Add the Java version, which is actually maintained. This could possibly use some more enhancement to add wrappers for the GUI and such, but the ebuild is already a fully functional replacement for the old version.

Package-Manager: portage-2.1.5_rc6

3 files changed, 69 insertions, 3 deletions

diff --git a/sci-biology/readseq/ChangeLog b/sci-biology/readseq/ChangeLog
index cd592ed8308c..235794f9a61e 100644
--- a/sci-biology/readseq/ChangeLog
+++ b/sci-biology/readseq/ChangeLog
@@ -1,6 +1,14 @@
 # ChangeLog for sci-biology/readseq
-# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/readseq/ChangeLog,v 1.5 2006/08/17 22:20:51 weeve Exp $
+# Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/readseq/ChangeLog,v 1.6 2008/04/26 06:31:30 dberkholz Exp $
+
+*readseq-20080420 (26 Apr 2008)
+
+  26 Apr 2008; Donnie Berkholz <dberkholz@gentoo.org>;
+  +readseq-20080420.ebuild:
+  Add the Java version, which is actually maintained. This could possibly
+  use some more enhancement to add wrappers for the GUI and such, but the
+  ebuild is already a fully functional replacement for the old version.
 
   17 Aug 2006; Jason Wever <weeve@gentoo.org> readseq-19930201.ebuild:
   Added ~sparc keyword wrt bug #144246.
diff --git a/sci-biology/readseq/Manifest b/sci-biology/readseq/Manifest
index 5114f0d713b2..12fb5737d682 100644
--- a/sci-biology/readseq/Manifest
+++ b/sci-biology/readseq/Manifest
@@ -1,4 +1,16 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA1
+
+DIST readseq-source-20080420.zip 627341 RMD160 7931de08b53548908de3caee835e5a2e3398fe3b SHA1 89e250de9270f2d89f2064b08a23a165f5edec05 SHA256 d91ccadcbf5fde29525c639ece6ae132e0db863a7e63f96f69647e591617e8dd
 DIST readseq_1.orig.tar.gz 54557 RMD160 eb9f08df46f4cb439a22657c1ddb724f9b4a5e3d SHA1 474839186eec28f650ac89a33829673fa40c3bbb SHA256 b704d7a12c5d834390f3ed4233f1409c5f1ed53b0b9accf5ab632a513de1183c
 EBUILD readseq-19930201.ebuild 638 RMD160 cac475202534c8c8616043ba8da31e19321812b4 SHA1 3e947d605d38e97ea080bfbcc733150e4d5e4299 SHA256 367ad4fb3a0e0cb362304b4bb76177c3404a889f406c544018dcd06406560889
-MISC ChangeLog 1237 RMD160 888092f66dcb122089feb3bdd51efd2d8b80bda8 SHA1 eb4f34fac1dd64a449bf0296caa6f52ae81f73ec SHA256 d99c27bac71164987e70e22df843e148c10c0dfdfb510ab2e0f3f568fbddc983
+EBUILD readseq-20080420.ebuild 1275 RMD160 2bfa14ec66b42cf46c2246346ec26cafeb8af21c SHA1 2d623abaa915f558f7ae0289581024c5b51f4535 SHA256 393229518cbff90105e7031a8195cb849570a899e57291def72b2cd8394565d1
+MISC ChangeLog 1578 RMD160 4e2fb5fbcbe9e604573dec6850ddd9f9b2955d3d SHA1 5e4796ba2bfe17febb85a2baebd528a0efc56f2d SHA256 c812b2947802939185951996890329193ee508e22ac7d781fd96ba3ac8c2d46b
 MISC metadata.xml 408 RMD160 5ce131c98012b12cbb1b8bf7fc11e56ce54067c5 SHA1 adb2f71c92a367dfa4ef78c775ed44803d331188 SHA256 9fbdb6518d4e841ab2f257bf953a287604f4c9dc00ec63556fa24d3664fad939
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v2.0.9 (GNU/Linux)
+
+iEYEARECAAYFAkgSzEsACgkQXVaO67S1rtvISgCfWHsEw8orRGbjuOSWEnGoYbsO
+cy8AnipbfGLesD4NSIvxwuVVeDYPdcWb
+=qkn3
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/readseq/readseq-20080420.ebuild b/sci-biology/readseq/readseq-20080420.ebuild
new file mode 100644
index 000000000000..3897b2ffbe25
--- /dev/null
+++ b/sci-biology/readseq/readseq-20080420.ebuild
@@ -0,0 +1,46 @@
+# Copyright 1999-2008 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/readseq/readseq-20080420.ebuild,v 1.1 2008/04/26 06:31:30 dberkholz Exp $
+
+EAPI=1
+
+inherit java-pkg-2 java-ant-2
+
+MY_P="${PN}-source-${PV}"
+DESCRIPTION="Reads and writes nucleic/protein sequences in various formats."
+HOMEPAGE="http://iubio.bio.indiana.edu/soft/molbio/readseq/"
+# Originally unversioned at 
+# http://iubio.bio.indiana.edu/soft/molbio/readseq/java/readseq-source.zip.
+# Renamed to the date of the modification and mirrored
+SRC_URI="http://dev.gentoo.org/~dberkholz/distfiles/${MY_P}.zip"
+#SRC_URI="mirror://gentoo/${MY_P}.zip"
+LICENSE="public-domain"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+COMMON="dev-java/xerces:2
+	dev-java/jaxp"
+RDEPEND="${COMMON}
+	>=virtual/jre-1.4"
+DEPEND="${COMMON}
+	>=virtual/jdk-1.4
+	app-arch/unzip"
+S=${WORKDIR}
+
+src_unpack() {
+	unpack ${A}
+	cd "${S}"
+	java-pkg_jar-from xerces-2 xercesImpl.jar lib/ibm-xml4j-min.jar
+	java-pkg_jar-from jaxp jaxp-ri.jar lib/orgxml.jar
+}
+
+src_install() {
+	java-pkg_dojar build/readseq.jar
+
+	java-pkg_dolauncher
+}
+
+pkg_postinst() {
+	elog "Documentation is available at"
+	elog "http://iubio.bio.indiana.edu/soft/molbio/readseq/java/Readseq2-help.html"
+}