[gentoo-commits] gentoo-x86 commit in sci-libs/hdf5: hdf5-1.6.2.ebuild ChangeLog hdf5-1.6.4.ebuild hdf5-1.6.5-r1.ebuild hdf5-1.6.5.ebuild hdf5-1.6.6.ebuild

[Steve Arnold (nerdboy)]

nerdboy     07/12/03 07:21:53

  Modified:             hdf5-1.6.2.ebuild ChangeLog hdf5-1.6.4.ebuild
                        hdf5-1.6.5-r1.ebuild hdf5-1.6.5.ebuild
  Added:                hdf5-1.6.6.ebuild
  Log:
  updated to latest upstream release with pvfs2 support and shared lib fixes
  (Portage version: 2.1.4_rc1)

Revision  Changes    Path
1.6                  sci-libs/hdf5/hdf5-1.6.2.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild?r1=1.5&r2=1.6

Index: hdf5-1.6.2.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- hdf5-1.6.2.ebuild	21 May 2006 21:44:41 -0000	1.5
+++ hdf5-1.6.2.ebuild	3 Dec 2007 07:21:53 -0000	1.6
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2007 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild,v 1.5 2006/05/21 21:44:41 nerdboy Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.2.ebuild,v 1.6 2007/12/03 07:21:53 nerdboy Exp $
 
 inherit eutils
 
@@ -57,6 +57,6 @@
 		infodir=${D}/usr/share/info \
 		install || die "make install failed"
 
-	dodoc README.txt COPYING MANIFEST
+	dodoc README.txt MANIFEST
 	dohtml doc/html/*
 }



1.19                 sci-libs/hdf5/ChangeLog

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/ChangeLog?rev=1.19&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/ChangeLog?rev=1.19&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/ChangeLog?r1=1.18&r2=1.19

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-libs/hdf5/ChangeLog,v
retrieving revision 1.18
retrieving revision 1.19
diff -u -r1.18 -r1.19
--- ChangeLog	1 Nov 2006 00:49:30 -0000	1.18
+++ ChangeLog	3 Dec 2007 07:21:53 -0000	1.19
@@ -1,6 +1,15 @@
 # ChangeLog for sci-libs/hdf5
-# Copyright 2002-2006 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/ChangeLog,v 1.18 2006/11/01 00:49:30 dberkholz Exp $
+# Copyright 2002-2007 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/ChangeLog,v 1.19 2007/12/03 07:21:53 nerdboy Exp $
+
+*hdf5-1.6.6 (03 Dec 2007)
+
+  03 Dec 2007; Steve Arnold <nerdboy@g.o> +files/hdf5-mpich2.patch,
+  +hdf5-1.6.6.ebuild:
+  Updated to latest upstream release, with mpi fixes, however, this version
+  is locked to mpich2-1.0.6 due to pvfs2, however, sparc is dropped until
+  the parallel I/O thing is worked out with other MPI libs.
+  Tests work, including mpi (but needs testing in a real cluster).
 
   01 Nov 2006; Donnie Berkholz <dberkholz@g.o>; ChangeLog:
   Update for my nick change spyderous -> dberkholz.



1.9                  sci-libs/hdf5/hdf5-1.6.4.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild?rev=1.9&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild?rev=1.9&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild?r1=1.8&r2=1.9

Index: hdf5-1.6.4.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- hdf5-1.6.4.ebuild	26 Jun 2007 02:43:01 -0000	1.8
+++ hdf5-1.6.4.ebuild	3 Dec 2007 07:21:53 -0000	1.9
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2007 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild,v 1.8 2007/06/26 02:43:01 mr_bones_ Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.4.ebuild,v 1.9 2007/12/03 07:21:53 nerdboy Exp $
 
 inherit eutils
 
@@ -64,6 +64,6 @@
 		infodir=${D}/usr/share/info \
 		install || die "make install failed"
 
-	dodoc README.txt COPYING MANIFEST
+	dodoc README.txt MANIFEST
 	dohtml doc/html/*
 }



1.4                  sci-libs/hdf5/hdf5-1.6.5-r1.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild?r1=1.3&r2=1.4

Index: hdf5-1.6.5-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- hdf5-1.6.5-r1.ebuild	13 Jul 2006 05:05:56 -0000	1.3
+++ hdf5-1.6.5-r1.ebuild	3 Dec 2007 07:21:53 -0000	1.4
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2007 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild,v 1.3 2006/07/13 05:05:56 nerdboy Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5-r1.ebuild,v 1.4 2007/12/03 07:21:53 nerdboy Exp $
 
 inherit fortran eutils toolchain-funcs
 
@@ -161,7 +161,7 @@
 	fi
 
 	dobin ${S}/bin/iostats || die "dobin failed"
-	dodoc README.txt COPYING MANIFEST
+	dodoc README.txt MANIFEST
 	dohtml doc/html/*
 
 	if use mpi ; then



1.4                  sci-libs/hdf5/hdf5-1.6.5.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild?r1=1.3&r2=1.4

