- Update to 0.10.3

7 files changed, 904 insertions, 380 deletions

diff --git a/science/gchemutils/Makefile b/science/gchemutils/Makefile
index 9bb116819b77..33e27b52c5f5 100644
--- a/science/gchemutils/Makefile
+++ b/science/gchemutils/Makefile
@@ -6,11 +6,10 @@
 #
 
 PORTNAME=	gchemutils
-PORTVERSION=	0.8.7
-PORTREVISION=	1
+PORTVERSION=	0.10.3
 CATEGORIES=	science
 MASTER_SITES=	${MASTER_SITE_SAVANNAH}
-MASTER_SITE_SUBDIR=	${PORTNAME}/0.8
+MASTER_SITE_SUBDIR=	${PORTNAME}/0.10
 DISTNAME=	gnome-chemistry-utils-${PORTVERSION}
 
 MAINTAINER=	pav@FreeBSD.org
@@ -18,14 +17,14 @@ COMMENT=	C++ classes and Gtk2 widgets related to chemistry
 
 LIB_DEPENDS=	gtkglext-x11-1.0.0:${PORTSDIR}/x11-toolkits/gtkglext \
 		openbabel.3:${PORTSDIR}/science/openbabel \
-		goffice-0.4:${PORTSDIR}/devel/goffice04
+		goffice-0.8.7:${PORTSDIR}/devel/goffice
 BUILD_DEPENDS=	${LOCALBASE}/libdata/pkgconfig/bodr.pc:${PORTSDIR}/science/bodr \
 		${LOCALBASE}/libdata/pkgconfig/chemical-mime-data.pc:${PORTSDIR}/science/chemical-mime-data
 RUN_DEPENDS=	${LOCALBASE}/libdata/pkgconfig/bodr.pc:${PORTSDIR}/science/bodr \
 		${LOCALBASE}/libdata/pkgconfig/chemical-mime-data.pc:${PORTSDIR}/science/chemical-mime-data
 
 USE_BZIP2=	yes
-USE_GNOME=	gnomehack intlhack libglade2 libgnomeprintui libgnomeui gnomedocutils
+USE_GNOME=	gnomehack intlhack libglade2 gnomedocutils
 USE_GMAKE=	yes
 USE_LDCONFIG=	yes
 GNU_CONFIGURE=	yes
@@ -33,27 +32,24 @@ CONFIGURE_ENV=	CPPFLAGS="-I${LOCALBASE}/include" LIBS="-L${LOCALBASE}/lib"
 CONFIGURE_ARGS=	--with-omf-dir=${PREFIX}/share/omf
 INSTALLS_ICONS=	yes
 INSTALLS_OMF=	yes
-GCONF_SCHEMAS=	gcrystal.schemas
+GCONF_SCHEMAS=	gcrystal.schemas gchempaint.schemas gchempaint-arrows.schemas gchemutils.schemas
 
-MAN1=		gchem3d-viewer.1 gchemcalc.1 gchemtable.1 gcrystal.1
-MAN3=		libgcu.3
+MAN1=		gchem3d.1 gchemcalc.1 gchempaint.1 gchemtable.1 gcrystal.1 gspectrum.1
 
-OPTIONS=	MOZILLA "Build mozilla plugin" off
+PLIST_SUB=	VER=0.10
 
-.include <bsd.port.pre.mk>
+OPTIONS=	XUL "Build browser plugin (requires Xulrunner)" off
 
-.if ${OSVERSION} >= 800058
-BROKEN=		does not build
-.endif
+.include <bsd.port.pre.mk>
 
-.if defined(WITH_MOZILLA)
-USE_GECKO=	mozilla
+.if defined(WITH_XUL)
+USE_GECKO=	xulrunner
 .include "${PORTSDIR}/www/mozilla/bsd.gecko.mk"
 CONFIGURE_ARGS+=--enable-mozilla-plugin
-PLIST_SUB=	MOZILLA=""
+PLIST_SUB+=	XUL=""
 .else
 CONFIGURE_ARGS+=--disable-mozilla-plugin
-PLIST_SUB=	MOZILLA="@comment "
+PLIST_SUB+=	XUL="@comment "
 .endif
 
