Version bump and replaced 'which' with 'type -p'. Removed obsolete ebuild.

Package-Manager: portage-2.2_rc8/cvs/Linux 2.6.26-SENTINEL-2 i686

4 files changed, 262 insertions, 103 deletions

diff --git a/sci-libs/hdf5/ChangeLog b/sci-libs/hdf5/ChangeLog
index b43f6970ed8e..2e0c9eed76a6 100644
--- a/sci-libs/hdf5/ChangeLog
+++ b/sci-libs/hdf5/ChangeLog
@@ -1,6 +1,13 @@
 # ChangeLog for sci-libs/hdf5
 # Copyright 2002-2008 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/ChangeLog,v 1.30 2008/08/07 07:09:18 ulm Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/ChangeLog,v 1.31 2008/08/17 15:25:52 markusle Exp $
+
+*hdf5-1.6.7 (17 Aug 2008)
+
+  17 Aug 2008; Markus Dittrich <markusle@gentoo.org> -hdf5-1.6.5.ebuild,
+  +hdf5-1.6.7.ebuild:
+  Version bump and replaced "which" with "type -p". Removed obsolete
+  ebuild.
 
   07 Aug 2008; Ulrich Mueller <ulm@gentoo.org> metadata.xml:
   Add USE flag description to metadata wrt GLEP 56.
diff --git a/sci-libs/hdf5/Manifest b/sci-libs/hdf5/Manifest
index 0e8abf131311..be30661fc5bb 100644
--- a/sci-libs/hdf5/Manifest
+++ b/sci-libs/hdf5/Manifest
@@ -1,6 +1,3 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
 AUX hdf5-1.6.6-gcc4.3.patch 355 RMD160 109811c4e4d434bfa09ea156e67623e50b0f89a5 SHA1 c0fe43c262723e117572b687d9f3c94910e4fddc SHA256 ca1a16f1df4c58410001ca4b06886f9df47b475100078c5e9208ff7a21ca22c1
 AUX hdf5-mpich2.patch 488 RMD160 f8ab476eed88267c4b79cc56ae683dc485255921 SHA1 a3f7ee6a2f682982d8a562bcc117c7fc09b69224 SHA256 a154a32a7b6dbc8edac7c72f1a6100b9f0532d2f9591681f505e949b0db6a1e5
 AUX mpd.conf 48 RMD160 289de9bb40759e3f71229cf47e4d2af83703a85f SHA1 244eee76dbf4ff269e4489d5cc7c3577c6c1fa6b SHA256 ae740cacaf2cb798921cb2092f5af98de67445e27af3f88858f3e6d2bbb127f4
@@ -8,17 +5,11 @@ DIST hdf5-1.6.2.tar.gz 3879147 RMD160 75678e8859e783dbb274cdabee3d916724c46780 S
 DIST hdf5-1.6.4.tar.gz 4862437 RMD160 8175af3153bb0a5a1278c01af2d3940f4fd5084f SHA1 e419e81097b8093d16d96708b764bd85db053e86 SHA256 11ab0d81575f333067ae091d39c28fbf446c8ecafdfe70cf92b3c35ceffbfc97
 DIST hdf5-1.6.5.tar.gz 4930666 RMD160 70db16a832f77aa6d0c97da517353665304b7b27 SHA1 c5b7b375c0eb23dcab0c66d39b1b06c263048546 SHA256 85b7cfc1e34db544fa93f5bf7effe189a5e1eb97f0cfa7b212adc11915a756b2
 DIST hdf5-1.6.6.tar.gz 5299558 RMD160 e7cf3f8d6aa5f34ef10cabf650ed43d644e54f1b SHA1 c8a9ec598cf0debb694a1d7034fd85bbd67f173b SHA256 432d02f2d6988999d3d18caa6680af3cef14c8a7537c98e7adbaa8f873fba2a7
+DIST hdf5-1.6.7.tar.gz 5299219 RMD160 2dbbcccd32986dcd66ce804c5e90ac6c949b71f6 SHA1 9c26fe09cdad269c9a6757933f70ca164a47b8e8 SHA256 9d9a98204f8c7d82f767f27f84db2520c04f5c73a4a6348c781a0d91a296e9a2
 EBUILD hdf5-1.6.2.ebuild 1837 RMD160 2c7e527ade607fd3d98222787db400bc86c28d37 SHA1 a1b5e54d886d09074665512428c7a1ea23f28437 SHA256 612db1a50d632dd5b0d1c63d557888c4e5765a0debf774552443cdb1dde3a49c
 EBUILD hdf5-1.6.4.ebuild 2098 RMD160 348a6f05d7677e372688ca5ecdcdea36c90df7c9 SHA1 aaeed445389bad0630f518e0778f900af9614fb1 SHA256 469176113ea60bc95a7efa63ca24e6d53baeab71660a44eaa23088fedfd911af
