diff options
Diffstat (limited to 'gnu/packages/maths.scm')
| -rw-r--r-- | gnu/packages/maths.scm | 692 |
1 files changed, 371 insertions, 321 deletions
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm index 551727909f..9ac365fbb4 100644 --- a/gnu/packages/maths.scm +++ b/gnu/packages/maths.scm @@ -59,6 +59,7 @@ ;;; Copyright © 2022 Maximilian Heisinger <mail@maxheisinger.at> ;;; Copyright © 2022 Akira Kyle <akira@akirakyle.com> ;;; Copyright © 2022 Roman Scherer <roman.scherer@burningswell.com> +;;; Copyright © 2023 Jake Leporte <jakeleporte@outlook.com> ;;; ;;; This file is part of GNU Guix. ;;; @@ -96,7 +97,6 @@ #:use-module (guix build-system ocaml) #:use-module (guix build-system perl) #:use-module (guix build-system python) - #:use-module (guix build-system pyproject) #:use-module (guix build-system ruby) #:use-module (gnu packages algebra) #:use-module (gnu packages audio) @@ -105,6 +105,7 @@ #:use-module (gnu packages bash) #:use-module (gnu packages bison) #:use-module (gnu packages boost) + #:use-module (gnu packages calendar) #:use-module (gnu packages check) #:use-module (gnu packages cmake) #:use-module (gnu packages compression) @@ -127,12 +128,12 @@ #:use-module (gnu packages glib) #:use-module (gnu packages gperf) #:use-module (gnu packages graphviz) + #:use-module (gnu packages groff) #:use-module (gnu packages gtk) #:use-module (gnu packages icu4c) #:use-module (gnu packages image) #:use-module (gnu packages java) #:use-module (gnu packages less) - #:use-module (gnu packages libffi) #:use-module (gnu packages lisp) #:use-module (gnu packages linux) #:use-module (gnu packages llvm) @@ -176,6 +177,7 @@ #:use-module (gnu packages tls) #:use-module (gnu packages version-control) #:use-module (gnu packages wxwidgets) + #:use-module (gnu packages xdisorg) #:use-module (gnu packages xml) #:use-module (srfi srfi-1) #:use-module (srfi srfi-26)) @@ -459,6 +461,101 @@ semiconductors.") (license license:gpl3+) (home-page "https://www.gnu.org/software/dionysus/"))) +(define-public dozenal + ;; There is no recent release, so use the latest commit. + (let ((revision "1") + (commit "328bc03ad544179f2cccda36763358c4216f188e")) + (package + (name "dozenal") + (version (git-version "12010904-3" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://codeberg.org/dgoodmaniii/dozenal") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0knwfwjqdv854l5ny7csdpvp7r0md6a2k43a1l2lkyw9k3cglpph")))) + (build-system gnu-build-system) + (arguments + (list + ;; Some test scripts are included, but no makefile-driven + ;; tests, and they are all quite manual to run and check. + #:tests? #f + ;; Running with `make -j' causes the build to fail. This is likely + ;; because this project uses the "recursive make" structure, where + ;; each subdirectory contains its own make file, which is called by + ;; the top-level makefile. + #:parallel-build? #f + #:make-flags + #~(list (string-append "prefix=" #$output)) + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'chdir + (lambda _ + (chdir "dozenal"))) + (add-after 'chdir 'patch-lua-references + (lambda _ + (let ((lua-name (strip-store-file-name + #$(this-package-input "lua")))) + (substitute* '("dozcal/Makefile" + "dozlua/Makefile") + (("lua52") + (string-take lua-name + (string-rindex lua-name #\.))))))) + (delete 'configure) + (add-before 'install 'make-bin-dir + (lambda _ + (mkdir-p (string-append #$output "/bin")))) + (add-after 'install 'install-html-docs + (lambda _ + (invoke "make" + (string-append "prefix=" #$output) + "installhtml"))) + (add-after 'install-html-docs 'split-outputs + (lambda* (#:key inputs outputs #:allow-other-keys) + (for-each + (lambda (prog) + (let ((orig (string-append #$output "/bin/" prog)) + (dst (string-append #$output:gui "/bin/" prog)) + (man-orig (string-append #$output + "/share/man/man1/" + prog ".1")) + (man-dst (string-append #$output:gui + "/share/man/man1/" + prog ".1"))) + (mkdir-p (dirname dst)) + (rename-file orig dst) + (mkdir-p (dirname man-dst)) + (rename-file man-orig man-dst))) + '("xdozdc" "gdozdc")) + (wrap-program (string-append #$output:gui "/bin/" "gdozdc") + `("PATH" = (,(string-append #$output "/bin"))) + `("PERL5LIB" = (,(getenv "PERL5LIB"))))))))) + (outputs '("out" "gui")) + (native-inputs (list groff pkg-config)) + (inputs (list bash-minimal ;for wrap-program + libhdate + lua + ncurses + perl + perl-tk + perl-par + xforms)) + (synopsis "Suite of dozenal programs") + (description + "The dozenal suite is a set of programs designed to assist with working +in the dozenal (also called \"duodecimal\" or \"base twelve\") system. It +includes number converters (dozenal-to-decimal and decimal-to-dozenal), an RPN +calculator, a graphical calculator, a metric system converter (works with +imperial, U.S. customary, SI metric, and the dozenal TGM), a pretty-printer +for dozenal numbers, a date-and-time program, and a dozenal calendar programs, +complete with events and to-dos.") + (home-page "https://codeberg.org/dgoodmaniii/dozenal") + (license license:gpl3+)))) + (define-public dsfmt (package (name "dsfmt") @@ -1136,14 +1233,14 @@ in the terminal or with an external viewer.") (define-public gnuplot (package (name "gnuplot") - (version "5.4.4") + (version "5.4.6") (source (origin (method url-fetch) (uri (string-append "mirror://sourceforge/gnuplot/gnuplot/" version "/gnuplot-" version ".tar.gz")) (sha256 - (base32 "00h97y8njhvfjbdvc0njw0znxbrlfynd1iazn8w3anvzhsvh08rp")))) + (base32 "06bly8cpqjdf744jg7yrgba9rdcm3gl4zf63y3c69v80ha8jgz02")))) (build-system gnu-build-system) (native-inputs (list pkg-config texlive-tiny)) @@ -1290,7 +1387,7 @@ incompatible with HDF5.") (define-public hdf5-1.8 (package (name "hdf5") - (version "1.8.22") + (version "1.8.23") (source (origin (method url-fetch) @@ -1305,7 +1402,7 @@ incompatible with HDF5.") (string-append major minor))) "/src/hdf5-" version ".tar.bz2"))) (sha256 - (base32 "194ki2s5jrgl4czkvy5nc9nwjyapah0fj72l0gb0aysplp38i6v8")) + (base32 "0km65mr6dgk4ia2dqr1b9dzw9qg15j5z35ymbys9cnny51z1zb39")) (patches (search-patches "hdf5-config-date.patch")))) (build-system gnu-build-system) (inputs @@ -1345,8 +1442,7 @@ incompatible with HDF5.") (substitute* "hl/fortran/src/Makefile.in" (("libhdf5hl_fortran_la_LDFLAGS =") (string-append "libhdf5hl_fortran_la_LDFLAGS = -Wl,-rpath=" - (assoc-ref outputs "fortran") "/lib"))) - #t)) + (assoc-ref outputs "fortran") "/lib"))))) (add-after 'configure 'patch-settings (lambda _ ;; libhdf5.settings contains the full path of the @@ -1359,16 +1455,14 @@ incompatible with HDF5.") ;; Don't record the build-time kernel version to make the ;; settings file reproducible. (("Uname information:.