diff options
Diffstat (limited to 'gnu/packages/machine-learning.scm')
| -rw-r--r-- | gnu/packages/machine-learning.scm | 143 |
1 files changed, 143 insertions, 0 deletions
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index 30209f54af..467b44ce3d 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -21,13 +21,17 @@ #:use-module (guix packages) #:use-module (guix utils) #:use-module (guix download) + #:use-module (guix build-system cmake) #:use-module (guix build-system gnu) #:use-module (gnu packages) #:use-module (gnu packages boost) #:use-module (gnu packages compression) #:use-module (gnu packages gcc) #:use-module (gnu packages maths) + #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) + #:use-module (gnu packages statistics) + #:use-module (gnu packages swig) #:use-module (gnu packages xml)) (define-public libsvm @@ -144,3 +148,142 @@ learning method. Most interesting features are variable selection, missing value imputation, classifier creation, generalization error estimation and sample proximities between pairs of cases.") (license license:gpl3+))) + +(define-public shogun + (package + (name "shogun") + (version "4.0.0") + (source + (origin + (method url-fetch) + (uri (string-append + "ftp://shogun-toolbox.org/shogun/releases/" + (version-major+minor version) + "/sources/shogun-" version ".tar.bz2")) + (sha256 + (base32 + "159nlijnb7mnrv9za80wnm1shwvy45hgrqzn51hxy7gw4z6d6fdb")) + (modules '((guix build utils) + (ice-9 rdelim))) + (snippet + '(begin + ;; Remove non-free sources and files referencing them + (for-each delete-file + (find-files "src/shogun/classifier/svm/" + "SVMLight\\.(cpp|h)")) + (for-each delete-file + (find-files "examples/undocumented/libshogun/" + (string-append + "(classifier_.*svmlight.*|" + "evaluation_cross_validation_locked_comparison).cpp"))) + ;; Remove non-free functions. + (define (delete-ifdefs file) + (with-atomic-file-replacement file + (lambda (in out) + (let loop ((line (read-line in 'concat)) + (skipping? #f)) + (if (eof-object? line) + #t + (let ((skip-next? + (or (and skipping? + (not (string-prefix? + "#endif //USE_SVMLIGHT" line))) + (string-prefix? + "#ifdef USE_SVMLIGHT" line)))) + (when (or (not skipping?) + (and skipping? (not skip-next?))) + (display line out)) + (loop (read-line in 'concat) skip-next?))))))) + (for-each delete-ifdefs (find-files "src/shogun/kernel/" + "^Kernel\\.(cpp|h)")))))) + (build-system cmake-build-system) + (arguments + '(#:tests? #f ;no check target + #:phases + (alist-cons-after + 'unpack 'delete-broken-symlinks + (lambda _ + (for-each delete-file '("applications/arts/data" + "applications/asp/data" + "applications/easysvm/data" + "applications/msplicer/data" + "applications/ocr/data" + "examples/documented/data" + "examples/documented/matlab_static" + "examples/documented/octave_static" + "examples/undocumented/data" + "examples/undocumented/matlab_static" + "examples/undocumented/octave_static" + "tests/integration/data" + "tests/integration/matlab_static" + "tests/integration/octave_static" + "tests/integration/python_modular/tests")) + #t) + (alist-cons-after + 'unpack 'change-R-target-path + (lambda* (#:key outputs #:allow-other-keys) + (substitute* '("src/interfaces/r_modular/CMakeLists.txt" + "src/interfaces/r_static/CMakeLists.txt" + "examples/undocumented/r_modular/CMakeLists.txt") + (("\\$\\{R_COMPONENT_LIB_PATH\\}") + (string-append (assoc-ref outputs "out") + "/lib/R/library/"))) + #t) + (alist-cons-after + 'unpack 'fix-octave-modules + (lambda* (#:key outputs #:allow-other-keys) + (substitute* '("src/interfaces/octave_modular/CMakeLists.txt" + "src/interfaces/octave_static/CMakeLists.txt") + (("^include_directories\\(\\$\\{OCTAVE_INCLUDE_DIRS\\}") + "include_directories(${OCTAVE_INCLUDE_DIRS} ${OCTAVE_INCLUDE_DIRS}/octave")) + + ;; change target directory + (substitute* "src/interfaces/octave_modular/CMakeLists.txt" + (("\\$\\{OCTAVE_OCT_LOCAL_API_FILE_DIR\\}") + (string-append (assoc-ref outputs "out") + "/share/octave/packages"))) + #t) + (alist-cons-before + 'build 'set-HOME + ;; $HOME needs to be set at some point during the build phase + (lambda _ (setenv "HOME" "/tmp") #t) + %standard-phases)))) + #:configure-flags + (list "-DCMAKE_BUILD_WITH_INSTALL_RPATH=TRUE" + "-DUSE_SVMLIGHT=OFF" ;disable proprietary SVMLIGHT + ;;"-DJavaModular=ON" ;requires unpackaged jblas + ;;"-DRubyModular=ON" ;requires unpackaged ruby-narray + ;;"-DPerlModular=ON" ;"FindPerlLibs" does not exist + ;;"-DLuaModular=ON" ;fails because lua doesn't build pkgconfig file + "-DOctaveModular=ON" + "-DOctaveStatic=ON" + "-DPythonModular=ON" + "-DPythonStatic=ON" + "-DRModular=ON" + "-DRStatic=ON" + "-DCmdLineStatic=ON"))) + (inputs + `(("python" ,python) + ("numpy" ,python-numpy) + ("r" ,r) + ("octave" ,octave) + ("swig" ,swig) + ("hdf5" ,hdf5) + ("atlas" ,atlas) + ("arpack" ,arpack-ng) + ("lapack" ,lapack) + ("glpk" ,glpk) + ("libxml2" ,libxml2) + ("lzo" ,lzo) + ("zlib" ,zlib))) + (native-inputs + `(("pkg-config" ,pkg-config))) + (home-page "http://shogun-toolbox.org/") + (synopsis "Machine learning toolbox") + (description + "The Shogun Machine learning toolbox provides a wide range of unified and +efficient Machine Learning (ML) methods. The toolbox seamlessly allows to +combine multiple data representations, algorithm classes, and general purpose +tools. This enables both rapid prototyping of data pipelines and extensibility +in terms of new algorithms.") + (license license:gpl3+))) |