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authorRoel Janssen2016-03-23 14:32:26 +0100
committerRoel Janssen2016-03-23 14:32:26 +0100
commit968df22e894541b5750d857e12e990230bbc35e4 (patch)
treeb8d78653cfbc5afe0933eff15a270df72f76489c /gn/packages/arrayfire.scm
parent2c95c0053a6ffa3339b18a0f585dbb82b555b3e8 (diff)
parentd3418e836947fe307d4dc7b16062a2cfbf562709 (diff)
downloadguix-bioinformatics-968df22e894541b5750d857e12e990230bbc35e4.tar.gz
Merge branch 'master' of https://github.com/genenetwork/guix-bioinformatics
Diffstat (limited to 'gn/packages/arrayfire.scm')
-rw-r--r--gn/packages/arrayfire.scm265
1 files changed, 245 insertions, 20 deletions
diff --git a/gn/packages/arrayfire.scm b/gn/packages/arrayfire.scm
index 7756a97..361f2f0 100644
--- a/gn/packages/arrayfire.scm
+++ b/gn/packages/arrayfire.scm
@@ -17,14 +17,17 @@
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
(define-module (gn packages arrayfire)
- #:use-module ((guix licenses))
+ #:use-module (guix packages)
+ #:use-module ((guix licenses) #:prefix license:)
#:use-module (guix download)
#:use-module (guix git-download)
#:use-module (guix build-system gnu)
#:use-module (guix build-system cmake)
- #:use-module (guix packages)
+ #:use-module (gnu packages)
+ #:use-module (guix utils)
#:use-module (gnu packages algebra)
#:use-module (gnu packages autotools)
+ #:use-module (gnu packages bootstrap)
#:use-module (gnu packages curl)
#:use-module (gnu packages gawk)
#:use-module (gnu packages cmake)
@@ -33,47 +36,59 @@
#:use-module (gnu packages image)
#:use-module (gnu packages video)
#:use-module (gnu packages textutils)
+ ;; #:use-module (gnu packages fftw)
+ ;; #:use-module (gnu packages fftw-openmpi) - in algebra
+ ;; #:use-module (gnu packages fftwf)
#:use-module (gnu packages gl)
+ #:use-module (gnu packages gcc)
+ #:use-module (gnu packages gnupg)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages maths)
+ #:use-module (gnu packages mpi)
#:use-module (gnu packages web)
- #:use-module (gnu packages ldc)
+ #:use-module (gnu packages wget)
#:use-module (gnu packages python)
+ #:use-module (gnu packages ruby)
#:use-module (gnu packages xorg)
- #:use-module (gnu packages version-control)
+ #:use-module (gnu packages version-control)
+ #:use-module (gnu packages zip)
#:use-module (gnu packages linux))
(define-public arrayfire
-(let ((commit "9ca1ea0"))
- (package
+(package
(name "arrayfire")
- (version "3.3.1-hotfix")
+ (version "3.3.1")
(source (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/arrayfire/arrayfire.git")
- (commit commit)))
- (file-name (string-append name "-" commit))
+ (method url-fetch)
+ (uri (string-append "http://arrayfire.com/arrayfire_source/arrayfire-full-" version
+ ".tar.bz2"))
+ (file-name (string-append name "-" version ".tar.bz2"))
(sha256
(base32
- "067y98a9s78vpz7xsg889xnwfaza7c5gdv97yg9cgrdl0iljvsgp"))))
+ "045adww6dqmyz6kkfmq7xawi5v9a894yp5j9pzn6j568gi48pyqc"))))
(native-inputs `(("autoconf" ,autoconf)
("automake" ,automake)
- ("cmake" ,cmake)
("gawk" ,gawk)
+ ("git" ,git)
("glew" ,glew)
("libtool" ,libtool)
("pkg-config" ,pkg-config)))
(inputs `(("boost" ,boost)
("glfw" ,glfw)
+ ("compute" ,compute)
("curl" ,curl)
+ ("clBLAS" ,clBLAS)
+ ("clFFT" ,clFFT)
("atlas" ,atlas)
("dbus" ,dbus)
+ ("opencl-headers" ,opencl-headers)
+ ("ocl-icd" ,ocl-icd)
("enca" ,enca)
("eudev" ,eudev)
("glew" ,glew)
("glib" ,glib)
("lapack" ,lapack)
+ ("scalapack" ,scalapack)
("libcap" ,libcap)
("libjpeg" ,libjpeg)
("libltdl" ,libltdl)
@@ -82,21 +97,26 @@
("mesa-utils" ,mesa-utils)
("python" ,python-2)
("freeimage" ,freeimage)
+ ("freeglut" ,freeglut)
("fftw" ,fftw)
("fftwf" ,fftwf)
("fftw-openmpi" ,fftw-openmpi)
("glew" ,glew)
("glu" ,glu)
("openblas" ,openblas)
- ("git" ,git)
+ ("wget" ,wget)
("cmake" ,cmake)))
(build-system cmake-build-system)
(arguments
- `(#:configure-flags '("-DCMAKE_BUILD_TYPE=Release" "-DBUILD_OPENCL=OFF" "-DBUILD_GRAPHICS=OFF") #:tests? #f))
+ `(#:configure-flags '("-DBUILD_OPENCL=ON" "-DBUILD_CUDA=OFF" "-DBUILD_GRAPHICS=OFF" "-DUSE_SYSTEM_BOOST_COMPUTE=ON" "-DUSE_SYSTEM_CLBLAS=ON" "-DUSE_SYSTEM_CLFFT=ON")
+ #:tests? #t))
(synopsis "ArrayFire: a general purpose GPU library. https://arrayfire.com")
- (description "ArrayFire is a high performance software library for parallel computing with an easy-to-use API. Its array based function set makes parallel programming simple.")