 EBUILD hdf5-1.6.5-r1.ebuild 6638 RMD160 b19d0ec9f56fa0ba1423a494798ab79bccc1380d SHA1 ca0a6106c94fd1745e6852b89f4e119d7d10f461 SHA256 c59e90e1383173906eb59d78bb48a57acebc94530e596501db8f6d5ee8268226
-EBUILD hdf5-1.6.5.ebuild 2718 RMD160 34c64e74f0a39be11afe0615d6e012e4bac06527 SHA1 56b099effc664f6d31d84c64163bb86d0e049f59 SHA256 7709f6054d0ecbda3f246315d850b9d7d8d455b7006652591e19da0e073176de
 EBUILD hdf5-1.6.6.ebuild 7810 RMD160 784379ad99dc84c2e28d16a87ff7fb3c295638a9 SHA1 e2a8e1a58f51746a0bf0983b4ae8ec5042becf11 SHA256 1c80d372ddefb8308ec0282f36a5f430dec2096fee79eb23af94a11d244cc0d6
-MISC ChangeLog 7748 RMD160 a4c6839b879f56c30196dd546427e6c6bfae6c7f SHA1 270e0e3eb7e48e56d9ae29e204572aa5c993e11b SHA256 7a6ef2ea6a3fcb63e1538f9f8b71e4d8db5c319b7e0e084d328b1d639f942cda
+EBUILD hdf5-1.6.7.ebuild 7806 RMD160 5fdc949f7642bf81289ce982cd1583f3fe7d1d0a SHA1 d29943a803d68039e01591192d6bb997b1da27a6 SHA256 bdd50b92f02e030c80cf22cb416645a5b3558080b6a2dcabe20cfd6d76c3ab8a
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 MISC metadata.xml 360 RMD160 a2917233c5a10f6639fb8c4a295609852c2be473 SHA1 6629277bccaaeb0a3bec1720cd1641afb5570e56 SHA256 a6024d09f6d50aba588c4d121e1dcc16659fc4c5df28f9667f0e32b9809b809c
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diff --git a/sci-libs/hdf5/hdf5-1.6.5.ebuild b/sci-libs/hdf5/hdf5-1.6.5.ebuild
deleted file mode 100644
index 4c27cb12bf68..000000000000
--- a/sci-libs/hdf5/hdf5-1.6.5.ebuild
+++ /dev/null
@@ -1,90 +0,0 @@
-# Copyright 1999-2008 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 1.6 2008/02/04 07:58:32 nerdboy Exp $
-
-inherit eutils
-
-DESCRIPTION="General purpose library and file format for storing scientific data"
-HOMEPAGE="http://hdf.ncsa.uiuc.edu/HDF5/"
-SRC_URI="ftp://ftp.ncsa.uiuc.edu/HDF/HDF5/current/src/${P}.tar.gz"
-
-LICENSE="NCSA-HDF"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~ppc64 ~sparc ~x86"
-# need to update szip to get sparc, alpha, and ia64 back in here,
-# as well as work out the mpi issues
-IUSE="static zlib ssl mpi hlapi szip threads debug"
-
-DEPEND="zlib? ( sys-libs/zlib )
-		szip? ( sci-libs/szip )
-		mpi? ( virtual/mpi )"
-
-src_compile() {
-	local myconf="--with-pic"
-
-	#--disable-static conflicts with --enable-cxx, so we have to do either or
-	use static && myconf="${myconf} --enable-cxx" || \
-	    myconf="${myconf} --disable-static"
-	# fortran needs f90 support
-	#myconf="${myconf} $(use_enable fortran)"
-	use threads && myconf="${myconf} --with-pthread"
-	use debug && myconf="${myconf} --enable-debug=all"
-	use mpi && myconf="${myconf} --enable-parallel --disable-cxx"
-	use hlapi || myconf="${myconf} --disable-hl"
-
-	# NOTE: the hdf5 configure script has its own interpretation of
-	# the ARCH environment variable which conflicts with that of
-	# ebuild/emerge. As a work around, we save the ARCH variable as
-	# EBUILD_ARCH and restore it when we are done.