 .include <bsd.port.post.mk>
diff --git a/science/gchemutils/distinfo b/science/gchemutils/distinfo
index d6d26a669694..55c6b0a5a6be 100644
--- a/science/gchemutils/distinfo
+++ b/science/gchemutils/distinfo
@@ -1,3 +1,3 @@
-MD5 (gnome-chemistry-utils-0.8.7.tar.bz2) = 011344eef28cdf188c54247fa3a65448
-SHA256 (gnome-chemistry-utils-0.8.7.tar.bz2) = cb2122e1c232faec6fa89e75cf52387562da50e97f3ab5eebe2d9a8ad1e2f9fb
-SIZE (gnome-chemistry-utils-0.8.7.tar.bz2) = 1543678
+MD5 (gnome-chemistry-utils-0.10.3.tar.bz2) = 53f73604498817a0afcc58a81d1e034a
+SHA256 (gnome-chemistry-utils-0.10.3.tar.bz2) = d7a12f077f0481f13afcb73dfb8ee342c7068f64cb0d5f8997fc450cdca7e74d
+SIZE (gnome-chemistry-utils-0.10.3.tar.bz2) = 4095643
diff --git a/science/gchemutils/files/patch-configure b/science/gchemutils/files/patch-configure
new file mode 100644
index 000000000000..541ee0bfc2e8
--- /dev/null
+++ b/science/gchemutils/files/patch-configure
@@ -0,0 +1,11 @@
+--- configure.orig	2009-01-13 16:00:51.000000000 +0100
++++ configure	2009-01-13 16:09:07.000000000 +0100
+@@ -21025,7 +21025,7 @@
+ GCU_MAJOR_VERSION=`echo $GCU_VERSION | awk -F . '{ print $1}'`
+ GCU_MINOR_VERSION=`echo $GCU_VERSION | awk -F . '{ print $2}'`
+ GCU_MICRO_VERSION=`echo $GCU_VERSION | awk -F . '{ print $3}'`
+-let GCU_API_MINOR_VERSION=($GCU_MINOR_VERSION+1)/2*2
++let GCU_API_MINOR_VERSION=\($GCU_MINOR_VERSION+1\)/2*2 > /dev/null
+ 
+ GCU_API_VER="$GCU_MAJOR_VERSION.$GCU_API_MINOR_VERSION"
+ 
diff --git a/science/gchemutils/files/patch-gcu-formula.cc b/science/gchemutils/files/patch-gcu-formula.cc
deleted file mode 100644
index faf7ff193571..000000000000
--- a/science/gchemutils/files/patch-gcu-formula.cc
+++ /dev/null
@@ -1,22 +0,0 @@
---- gcu/formula.cc.orig	Thu Feb  9 13:24:54 2006
-+++ gcu/formula.cc	Mon Mar 20 18:17:25 2006
-@@ -31,6 +31,19 @@
- #include <glib/gi18n.h>
- #include <sstream>
- 
-+/* XXX Implement strndup for FreeBSD. */
-+static char *
-+strndup(const char *str, size_t len) {
-+    char *ret;
-+
-+    if ((str == NULL || len < 0)) return(NULL);
-+    ret = (char *)malloc(len + 1);
-+    if (ret == NULL) return(NULL);
-+    strncpy(ret, str, len);
-+    ret[len] = '\0';
-+    return(ret);
-+}
-+
- using namespace gcu;
- 
- parse_error::parse_error(const string& __arg, int start, int length)
diff --git a/science/gchemutils/files/patch-libs-gcu-spectrumdoc.cc b/science/gchemutils/files/patch-libs-gcu-spectrumdoc.cc
new file mode 100644
index 000000000000..36c5be19b1ee
--- /dev/null
+++ b/science/gchemutils/files/patch-libs-gcu-spectrumdoc.cc
@@ -0,0 +1,11 @@
+--- libs/gcu/spectrumdoc.cc.orig	2009-01-05 20:09:59.000000000 +0100
++++ libs/gcu/spectrumdoc.cc	2009-01-13 16:22:00.000000000 +0100
+@@ -1898,7 +1898,7 @@
+ 
+ static double expm (double val, double f, double offset)
+ {
+-	return exp10 (-val) * f + offset;
++	return pow (10, -val) * f + offset;
+ }
+ 
+ double (*SpectrumDocument::GetConversionFunction (SpectrumUnitType oldu, SpectrumUnitType newu, double &factor, double &shift)) (double, double, double)
diff --git a/science/gchemutils/pkg-descr b/science/gchemutils/pkg-descr
index 4cea59d9dd7d..2eb4c646b117 100644
--- a/science/gchemutils/pkg-descr
+++ b/science/gchemutils/pkg-descr
@@ -1,5 +1,12 @@
 Gnome Chemistry Utils provide C++ classes and Gtk+-2 widgets related
-to chemistry. They will be used in future versions of Gnome Crystal
-and GChemPaint.
+to chemistry.  It also contains these programs:
+
+* GChemPaint: a 2D chemical editor
+* a chemical calculator
+* a molecular structure viewer (GChem3D)
+* a crystal structure viewer and editor (Gnome Crystal)
+* a periodic table of the elements
+* a Mozilla plugin (which displays only XYZ files at the moment)
+* a simple spectrum viewer (GSpectrum)
 
