[gentoo-commits] proj/sci:master commit in: dev-java/hdf-java/files/, dev-java/hdf-java/

[Andrew Savchenko]

commit:     8a004bcf5b2cf128738df217abaece8950b687ae
Author:     Andrew Savchenko <bircoph <AT> gmail <DOT> com>
AuthorDate: Sun Nov 25 21:14:21 2012 +0000
Commit:     Andrew Savchenko <bircoph <AT> gmail <DOT> com>
CommitDate: Sun Nov 25 21:14:21 2012 +0000
URL:        http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=8a004bcf

hdf-java: version bump

Sources for older versions are not available.

---
 dev-java/hdf-java/ChangeLog                       |    6 +
 dev-java/hdf-java/files/hdf-java-2.9-shared.patch |  118 +++++++++++++++++++
 dev-java/hdf-java/hdf-java-2.9.ebuild             |  128 +++++++++++++++++++++
 3 files changed, 252 insertions(+), 0 deletions(-)

diff --git a/dev-java/hdf-java/ChangeLog b/dev-java/hdf-java/ChangeLog
index 7f87c82..9600879 100644
--- a/dev-java/hdf-java/ChangeLog
+++ b/dev-java/hdf-java/ChangeLog
@@ -2,6 +2,12 @@
 # Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+*hdf-java-2.9 (25 Nov 2012)
+
+  25 Nov 2012; Andrew Savchenko <bircoph@×××××.com> +hdf-java-2.9.ebuild,
+  +files/hdf-java-2.9-shared.patch:
+  Version bump. Sources for older versions are not available.
+
   23 May 2012; Sébastien Fabbro <bicatali@g.o> hdf-java-2.8.ebuild:
   add hack for hdf5[mpi]
 

