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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/pocl.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/pocl.scm')
-rw-r--r--gn/packages/pocl.scm249
1 files changed, 239 insertions, 10 deletions
diff --git a/gn/packages/pocl.scm b/gn/packages/pocl.scm
index c5cb8cb..7d61526 100644
--- a/gn/packages/pocl.scm
+++ b/gn/packages/pocl.scm
@@ -20,14 +20,21 @@
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix git-download)
#:use-module (guix download)
+ #:use-module (guix utils)
+ #:use-module (guix build-system gnu)
#:use-module (guix build-system cmake)
#:use-module (guix packages)
+ #:use-module (gnu packages)
+ #:use-module (srfi srfi-1)
#:use-module (gnu packages algebra)
#:use-module (gnu packages autotools)
#:use-module (gnu packages curl)
#:use-module (gnu packages boost)
+ #:use-module (gnu packages bootstrap)
+ #:use-module (gnu packages base)
#:use-module (gnu packages gawk)
#:use-module (gnu packages cmake)
+ #:use-module (gnu packages gcc)
#:use-module (gnu packages glib)
#:use-module (gnu packages image)
#:use-module (gnu packages video)
@@ -38,13 +45,18 @@
#:use-module (gnu packages maths)
#:use-module (gnu packages mpi)
#:use-module (gnu packages web)
+ #:use-module (gnu packages perl)
#:use-module (gnu packages python)
#:use-module (gnu packages xorg)
- #:use-module (gnu packages version-control)
+ #:use-module (gnu packages xml)
+ #:use-module (gnu packages version-control)
+ #:use-module (gnu packages ruby)
+ #:use-module (gnu packages gnupg)
+ #:use-module ((gnu packages zip) #:prefix gnuzip:)
#:use-module (gnu packages linux))
(define-public pocl
-(let ((commit "a6f377a"))
+(let ((commit "7aefc52"))
(package
(name "pocl")
(version (string-append "v09rc-" commit ))
@@ -56,7 +68,7 @@
(file-name (string-append name "-" commit))
(sha256
(base32
- "0b1y8c2y0xx5sqfpkkvgmp02czgmq5immypgm4hhpmp512hcj38j"))))
+ "03wbcxkx1w5kx0crangsnah0xq218bhb99vglmn00wcjhhw80qim"))))
(native-inputs `(("autoconf" ,autoconf)
("automake" ,automake)
("libtool" ,libtool)
@@ -65,8 +77,8 @@
(inputs `(("python" ,python-2)
("boost" ,boost)
("dbus" ,dbus)
- ("clang" ,clang)
- ("clang-runtime" ,clang-runtime)
+ ("clang" ,clang-3.7.1)
+ ("clang-runtime" ,clang-runtime-3.7.1)
("enca" ,enca)
("eudev" ,eudev)
("fftw-openmpi" ,fftw-openmpi)
@@ -76,19 +88,28 @@
("libjpeg" ,libjpeg)
("libltdl" ,libltdl)
("libtiff" ,libtiff)
- ("llvm" ,llvm)
+ ("llvm" ,llvm-3.7.1)
+ ("ocl-icd" ,ocl-icd)
+ ("opencl-headers" ,opencl-headers)
("mesa-utils" ,mesa-utils)
("openmpi" ,openmpi)
+ ("perl" ,perl)
("randrproto" ,randrproto)
("libxrandr" ,libxrandr)
("xineramaproto" ,xineramaproto)
("libxinerama" ,libxinerama)
("libxcursor" ,libxcursor)
("fftw-openmpi" ,fftw-openmpi)))
- (build-system cmake-build-system)
- (arguments
- `(#:configure-flags '("-DCMAKE_BUILD_TYPE=Release" "-DBUILD_SHARED_LIBS=ON")
- #:tests? #f))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:configure-flags '("--enable-icd")
+ #:tests? #f
+ #:phases
+ (modify-phases %standard-phases
+ (add-before
+ 'configure 'rewrite-usr-bin
+ (lambda _
+ (zero? (system* "./autogen.sh")))))))
(synopsis "pocl: Portable Computing Language (pocl) aims to become a MIT-licensed
open source implementation of the OpenCL standard which can be easily adapted for
new targets and devices, both for homogeneous CPU and heterogenous GPUs/accelerators.")
@@ -97,3 +118,211 @@
new targets and devices, both for homogeneous CPU and heterogenous GPUs/accelerators.")
(home-page "http://portablecl.org/")
(license license:gpl2))))
+
+(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" ,gnuzip: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 license:gpl2)))
+
+ (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 license:gpl2))))
+
+(define (clang-runtime-from-llvm llvm hash)
+ (package
+ (name "clang-runtime")
+ (version (package-version llvm-3.7.1))
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append "http://llvm.org/releases/"
+ version "/compiler-rt-" version ".src.tar.xz"))
+ (sha256
+ (base32
+ "10c1mz2q4bdq9bqfgr3dirc6hz1h3sq8573srd5q5lr7m7j6jiwx"))))
+ (build-system cmake-build-system)
+ (native-inputs (package-native-inputs llvm))
+ (inputs
+ `(("llvm" ,llvm)))
+ (arguments
+ `(;; Don't use '-g' during the build to save space.
