Update to 4.2.14

Build shared libraries
Enable java

hdf-build.patch

@@ -0,0 +1,52 @@
+diff -up hdf-4.2.14/java/examples/Makefile.am.build hdf-4.2.14/java/examples/Makefile.am
+--- hdf-4.2.14/java/examples/Makefile.am.build	2018-06-26 22:42:58.000000000 -0600
++++ hdf-4.2.14/java/examples/Makefile.am	2019-04-09 20:51:31.031211605 -0600
+@@ -12,8 +12,8 @@ classes:
+ 	test -d $(@D)/$(JAVAROOT) || $(MKDIR_P) $(@D)/$(JAVAROOT)
+ 
+ pkgpath = examples
+-hdfjarfile = jar$(PACKAGE_TARNAME)-$(PACKAGE_VERSION).jar
+-jarfile = jar$(PACKAGE_TARNAME)examples.jar
++hdfjarfile = $(PACKAGE_TARNAME).jar
++jarfile = $(PACKAGE_TARNAME)examples.jar
+ 
+ CLASSPATH_ENV=CLASSPATH=.:$(JAVAROOT):$(top_builddir)/java/src/$(hdfjarfile):$(top_srcdir)/java/lib/slf4j-api-1.7.5.jar:$(top_srcdir)/java/lib/ext/slf4j-simple-1.7.5.jar:$$CLASSPATH
+ AM_JAVACFLAGS = $(H4_JAVACFLAGS) -deprecation
+diff -up hdf-4.2.14/java/src/Makefile.am.build hdf-4.2.14/java/src/Makefile.am
+--- hdf-4.2.14/java/src/Makefile.am.build	2018-06-26 22:42:58.000000000 -0600
++++ hdf-4.2.14/java/src/Makefile.am	2019-04-09 21:20:56.625579495 -0600
+@@ -13,8 +13,8 @@ JAVAROOT = .classes
+ classes:
+ 	test -d $(@D)/$(JAVAROOT) || $(MKDIR_P) $(@D)/$(JAVAROOT)
+ 
+-jarfile = jar$(PACKAGE_TARNAME)-$(PACKAGE_VERSION).jar
+-hdf_javadir = $(libdir)
++jarfile = $(PACKAGE_TARNAME).jar
++hdf_javadir = $(prefix)/lib/java
+ 
+ pkgpath = hdf/hdflib
+ CLASSPATH_ENV=CLASSPATH=.:$(top_srcdir)/java/lib/slf4j-api-1.7.5.jar:$$CLASSPATH
+diff -up hdf-4.2.14/java/test/junit.sh.in.build hdf-4.2.14/java/test/junit.sh.in
+--- hdf-4.2.14/java/test/junit.sh.in.build	2018-06-26 22:42:58.000000000 -0600
++++ hdf-4.2.14/java/test/junit.sh.in	2019-04-09 20:51:31.032211610 -0600
+@@ -40,7 +40,7 @@ HDFLIB_HOME="$top_srcdir/java/lib"
+ BLDLIBDIR="$top_builddir/java/lib"
+ BLDDIR="."
+ HDFTEST_HOME="$top_srcdir/java/test"
+-JARFILE=jar@PACKAGE_TARNAME@-@PACKAGE_VERSION@.jar
++JARFILE=@PACKAGE_TARNAME@.jar
+ TESTJARFILE=jar@PACKAGE_TARNAME@test.jar
+ test -d $BLDLIBDIR || mkdir -p $BLDLIBDIR
+ 
+diff -up hdf-4.2.14/java/test/Makefile.am.build hdf-4.2.14/java/test/Makefile.am
+--- hdf-4.2.14/java/test/Makefile.am.build	2018-06-26 22:42:58.000000000 -0600
++++ hdf-4.2.14/java/test/Makefile.am	2019-04-09 20:51:31.033211614 -0600
+@@ -12,7 +12,7 @@ classes:
+ 	test -d $(@D)/$(JAVAROOT) || $(MKDIR_P) $(@D)/$(JAVAROOT)
+ 
+ pkgpath = test
+-hdfjarfile = jar$(PACKAGE_TARNAME)-$(PACKAGE_VERSION).jar
++hdfjarfile = $(PACKAGE_TARNAME).jar
+ CLASSPATH_ENV=CLASSPATH=.:$(JAVAROOT):$(top_builddir)/java/src/$(hdfjarfile):$(top_srcdir)/java/lib/junit.jar:$(top_srcdir)/java/lib/hamcrest-core.jar:$(top_srcdir)/java/lib/slf4j-api-1.7.5.jar:$(top_srcdir)/java/lib/ext/slf4j-simple-1.7.5.jar:$$CLASSPATH
+ 
+ jarfile = jar$(PACKAGE_TARNAME)test.jar

