Remove old. Say goodbye to pdflib pdf useflag.

Package-Manager: portage-2.2.0_alpha24/cvs/Linux x86_64

8 files changed, 14 insertions, 215 deletions

diff --git a/sci-biology/seaview/ChangeLog b/sci-biology/seaview/ChangeLog
index 821246ca2c3b..7db88c97fde8 100644
--- a/sci-biology/seaview/ChangeLog
+++ b/sci-biology/seaview/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/seaview
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/ChangeLog,v 1.38 2011/02/01 08:24:21 je_fro Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/ChangeLog,v 1.39 2011/02/22 16:53:39 scarabeus Exp $
+
+  22 Feb 2011; Tomáš Chvátal <scarabeus@gentoo.org> -seaview-4.1.ebuild,
+  -seaview-4.2.3.ebuild, seaview-4.2.5.ebuild, seaview-4.2.12.ebuild,
+  -files/seaview-20071113-glibc-2.10.patch, -files/seaview.desktop:
+  Remove old. Say goodbye to pdflib pdf useflag.
 
   01 Feb 2011; Jeff Gardner <je_fro@gentoo.org> seaview-4.2.12.ebuild:
   Fix to use pkg-config instead of deprecated xft-config.
diff --git a/sci-biology/seaview/Manifest b/sci-biology/seaview/Manifest
index 5acb0146cefb..638a5fa19766 100644
--- a/sci-biology/seaview/Manifest
+++ b/sci-biology/seaview/Manifest
@@ -1,12 +1,6 @@
-AUX seaview-20071113-glibc-2.10.patch 545 RMD160 c8e5f91d20b08a902fc88706a52e6664340f7d1d SHA1 ca1026d79a56ce687bb62237a23a70a9022996ef SHA256 97d670caea6584417851b3da260353043ec73d60349b4a12a2b9fbcbf597f509
-AUX seaview.desktop 207 RMD160 d5b4e57a1866d5f2d384ab1f6acf21292061570f SHA1 38b4a0b0055da291020690e9ac1974d7aed94871 SHA256 314a791477d6059888bce45de2627d58d1b8998a25200d6a9eb8f13c759c7b32
-DIST seaview_4.1.tar.gz 315678 RMD160 de3a7f3e684d73508cf6d9ab0d004549d9abdbf9 SHA1 d8227d0e91dff3221b09ea415e1201d833ead5c5 SHA256 902c6cd8e0f7fb17a4d2849bec3312d9cde94fceb1d7fd02c4242b986f693468
 DIST seaview_4.2.12.tar.gz 302803 RMD160 3adb9b646da13778fded1751755ddcd3b25ac74d SHA1 29254ec7d6ca496082b5424d9c8b1bde0ca169a3 SHA256 fc812daee9570be38b39e2f08dac78ca4d3a0adefb801f79f1d15e71d60f9b6a
-DIST seaview_4.2.3.tar.gz 323465 RMD160 7b94a5fb14fb664854340e05ac18476a15109974 SHA1 ef28787632ae6c7bdff39e9e0f5ed77e9e43d21c SHA256 b3fb78bc4d3b767f4048231e2ee14944127c88a455ee5d16053cc906760bcf88
 DIST seaview_4.2.5.tar.gz 319110 RMD160 2aa82be247367790e1b84e4526ac92a98c126551 SHA1 e3ade6b2078aa1b617aad10fb124fe0309084638 SHA256 1d5d555a1afcec0218db99a132942edfdfcb05b7bb93de6c124d7d30315677c9
-EBUILD seaview-4.1.ebuild 2298 RMD160 a58b5f62bc7e0f2fed49742e76bf5830b5756202 SHA1 be28d21c6471966fd423ec60ffc26e493cd737f3 SHA256 b8434d30e8d4a1f935df373e0e4e18f830214a6fbb9e6186fd199b1a18fef595
-EBUILD seaview-4.2.12.ebuild 2381 RMD160 d90028571cd0f80d7aa97800da9c159dfaf81a39 SHA1 16581e7a626791faace626314b769be4768d993a SHA256 0311d3219be2591baed6ff5f8c99063d3064e32b2eed48e0473a2fb8b82342bc
