2. The name M4RI comes from the first implemented algorithm: The | |
1389 | Method of the Four Russians inversion algorithm published by Gregory Bard. | |
1390 | This algorithm in turn is named after the Method of the Four Russians | |
1391 | multiplication algorithm.") | |
1392 | (license license:gpl2+) | |
1393 | (home-page "https://bitbucket.org/malb/m4ri/"))) | |
ab398380 | 1394 | |
75a73bb0 NG |
1395 | (define-public symmetrica |
1396 | (package | |
1397 | (name "symmetrica") | |
1398 | (version "2.0") | |
1399 | (source (origin | |
1400 | (method url-fetch/tarbomb) | |
1401 | (uri (let ((v (string-join (string-split version #\.) "_"))) | |
1402 | (string-append "http://www.algorithm.uni-bayreuth.de/" | |
1403 | "en/research/SYMMETRICA/" | |
1404 | "SYM" v "_tar.gz"))) | |
1405 | (sha256 | |
1406 | (base32 | |
1407 | "1qhfrbd5ybb0sinl9pad64rscr08qvlfzrzmi4p4hk61xn6phlmz")) | |
1408 | ;; Taken from <https://git.sagemath.org/sage.git/plain/build/pkgs/symmetrica/patches/> | |
1409 | (patches (search-patches "symmetrica-bruch.patch" | |
1410 | "symmetrica-int32.patch" | |
1411 | "symmetrica-return_values.patch" | |
1412 | "symmetrica-sort_sum_rename.patch")))) | |
1413 | (build-system gnu-build-system) | |
1414 | (arguments | |
1415 | `(#:tests? #f ;no test | |
1416 | #:phases | |
1417 | (modify-phases %standard-phases | |
1418 | (add-after 'unpack 'fix-makefile | |
1419 | (lambda _ | |
1420 | (substitute* "makefile" | |
e6eafd42 | 1421 | (("cc -c") "gcc -c -fPIC")) |
75a73bb0 NG |
1422 | #t)) |
1423 | (add-after 'fix-makefile 'turn-off-banner | |
1424 | (lambda _ | |
1425 | (substitute* "de.c" | |
1426 | (("(INT no_banner = )FALSE" _ pre) (string-append pre "TRUE"))) | |
1427 | #t)) | |
1428 | (delete 'configure) ;no configure script | |
1429 | (replace 'install ;no install target | |
1430 | (lambda* (#:key outputs #:allow-other-keys) | |
1431 | (let* ((out (assoc-ref outputs "out")) | |
1432 | (lib (string-append out "/lib")) | |
1433 | (inc (string-append out "/include/symmetrica")) | |
1434 | (doc (string-append out "/share/doc/symmetrica-" ,version)) | |
1435 | (static "libsymmetrica.a")) | |
1436 | ;; Build static library. | |
1437 | (apply invoke "ar" "crs" static (find-files "." "\\.o$")) | |
1438 | (invoke "ranlib" static) | |
1439 | ;; Install static library and headers. | |
1440 | (for-each (lambda (f) (install-file f inc)) | |
1441 | (find-files "." "\\.h$")) | |
1442 | (install-file "libsymmetrica.a" lib) | |
1443 | ;; Install documentation. | |
1444 | (for-each (lambda (f) (install-file f doc)) | |
1445 | (find-files "." "\\.doc$")) | |
1446 | #t)))))) | |
1447 | (home-page "http://www.algorithm.uni-bayreuth.de/en/research/SYMMETRICA/") | |
1448 | (synopsis "Combinatoric C Library") | |
1449 | (description "Symmetrica is a library for combinatorics. It has support | |
1450 | for the representation theory of the symmetric group and related groups, | |
1451 | combinatorics of tableaux, symmetric functions and polynomials, Schubert | |
1452 | polynomials, and the representation theory of Hecke algebras of type A_n.") | |
1453 | (license license:public-domain))) | |
6cbedbd2 AE |
1454 | |
1455 | (define-public m4rie | |
1456 | (package | |
1457 | (name "m4rie") | |
1458 | (version "20150908") | |
1459 | (source (origin | |