*") - "Uname information: Linux\n")) - #t)) + "Uname information: Linux\n")))) (add-after 'install 'patch-references (lambda* (#:key inputs outputs #:allow-other-keys) (let ((bin (string-append (assoc-ref outputs "out") "/bin")) (zlib (assoc-ref inputs "zlib"))) (substitute* (find-files bin "h5p?cc") (("-lz" lib) - (string-append "-L" zlib "/lib " lib))) - #t))) + (string-append "-L" zlib "/lib " lib)))))) (add-after 'install 'split (lambda* (#:key inputs outputs #:allow-other-keys) ;; Move all fortran-related files @@ -1403,8 +1497,7 @@ incompatible with HDF5.") (rename-file file (string-append fex "/" (basename file)))) (find-files ex ".*")) - (delete-file-recursively ex)) - #t))))) + (delete-file-recursively ex))))))) (home-page "https://www.hdfgroup.org") (synopsis "Management suite for extremely large and complex data") (description "HDF5 is a suite that makes possible the management of @@ -1415,7 +1508,7 @@ extremely large and complex data collections.") (define-public hdf5-1.10 (package (inherit hdf5-1.8) - (version "1.10.7") + (version "1.10.9") (source (origin (method url-fetch) @@ -1429,13 +1522,33 @@ extremely large and complex data collections.") (take (string-split version #\.) 2)) "/src/hdf5-" version ".tar.bz2"))) (sha256 - (base32 "0pm5xxry55i0h7wmvc7svzdaa90rnk7h78rrjmnlkz2ygsn8y082")) + (base32 "14gih7kmjx4h3lc7pg4fwcl28hf1qqkf2x7rljpxqvzkjrqbxi00")) (patches (search-patches "hdf5-config-date.patch")))))) (define-public hdf5-1.12 (package (inherit hdf5-1.8) - (version "1.12.1") + (version "1.12.2") + (source + (origin + (method url-fetch) + (uri (list (string-append "https://support.hdfgroup.org/ftp/HDF5/releases/" + "hdf5-" (version-major+minor version) + "/hdf5-" version "/src/hdf5-" + version ".tar.bz2") + (string-append "https://support.hdfgroup.org/ftp/HDF5/" + "current" + (apply string-append + (take (string-split version #\.) 2)) + "/src/hdf5-" version ".tar.bz2"))) + (sha256 + (base32 "1zlawdzb0gsvcxif14fwr5ap2gk4b6j02wirr2hcx8hkcbivp20s")) + (patches (search-patches "hdf5-config-date.patch")))))) + +(define-public hdf5-1.14 + (package + (inherit hdf5-1.8) + (version "1.14.0") (source (origin (method url-fetch) @@ -1449,7 +1562,7 @@ extremely large and complex data collections.") (take (string-split version #\.) 2)) "/src/hdf5-" version ".tar.bz2"))) (sha256 - (base32 "074g3z504xf77ff38igs30i1aqxpm508p7yw78ykva7dncrgbyda")) + (base32 "181bdh8hp7v9xqwcby3lknr92lxlicc2hqscba3f5nhf8lrr9rz4")) (patches (search-patches "hdf5-config-date.patch")))))) (define-public hdf5 @@ -2545,267 +2658,6 @@ Computational Engineering and Sciences} at The University of Texas at Austin. includes a complete LAPACK implementation.") (license license:bsd-3))) -(define-public libpotassco - ;; No public release, update together with clasp - (let ((revision "1") - (commit "2f9fb7ca2c202f1b47643aa414054f2f4f9c1821")) - (package - (name "libpotassco") - (version (git-version "0.0" revision commit)) - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/potassco/libpotassco") - (commit commit))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "1c32f9gqclf7qx07lpx8wd720vfhkjqhzc6nyy8mjmgwpmb3iyyn")))) - (arguments - `(#:configure-flags '("-DLIB_POTASSCO_BUILD_TESTS=on" - "-DLIB_POTASSCO_INSTALL_LIB=on" - "-DBUILD_SHARED_LIBS=on") - #:phases - (modify-phases %standard-phases - (add-after 'unpack 'patch-cmake - (lambda _ - (substitute* "CMakeLists.txt" - ;; clasp expects lowercase potassco and include directory is - ;; lowercase as