-	EBUILD_ARCH=${ARCH}
-	unset ARCH
-
-	if use mpi ; then
-	    export CC="/usr/bin/mpicc"
-	fi
-	./configure --prefix=/usr ${myconf} \
-		$(use_enable zlib) \
-		$(use_with ssl) \
-		--enable-linux-lfs  \
-		--sysconfdir=/etc \
-		--infodir=/usr/share/info \
-		--mandir=/usr/share/man || die "configure failed"
-
-	# restore the ARCH environment variable
-	ARCH=${EBUILD_ARCH}
-
-	make || die "make failed"
-}
-
-src_install() {
-	make \
-		prefix="${D}"/usr \
-		mandir="${D}"/usr/share/man \
-		docdir="${D}"/usr/share/doc/${PF} \
-		libdir="${D}"/usr/$(get_libdir)/ \
-		infodir="${D}"/usr/share/info \
-		install || die "make install failed"
-
-	dolib.so "${S}"/test/.libs/lib*so* || die "dolib.so failed"
-
-	if use static ; then
-	    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 \
-		"${S}"/test/libh5test.la || die "doins failed"
-	fi
-
-	dobin "${S}"/bin/iostats || die "dobin failed"
-
-	dodoc README.txt MANIFEST
-	dohtml doc/html/*
-
-	if use mpi ; then
-	    mv "${D}"usr/bin/h5pcc "${D}"usr/bin/h5cc
-	fi
-	# change the SHLIB default for C
-	if ! use static ; then
-	    dosed "s/SHLIB:-no/SHLIB:-yes/g" "${D}"usr/bin/h5cc || die "dosed failed"
-	fi
-}
diff --git a/sci-libs/hdf5/hdf5-1.6.7.ebuild b/sci-libs/hdf5/hdf5-1.6.7.ebuild
new file mode 100644
index 000000000000..c621de7777af
--- /dev/null
+++ b/sci-libs/hdf5/hdf5-1.6.7.ebuild
@@ -0,0 +1,251 @@
+# Copyright 1999-2008 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/hdf5/hdf5-1.6.7.ebuild,v 1.1 2008/08/17 15:25:52 markusle Exp $
+
+inherit eutils fixheadtails 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/${P}.tar.gz"
+
+LICENSE="NCSA-HDF"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ppc ~ppc64 ~x86 ~sparc"
+# need to update szip to get alpha, ia64, etc back in here,
+IUSE="cxx debug fortran mpi ssl szip threads tools zlib "
+
+DEPEND="mpi? ( >=sys-cluster/mpich2-1.0.6
+		net-fs/nfs-utils )
+	ssl? ( dev-libs/openssl )
+	szip? ( sci-libs/szip )
+	zlib? ( sys-libs/zlib )
+	threads? ( virtual/libc )
+	sys-apps/coreutils
+	sys-process/time"
+
+RDEPEND="${DEPEND}
+	dev-lang/perl"
+
+pkg_setup() {
+	if has test ${FEATURES} && use mpi ; then
+	    elog ""
+	    elog "Parallel tests will launch 3 mpd processes on this box,"
+	    elog "so it may take some time on a slow machine (only a few"
+	    elog "minutes on a reasonably fast machine).  Hit Ctl-C now"
+	    elog "and emerge with FEATURES=-test if you'd rather not..."
+	    elog ""
+	    epause 9
+	fi
+
+	# The above gcc dep is a hack to insure at least one Fortran 90
+	# compiler is installed if the user enables fortran support.  Feel
+	# free to improve it...
+	if use fortran ; then
+	    fortran_pkg_setup
+	    case "${FORTRANC}" in
+		gfortran|ifc|ifort|f95|pgf90)
+		    export F9X="${FORTRANC}"
+		    ;;
+		g77|f77|f2c)
+		    export F9X=""
+		    ;;
+	    esac
+	fi
+
+	# if anyone knows of a better way to do this...