diff --git a/dev-java/hdf-java/files/hdf-java-2.9-shared.patch b/dev-java/hdf-java/files/hdf-java-2.9-shared.patch
new file mode 100644
index 0000000..c089480
--- /dev/null
+++ b/dev-java/hdf-java/files/hdf-java-2.9-shared.patch
@@ -0,0 +1,118 @@
+--- hdf-java/configure.in.orig	2012-11-13 03:12:03.000000000 +0400
++++ hdf-java/configure.in	2012-11-25 21:12:40.074363619 +0400
+@@ -177,7 +177,7 @@
+   *)
+     if test -n "$withval" ; then
+         z_lib="`echo $withval |cut -f2 -d, -s`"
+-  ZLIB=$z_lib"/libz."$LLEXT
++  ZLIB="-L$z_lib -lz"
+   HAVE_ZLIB="yes"
+     else
+       ZLIB=""
+@@ -211,7 +211,7 @@
+   *)
+     if test -n "$withval" ; then
+         jpeg_lib="`echo $withval |cut -f2 -d, -s`"
+-  JPEGLIB=$jpeg_lib"/libjpeg."$LLEXT
++  JPEGLIB="-L$jpeg_lib -ljpeg"
+       dnl AC_MSG_RESULT([jpeg found: $JPEGLIB]);
+   HAVE_JPEG="yes"
+     else
+@@ -246,7 +246,7 @@
+   *)
+   if test -n "$withval" ; then
+       sz_lib="`echo $withval |cut -f2 -d, -s`"
+-    SZLIB=$sz_lib"/libsz."$LLEXT
++    SZLIB="-L$sz_lib -lsz"
+     dnl AC_MSG_RESULT([szlib found: $SZLIB]);
+     HAVE_SZIP="yes"
+   else
+@@ -302,7 +302,7 @@
+   ;;
+ esac
+ if test -n "$HDF4LIB"; then
+-  LIBS="$HDF4LIB/libdf.$LLEXT $HDF4LIB/libmfhdf.$LLEXT $LIBS"
++  LIBS="-L$HDF4LIB -ldf -lmfhdf $LIBS"
+   HAVE_HDF4="yes"
+ fi
+ AC_MSG_RESULT([$HAVE_HDF4])
+@@ -363,7 +363,7 @@
+   *)
+   if test -n "$withval" ; then
+       hdf5_lib="`echo $withval |cut -f2 -d, -s`"
+-    HDF5LIB=$hdf5_lib"/libhdf.$LLEXT"
++    HDF5LIB="-L$hdf5_lib -lhdf"
+       hdf5_inc="`echo $withval |cut -f1 -d,`"
+       if test -n "$hdf5_inc"; then
+         HDF5INC="$hdf5_inc"
+@@ -380,7 +380,7 @@
+   ;;
+ esac
+ if test -n "$HDF5LIB"; then
+-  LIBS="$HDF5LIB/libhdf5.$LLEXT $LIBS"
++  LIBS="-L$HDF5LIB -lhdf5 $LIBS"
+   HAVE_HDF5="yes"
+ fi
+ AC_MSG_RESULT([$HAVE_HDF5])
+@@ -637,10 +637,6 @@
+   if test \( ! -d "$JH45INST" \); then
+     JH45INST_FOUND=0
+   fi
+-  if test \( ! -w "$JH45INST" \); then
+-    AC_MSG_ERROR( [ $JH45INST : not writable ])
+-    JH45INST_FOUND=0
+-  fi
+ fi
+ until test $JH45INST_FOUND -eq 1; do
+   echo "Please type the directory in which to install the JH45"
+@@ -649,10 +645,6 @@
+   if test \( ! -d "$JH45INST" \); then
+     JH45INST_FOUND=0
+   fi
+-  if test \( ! -w "$JH45INST" \); then
+-    AC_MSG_ERROR( [ $JH45INST : not writable ])
+-    JH45INST_FOUND=0
+-  fi
+ done
+ 
+ ac_cv_lib_JH45INST=$JH45INST
+--- a/native/hdf5lib/Makefile.in
++++ b/native/hdf5lib/Makefile.in
+@@ -35,7 +35,7 @@
+ 
+ CFLAGS = -D_FILE_OFFSET_BITS=64 $(DEFS) -I. -I$(HDF5INC) -I$(JAVAINC1) -I$(JAVAINC2)
+ 
+-LIBS =  $(HDF5LIB)/libhdf5.$(LLEXT) $(ZLIB) $(SZLIB) -lm
++LIBS =  -L$(HDF5LIB) -lhdf5 $(ZLIB) $(SZLIB) -lm
+ 
+ # Macro def: object filename used
+ OBJECTS =  exceptionImp.o h5Constants.o h5Imp.o h5aImp.o h5dImp.o h5eImp.o h5fImp.o h5gImp.o h5iImp.o h5lImp.o h5oImp.o h5pImp.o h5rImp.o h5sImp.o h5tImp.o nativeData.o h5util.o h5zImp.o
+@@ -47,7 +47,7 @@
+ 
+ libjhdf5: $(OBJECTS)
+ 	-mkdir -p $(LIBDIR);
+-	$(LD) $(LDOPT) -o $(LIBDIR)/libjhdf5.$(JSLEXT) $(LDOPT2) $(OBJECTS) $(LIBS)
++	$(LD) $(LDOPT) $(LDFLAGS) -o $(LIBDIR)/libjhdf5.$(JSLEXT) $(LDOPT2) $(OBJECTS) $(LIBS)
+ 
+ clean:
+ 	$(RM) -f *.o so_locations $(LIBDIR)/libjhdf5.$(JSLEXT)
+--- a/native/hdflib/Makefile.in
++++ b/native/hdflib/Makefile.in
+@@ -41,7 +41,7 @@
+ CFLAGS = $(DEFS) -I. -I$(JAVAINC1) -I$(JAVAINC2) -I$(HDFINC)
+ 
+ # Be sure to add -lbsd if compiling in a SYSV environment
+-LIBS =  $(HDFLIB)/libmfhdf.$(LLEXT) $(HDFLIB)/libdf.$(LLEXT) $(SZLIB) $(ZLIB) $(JPEGLIB) -lm
++LIBS =  -L$(HDFLIB) -lmfhdf -ldf $(SZLIB) $(ZLIB) $(JPEGLIB) -lm
+ 
+ # Macro def: object filename used
+ OBJECTS =  hdfstructsutil.o \
+@@ -60,7 +60,7 @@
+ 
+ libjhdf: $(OBJECTS) 
+ 	-mkdir -p $(LIBDIR);
+-	$(LD) $(LDOPT) -o $(LIBDIR)/libjhdf.$(JSLEXT) $(LDOPT2) $(OBJECTS) $(LIBS)
++	$(LD) $(LDOPT) $(LDFLAGS) -o $(LIBDIR)/libjhdf.$(JSLEXT) $(LDOPT2) $(OBJECTS) $(LIBS)
+ 
+ clean:
+ 	$(RM) -f *.o so_locations $(LIBDIR)/libjhdf.$(JSLEXT)