-EBUILD seaview-4.2.3.ebuild 2372 RMD160 9a0a715ef4f8b363f48e73114ed92fd5e893f1c2 SHA1 c66839649817ff2a8e364b9622ed8471384d3337 SHA256 23994833e3512cb54f99137409e26d5bd549620ff1cd9def5d04c223724c8b09
-EBUILD seaview-4.2.5.ebuild 2372 RMD160 dbfbac4cf6118e325fa4852cba71b8ca2ea02c8c SHA1 c14615503971a01b015aea9ad1293dfba1f4e9db SHA256 ed7a785fcd647d88bf5363f8a22429d30c3c3bad1c51e16e7c03e979a3d078b0
-MISC ChangeLog 6552 RMD160 96585aac1b6416ecde5a709f136d917eda8e8331 SHA1 d381d37cbc5712eac52ac3df10c88cde428a29f9 SHA256 81174956e6fd3ee2fad61a0744dc2167414fea565286b842a523d5fe07589556
+EBUILD seaview-4.2.12.ebuild 1815 RMD160 339441a911412e93e410ef3343134847652f27a8 SHA1 fa2c9824afb0366641c91e62dbd6534efbb06c26 SHA256 8d7534d5afd372cb4af3e2eafb1a53be3b8474dd1a2508f7a656585855151f1e
+EBUILD seaview-4.2.5.ebuild 1804 RMD160 7defe05e69b0a7cbb502804f8f0761c9958d9836 SHA1 447a9ac4207a21e00ef9afbb8576bdd2d9863359 SHA256 531f1575ffaec97634a3a02e4d758394d761078aa819d353830ba8420d5038d5
+MISC ChangeLog 6819 RMD160 a6f263ca7ef878c37b31224899add03b1ffc872b SHA1 feae119dea5adcaea349ae2c642d02b062b52a2d SHA256 99c974fcc10806d08fd2e786ccb2491fdf04c0b4025d3bfd9f082b2ba57a6ffa
 MISC metadata.xml 619 RMD160 f7bd8491d8c59372963d3f53e322e52d509c0c81 SHA1 d35f32cd0b1171a837f6c9d0dbeb3e396a44fb90 SHA256 ee63d33ca527ca555056c6bc3a7d89fa9b5f32e5f82b7eae27b1c030c80ced9e
diff --git a/sci-biology/seaview/files/seaview-20071113-glibc-2.10.patch b/sci-biology/seaview/files/seaview-20071113-glibc-2.10.patch
deleted file mode 100644
index 9f64ea23a76b..000000000000
--- a/sci-biology/seaview/files/seaview-20071113-glibc-2.10.patch
+++ /dev/null
@@ -1,12 +0,0 @@
-diff -ur seaview.orig/seaview.cxx seaview/seaview.cxx
---- seaview.orig/seaview.cxx	2007-10-23 18:11:34.000000000 +0300
-+++ seaview/seaview.cxx	2009-09-04 12:22:13.000000000 +0300
-@@ -3924,7 +3924,7 @@
- if( clipboard_contains_alignment(clipboard) ) {
- 	char **seqs, **seqnames, **comments, *p, *message; 
- 	int i, count, num, changedwname = FALSE;
--	p = strchr(clipboard, ':') + 1;
-+	p = const_cast<char*> (strchr(clipboard, ':') + 1);
- 	count = read_mase_seqs_header(p, &seqs, &seqnames, 
- 		&comments, NULL, &message);
- 	if(count == 0) return;
diff --git a/sci-biology/seaview/files/seaview.desktop b/sci-biology/seaview/files/seaview.desktop
deleted file mode 100644
index 50bd8419a64a..000000000000
--- a/sci-biology/seaview/files/seaview.desktop
+++ /dev/null
@@ -1,9 +0,0 @@
-[Desktop Entry]
-Encoding=UTF-8
-Name=Seaview
-Comment=Multiple Sequence Alignment Tool
-Exec=seaview
-Icon=/usr/share/pixmaps/seaview.xpm
-Terminal=false
-Type=Application
-Categories=Application;Graphics;Science;
diff --git a/sci-biology/seaview/seaview-4.1.ebuild b/sci-biology/seaview/seaview-4.1.ebuild
deleted file mode 100644
index a5618198a266..000000000000
--- a/sci-biology/seaview/seaview-4.1.ebuild
+++ /dev/null
@@ -1,75 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.1.ebuild,v 1.3 2010/07/04 19:56:23 halcy0n Exp $
-
-EAPI="2"
-
-inherit toolchain-funcs multilib eutils
-
-DESCRIPTION="A graphical multiple sequence alignment editor"
-HOMEPAGE="http://pbil.univ-lyon1.fr/software/seaview.html"
-SRC_URI="ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview/archive/${PN}_${PV}.tar.gz"
-
-LICENSE="public-domain"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE="+pdf +xft"
-
-DEPEND="x11-libs/fltk:1.1
-	pdf? ( media-libs/pdflib )
-	xft? (	x11-libs/libXft
-			x11-libs/fltk[xft] )"
-RDEPEND="${DEPEND}
-	sci-biology/clustalw
-	|| ( sci-libs/libmuscle sci-biology/muscle )
-	sci-biology/phyml"
-
-S="${WORKDIR}/${PN}"
-
-src_prepare() {
-	# respect CXXFLAGS (package uses them as CFLAGS)
-	sed -i \
-		-e "s:^CXX.*:CXX = $(tc-getCXX):" \
-		-e "s:\$(OPT):${CXXFLAGS}:" \
-		-e "s:^OPT:#OPT:" \
-		-e "s:^#IFLTK .*:IFLTK = $(fltk-config --use-images --cxxflags):" \
-		-e "s:^#LFLTK .*:LFLTK = $(fltk-config --use-images --ldflags):" \
-		-e "s:^USE_XFT:#USE_XFT:" \
-		-e "s:^#HELPFILE:HELPFILE:" \
-		-e "s:^#PHYMLNAME:PHYMLNAME:" \
-		Makefile || die "sed failed while editing Makefile"
-
-	if use pdf; then
-		sed -i \
-			-e "s:PDF_PS_FLAGS = -DNO_PDF:#PDF_PS_FLAGS = -DNO_PDF:" \
-			-e "s:PDF_PS = postscript:#PDF_PS = postscript:" \
-			-e "s:#PDF_INC = \$(HOME)/PDFlibLite:PDF_INC = /usr/include:" \
-			-e "s:#PDF_LIB = \$(HOME)/PDFlibLite:PDF_LIB = /usr/lib:" \
-			-e "s:#PDF_PS = pdf:PDF_PS = pdf:" \
-			-e "s:#PDF_PS_FLAGS = -I\$(PDF_INC):PDF_PS_FLAGS = -I\$(PDF_INC):" \
-			-e "s:#LPDF = -L\$(PDF_LIB) -lpdf:LPDF = -L\$(PDF_LIB) -lpdf:" \
-			Makefile || die "sed failed while editing Makefile to enable pdf output"
-	fi
-
-	if use xft; then
-		sed -i \
-			-e "s:^#USE_XFT .*:USE_XFT = -DUSE_XFT $(xft-config --cflags):" \
-			-e "s:-lXft:$(xft-config --libs):" \
-			Makefile || die "sed failed while editing Makefile to enable xft"
-	fi
-}
-
-src_install() {
-	dobin seaview || die
-
-	# /usr/share/seaview/seaview.html is hardcoded in the binary, see Makefile
-	insinto /usr/share/seaview
-	doins example.nxs seaview.html
-
-	insinto /usr/share/seaview/images
-	doins seaview.xpm || die
-
-	make_desktop_entry seaview Seaview
-
-	doman seaview.1 || die
-}
diff --git a/sci-biology/seaview/seaview-4.2.12.ebuild b/sci-biology/seaview/seaview-4.2.12.ebuild
index 12439841e92f..17c7ff6db897 100644
--- a/sci-biology/seaview/seaview-4.2.12.ebuild
+++ b/sci-biology/seaview/seaview-4.2.12.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.2.12.ebuild,v 1.2 2011/02/01 08:24:21 je_fro Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.2.12.ebuild,v 1.3 2011/02/22 16:53:39 scarabeus Exp $
 