+	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}"
+
+	epatch "${FILESDIR}"/${PN}-1.6.6-gcc4.3.patch
+	if use mpi; then
+	    # this is required for mpich2, and should be safe otherwise
+	    epatch "${FILESDIR}/${PN}-mpich2.patch"
+	fi
+
+	# fix test script stuff
+	ht_fix_file "${S}"/bin/release "${S}"/tools/h5dump/testh5dump.sh.in
+	sed -i -e "s:+4l:+4:g" tools/h5dump/testh5dump.sh.in || die "oops"
+
+	# fix sort key
+	sed -i -e "s:sort +2:sort -k 2:g" bin/ltmain.sh || die "sed failed"
+
+}
+
+src_compile() {
+	local myconf
+
+	# a better way to do this would also be nice, but i can't think of one
+	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="${ARCH}"
+
+	unset ARCH
+
+	if use mpi ; then
+	    EBUILD_CC="${CC}"
+	    # set NPROCS explicitly if needed
+	    export NPROCS=${NPROCS:=2}
+	    export CC="$(type -p mpicc)"
+	    if [[ ${FORTRANC} == gfortran ]] ; then
+		export F9X="$(type -p mpif90)"
+	    fi
+	    if built_with_use sys-cluster/mpich2 pvfs2 ; then
+		export LIBS="${LIBS} $(sh pvfs2-config --libs) -lmpich"
+	    else
+		export LIBS="${LIBS} -lmpich"
+	    fi
+	    append-ldflags "${LIBS}"
+	fi
+
+	econf --prefix=/usr \
+		$(use_enable zlib) \
+		$(use_enable fortran) \
+		$(use_enable mpi parallel) \
+		$(use_with ssl) \
+		--enable-linux-lfs  \
+		--sysconfdir=/etc \
+		--infodir=/usr/share/info \
+		--libdir=/usr/$(get_libdir) \
+		--mandir=/usr/share/man \
+		--enable-shared --with-pic \
+		${myconf} || die "configure failed"
+
+	# restore the ARCH environment variable
+	ARCH="${EBUILD_ARCH}"
+
+	# emake has occasional segfaults
+	make || die "make failed"
+	use mpi && CC="${EBUILD_CC}"
+}
+
+src_test() {
+	# all tests pass; a few are skipped, and MPI skips parts if it sees
+	# only one process on the build host.
+	export HDF5_Make_Ignore=yes
+	if use mpi ; then
+	    EBUILD_CC="${CC}"
+	    export HDF5_PARAPREFIX="${S}/testpar"
+	    export CC="$(type -p mpicc)"
+	    export MPI_UNIVERSE="localhost 4"
+	    export NPROCS=3
+	    install -g portage -o portage -m 0600 "${FILESDIR}"/mpd.conf "${HOME}"/.mpd.conf
+	    mpd --daemon --listenport=4268
+	    mpd --daemon -h localhost -p 4268 -n
+	    mpd --daemon -h localhost -p 4268 -n
+	    elog "NPROCS = ${NPROCS}"
+	    elog "mpdtrace output:"
+	    mpdtrace
+	fi
+	make check || die "make test failed"
+	use mpi && mpdallexit
+	use mpi && CC="${EBUILD_CC}"
+	export HDF5_Make_Ignore=no
+}
+
+src_install() {
+	# emake install and einstall cause sandbox violations here
+	make \
+		prefix="${D}"usr \
+		mandir="${D}"usr/share/man \
+		docdir="${D}"usr/share/doc/"${PF}" \
+		libdir="${D}"usr/$(get_libdir) \
+		infodir="${D}usr"/share/info \
+		install || die "make install failed"
+
+	if use tools ; then
+	    dolib.a "${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 "${S}"/test/.libs/libh5test.so.0.0.0 \
+			"${S}"/test/.libs/libh5test.so.0 \
+			"${S}"/test/.libs/libh5test.so \
+		|| die "dolib.so failed"
+
+	    exeinto /usr/bin
+	    newexe "${S}"/bin/iostats iostats.pl || die "newexe failed"
+
+	    exeinto /usr/share/"${PN}/test-tools"
+	    cd "${S}"/test
+	    doexe big bittests fillval lheap file_handle istore set_extent \
+		srb_append cache flush1 srb_read cmpd_dset flush2 srb_write \
+		dangle gass_append links stab dsets dtypes enum extend external \
+		gass_read mount gass_write getname gheap hyperslab mtime ntypes \
+		ohdr reserved stream_test testhdf5 ttsafe unlink
+	    cd "${S}"
+	    use mpi && doexe testpar/testphdf5 testpar/t_mpi
+	fi
+
+	dodoc README.txt
+	dohtml doc/html/*
+
+	if use mpi ; then
+	    mv "${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() {
+	echo
+	elog "Use the fortran flag for gfortran or ifc, and add the f90"
+	elog "flag to override the fortran flag if you have a different"
+	elog "f90 compiler installed (gfortran requires gcc 4.x). Note that"
+	elog "gfortran only works as mpif90 and is not detected properly by"
+	elog "configure without the mpi wrapper."
+	echo
+	elog "There should not be any more test errors in the mpi tests,"
+	elog "and all C++, Fortran, and other tests pass successfully."
+	elog "Suggested USE flags for fortran and mpi support using"
+	elog "gfortran:  USE=\"fortran mpi -cxx\""
+	echo
+	ewarn "Note 1: Needs more SMP and cluster testing, as well as"
+	ewarn "more testing on a virtual (parallel) filesystem."
+	echo
+	ewarn "Note 2: currently testing pvfs2 support (with mpi).  Please"
+	ewarn "report any problems in the usual way."
+	elog
+	ewarn "Note 3: you'll need rawio support enabled in your kernel or"
+	ewarn "certain asynchronous IO operations may 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
+}