hdf.spec

@@ -4,7 +4,7 @@
 
 Name: hdf
 Version: 4.2.14
-Release: 2%{?dist}
+Release: 3%{?dist}
 Summary: A general purpose library and file format for storing scientific data
 License: BSD
 URL: https://portal.hdfgroup.org/
@@ -28,23 +28,34 @@ Patch9: hdf-ppc64le.patch
 # Use only if java is disabled
 Patch10: hdf-avoid_syntax_error_el6.patch
 
+# Fix java build
+Patch11: hdf-build.patch
+
 # For destdir/examplesdir patches
 BuildRequires: automake, libtool, gcc, gcc-c++
+BuildRequires: chrpath
 BuildRequires: flex byacc libjpeg-devel zlib-devel %{!?el6:libaec-devel}
 BuildRequires: libtirpc-devel
 BuildRequires: gcc-gfortran, gcc
+BuildRequires: java-devel
+BuildRequires: javapackages-tools
+BuildRequires: hamcrest
+BuildRequires: junit
+BuildRequires: slf4j
+
 
 %description
-HDF is a general purpose library and file format for storing scientific data.
+HDF4 is a general purpose library and file format for storing scientific data.
-HDF can store two primary objects: datasets and groups. A dataset is 
+HDF4 can store two primary objects: datasets and groups. A dataset is
 essentially a multidimensional array of data elements, and a group is a
-structure for organizing objects in an HDF file. Using these two basic 
+structure for organizing objects in an HDF4 file. Using these two basic
 objects, one can create and store almost any kind of scientific data
 structure, such as images, arrays of vectors, and structured and unstructured
-grids. You can also mix and match them in HDF files according to your needs.
+grids. You can also mix and match them in HDF4 files according to your needs.
+
 
 %package devel
-Summary: HDF development files
+Summary: HDF4 development files
 Provides: %{name}-static = %{version}-%{release}
 Requires: %{name}%{?_isa} = %{version}-%{release}
 Requires: libjpeg-devel%{?_isa}
@@ -52,7 +63,25 @@ Requires: libtirpc-devel%{?_isa}
 Requires: zlib-devel%{?_isa}
 
 %description devel
-HDF development headers and libraries.
+HDF4 development headers and libraries.
+
+
+%package static
+Summary: HDF4 static libraries
+Requires: %{name}-devel = %{version}-%{release}
+
+%description static
+HDF4 static libraries.
+
+
+%package -n java-hdf
+Summary: HDF4 java library
+Requires:  slf4j
+Obsoletes: jhdf < 3.3.1-2
+
+%description -n java-hdf
+HDF4 java library
+
 
 %prep
 %setup -q
@@ -66,6 +95,19 @@ HDF development headers and libraries.
 %patch6 -p1 -b .examplesdir
 %patch8 -p1 -b .aarch64
 %patch9 -p1 -b .ppc64le
+%patch11 -p1 -b .build
+
+# Replace jars with system versions
+find -name \*.jar -delete
+ln -s %{_javadir}/hamcrest/core.jar java/lib/hamcrest-core.jar
+ln -s %{_javadir}/junit.jar java/lib/junit.jar
+ln -s %{_javadir}/slf4j/api.jar java/lib/slf4j-api-1.7.5.jar
+ln -s %{_javadir}/slf4j/nop.jar java/lib/ext/slf4j-nop-1.7.5.jar
+ln -s %{_javadir}/slf4j/simple.jar java/lib/ext/slf4j-simple-1.7.5.jar
+
+# Fix test output
+junit_ver=$(sed -n '/<version>/{s/^.*>\([0-9]\.[0-9]*\)<.*/\1/;p;q}' /usr/share/maven-poms/junit.pom)
+sed -i -e "s/JUnit version .*/JUnit version $junit_ver/" java/test/testfiles/JUnit-*.txt
 