1460 | (method git-fetch) | |
1461 | (uri (git-reference | |
1462 | (url "https://bitbucket.org/malb/m4rie") | |
1463 | (commit (string-append "release-" version)))) | |
1464 | (file-name (git-file-name name version)) | |
1465 | (sha256 | |
1466 | (base32 | |
1467 | "0r8lv46qx5mkz5kp3ay2jnsp0mbhlqr5z2z220wdk73wdshcznss")))) | |
1468 | (build-system gnu-build-system) | |
1469 | (native-inputs | |
1470 | `(("autoconf" ,autoconf) | |
1471 | ("automake" ,automake) | |
1472 | ("libtool" ,libtool))) | |
1473 | (inputs | |
1474 | `(("m4ri" ,m4ri))) | |
1475 | (synopsis "Arithmetic of dense matrices over F_{2^e}") | |
1476 | (description "M4RI is a library for fast arithmetic with dense matrices | |
1477 | over finite fields of characteristic 2. So it extends the functionality | |
1478 | of M4RI from F_2 to F_{2^e}.") | |
1479 | (license license:gpl2+) | |
1480 | (home-page "https://bitbucket.org/malb/m4rie/"))) | |
66c67e7b AE |
1481 | |
1482 | (define-public eclib | |
1483 | (package | |
1484 | (name "eclib") | |
9a5f35fe | 1485 | (version "20190909") |
66c67e7b AE |
1486 | (source (origin |
1487 | (method git-fetch) | |
1488 | (uri (git-reference | |
1489 | (url "https://github.com/JohnCremona/eclib/") | |
1490 | (commit (string-append "v" version)))) | |
1491 | (file-name (git-file-name name version)) | |
1492 | (sha256 | |
1493 | (base32 | |
9a5f35fe | 1494 | "1gw27lqc3f525n8qdcmr2nyn16y9g10z9f6dnmckyyxcdzvhq35n")))) |
66c67e7b AE |
1495 | (build-system gnu-build-system) |
1496 | (native-inputs | |
1497 | `(("autoconf" ,autoconf) | |
1498 | ("automake" ,automake) | |
1499 | ("libtool" ,libtool))) | |
1500 | (inputs | |
d96ad7fa | 1501 | `(("ntl" ,ntl) |
66c67e7b AE |
1502 | ("pari-gp" ,pari-gp))) |
1503 | (synopsis "Ranks of elliptic curves and modular symbols") | |
1504 | (description "The eclib package includes mwrank (for 2-descent on | |
1505 | elliptic curves over Q) and modular symbol code; it has been written by | |
1506 | John Cremona to compute his elliptic curve database.") | |
1507 | (license license:gpl2+) | |
1508 | (home-page (string-append "http://homepages.warwick.ac.uk/staff/" | |
1509 | "J.E.Cremona/mwrank/index.html")))) | |
197ebc36 AE |
1510 | |
1511 | (define-public lrcalc | |
1512 | (package | |
1513 | (name "lrcalc") | |
1514 | (version "1.2") | |
1515 | (source (origin | |
1516 | (method git-fetch) | |
1517 | (uri (git-reference | |
1518 | (url "https://bitbucket.org/asbuch/lrcalc") | |
1519 | (commit (string-append "lrcalc-" version)))) | |
1520 | (file-name (git-file-name name version)) | |
1521 | (sha256 | |
1522 | (base32 | |
88f913e8 AE |
1523 | "1c12d04jdyxkkav4ak8d1aqrv594gzihwhpxvc6p9js0ry1fahss")) |
1524 | (patches (search-patches "lrcalc-includes.patch")))) | |
197ebc36 AE |
1525 | (build-system gnu-build-system) |
1526 | (native-inputs | |
1527 | `(("autoconf" ,autoconf) | |
1528 | ("automake" ,automake) | |
1529 | ("libtool" ,libtool))) | |
1530 | (arguments | |
1531 | `(#:phases | |
1532 | (modify-phases %standard-phases | |
1533 | (add-before 'build 'fix-permission | |
1534 | (lambda _ | |
1535 | (chmod "lrcalc.maple.src" #o644) | |
1536 | #t))))) | |
1537 | (synopsis "Littlewood-Richardson calculator in algebraic combinatorics") | |
1538 | (description "The Littlewood-Richardson Calculator (lrcalc) is a | |