 EAPI="2"
 
@@ -13,10 +13,9 @@ SRC_URI="ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview/archive/${PN}_${PV}.
 LICENSE="public-domain"
 SLOT="0"
 KEYWORDS="~amd64 ~x86"
-IUSE="+pdf +xft"
+IUSE="+xft"
 
 DEPEND="x11-libs/fltk:1.1
-	pdf? ( media-libs/pdflib )
 	xft? (	x11-libs/libXft
 			x11-libs/fltk:1.1[xft] )"
 RDEPEND="${DEPEND}
@@ -39,18 +38,6 @@ src_prepare() {
 		-e "s:^#PHYMLNAME:PHYMLNAME:" \
 		Makefile || die "sed failed while editing Makefile"
 
-	if use pdf; then
-		sed -i \
-			-e "s:PDF_PS_FLAGS = -DNO_PDF:#PDF_PS_FLAGS = -DNO_PDF:" \
-			-e "s:PDF_PS = postscript:#PDF_PS = postscript:" \
-			-e "s:#PDF_INC = \$(HOME)/PDFlibLite:PDF_INC = /usr/include:" \
-			-e "s:#PDF_LIB = \$(HOME)/PDFlibLite:PDF_LIB = /usr/lib:" \
-			-e "s:#PDF_PS = pdf:PDF_PS = pdf:" \
-			-e "s:#PDF_PS_FLAGS = -I\$(PDF_INC):PDF_PS_FLAGS = -I\$(PDF_INC):" \
-			-e "s:#LPDF = -L\$(PDF_LIB) -lpdf:LPDF = -L\$(PDF_LIB) -lpdf:" \
-			Makefile || die "sed failed while editing Makefile to enable pdf output"
-	fi
-
 	if use xft; then
 		sed -i \
 			-e "s:^#USE_XFT .*:USE_XFT = -DUSE_XFT $(pkg-config --cflags xft):" \
diff --git a/sci-biology/seaview/seaview-4.2.3.ebuild b/sci-biology/seaview/seaview-4.2.3.ebuild
deleted file mode 100644
index 5b666fd6d1ff..000000000000
--- a/sci-biology/seaview/seaview-4.2.3.ebuild
+++ /dev/null
@@ -1,78 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.2.3.ebuild,v 1.1 2010/03/20 21:49:12 weaver Exp $
-
-EAPI="2"
-
-inherit toolchain-funcs multilib eutils base
-
-DESCRIPTION="A graphical multiple sequence alignment editor"
-HOMEPAGE="http://pbil.univ-lyon1.fr/software/seaview.html"
-SRC_URI="ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview/archive/${PN}_${PV}.tar.gz"
-
-LICENSE="public-domain"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE="+pdf +xft"
-
-DEPEND="x11-libs/fltk:1.1
-	pdf? ( media-libs/pdflib )
-	xft? (	x11-libs/libXft
-			x11-libs/fltk:1.1[xft] )"
-RDEPEND="${DEPEND}
-	sci-biology/clustalw
-	|| ( sci-libs/libmuscle sci-biology/muscle )
-	sci-biology/phyml"
-
-S="${WORKDIR}/${PN}"
-
-src_prepare() {
-	# respect CXXFLAGS (package uses them as CFLAGS)
-	sed -i \
-		-e "s:^CXX.*:CXX = $(tc-getCXX):" \
-		-e "s:\$(OPT):${CXXFLAGS}:" \
-		-e "s:^OPT:#OPT:" \
-		-e "s:^#IFLTK .*:IFLTK = $(fltk-config --use-images --cxxflags):" \
-		-e "s:^#LFLTK .*:LFLTK = $(fltk-config --use-images --ldflags):" \
-		-e "s:^USE_XFT:#USE_XFT:" \
-		-e "s:^#HELPFILE:HELPFILE:" \
-		-e "s:^#PHYMLNAME:PHYMLNAME:" \
-		Makefile || die "sed failed while editing Makefile"
-
-	if use pdf; then
-		sed -i \
-			-e "s:PDF_PS_FLAGS = -DNO_PDF:#PDF_PS_FLAGS = -DNO_PDF:" \
-			-e "s:PDF_PS = postscript:#PDF_PS = postscript:" \
-			-e "s:#PDF_INC = \$(HOME)/PDFlibLite:PDF_INC = /usr/include:" \
-			-e "s:#PDF_LIB = \$(HOME)/PDFlibLite:PDF_LIB = /usr/lib:" \
-			-e "s:#PDF_PS = pdf:PDF_PS = pdf:" \
-			-e "s:#PDF_PS_FLAGS = -I\$(PDF_INC):PDF_PS_FLAGS = -I\$(PDF_INC):" \
-			-e "s:#LPDF = -L\$(PDF_LIB) -lpdf:LPDF = -L\$(PDF_LIB) -lpdf:" \
-			Makefile || die "sed failed while editing Makefile to enable pdf output"
-	fi
-
-	if use xft; then
-		sed -i \
-			-e "s:^#USE_XFT .*:USE_XFT = -DUSE_XFT $(xft-config --cflags):" \
-			-e "s:-lXft:$(xft-config --libs):" \
-			Makefile || die "sed failed while editing Makefile to enable xft"
-	else
-		sed -i -e "s:-lXft::" Makefile || die
-	fi
-	base_src_prepare
-}
-
-src_install() {
-	dobin seaview || die
-
-	# /usr/share/seaview/seaview.html is hardcoded in the binary, see Makefile
-	insinto /usr/share/seaview
-	doins example.nxs seaview.html
-
-	insinto /usr/share/seaview/images
-	doins seaview.xpm || die
-
-	make_desktop_entry seaview Seaview
-
-	doman seaview.1 || die
-}
diff --git a/sci-biology/seaview/seaview-4.2.5.ebuild b/sci-biology/seaview/seaview-4.2.5.ebuild
index 40de6eed14dd..88812ef224a7 100644
--- a/sci-biology/seaview/seaview-4.2.5.ebuild
+++ b/sci-biology/seaview/seaview-4.2.5.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2010 Gentoo Foundation
+# Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.2.5.ebuild,v 1.3 2010/07/16 22:05:28 hwoarang Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-4.2.5.ebuild,v 1.4 2011/02/22 16:53:39 scarabeus Exp $
 