+ (description "ArrayFire is a high performance software library for parallel computing with an easy-to-use API. Its array based function set makes parallel programming simple.Now on Guix")
(home-page "http://arrayfire.com/")
- (license (list gpl2 gpl2+ gpl3 gpl3+)))))
+ (license (list license:gpl2
+ license:gpl2+
+ license:gpl3
+ license:gpl3+))))
(define-public glfw
(package
@@ -110,10 +130,12 @@
(base32
"08pixv8hd5xsccf7l8cqcijjqaq4k4da8qbp77wggal2fq445ika"))))
(build-system cmake-build-system)
- (arguments `(#:configure-flags '("-DBUILD_SHARED_LIBS=ON") #:tests? #f))
+ (arguments `(#:configure-flags '("-DBUILD_SHARED_LIBS=ON")
+ #:tests? #f))
(native-inputs `(("autoconf" ,autoconf)
("automake" ,automake)
("cmake" ,cmake)
+ ("git" ,git)
("libtool" ,libtool)
("libpthread-stubs" ,libpthread-stubs)
("pkg-config" ,pkg-config)))
@@ -136,5 +158,208 @@
(home-page "http://www.glfw.org/")
(synopsis "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
(description "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
- (license (list gpl2))))
+ (license (list license:gpl2))))
+
+(define-public clBLAS
+ (package
+ (name "clBLAS")
+ (version "v2.10")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "https://github.com/clMathLibraries/clBLAS/archive/"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "0adlb02lqzrklfybhnv4n0p37mvkvdi3vqiwa05x2mv05ywnr93j"))))
+ (build-system cmake-build-system)
+ (arguments `(#:tests? #f
+ #:configure-flags '("../clBLAS-2.10/src" "-DBUILD_SHARED_LIBS=ON" "-DCMAKE_BUILD_TYPE=Release" "-DBUILD_TEST=OFF")))
+ (native-inputs `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("cmake" ,cmake)
+ ("gfortran" ,gfortran)
+ ("libtool" ,libtool)
+ ("pkg-config" ,pkg-config)))
+ (inputs `(("curl" ,curl)
+ ("dbus" ,dbus)
+ ("boost" ,boost)
+ ("enca" ,enca)
+ ("eudev" ,eudev)
+ ("fftw-openmpi" ,fftw-openmpi)
+ ("glew" ,glew)
+ ("libcap" ,libcap)
+ ("libjpeg" ,libjpeg)
+ ("libltdl" ,libltdl)
+ ("libtiff" ,libtiff)
+ ("mesa-utils" ,mesa-utils)
+ ("openmpi" ,openmpi)
+ ("ocl-icd" ,ocl-icd)
+ ("opencl-headers" ,opencl-headers)
+ ("randrproto" ,randrproto)
+ ("libxrandr" ,libxrandr)
+ ("xineramaproto" ,xineramaproto)
+ ("libxinerama" ,libxinerama)
+ ("libxcursor" ,libxcursor)
+ ("python" ,python-2)))
+ (home-page "http://www.glfw.org/")
+ (synopsis "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
+ (description "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
+ (license (list license:gpl2))))
+
+(define-public clFFT
+ (package
+ (name "clFFT")
+ (version "v2.10.1")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "https://github.com/clMathLibraries/clFFT/archive/"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "19hrk1lf06kch8x9dpbdj0waycn2mldrmj2y4vzi7zn2gdfw6g73"))))
+ (build-system cmake-build-system)
+ (arguments `(#:configure-flags '("../clFFT-2.10.1/src" "-DBUILD_SHARED_LIBS=ON" "-DCMAKE_BUILD_TYPE=Release") #:tests? #f))
+ (native-inputs `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("cmake" ,cmake)
+ ("libtool" ,libtool)
+ ("pkg-config" ,pkg-config)))
+ (inputs `(("curl" ,curl)
+ ("dbus" ,dbus)
+ ("enca" ,enca)
+ ("eudev" ,eudev)
+ ("fftw-openmpi" ,fftw-openmpi)
+ ("glew" ,glew)
+ ("libcap" ,libcap)
+ ("libjpeg" ,libjpeg)
+ ("libltdl" ,libltdl)
+ ("libtiff" ,libtiff)
+ ("mesa-utils" ,mesa-utils)
+ ("openmpi" ,openmpi)
+ ("ocl-icd" ,ocl-icd)
+ ("opencl-headers" ,opencl-headers)
+ ("randrproto" ,randrproto)
+ ("libxrandr" ,libxrandr)
+ ("xineramaproto" ,xineramaproto)
+ ("libxinerama" ,libxinerama)
+ ("libxcursor" ,libxcursor)
+ ("python" ,python-2)))
+ (home-page "http://www.glfw.org/")
+ (synopsis "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
+ (description "glfw is an Open Source, multi-platform library for creating windows with OpenGL contexts and receiving input and events.")
