Add missing dependency on cpio, bug #513420

Package-Manager: portage-2.2.20/cvs/Linux x86_64
Manifest-Sign-Key: 0xE9402A79B03529A2!

4 files changed, 30 insertions, 59 deletions

diff --git a/sci-biology/rmblast/ChangeLog b/sci-biology/rmblast/ChangeLog
index 8315dc88314f..e98d9079a5fb 100644
--- a/sci-biology/rmblast/ChangeLog
+++ b/sci-biology/rmblast/ChangeLog
@@ -1,6 +1,10 @@
 # ChangeLog for sci-biology/rmblast
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rmblast/ChangeLog,v 1.5 2013/03/11 16:55:57 jlec Exp $
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rmblast/ChangeLog,v 1.6 2015/06/16 08:38:38 jlec Exp $
+
+  16 Jun 2015; Justin Lecher <jlec@gentoo.org> -rmblast-1.2.ebuild,
+  rmblast-1.2-r1.ebuild:
+  Add missing dependency on cpio, bug #513420
 
   11 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
   Drop Andrey as maintainer so that bugs get assigned to sci-biology directly
diff --git a/sci-biology/rmblast/Manifest b/sci-biology/rmblast/Manifest
index e2478de12581..977c9838312b 100644
--- a/sci-biology/rmblast/Manifest
+++ b/sci-biology/rmblast/Manifest
@@ -1,16 +1,27 @@
 -----BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA256
+Hash: SHA512
 
 AUX rmblast-1.2-gcc47.patch 31795 SHA256 f68cee00a42ab19612430cd19c6c26fd5b4f1bea78710577e3e18b8ace82896d SHA512 2db82b02b157dd39c21d1fc459c4837741088d0d764c994094096c15ce76331f33f68e7e8498f7ea43e4979cde2fd248baf0687ac08b147d1060b54ac55b83d0 WHIRLPOOL 5a258a4f3aa66afb24faa4b2708c13e478710059757ec1a63a90c23f15b003a6366477a30349f87841f31c3131a3ef3a4de17c1df27a54da639f915efbda55fe
 DIST rmblast-1.2-ncbi-blast-2.2.23+-src.tar.gz 10744076 SHA256 996be9886189364fff8ed39d4668122b2e5b8b010be47d929602416d95628eef SHA512 e7c2ebd114aee045ea3f3f462cf2658440e13a2d1eb777648386e1c5eeda9f8083af383c019f9b5802d935d6eb2367eef20822afc45233ddb44a426b4dd7ddb6 WHIRLPOOL aa3ada4297812a97614b0fe218de65d7474edfb5910e156eb09b625d45338a97b35f46876f5edf6105ead8b321a28f55ed7de2ad251bbc48ffd0cfa65ee2ac7a
-EBUILD rmblast-1.2-r1.ebuild 1156 SHA256 59797b2048de3017469fbe85f03fb389a3613c960645e3ad7e3e4c5a5e078393 SHA512 50dad8de2a728a7392c9a8e8652d281cd39f2a3ae761fc0f24efd8c0bfd7c8939851f5715a7f53fc54748e473bb1a3c786996447b8f8b81687a0cd24738997bc WHIRLPOOL 84ed3705aafc4c3d239c720251760e15ad08f8c4102e72966cccd0a04b2ddeed54113e10887a8b78473a3741ad3ab489cc0455d33eb933149e0d7e7ee6e9547b
-EBUILD rmblast-1.2.ebuild 1164 SHA256 3a707fa6aeae892bdeef8a80b827031487a662c4b0d7834edc2108743fb00f34 SHA512 a1919c5ae9289dc376b4146476f25aaaf734c7a69229a0bdef4d82eb83347a454b23b8e913cf461c25814411775aa87045c568791a7be138334c28b1ae118bc7 WHIRLPOOL fd9392b37595788a59209bedd6765d213b4c7549e7c38818e5a2581eae7f4b2b4ebeafa355648621ef239d70850fac8e3266a9a8c25e8051983ee66381502e8a
-MISC ChangeLog 1044 SHA256 61bf415fbb2d261e72e5d497266c09b8316344d63884004d4f1415d6bb7631d0 SHA512 23786199ee3eed2728b525fe03a518fe22d0155003d57cb0ae22379276b140af77c80d16adbbf9b41ba7feb9e26fccc73644adc8e26e4509455865aa79c02b4a WHIRLPOOL c2b047afa608b86c29cdeaffc4e0733a0692fb1bf277854bcc6cd660c04e349046b3a6d52841edab1b7a708c3cc436505ce7b4a9f3c602230adc0fafef8d9024
+EBUILD rmblast-1.2-r1.ebuild 1172 SHA256 b4499fe25bb951efbf71802a762360d4f7ba4939196627fa6c7bbeb71328e8b6 SHA512 ebc7dfc5f9d0803a64be19283049b8f128bcb40c7f3325d3e1a628d0191b2f723a7b6a9d2f33e27eeeccf9de09cfdba178558cfd2fd68a1f36c0728d23376264 WHIRLPOOL f36ee3f01fd6570f8e5763e31ad51a3d1f0d4f4b6ca41199f16f806de278c14c2d853d0386be20f11fae8699d4ea5cdb086c90390503ef486e94fd6756e5f99c
+MISC ChangeLog 1184 SHA256 b0427be081124505e7b0890ae979922d5c0578eff983181ee3886850b3e6f731 SHA512 48c3c1f186306117ef9a171977984c46d9059347d5a7d481e6e610dc5f2631022d3cedcd703805dbadf00352c4847a50aa52168b8cd510ec047ef8530814a6ab WHIRLPOOL f7c3dd1fe2a4c6bfad72f7fd87b956dde73012bb3c769a9bd44f4ba8a8e873f4d27abfd72f1ce9a4f255fcd211ff85fa0ca61dc093cde5ce7ebcfe85b57a5c6f
 MISC metadata.xml 166 SHA256 29b228f683c71345323d841414e410c929a320f34536eb30910498728260c8ac SHA512 51c5345bb1c4466b73e2feac8895c64fc119365e7f2c156702f4c93664d3aba028b3da9daaabf24f61a88220345fca7806771a252e8ae906cac5dec97862c7e0 WHIRLPOOL 211bf955d94fc1d93b12388a2c597a8d440fb5d78f84d59b2549569537098c3525b1fbab707441d62fabe20edcac2fd9ebe09c5d9870f1c9558d7ee90d5db5b3
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diff --git a/sci-biology/rmblast/rmblast-1.2-r1.ebuild b/sci-biology/rmblast/rmblast-1.2-r1.ebuild
index de9f206dc0e4..92f7b98ae01e 100644
--- a/sci-biology/rmblast/rmblast-1.2-r1.ebuild
+++ b/sci-biology/rmblast/rmblast-1.2-r1.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2013 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rmblast/rmblast-1.2-r1.ebuild,v 1.1 2013/02/18 10:48:11 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/rmblast/rmblast-1.2-r1.ebuild,v 1.2 2015/06/16 08:38:38 jlec Exp $
 