 EAPI="2"
 
@@ -13,10 +13,9 @@ SRC_URI="ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview/archive/${PN}_${PV}.
 LICENSE="public-domain"
 SLOT="0"
 KEYWORDS="amd64 x86"
-IUSE="+pdf +xft"
+IUSE="+xft"
 
 DEPEND="x11-libs/fltk:1.1
-	pdf? ( media-libs/pdflib )
 	xft? (	x11-libs/libXft
 			x11-libs/fltk:1.1[xft] )"
 RDEPEND="${DEPEND}
@@ -39,18 +38,6 @@ src_prepare() {
 		-e "s:^#PHYMLNAME:PHYMLNAME:" \
 		Makefile || die "sed failed while editing Makefile"
 
-	if use pdf; then
-		sed -i \
-			-e "s:PDF_PS_FLAGS = -DNO_PDF:#PDF_PS_FLAGS = -DNO_PDF:" \
-			-e "s:PDF_PS = postscript:#PDF_PS = postscript:" \
-			-e "s:#PDF_INC = \$(HOME)/PDFlibLite:PDF_INC = /usr/include:" \
-			-e "s:#PDF_LIB = \$(HOME)/PDFlibLite:PDF_LIB = /usr/lib:" \
-			-e "s:#PDF_PS = pdf:PDF_PS = pdf:" \
-			-e "s:#PDF_PS_FLAGS = -I\$(PDF_INC):PDF_PS_FLAGS = -I\$(PDF_INC):" \
-			-e "s:#LPDF = -L\$(PDF_LIB) -lpdf:LPDF = -L\$(PDF_LIB) -lpdf:" \
-			Makefile || die "sed failed while editing Makefile to enable pdf output"
-	fi
-
 	if use xft; then
 		sed -i \
 			-e "s:^#USE_XFT .*:USE_XFT = -DUSE_XFT $(xft-config --cflags):" \