 WWW: http://www.nongnu.org/gchemutils/
diff --git a/science/gchemutils/pkg-plist b/science/gchemutils/pkg-plist
index 780a37d67075..8ec61bd4e0da 100644
--- a/science/gchemutils/pkg-plist
+++ b/science/gchemutils/pkg-plist
@@ -1,368 +1,889 @@
-bin/gchem3d-viewer
+bin/gchem3d
+bin/gchem3d-%%VER%%
 bin/gchemcalc
+bin/gchemcalc-%%VER%%
+bin/gchempaint
+bin/gchempaint-%%VER%%
 bin/gchemtable
+bin/gchemtable-%%VER%%
 bin/gcrystal
-include/gcu/gcu/application.h
-include/gcu/gcu/atom.h
-include/gcu/gcu/bond.h
-include/gcu/gcu/chem3ddoc.h
-include/gcu/gcu/chemistry.h
-include/gcu/gcu/crystalatom.h
-include/gcu/gcu/crystalcleavage.h
-include/gcu/gcu/crystaldoc.h
-include/gcu/gcu/crystalline.h
-include/gcu/gcu/crystalview.h
-include/gcu/gcu/dialog-owner.h
-include/gcu/gcu/dialog.h
-include/gcu/gcu/document.h
-include/gcu/gcu/element.h
-include/gcu/gcu/filechooser.h
-include/gcu/gcu/formula.h
-include/gcu/gcu/gldocument.h
-include/gcu/gcu/glview.h
-include/gcu/gcu/gtkchem3dviewer.h
-include/gcu/gcu/gtkcomboperiodic.h
-include/gcu/gcu/gtkcrystalviewer.h
-include/gcu/gcu/gtkperiodic.h
-include/gcu/gcu/isotope.h
-include/gcu/gcu/macros.h
-include/gcu/gcu/matrix.h
-include/gcu/gcu/matrix2d.h
-include/gcu/gcu/object.h
-include/gcu/gcu/value.h
-include/gcu/gcu/xml-utils.h
-lib/libgcu.la
-lib/libgcu.so
-lib/libgcu.so.8
-%%MOZILLA%%lib/mozilla/plugins/libmozgcu.la
-%%MOZILLA%%lib/mozilla/plugins/libmozgcu.so
-libdata/pkgconfig/gcu.pc
-%%MOZILLA%%libexec/chem-viewer
-share/applications/gchem3d-viewer.desktop
-share/applications/gchemcalc.desktop
-share/applications/gchemtable.desktop
-share/applications/gcrystal.desktop
-share/doc/gchemutils/reference/annotated.html
-share/doc/gchemutils/reference/application_8h-source.html
-share/doc/gchemutils/reference/atom_8h-source.html
-share/doc/gchemutils/reference/bond_8h-source.html
-share/doc/gchemutils/reference/chem3ddoc_8h-source.html
-share/doc/gchemutils/reference/chemistry_8h-source.html
-share/doc/gchemutils/reference/chemistry_8h.html
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-share/doc/gchemutils/reference/classgcu_1_1Bond.html
-share/doc/gchemutils/reference/classgcu_1_1Bond.png
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-share/doc/gchemutils/reference/classgcu_1_1CrystalCleavage.html
-share/doc/gchemutils/reference/classgcu_1_1CrystalDoc-members.html
-share/doc/gchemutils/reference/classgcu_1_1CrystalDoc.html
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 share/mime/chemical/x-mdl-molfile.xml
 share/mime/chemical/x-pdb.xml
 share/mime/chemical/x-xyz.xml
 share/mime/packages/gchemutils.xml
 @dirrmtry share/applications
-@dirrm share/doc/gchemutils/reference
+@dirrm share/doc/gchemutils/%%VER%%/reference
+@dirrm share/doc/gchemutils/%%VER%%
 @dirrm share/doc/gchemutils
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-@dirrm share/gchemutils/glade/crystal
-@dirrm share/gchemutils/glade/table
-@dirrm share/gchemutils/glade
+@dirrm share/gchemutils/%%VER%%/pixmaps
+@dirrm share/gchemutils/%%VER%%/paint/themes