diff --git a/dev-java/hdf-java/hdf-java-2.9.ebuild b/dev-java/hdf-java/hdf-java-2.9.ebuild
new file mode 100644
index 0000000..98c9248
--- /dev/null
+++ b/dev-java/hdf-java/hdf-java-2.9.ebuild
@@ -0,0 +1,128 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=4
+JAVA_PKG_IUSE="doc examples"
+inherit eutils java-pkg-2 autotools fdo-mime
+
+DESCRIPTION="Java interface to the HDF5 library"
+HOMEPAGE="http://www.hdfgroup.org/hdf-java-html/index.html"
+SRC_URI="http://www.hdfgroup.org/ftp/HDF5/hdf-java/src/${P}-src.tar"
+
+LICENSE="NCSA-HDF"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="hdf hdfview szip test zlib"
+
+CDEPEND=">=sci-libs/hdf5-1.8[szip=,zlib=]
+	hdf? ( sci-libs/hdf virtual/jpeg )
+	hdfview? ( dev-java/fits dev-java/netcdf )"
+
+RDEPEND="${CDEPEND}
+	>=virtual/jre-1.5"
+
+DEPEND="${CDEPEND}
+	>=virtual/jdk-1.5
+	test? ( >=dev-java/junit-4 )"
+
+REQUIRED_USE="hdfview? ( hdf )"
+
+# buggy test with incompatible hdf5 library versions
+RESTRICT="test"
+
+S="${WORKDIR}/${PN}"
+
+src_prepare() {
+	epatch "${FILESDIR}"/${P}-shared.patch
+	eautoreconf
+	rm lib/*.jar
+	if use hdfview; then
+		java-pkg_jar-from --into lib fits fits.jar
+		java-pkg_jar-from --into lib netcdf netcdf.jar
+	fi
+	use test && java-pkg_jar-from --into lib junit-4 junit.jar
+}
+
+src_configure() {
+	local stdpath="${EPREFIX}/usr/include,${EPREFIX}/usr/$(get_libdir)"
+	local myconf="--with-hdf4=no --with-libjpeg=no"
+	use hdf && \
+		myconf="--with-libjpeg=${stdpath} --with-hdf4=${stdpath}"
+	use zlib &&	myconf="${myconf} --with-libz=${stdpath}"
+	use szip && myconf="${myconf} --with-libsz=${stdpath}"
+
+	econf \
+		${myconf} \
+		--with-hdf5="${stdpath}" \
+		--with-jdk="$(java-config -o)/include,$(java-config -o)/jre/lib"
+}
+
+src_compile() {
+	# gentoo bug #302621
+	has_version sci-libs/hdf5[mpi] && export CXX=mpicxx CC=mpicc
+
+	# parallel needs work. anyone?
+	emake -j1 ncsa just-hdf5
+
+	if use hdf; then
+		sed -i \
+			-e "s/MAX_VAR_DIMS/H4_MAX_VAR_DIMS/" \
+			native/hdflib/hdfstructsutil.c || die
+		sed -i \
+			-e "s/MAX_NC_NAME/H4_MAX_NC_NAME/" \
+			native/hdflib/hdf{vdata,sds}Imp.c || die
+		emake -j1 just-hdf4
+	fi
+
+	use hdfview && emake -j1 packages
+	use examples && emake -j1 do-examples
+	use doc && emake -j1 javadocs
+}
+
+src_test() {
+	emake -j1 check
+}
+
+src_install() {
+	java-pkg_dojar lib/jhdf5.jar
+	java-pkg_doso lib/linux/libjhdf5.so
+
+	if use hdf; then
+		java-pkg_dojar lib/jhdf.jar
+		java-pkg_doso lib/linux/libjhdf.so
+	fi
+
+	if use hdfview; then
+		java-pkg_dojar lib/jhdf5obj.jar
+		java-pkg_dojar lib/jhdfobj.jar
+		java-pkg_dojar lib/ext/nc2obj.jar
+		java-pkg_dojar lib/ext/fitsobj.jar
+		java-pkg_dojar lib/jhdfview.jar
+		cat <<-EOF > hdfview
+			#!/bin/sh
+			export CLASSPATH=\$(java-config --classpath hdf-java)
+			\$(java-config --java) \
+				-Xmx1000m \
+				-Djava.library.path=\$(java-config --library hdf-java) \
+				ncsa.hdf.view.HDFView \
+				-root "${EROOT}" \$*
+		EOF
+		dobin hdfview
+		insinto /usr/share/mime/packages
+		doins "${FILESDIR}"/hdfview.xml
+		newicon ncsa/hdf/view/icons/hdf_large.gif hdfview.gif
+		make_desktop_entry hdfview "HDF Viewer" hdfview
+	fi
+
+	use doc && java-pkg_dojavadoc docs/javadocs
+	use examples && java-pkg_doexamples examples
+}
+
+pkg_postinst() {
+	use hdfview && fdo-mime_desktop_database_update
+}
+
+pkg_postrm() {
+	use hdfview && fdo-mime_desktop_database_update
+}