Index: hdf5-1.6.5.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- hdf5-1.6.5.ebuild	24 Jun 2006 16:13:48 -0000	1.3
+++ hdf5-1.6.5.ebuild	3 Dec 2007 07:21:53 -0000	1.4
@@ -1,6 +1,6 @@
-# Copyright 1999-2006 Gentoo Foundation
+# Copyright 1999-2007 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild,v 1.3 2006/06/24 16:13:48 nerdboy Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.5.ebuild,v 1.4 2007/12/03 07:21:53 nerdboy Exp $
 
 inherit eutils
 
@@ -77,7 +77,7 @@
 
 	dobin ${S}/bin/iostats || die "dobin failed"
 
-	dodoc README.txt COPYING MANIFEST
+	dodoc README.txt MANIFEST
 	dohtml doc/html/*
 
 	if use mpi ; then



1.1                  sci-libs/hdf5/hdf5-1.6.6.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.6.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/hdf5/hdf5-1.6.6.ebuild?rev=1.1&content-type=text/plain

Index: hdf5-1.6.6.ebuild
===================================================================
# Copyright 1999-2007 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.6.ebuild,v 1.1 2007/12/03 07:21:53 nerdboy Exp $

inherit eutils flag-o-matic fortran toolchain-funcs

DESCRIPTION="General purpose library and file format for storing scientific data"
HOMEPAGE="http://hdf.ncsa.uiuc.edu/HDF5/"
SRC_URI="ftp://ftp.hdfgroup.org/HDF5/current/src/${P}.tar.gz"

LICENSE="NCSA-HDF"
SLOT="0"
KEYWORDS="~amd64 ~ppc ~ppc64 ~x86"
# need to update szip to get alpha, ia64, etc back in here,
IUSE="cxx debug fortran mpi ssl szip threads zlib "

DEPEND="mpi? ( >=sys-cluster/mpich2-1.0.6
		net-fs/nfs-utils )
	ssl? ( dev-libs/openssl )
	szip? ( sci-libs/szip )
	zlib? ( sys-libs/zlib )
	threads? ( virtual/libc )
	sys-devel/gcc
	sys-apps/coreutils
	sys-apps/which
	sys-process/time"

RDEPEND="${DEPEND}
	dev-lang/perl"

pkg_setup() {
	# The above gcc dep is a hack to insure at least one Fortran 90
	# compiler is installed if the user enables fortran support.  Feel
	# free to improve it...
	if use fortran ; then
	    if [ $(gcc-major-version) -ge 4 ] \
		&& built_with_use sys-devel/gcc fortran ; then
	    	    FORTRAN="gfortran"
		    fortran_pkg_setup
		    export F9X="gfortran"
		    einfo "Configuring for GNU gfortran..."
	    elif
		test -d /opt/intel/fortran90 ; then
		    FORTRAN="ifc"
		    fortran_pkg_setup
		    export F9X="ifc"
		    einfo "Configuring for Intel fortran..."
	    else
		einfo "No F90 compiler found; please install either gcc 4 with"
		einfo "fortran support or some other Fortran 90 compiler such"
		einfo "as ifc or pgf90 (or disable fortran support)."
		die "No usable Fortran 90 compiler found."
	    fi
	fi
	if use mpi && ! built_with_use sys-cluster/mpich2 pvfs2 ; then
	    ewarn "Your MPI library needs parallel IO support for HDF5. You"
	    ewarn "must re-emerge mpich2 with USE=pvfs2."
	    die "requires parallel IO support"
	fi
}

src_unpack() {
	unpack "${A}"
	cd "${S}"

	if use mpi; then
	    # this is required for mpich2, and should be safe otherwise
	    epatch "${FILESDIR}/${PN}-mpich2.patch" || die "mpich2 patch failed"
	fi

	sed -i -e "s/tail +/tail -n +/" "${S}"/bin/release \
		"${S}"/tools/h5dump/testh5dump.sh.in