+ #:build-type "Release"))
+
+ (home-page "http://compiler-rt.llvm.org")
+ (synopsis "Runtime library for Clang/LLVM")
+ (description
+ "The \"clang-runtime\" library provides the implementations of run-time
+functions for C and C++ programs. It also provides header files that allow C
+and C++ source code to interface with the \"sanitization\" passes of the clang
+compiler. In LLVM this library is called \"compiler-rt\".")
+ (license license:ncsa)
+
+ ;; <http://compiler-rt.llvm.org/> doesn't list MIPS as supported.
+ (supported-systems (delete "mips64el-linux" %supported-systems))))
+
+(define (clang-from-llvm llvm clang-runtime hash)
+ (package
+ (name "clang")
+ (version (package-version llvm-3.7.1))
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append "http://llvm.org/releases/"
+ version "/cfe-" version ".src.tar.xz"))
+ (sha256
+ (base32
+ "0x065d0w9b51xvdjxwfzjxng0gzpbx45fgiaxpap45ragi61dqjn"))
+ (patches (list (search-patch "clang-libc-search-path.patch")))))
+ ;; Using cmake allows us to treat llvm as an external library. There
+ ;; doesn't seem to be any way to do this with clang's autotools-based
+ ;; build system.
+ (build-system cmake-build-system)
+ (native-inputs (package-native-inputs llvm))
+ (inputs
+ `(("libxml2" ,libxml2)
+ ("libstdc++-4.9", libstdc++-4.9)
+ ("python" ,python-2)
+ ("gcc-lib" ,gcc "lib")
+ ,@(package-inputs llvm)))
+ (propagated-inputs
+ `(("llvm" ,llvm)
+ ("clang-runtime" ,clang-runtime)))
+ (arguments
+ `(#:configure-flags
+ (list "-DCLANG_INCLUDE_TESTS=True"
+
+ ;; Find libgcc_s, crtbegin.o, and crtend.o.
+ (string-append "-DGCC_INSTALL_PREFIX="
+ (assoc-ref %build-inputs "gcc-lib"))
+
+ ;; Use a sane default include directory.
+ (string-append "-DC_INCLUDE_DIRS="
+ (assoc-ref %build-inputs "libc")
+ "/include"))
+
+ ;; Don't use '-g' during the build to save space.
+ #:build-type "Release"
+
+ #:phases (modify-phases %standard-phases
+ (add-after
+ 'unpack 'set-glibc-file-names
+ (lambda* (#:key inputs #:allow-other-keys)
+ (let ((libc (assoc-ref inputs "libc"))
+ (compiler-rt (assoc-ref inputs "clang-runtime")))
+ (substitute* "lib/Driver/Tools.cpp"
+ ;; Patch the 'getLinuxDynamicLinker' function to that
+ ;; it uses the right dynamic linker file name.
+ (("/lib64/ld-linux-x86-64.so.2")
+ (string-append libc
+ ,(glibc-dynamic-linker)))
+
+ ;; Link to libclang_rt files from clang-runtime.
+ (("TC\\.getDriver\\(\\)\\.ResourceDir")
+ (string-append "\"" compiler-rt "\"")))
+
+ ;; Same for libc's libdir, to allow crt1.o & co. to be
+ ;; found.
+ (substitute* "lib/Driver/ToolChains.cpp"
+ (("@GLIBC_LIBDIR@")
+ (string-append libc "/lib")))))))))
+
+ ;; Clang supports the same environment variables as GCC.
+ (native-search-paths
+ (list (search-path-specification
+ (variable "CPATH")
+ (files '("include")))
+ (search-path-specification
+ (variable "LIBRARY_PATH")
+ (files '("lib" "lib64")))))
+
+ (home-page "http://clang.llvm.org")
+ (synopsis "C language family frontend for LLVM")
+ (description
+ "Clang is a compiler front end for the C, C++, Objective-C and
+Objective-C++ programming languages. It uses LLVM as its back end. The Clang
+project includes the Clang front end, the Clang static analyzer, and several
+code analysis tools.")
+ (license license:ncsa)))
+
+(define-public llvm-3.7.1
+ (package (inherit llvm)
+ (version "3.7.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append "http://llvm.org/releases/"
+ version "/llvm-" version ".src.tar.xz"))
+ (sha256
+ (base32
+ "1masakdp9g2dan1yrazg7md5am2vacbkb3nahb3dchpc1knr8xxy"))))))
+
+(define-public clang-runtime-3.7.1
+ (clang-runtime-from-llvm
+ llvm-3.7.1
+ "0dl1kbrhz96djsxqr61iw5h788s7ncfpfb7aayixky1bhdaydcx4"))
+
+(define-public clang-3.7.1
+ (clang-from-llvm llvm clang-runtime
+ "12yv3jwdjcbkrx7zjm8wh4jrvb59v8fdw4mnmz3zc1jb00p9k07w"))
+
+
+
+
+