well, so let's use that - (("\"cmake/Potassco\"") "\"cmake/potassco\"") - (("PotasscoConfig\\.cmake") "potassco-config.cmake") - (("PotasscoConfigVersion\\.cmake") - "potassco-config-version.cmake")) - (rename-file "cmake/PotasscoConfig.cmake.in" - "cmake/potassco-config.cmake.in")))))) - (build-system cmake-build-system) - (home-page "https://potassco.org/") - (synopsis "Utility library for Potassco's projects") - (description "@code{libpotassco} is a utility library providing functions -and datatypes for -@itemize -@item parsing, writing, and converting logic programs in aspif and smodels -format, -@item passing information between a grounder and a solver, -@item and defining and parsing command-line options and for creating -command-line applications. -@end itemize -Furthermore, it comes with the tool @command{lpconvert} that converts either -between aspif and smodels format or to a human-readable text format.") - (license license:expat)))) - -(define-public clasp - (package - (name "clasp") - (version "3.3.9") - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/potassco/clasp") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "163ps9zq7xppqy9hj5qnw6z5lcjnm4xf5fwjsavpia5ynm3hngcw")))) - (build-system cmake-build-system) - (arguments - `(#:configure-flags '("-DCLASP_BUILD_TESTS=on" - "-DCLASP_INSTALL_LIB=on" - "-DCLASP_USE_LOCAL_LIB_POTASSCO=off" - "-DBUILD_SHARED_LIBS=on") - #:phases - (modify-phases %standard-phases - (add-after 'unpack 'patch-cmake - (lambda _ - (substitute* "CMakeLists.txt" - ;; Use lowercase to be consistent with libpotassco - (("\"cmake/Clasp\"") "\"cmake/clasp\"") - (("ClaspConfig\\.cmake") "clasp-config.cmake") - (("ClaspConfigVersion\\.cmake") - "clasp-config-version.cmake")) - (substitute* "cmake/ClaspConfig.cmake.in" - (("find_package\\(Potassco") "find_package(potassco")) - (rename-file "cmake/ClaspConfig.cmake.in" - "cmake/clasp-config.cmake.in")))))) - (inputs - (list libpotassco)) - (home-page "https://potassco.org/") - (synopsis "Answer set solver") - (description "clasp is an answer set solver for (extended) normal and -disjunctive logic programs. The primary algorithm of clasp relies on -conflict-driven nogood learning, a technique that proved very successful for -satisfiability checking (SAT).") - (license license:expat))) - -(define-public clingo - (package - (name "clingo") - (version "5.6.2") - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/potassco/clingo") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (modules '((guix build utils))) - (snippet - #~(begin - (delete-file-recursively "clasp") - ;; TODO: Unvendor other third-party stuff - (delete-file-recursively "third_party/catch"))) - (sha256 - (base32 - "19s59ndcm2yj0kxlikfxnx2bmp6b7n31wq1zvwc7hyk37rqarwys")))) - (build-system cmake-build-system) - (arguments - (list - #:configure-flags #~`("-DCLINGO_BUILD_TESTS=on" - "-DCLINGO_INSTALL_LIB=on" - "-DCLINGO_BUILD_STATIC=off" - "-DCLINGO_BUILD_SHARED=on" - "-DCLINGO_USE_LOCAL_CLASP=off" - "-DCLINGO_USE_LOCAL_CATCH=off") - #:phases - #~(modify-phases %standard-phases - (add-after 'unpack 'patch-cmake - (lambda _ - (substitute* "CMakeLists.txt" - (("add_subdirectory\\(clasp\\)") - "find_package(clasp REQUIRED)")) - (substitute* "libclingo/CMakeLists.txt" - (("\"cmake/Clingo\"") "\"cmake/clingo\"") - (("ClingoConfig\\.cmake") "clingo-config.cmake") - (("ClingoConfigVersion\\.cmake") - "clingo-config-version.cmake")) - (substitute* "cmake/ClingoConfig.cmake.in" - (("find_package\\(Clasp") "find_package(clasp")) - (rename-file "cmake/ClingoConfig.cmake.in" - "cmake/clingo-config.cmake.in"))) - (add-after 'unpack 'skip-failing-tests - (lambda _ - (with-directory-excursion "libclingo/tests" - (substitute* "CMakeLists.txt" - (("COMMAND test_clingo" all) - (string-append all - " -f " - "\"${CMAKE_CURRENT_SOURCE_DIR}/good.txt\""))) - (call-with-output-file "good.txt" - (lambda (port) - (for-each (lambda (test) (format port "~s~%" test)) - '("parse-ast-v2" "add-ast-v2" "build-ast-v2" - "unpool-ast-v2" "parse_term" - "propagator" "propgator-sequence-mining" - "symbol" "visitor")))))))))) - (inputs (list catch2-3.1 clasp libpotassco)) - (native-inputs (list pkg-config)) - (home-page "https://potassco.org/") - (synopsis "Grounder and solver for logic programs") - (description "Clingo computes answer sets for a given logic program.") - (license license:expat))) - -(define-public python-clingo - (package - (inherit clingo) - (name "python-clingo") - (version (package-version clingo)) ; for #$version in arguments - (arguments - (substitute-keyword-arguments (package-arguments clingo) - ((#:configure-flags flags #~'()) - #~(cons* "-DCLINGO_BUILD_WITH_PYTHON=pip" - "-DCLINGO_USE_LIB=yes" - #$flags)) - ((#:imported-modules _ '()) - `(,@%cmake-build-system-modules - (guix build python-build-system))) - ((#:modules _ '()) - '((guix build cmake-build-system) - ((guix build python-build-system) #:prefix python:) - (guix build utils))) - ((#:phases phases #~%standard-phases) - #~(modify-phases #$phases - (add-after 'unpack 'fix-failing-tests - (lambda _ - (substitute* "libpyclingo/clingo/tests/test_conf.py" - (("ctl\\.solve\\(on_statistics=on_statistics\\)" all) - (string-append - all - "; self.skipTest(\"You shall not fail.\")"))))) - (add-after 'install 'install-distinfo - (lambda* (#:key inputs outputs #:allow-other-keys) - (with-directory-excursion (python:site-packages inputs outputs) - (let ((dir (string-append "clingo-" #$version ".dist-info"))) - (mkdir-p dir) - (call-with-output-file (string-append dir "/METADATA") - (lambda (port) - (format port "Metadata-Version: 1.1~%") - (format port "Name: clingo~%") - (format port "Version: ~a~%" #$version))))))))))) - (inputs (list clingo python-wrapper)) - (propagated-inputs (list python-cffi)) - (native-inputs (modify-inputs (package-native-inputs clingo) - (prepend python-scikit-build))) - (synopsis "Python bindings for clingo") - (description "This package provides Python bindings to the clingo package, -making it so that you can write @acronym{ASPs, Answer Set Programs} through -Python code."))) - -(define-public python-clorm - (package - (name "python-clorm") - (version "1.4.1") - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/potassco/clorm") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "0jx99y71mrgdicn1da5dwz5nzgvvpabrikff783sg4shbv2cf0b5")))) - (build-system pyproject-build-system) - (arguments - (list #:phases - #~(modify-phases %standard-phases - (add-before 'check 'fix-breaking-tests - (lambda _ - ;; noclingo tests rely on this being set - (setenv "CLORM_NOCLINGO" "1") - (delete-file "tests/test_mypy_query.py") - (substitute* "tests/test_clingo.py" - (("self\\.assertTrue\\(os_called\\)" all) - (string-append "# " all)))))))) - (propagated-inputs (list python-clingo)) - (native-inputs (list python-typing-extensions)) - (home-page "https://potassco.org") - (synopsis "Object relational mapping to clingo") - (description "@acronym{Clorm, Clingo ORM} provides an @acronym{ORM, -Object Relational Mapping} interface to the @acronym{ASP, answer set -programming} solver clingo. Its goal is to make integration of clingo -into Python programs easier.") - (license license:expat))) - -(define-public python-telingo - (package - (name "python-telingo") - (version "2.1.1") - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/potassco/telingo") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (patches (search-patches "python-telingo-fix-comparison.patch")) - (sha256 - (base32 - "0g3khxfdzc2hc7dkiyyqhb399h6h21m5wkp6wy8w71n0m32fiy53")))) - (build-system pyproject-build-system) - (propagated-inputs (list python-clingo)) - (home-page "https://potassco.org/") - (synopsis "Solve dynamic temporal logic programs") - (description "This package provides a system to solve dynamic temporal -logic programs based on clingo.") - (license license:expat))) - (define-public scasp (let ((commit "89a427aa04ec6346425a40111c99b310901ffe51") (revision "1")) @@ -2942,47 +2794,47 @@ can solve two kinds of problems: (define-public octave-cli (package (name "octave-cli") - (version "7.3.0") + (version "8.1.0") (source (origin - (method url-fetch) - (uri (string-append "mirror://gnu/octave/octave-" - version ".tar.xz")) - (sha256 - (base32 - "1wap9p9imxxqpnm27rxcvpjahk1wg440lzlygjb6iyncxdmfw255")))) + (method url-fetch) + (uri (string-append "mirror://gnu/octave/octave-" + version ".tar.xz")) + (sha256 + (base32 + "00lis18dsb13v9nvz0z4cs7v4y634jc0vb04lxfw9pshwriikglv")))) (build-system gnu-build-system) (inputs - `(("alsa-lib" ,alsa-lib) - ("arpack" ,arpack-ng) - ("bdb" ,bdb) - ("curl" ,curl) - ("fftw" ,fftw) - ("fftwf" ,fftwf) - ("fltk" ,fltk) - ("fontconfig" ,fontconfig) - ("freetype" ,freetype) - ("gl2ps" ,gl2ps) - ("glpk" ,glpk) - ("glu" ,glu) - ("graphicsmagick" ,graphicsmagick) - - ;; TODO: libjpeg-turbo is indirectly required through libtiff. In - ;; the next rebuild cycle, add an absolute reference for -ljpeg in - ;; libtiff.la instead of having to provide it here. - ("libjpeg" ,libjpeg-turbo) + (list alsa-lib + arpack-ng + bdb + curl + fftw + fftwf + fltk + fontconfig + freetype + gl2ps + glpk + glu + graphicsmagick - ("hdf5" ,hdf5) - ("lapack" ,lapack) - ("libsndfile" ,libsndfile) - ("libxft" ,libxft) - ("mesa" ,mesa) - ("pcre" ,pcre) - ("portaudio" ,portaudio) - ("qhull" ,qhull) - ("readline" ,readline) - ("suitesparse" ,suitesparse) - ("zlib" ,zlib))) + ;; TODO: libjpeg-turbo is indirectly required through libtiff. In + ;; the next rebuild cycle, add an absolute reference for -ljpeg in + ;; libtiff.la instead of having to provide it here. + libjpeg-turbo + + hdf5 + lapack + libsndfile + libxft + mesa + pcre + portaudio + qhull + readline + suitesparse + zlib)) (native-inputs (list gfortran pkg-config @@ -3022,8 +2874,7 @@ can solve two kinds of problems: (substitute* "libinterp/corefcn/help.h" (("\"makeinfo\"") (string-append - "\"" (assoc-ref inputs "texinfo") "/bin/makeinfo\""))) - #t))))) + "\"" (assoc-ref inputs "texinfo") "/bin/makeinfo\"")))))))) (home-page "https://www.gnu.org/software/octave/") (synopsis "High-level language for numerical computation (no GUI)") (description "GNU Octave is a high-level interpreted language that is @@ -4942,10 +4793,6 @@ it also includes a BLAS compatibility layer which gives application developers access to BLIS implementations via traditional BLAS routine calls.") (license license:bsd-3))) -(define-public blis-sandybridge (deprecated-package "blis-sandybridge" blis)) -(define-public blis-haswell (deprecated-package "blis-haswell" blis)) -(define-public blis-knl (deprecated-package "blis-knl" blis)) - (define ignorance blis) (define-public openlibm @@ -5105,6 +4952,95 @@ packages.") ;; GPUQREngine, RBio, SuiteSparse_GPURuntime, SuiteSparseQR, UMFPACK (license (list license:gpl2+ license:lgpl2.1+)))) + +;; This outdated version is used to build the scilab package. +(define-public suitesparse-3 + (package + (inherit suitesparse) + (name "suitesparse") + (version "3.1.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/DrTimothyAldenDavis/SuiteSparse") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0wxk755nzps0c9la24zqknqkzjp6rcj5q9jhd973mff1pqja3clz")))) + (build-system gnu-build-system) + (arguments + `(#:tests? #f ;no "check" target + #:make-flags + ,#~(list + (string-append "CC=gcc") + "AR=gcc -shared -o" + "RANLIB=touch" + "CFLAGS=-O3 -fPIC -I../Include" + "TBB=-ltbb" + + ;; Disable metis@4 (nonfree) support. + "CHOLMOD_CONFIG=-DNPARTITION" + "METIS=" + "METIS_PATH=" + + ;; The default is to link against netlib lapack. Use OpenBLAS + ;; instead. + "BLAS=-lopenblas" "LAPACK=-lopenblas" + + (string-append "INSTALL_LIB=" + (assoc-ref %outputs "out") "/lib") + (string-append "INSTALL_INCLUDE=" + (assoc-ref %outputs "out") "/include") + "library") + #:phases + (modify-phases %standard-phases + (add-after 'unpack 'correct-build-configuration + (lambda _ + ;; Invert build order: CHOLMOD before KLU. + (substitute* "Makefile" + (("\t\\( cd CHOLMOD ; \\$\\(MAKE\\) \\)\n$") + "") + (("\\( cd KLU ; \\$\\(MAKE\\) \\)") + (string-append "( cd CHOLMOD ; $(MAKE) )\n\t" + "( cd KLU ; $(MAKE) )"))) + ;; Build shared libraries. + (substitute* (find-files "." "akefile$") + (("lib([a-z]+)\\.a" all libname) + (string-append "lib" libname ".so"))) + ;; Delete broken KLU Demo step. + (substitute* "KLU/Makefile" + (("\\( cd Demo ; \\$\\(MAKE\\) \\)") + "")))) + (replace 'install + (lambda _ + ;; Install libraries. + (for-each + (lambda (x) + (install-file + x + (string-append (assoc-ref %outputs "out") "/lib"))) + (find-files "." "\\.so$")) + ;; Install header files. + (for-each + (lambda (x) + (install-file + x + (string-append (assoc-ref %outputs "out") "/include"))) + (find-files "." "\\.h$")))) + ,@(if (target-riscv64?) + ;; GraphBLAS FTBFS on riscv64-linux + `((add-after 'unpack 'skip-graphblas + (lambda _ + (substitute* "Makefile" + ((".*cd GraphBLAS.*") "") + (("metisinstall gbinstall moninstall") + "moninstall"))))) + '()) + (delete 'configure)))) ;no configure script + (inputs + (list tbb openblas gmp mpfr)))) + (define-public atlas (package (name "atlas") @@ -5966,6 +5902,14 @@ structured and unstructured grid problems."))) (base32 "0vr8c1mz1k6mz0sgh6n3scl5c3a71iqmy5fnydrgq504icj4vym4")))) (build-system gnu-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (add-before 'install 'install-matioConfig.h + (lambda _ + (install-file "src/matioConfig.h" + (string-append #$output "/include"))))))) (inputs (list zlib hdf5-1.8)) (home-page "http://matio.sourceforge.net/") @@ -8463,3 +8407,109 @@ primal-dual interior-point method are made available. Interfaces are provided for applications written in C++ and Python. Parallel computation is supported via MPI.") (license license:bsd-2)))) + +(define-public scilab + (package + (name "scilab") + (version "5.5.0") + (source + (origin + (method url-fetch) + (uri + (string-append "https://oos.eu-west-2.outscale.com/scilab-releases/" + version "/scilab-" version "-src.tar.gz")) + (sha256 + (base32 "1hx57aji5d78brwqcf8a34i1hasm3h4nw46xjg7cgxj09s8yz5kq")))) + (build-system gnu-build-system) + (native-inputs (list pkg-config gfortran)) + (inputs (list libxml2 + `(,pcre "bin") + `(,pcre "out") + readline + hdf5-1.8 + curl + openblas + lapack + arpack-ng + fftw + gettext-minimal + suitesparse-3 + tcl + tk + libx11 + matio)) + (arguments + `(#:tests? #f + #:configure-flags + ,#~(list + "--enable-relocatable" + "--disable-static-system-lib" + ;; Disable all java code. + "--without-gui" + "--without-javasci" + "--disable-build-help" + "--with-external-scirenderer" + ;; Tcl and Tk library locations. + (string-append "--with-tcl-include=" + (string-drop-right + (search-input-file %build-inputs "include/tcl.h") + (string-length "/tcl.h"))) + (string-append "--with-tcl-library=" + (string-drop-right + (search-input-directory %build-inputs "lib/tcl8") + (string-length "/tcl8"))) + (string-append "--with-tk-include=" + (string-drop-right + (search-input-file %build-inputs "include/tk.h") + (string-length "/tk.h"))) + (string-append "--with-tk-library=" + (string-drop-right + (search-input-directory %build-inputs "lib/tk8.6") + (string-length "/tk8.6"))) + ;; There are some 2018-fortran errors that are ignored + ;; with this fortran compiler flag. + "FFLAGS=-fallow-argument-mismatch") + #:phases + ,#~(modify-phases %standard-phases + (add-before 'build 'pre-build + (lambda _ + ;; Fix scilab script. + (substitute* "bin/scilab" + (("\\/bin\\/ls") + (which "ls"))) + ;; Fix core.start. + (substitute* "modules/core/etc/core.start" + (("'SCI/modules") + "SCI+'/modules")) + ;; Fix fortran compilation error. + (substitute* + "modules/differential_equations/src/fortran/twodq.f" + (("node\\(10\\),node1\\(10\\),node2\\(10\\),coef") + "node(9),node1(9),node2(9),coef")) + ;; Fix C compilation errors. + ;; remove & + (substitute* "modules/hdf5/src/c/h5_readDataFromFile_v1.c" + (("(H5Rdereference\\(_iDatasetId, H5R_OBJECT, )&(.*)\\);$" + all common ref) + (string-append common ref))) + ;; fix multiple definitions + (substitute* "modules/tclsci/src/c/TCL_Command.h" + (("^__thread") + "extern __thread")) + (substitute* "modules/tclsci/src/c/InitTclTk.c" + (("BOOL TK_Started = FALSE;" all) + (string-append all "\n" + "__threadId TclThread;" "\n" + "__threadSignal InterpReady;" "\n" + "__threadSignalLock InterpReadyLock;" + "\n"))) + ;; Set SCIHOME to /tmp before macros compilation. + (setenv "SCIHOME" "/tmp")))))) + (home-page "https://scilab.org") + (synopsis "Software for engineers and scientists") + (description "This package provides the non-graphical version of the Scilab +software for engineers and scientists. Scilab is used for signal processing, +statistical analysis, image enhancement, fluid dynamics simulations, numerical +optimization, and modeling, simulation of explicit and implicit dynamical +systems and symbolic manipulations.") + (license license:cecill))) ;CeCILL v2.1 |