 ## Fix syntax error bacause 'CLASSPATH_ENV=$H4_CLASSPATH' line on epel6 builds
 # Use only if java is disabled
@@ -79,6 +121,7 @@ find . -type f -name "*.c" -exec chmod 0644 '{}' \;
 # restore include file timestamps modified by patching
 touch -c -r ./hdf/src/hdfi.h.ppc ./hdf/src/hdfi.h
 
+
 %build
 
 # For destdir/examplesdir patches
@@ -86,15 +129,27 @@ autoreconf -vif
 # avoid upstream compiler flags settings
 rm config/*linux-gnu
 # TODO: upstream fix
-# Shared libraries disabled: libmfhdf.so is not correctly compiled
+# libmfhdf.so is link to libdf.so
-# for missing link to libdf.so
+export CFLAGS="%{optflags} -I%{_includedir}/tirpc"
-export CFLAGS="%{optflags} -fPIC -I%{_includedir}/tirpc"
 export LIBS="-ltirpc"
-export FFLAGS="%{optflags} -fPIC -ffixed-line-length-none"
+%global _configure ../configure
+# Java test needs this but doesn't create it
+mkdir -p build-shared/java/lib
+cd build-shared
+# Java requires shared libraries, fortran requires static
+%configure --disable-production --enable-java --disable-netcdf \
+ --enable-shared=yes --enable-static=no --disable-fortran %{!?el6:--with-szlib} \
+ --includedir=%{_includedir}/%{name} --libdir=%{_libdir}/%{name}
+%make_build
+cd -
+mkdir build-static
+cd build-static
+# Java requires shared libraries, fortran requires static
 %configure --disable-production --disable-java --disable-netcdf \
  --enable-shared=no --enable-static=yes --enable-fortran %{!?el6:--with-szlib} \
  --includedir=%{_includedir}/%{name} --libdir=%{_libdir}/%{name}
 %make_build
+cd -
 
 # correct the timestamps based on files used to generate the header files
 touch -c -r hdf/src/hdf.inc hdf/src/hdf.f90
@@ -102,8 +157,11 @@ touch -c -r hdf/src/dffunc.inc hdf/src/dffunc.f90
 touch -c -r mfhdf/fortran/mffunc.inc mfhdf/fortran/mffunc.f90
 # netcdf fortran include need same treatement, but they are not shipped
 
+
 %install
-%make_install
+%make_install -C build-static
+%make_install -C build-shared
+chrpath --delete --keepgoing %{buildroot}%{_bindir}/* %{buildroot}%{_libdir}/%{name}/*.so.* || :
 
 install -pm 644 MANIFEST README.txt release_notes/*.txt %{buildroot}%{_pkgdocdir}/
 
@@ -128,22 +186,40 @@ touch -c -r h4config.h h4config.h.tmp
 mv h4config.h.tmp h4config.h
 popd
 
+
 %check
-make -j1 check
+make -j1 -C build-shared check
+make -j1 -C build-static check
+
 
 %files
 %license COPYING
 %{_pkgdocdir}/
 %exclude %{_pkgdocdir}/examples
 %{_bindir}/*
+%dir %{_libdir}/%{name}
+%{_libdir}/%{name}/*.so.0*
 %{_mandir}/man1/*.gz
 
 %files devel
 %{_includedir}/%{name}/
-%{_libdir}/%{name}/
+%{_libdir}/%{name}/*.so
+%{_libdir}/%{name}/*.settings
 %{_pkgdocdir}/examples/
 
+%files static
+%{_libdir}/%{name}/*.a
+
+%files -n java-hdf
+%{_jnidir}/hdf.jar
+%{_libdir}/%{name}/libhdf_java.so
+
+
 %changelog
+* Tue Apr 9 2019 Orion Poplawski <orion@nwra.com> - 4.2.14-3
+- Build shared libraries
+- Enable java
+
 * Fri Feb 01 2019 Fedora Release Engineering <releng@fedoraproject.org> - 4.2.14-2
 - Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild