gnu: Add HYPRE.
* gnu/packages/maths.scm (hypre, hypre-openmpi): New variables. * gnu/packages/patches/hypre-doc-tables.patch, gnu/packages/patches/hypre-ldflags.patch: New files. * gnu-system.am (dist_patch_DATA): Add them.
This commit is contained in:
Eric Bavier
parent
b4e655e5f1
commit
528bb46436
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@ -535,6 +535,8 @@ dist_patch_DATA = \
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gnu/packages/patches/hop-linker-flags.patch \
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gnu/packages/patches/hydra-automake-1.15.patch \
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gnu/packages/patches/hydra-disable-darcs-test.patch \
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gnu/packages/patches/hypre-doc-tables.patch \
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gnu/packages/patches/hypre-ldflags.patch \
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gnu/packages/patches/icecat-avoid-bundled-includes.patch \
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gnu/packages/patches/icecat-re-enable-DHE-cipher-suites.patch \
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gnu/packages/patches/icecat-update-bundled-graphite2.patch \
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@ -46,6 +46,7 @@
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#:use-module (gnu packages cmake)
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#:use-module (gnu packages compression)
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#:use-module (gnu packages curl)
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#:use-module (gnu packages documentation)
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#:use-module (gnu packages elf)
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#:use-module (gnu packages flex)
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#:use-module (gnu packages fltk)
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@ -65,6 +66,7 @@
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#:use-module (gnu packages m4)
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#:use-module (gnu packages mpi)
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#:use-module (gnu packages multiprecision)
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#:use-module (gnu packages netpbm)
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#:use-module (gnu packages pcre)
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#:use-module (gnu packages popt)
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#:use-module (gnu packages perl)
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@ -2158,3 +2160,116 @@ are built. It can generate many different fractal types such as the Mandelbrot
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set.")
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(home-page "http://www.gnu.org/software/xaos/")
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(license license:gpl2+)))
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(define-public hypre
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(package
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(name "hypre")
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(version "2.11.0")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/LLNL/hypre/archive/"
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"v" version ".tar.gz"))
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(file-name (string-append name "-" version ".tar.gz"))
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(sha256
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(base32
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"0q69ia0jivzcr8p049dn3mg8yjpn6nwq4sw9iqac8vr63vi54l6m"))
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(modules '((guix build utils)))
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(snippet
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'(begin
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;; Remove use of __DATE__ and __TIME__ for reproducibility;
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;; substitute the tarball creation time.
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(substitute* "src/utilities/HYPRE_utilities.h"
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(("Date Compiled: .*$")
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"Date Compiled: Mar 28 2016 20:19:59 +0000\"\n"))
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#t))))
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(build-system gnu-build-system)
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(outputs '("out" ;6.1 MiB of headers and libraries
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"doc")) ;4.8 MiB of documentation
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(native-inputs
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`(("doc++" ,doc++)
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("netpbm" ,netpbm)
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("texlive" ,texlive) ;full package required for fonts
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("ghostscript" ,ghostscript)))
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(inputs
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`(("blas" ,openblas)
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("lapack" ,lapack)))
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(arguments
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`(#:modules ((srfi srfi-1)
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,@%gnu-build-system-modules)
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#:configure-flags '("--enable-shared"
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"--disable-fortran"
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"--without-MPI"
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"--with-openmp"
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"--with-fei"
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"--with-lapack"
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"--with-blas")
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#:phases
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(modify-phases %standard-phases
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(add-before 'configure 'chdir-src
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(lambda _ (chdir "src")))
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(replace 'configure
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(lambda* (#:key build target configure-flags
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#:allow-other-keys #:rest args)
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(let* ((configure (assoc-ref %standard-phases 'configure)))
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(apply configure
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(append args
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(list #:configure-flags
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(cons (string-append
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"--host=" (or target build))
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configure-flags)))))))
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(add-after 'build 'build-docs
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(lambda _
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(zero? (system* "make" "-Cdocs" "pdf" "html"))))
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(replace 'check
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(lambda _
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(setenv "LD_LIBRARY_PATH" (string-append (getcwd) "/hypre/lib"))
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(setenv "PATH" (string-append "." ":" (getenv "PATH")))
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(and (system* "make" "check" "CHECKRUN=")
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(fold (lambda (filename result)
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(and result
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(let ((size (stat:size (stat filename))))
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(when (not (zero? size))
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(format #t "~a size ~d; error indication~%"
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filename size))
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(zero? size))))
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#t
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(find-files "test" ".*\\.err$")))))
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(add-after 'install 'install-docs
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(lambda* (#:key outputs #:allow-other-keys)
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;; Custom install because docs/Makefile doesn't honor ${docdir}.
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(let* ((doc (assoc-ref outputs "doc"))
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(docdir (string-append doc "/share/doc/hypre-" ,version)))
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(mkdir-p docdir)
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(with-directory-excursion "docs"
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(for-each (lambda (base)
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(install-file (string-append base ".pdf") docdir)
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(copy-recursively base docdir)) ;html docs
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'("HYPRE_usr_manual"
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"HYPRE_ref_manual")))
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#t))))))
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(home-page "http://www.llnl.gov/casc/hypre/")
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(synopsis "Library of solvers and preconditioners for linear equations")
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(description
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"HYPRE is a software library of high performance preconditioners and
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solvers for the solution of large, sparse linear systems of equations. It
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features multigrid solvers for both structured and unstructured grid
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problems.")
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(license license:lgpl2.1)))
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(define-public hypre-openmpi
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(package (inherit hypre)
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(name "hypre-openmpi")
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(inputs
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`(("mpi" ,openmpi)
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,@(package-inputs hypre)))
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(arguments
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(substitute-keyword-arguments (package-arguments hypre)
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((#:configure-flags flags)
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``("--with-MPI"
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,@(delete "--without-MPI" ,flags)))))
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(synopsis "Parallel solvers and preconditioners for linear equations")
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(description
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"HYPRE is a software library of high performance preconditioners and
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solvers for the solution of large, sparse linear systems of equations on
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parallel computers. It features parallel multigrid solvers for both
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structured and unstructured grid problems.")))
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@ -0,0 +1,25 @@
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Fixes doc++'s treatment of tabular within a parameter block.
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From commit 883925f8a at http://github.com/LLNL/hypre
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--- hypre-2.10.1/src/parcsr_ls/HYPRE_parcsr_ls.h 2015-12-04 22:12:19.000000000 -0600
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+++ hypre-2.10.1/src/parcsr_ls/HYPRE_parcsr_ls.h 2016-03-16 09:02:58.547501336 -0500
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@@ -1154,8 +1154,6 @@
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* Set the symmetry parameter for the
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* ParaSails preconditioner.
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*
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- * @param solver [IN] Preconditioner object for which to set symmetry parameter.
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- * @param sym [IN] Value of the symmetry parameter:
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* \begin{tabular}{|c|l|} \hline
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* value & meaning \\ \hline
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* 0 & nonsymmetric and/or indefinite problem, and nonsymmetric preconditioner\\
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@@ -1163,6 +1161,9 @@
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* 2 & nonsymmetric, definite problem, and SPD (factored) preconditioner \\
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* \hline
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* \end{tabular}
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+ *
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+ * @param solver [IN] Preconditioner object for which to set symmetry parameter.
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+ * @param sym [IN] Value of the symmetry parameter:
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**/
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HYPRE_Int HYPRE_ParaSailsSetSym(HYPRE_Solver solver,
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HYPRE_Int sym);
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@ -0,0 +1,9 @@
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--- hypre-2.10.1/src/lib/Makefile.orig 2016-03-11 16:04:03.740259228 -0600
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+++ hypre-2.10.1/src/lib/Makefile 2016-03-11 16:04:57.296260190 -0600
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@@ -107,5 +107,5 @@
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libHYPRE.so: ${FILES_HYPRE}
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@echo "Building $@ ... "
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- ${BUILD_CC_SHARED} -o ${SONAME} ${FILES_HYPRE} ${SOLIBS} ${SHARED_SET_SONAME}${SONAME} ${SHARED_OPTIONS}
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+ ${BUILD_CC_SHARED} ${LDFLAGS} -o ${SONAME} ${FILES_HYPRE} ${SOLIBS} ${SHARED_SET_SONAME}${SONAME} ${SHARED_OPTIONS}
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ln -s ${SONAME} $@
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