+ (license (list license:gpl2))))
+
+(define-public compute
+ (package
+ (name "compute")
+ (version "v0.5")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "https://github.com/boostorg/compute/archive/"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "1r16zd1wdnn9gx278mkvr13k3i79hr35v6vj0fn7v3n92ngwxnhd"))))
+ (build-system cmake-build-system)
+ (arguments `(#:configure-flags '("-DBUILD_SHARED_LIBS=ON" "-DCMAKE_BUILD_TYPE=Release") #:tests? #f))
+ (native-inputs `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("cmake" ,cmake)
+ ("libtool" ,libtool)
+ ("pkg-config" ,pkg-config)))
+ (inputs `(("curl" ,curl)
+ ("dbus" ,dbus)
+ ("enca" ,enca)
+ ("eudev" ,eudev)
+ ("fftw-openmpi" ,fftw-openmpi)
+ ("glew" ,glew)
+ ("boost" ,boost)
+ ("libcap" ,libcap)
+ ("libjpeg" ,libjpeg)
+ ("libltdl" ,libltdl)
+ ("libtiff" ,libtiff)
+ ("mesa-utils" ,mesa-utils)
+ ("openmpi" ,openmpi)
+ ("opencl-headers" ,opencl-headers)
+ ("ocl-icd" ,ocl-icd)
+ ("randrproto" ,randrproto)
+ ("libxrandr" ,libxrandr)
+ ("xineramaproto" ,xineramaproto)
+ ("libxinerama" ,libxinerama)
+ ("libxcursor" ,libxcursor)
+ ("python" ,python-2)))
+ (home-page "http://boost.org")
+ (synopsis "Peer-reviewed portable C++ source libraries,BoostCompute")
+ (description "Peer-reviewed portable C++ source libraries,BoostCompute")
+ (license (list license:x11-style))))
+
+(define-public ocl-icd
+ (package
+ (name "ocl-icd")
+ (version "2.2.9")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "https://forge.imag.fr/frs/download.php/716/ocl-icd-"
+ version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1rgaixwnxmrq2aq4kcdvs0yx7i6krakarya9vqs7qwsv5hzc32hc"))))
+ (inputs `(("zip" ,zip)
+ ("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("ruby" ,ruby)
+ ("libtool" ,libtool)
+ ("opencl-headers" ,opencl-headers)
+ ("libgcrypt" ,libgcrypt)))
+ (build-system gnu-build-system)
+ (arguments
+ '(#:phases (modify-phases %standard-phases
+ (add-after 'unpack `bootstrap
+ (lambda _
+ (zero? (system* "autoreconf" "-vfi")))))))
+ (home-page "https://forge.imag.fr/projects/ocl-icd/")
+ (synopsis "OpenCL implementations are provided as ICD (Installable Client Driver).")
+ (description "OpenCL implementations are provided as ICD (Installable Client Driver).
+ An OpenCL program can use several ICD thanks to the use of an ICD Loader as provided by this project.
+ This free ICD Loader can load any (free or non free) ICD")
+ (license (list license:gpl2 license:ruby))))
+
+(define-public opencl-headers
+(let ((commit "c1770dc"))
+ (package
+ (name "opencl-headers")
+ (version (string-append "2.1-" commit ))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/KhronosGroup/OpenCL-Headers.git")
+ (commit commit)))
+ (file-name (string-append name "-" commit))
+ (sha256
+ (base32
+ "0m9fkblqja0686i2jjqiszvq3df95gp01a2674xknlmkd6525rck"))))
+ (propagated-inputs '())
+ (inputs '())
+ (native-inputs '())
+ (build-system gnu-build-system)
+ (arguments
+ '(#:phases
+ (modify-phases %standard-phases
+ (delete 'configure)
+ (delete 'build)
+ (delete 'check)
+ (replace 'install
+ (lambda* (#:key outputs #:allow-other-keys)
+ (copy-recursively "." (string-append
+ (assoc-ref outputs "out")
+ "/include/CL")))))))
+ (synopsis "The Khronos OpenCL headers")
+ (description "This package provides the Khronos OpenCL headers")
+ (home-page "https://www.khronos.org/registry/cl/")
+ (license (list license:gpl2)))))
+
+
+
+