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| author | Efraim Flashner | 2019-07-01 07:28:36 -0500 |
|---|---|---|
| committer | Efraim Flashner | 2019-07-01 12:42:54 -0500 |
| commit | 22dd59cd672d876a99c719087117b19074cd0d49 (patch) | |
| tree | 13454ffd9b4fe9086219df76e414438dcd15c74f /gn/packages | |
| parent | faedb91fb2aa57e482841f18ac869223990f820b (diff) | |
| download | guix-bioinformatics-22dd59cd672d876a99c719087117b19074cd0d49.tar.gz | |
gn: Add octave@3.4.3.
Add two upstream patches and package glpk@4.48 for octave to use.
Diffstat (limited to 'gn/packages')
| -rw-r--r-- | gn/packages/maths.scm | 74 |
1 files changed, 74 insertions, 0 deletions
diff --git a/gn/packages/maths.scm b/gn/packages/maths.scm new file mode 100644 index 0000000..f57459d --- /dev/null +++ b/gn/packages/maths.scm @@ -0,0 +1,74 @@ +(define-module (gn packages maths) + #:use-module (gnu packages) + #:use-module (guix packages) + #:use-module (guix download) + #:use-module (guix utils) + #:use-module (gnu packages base) + #:use-module (gnu packages gperf) + #:use-module (gnu packages maths) + #:use-module (gnu packages texinfo) + #:use-module (srfi srfi-1)) + +(define-public octave-3.4.3 + (package + (inherit octave-cli) + (name "octave") + (version "3.4.3") + (source + (origin + (method url-fetch) + (uri (string-append "mirror://gnu/octave/octave-" + version ".tar.gz")) + (sha256 + (base32 + "04lh3crzwpramvfvxq34n2r29pmfl37rssj853nz9a3pyq7wrrir")) + (patches (search-patches "gnulib-gets.patch" + "octave-nested-class.patch")))) + (arguments + (substitute-keyword-arguments (package-arguments octave-cli) + ((#:configure-flags cf) + `(cons "--enable-docs=no" ; docs fail to build + ,cf)) + ((#:phases phases) + `(modify-phases ,phases + (add-after 'unpack 'patch-configure-script + (lambda _ + (substitute* '("configure" + "src/DLD-FUNCTIONS/__delaunayn__.cc" + "src/DLD-FUNCTIONS/__voronoi__.cc" + "src/DLD-FUNCTIONS/convhulln.cc") + (("qhull/qhull.h") "libqhull/libqhull.h") + (("qhull/qhull_a.h") "libqhull/qhull_a.h")) + #t)) + (replace 'configure-makeinfo + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "src/help.cc" + (("\"makeinfo\"") + (string-append + "\"" (assoc-ref inputs "texinfo") "/bin/makeinfo\""))) + #t)))))) + (native-inputs + `(("glibc-2.27" ,glibc-2.27) ; works around fseeko.c problem in gnulib + ,@(fold alist-delete (package-native-inputs octave-cli) + '("lzip")))) + (inputs + `(("glpk" ,glpk-4.48) + ("gperf" ,gperf) + ,@(fold alist-delete (package-inputs octave-cli) + ;; suitesparse provides cholmod_common_struct, may need older version + '("glpk" "suitesparse")))))) + +;; 4.49 is the last version with _glp_lpx_simplex exported +;; 4.49 is the version where all lpx_ routines were removed +(define-public glpk-4.48 + (package + (inherit glpk) + (version "4.48") + (source + (origin + (method url-fetch) + (uri (string-append "mirror://gnu/glpk/glpk-" + version ".tar.gz")) + (sha256 + (base32 + "1cddqsdcfwavdklg7hsfifppsry81dx3c17wzk6r22mjjpwcihmb")))))) |