+@dirrm share/gchemutils/%%VER%%/paint/templates
+@dirrm share/gchemutils/%%VER%%/paint
+@dirrm share/gchemutils/%%VER%%/glade/crystal
+@dirrm share/gchemutils/%%VER%%/glade/table
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/text
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/templates
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/selection
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/residues
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/cycles
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/bonds
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins/arrows
+@dirrm share/gchemutils/%%VER%%/glade/paint/plugins
+@dirrm share/gchemutils/%%VER%%/glade/paint
+@dirrm share/gchemutils/%%VER%%/glade
+@dirrm share/gchemutils/%%VER%%
 @dirrm share/gchemutils
-@dirrm share/omf/gchem3d-viewer
-@dirrm share/omf/gchemcalc
-@dirrm share/omf/gcrystal
-@dirrm share/omf/gchemtable
-@dirrm share/gnome/help/gchem3d-viewer/C/figures
-@dirrm share/gnome/help/gchem3d-viewer/C
-@dirrm share/gnome/help/gchem3d-viewer
-@dirrm share/gnome/help/gchemtable/C/figures
-@dirrm share/gnome/help/gchemtable/C
-@dirrm share/gnome/help/gchemtable
-@dirrm share/gnome/help/gchemcalc/C/figures
-@dirrm share/gnome/help/gchemcalc/C
-@dirrm share/gnome/help/gchemcalc
-@dirrm share/gnome/help/gcrystal/C/figures
-@dirrm share/gnome/help/gcrystal/C
-@dirrm share/gnome/help/gcrystal
+@dirrm share/omf/gchem3d-%%VER%%
+@dirrm share/omf/gchemcalc-%%VER%%
+@dirrm share/omf/gchempaint-%%VER%%
+@dirrm share/omf/gchemtable-%%VER%%
+@dirrm share/omf/gcrystal-%%VER%%
+@dirrm share/omf/gspectrum-%%VER%%
+@dirrm share/gnome/help/gchemtable-%%VER%%/C/figures
+@dirrm share/gnome/help/gchemtable-%%VER%%/C
+@dirrm share/gnome/help/gchemtable-%%VER%%
+@dirrm share/gnome/help/gspectrum-%%VER%%/C/figures
+@dirrm share/gnome/help/gspectrum-%%VER%%/C
+@dirrm share/gnome/help/gspectrum-%%VER%%
+@dirrm share/gnome/help/gchempaint-%%VER%%/C/figures
+@dirrm share/gnome/help/gchempaint-%%VER%%/C
+@dirrm share/gnome/help/gchempaint-%%VER%%
+@dirrm share/gnome/help/gcrystal-%%VER%%/C/figures
+@dirrm share/gnome/help/gcrystal-%%VER%%/C
+@dirrm share/gnome/help/gcrystal-%%VER%%
+@dirrm share/gnome/help/gchemcalc-%%VER%%/C/figures
+@dirrm share/gnome/help/gchemcalc-%%VER%%/C
+@dirrm share/gnome/help/gchemcalc-%%VER%%
+@dirrm share/gnome/help/gchem3d-%%VER%%/C/figures
+@dirrm share/gnome/help/gchem3d-%%VER%%/C
+@dirrm share/gnome/help/gchem3d-%%VER%%
 @dirrmtry share/mime/chemical
 @dirrmtry share/mimelnk/application
 @dirrmtry share/mimelnk
-@dirrm include/gcu/gcu
-@dirrm include/gcu
+@dirrm lib/goffice/0.7.2/plugins/gchemutils
+@dirrm lib/gchemutils/%%VER%%/plugins/paint
+@dirrm lib/gchemutils/%%VER%%/plugins/cdxml
+@dirrm lib/gchemutils/%%VER%%/plugins/cdx
+@dirrm lib/gchemutils/%%VER%%/plugins
+@dirrm lib/gchemutils/%%VER%%
+@dirrm lib/gchemutils
 @exec %%LOCALBASE%%/bin/update-mime-database %D/share/mime
 @unexec %%LOCALBASE%%/bin/update-mime-database %D/share/mime