}

src_compile() {
	local myconf="--with-pic --enable-shared"

	if use cxx && ! use mpi ; then
	    myconf="${myconf} --enable-cxx"
	elif use cxx && use mpi ; then
	    ewarn "C++ support is not compatible with the mpi interface."
	    die "Please disable either cxx or mpi."
	else
	    myconf="${myconf} --disable-cxx"
	fi

	if use fortran && use mpi ; then
	    ewarn "Requires Fortran 90 support in your mpi library..."
	    myconf="${myconf} --enable-fortran --enable-parallel"
	fi

	use threads && myconf="${myconf} --with-pthread --enable-threadsafe"

	if use debug; then
	    myconf="${myconf} --enable-debug=all"
	else
	    myconf="${myconf} --enable-production"
	fi

	# NOTE: the hdf5 configure script has its own interpretation of
	# the ARCH environment variable which conflicts with that of
	# ebuild/emerge. As a work around, we save the ARCH variable as
	# EBUILD_ARCH and restore it when we are done.
	EBUILD_ARCH="${ARCH}"
	unset ARCH

	if use mpi ; then
	    export NPROCS=1
	    export CC="mpicc"
	    export F9X="mpif90"
	    export LIBS="$(sh pvfs2-config --libs) -lmpich"
	    if built_with_use sys-cluster/mpich2 mpe ; then
		myconf="${myconf} --with-mpe=/usr/include,/usr/$(get_libdir)"
	    fi
	    append-ldflags "${LIBS}"
	fi

	./configure --prefix=/usr "${myconf}" \
		$(use_enable zlib) \
		$(use_with ssl) \
		--enable-linux-lfs  \
		--sysconfdir=/etc \
		--infodir=/usr/share/info \
		--libdir=/usr/$(get_libdir) \
		--mandir=/usr/share/man || die "configure failed"

	# restore the ARCH environment variable
	ARCH="${EBUILD_ARCH}"

	# emake has occasional segfaults
	make || die "make failed"
}

src_test() {
	# make test is not reliable, and the mpi tests have a weird failure
	export HDF5_Make_Ignore=yes
	if use mpi ; then
	    export HDF5_PARAPREFIX="${S}/testpar"
	    export CC="/usr/bin/mpicc"
	    install -g portage -o portage -m 0600 "${FILESDIR}"/mpd.conf "${HOME}"/.mpd.conf
	    /usr/bin/mpd --daemon
	fi
	make check || die "make test failed"
	use mpi && /usr/bin/mpdallexit
	export HDF5_Make_Ignore=no
}

src_install() {
	make \
		prefix="${D}"usr \
		mandir="${D}"usr/share/man \
		docdir="${D}"usr/share/doc/"${PF}" \
		libdir="${D}"usr/$(get_libdir) \
		infodir="${D}usr"/share/info \
		install || die "make install failed"

	dolib.a "${S}"/tools/lib/.libs/libh5tools.a \
	    "${S}"/test/.libs/libh5test.a || die "dolib.a failed"
	insinto /usr/$(get_libdir)
	doins "${S}"/tools/lib/libh5tools.la \
	    "${S}"/test/libh5test.la || die "doins failed"
	dolib.so" ${S}"/test/.libs/lib*so* || die "dolib.so failed"

	exeinto /usr/bin
	newexe "${S}"/bin/iostats iostats.pl || die "newexe failed"

	dodoc README.txt MANIFEST
	dohtml doc/html/*

	if use mpi ; then
	    mv "${D}"usr/bin/h5pcc "${D}"usr/bin/h5cc
	fi
	if use fortran ; then
	    mv "${D}"usr/bin/h5pfc "${D}"usr/bin/h5fc
	fi
	# change the SHLIB default for C
	dosed "s/SHLIB:-no/SHLIB:-yes/g" "${D}"usr/bin/h5cc || die "dosed failed"
}

pkg_postinst() {
	elog
	elog "There are currently 2 non-fatal test errors in the mpi tests,"
	elog "however, all C++, Fortran, and other tests pass successfully."
	elog "The only expected failure is currently in the PHDF5 section"
	elog "under MPI functionality tests. The second section using the"
	elog "MPIPOSIX driver should work, along with all other tests."
	elog
	elog "Suggested USE flags for fortran and mpi support using gfortran:"
	elog "USE=\"fortran mpi -cxx\""
	elog
	ewarn "Note 1: currently testing pvfs2 support (with mpi).  Please"
	ewarn "report any problems in the usual way."
	elog
	ewarn "Note 2: you'll need rawio support enabled in your kernel or"
	ewarn "certain asynchronous IO operations will fail.  Either enable"
	ewarn "the RAW driver (under Character Devices) or patch your kernel"
	ewarn "with the new PAIO drivers and use libposix-aio.  See both:"
	ewarn "http://sourceforge.net/projects/paiol  and"
	ewarn "http://www.bullopensource.org/posix  for more info."
	elog
}



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