1539 | program designed to compute Littlewood-Richardson coefficients. It computes | |
1540 | single Littlewood-Richardson coefficients, products of Schur functions, or | |
1541 | skew Schur functions. In addition it computes products in the small quantum | |
1542 | cohomology ring of a Grassmann variety. The software package also includes | |
1543 | a program that performs fast computation of the more general multiplicative | |
1544 | structure constants of Schubert polynomials.") | |
1545 | (license license:gpl2+) | |
1e30dff3 | 1546 | (home-page "https://sites.math.rutgers.edu/~asbuch/lrcalc/"))) |
eacf2983 AE |
1547 | |
1548 | (define-public iml | |
1549 | (package | |
1550 | (name "iml") | |
1551 | (version "1.0.5") | |
1552 | (source | |
1553 | (origin | |
1554 | (method url-fetch) | |
1555 | (uri (string-append "http://www.cs.uwaterloo.ca/~astorjoh/iml-" | |
1556 | version ".tar.bz2")) | |
1557 | (sha256 | |
1558 | (base32 | |
1559 | "0akwhhz9b40bz6lrfxpamp7r7wkk48p455qbn04mfnl9a1l6db8x")))) | |
1560 | (build-system gnu-build-system) | |
1561 | (inputs | |
1628d57b | 1562 | `(("gmp" ,gmp) |
eacf2983 AE |
1563 | ("cblas" ,openblas))) ; or any other BLAS library; the documentation |
1564 | ; mentions ATLAS in particular | |
1565 | (arguments | |
1566 | `(#:configure-flags | |
1567 | (list | |
c68ec87c | 1568 | "--enable-shared" |
eacf2983 AE |
1569 | (string-append "--with-gmp-include=" |
1570 | (assoc-ref %build-inputs "gmp") "/include") | |
1571 | (string-append "--with-gmp-lib=" | |
1572 | (assoc-ref %build-inputs "gmp") "/lib") | |
1573 | "--with-cblas=-lopenblas" | |
1574 | (string-append "--with-cblas-include=" | |
1575 | (assoc-ref %build-inputs "cblas") "/include") | |
1576 | (string-append "--with-cblas-lib=" | |
1577 | (assoc-ref %build-inputs "cblas") "/lib")))) | |
1578 | (home-page "https://cs.uwaterloo.ca/~astorjoh/iml.html") | |
1579 | (synopsis | |
1580 | "Solver for systems of linear equations over the integers") | |
1581 | (description | |
1582 | "IML is a C library implementing algorithms for computing exact | |
1583 | solutions to dense systems of linear equations over the integers. | |
1584 | Currently, IML provides the following functionality: | |
1585 | ||
1586 | @itemize | |
1587 | @item Nonsingular rational system solving: | |
1588 | compute the unique rational solution X to the system AX=B, where A and B | |
1589 | are integer matrices, A nonsingular. | |
1590 | @item Compute the right nullspace or kernel of an integer matrix. | |
1591 | @item Certified linear system solving: | |
1592 | compute a minimal denominator solution x to a system Ax=b, where b is an | |
1593 | integer vector and A is an integer matrix with arbitrary shape and | |
1594 | rank profile. | |
1595 | @end itemize | |
1596 | ||
1597 | In addition, IML provides some low level routines for a variety of mod p | |
1598 | matrix operations: computing the row-echelon form, determinant, rank | |
1599 | profile, and inverse of a mod p matrix. These mod p routines are not | |
1600 | general purpose; they require that p satisfy some preconditions based on | |
1601 | the dimension of the input matrix (usually p should be prime and should be | |
1602 | no more than about 20 bits long).") | |
1603 | (license license:bsd-3))) |