 EAPI=5
 
@@ -17,8 +17,9 @@ SLOT="0"
 IUSE=""
 KEYWORDS="~amd64 ~x86"
 
-DEPEND="dev-libs/boost"
-RDEPEND="${DEPEND}"
+RDEPEND="dev-libs/boost"
+DEPEND="${RDEPEND}
+	app-arch/cpio"
 
 S="${WORKDIR}/${P}-ncbi-blast-${MY_NCBI_BLAST_V}-src/c++"
 
diff --git a/sci-biology/rmblast/rmblast-1.2.ebuild b/sci-biology/rmblast/rmblast-1.2.ebuild
deleted file mode 100644
index ecdfa0b11571..000000000000
--- a/sci-biology/rmblast/rmblast-1.2.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/rmblast/rmblast-1.2.ebuild,v 1.4 2013/02/18 10:48:11 jlec Exp $
-
-EAPI="3"
-
-inherit eutils flag-o-matic toolchain-funcs
-
-MY_NCBI_BLAST_V=2.2.23+
-
-DESCRIPTION="RepeatMasker compatible version of NCBI BLAST+"
-HOMEPAGE="http://www.repeatmasker.org/RMBlast.html"
-SRC_URI="http://www.repeatmasker.org/rmblast-${PV}-ncbi-blast-${MY_NCBI_BLAST_V}-src.tar.gz"
-
-LICENSE="OSL-2.1"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=">=dev-libs/boost-1.35.0"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}/${P}-ncbi-blast-${MY_NCBI_BLAST_V}-src/c++"
-
-src_prepare() {
-	filter-ldflags -Wl,--as-needed
-	sed \
-		-e 's/-print-file-name=libstdc++.a//' \
-		-e '/sed/ s/\([gO]\[0-9\]\)\*/\1\\+/' \
-		-e "/DEF_FAST_FLAGS=/s:=\".*\":=\"${CFLAGS}\":g" \
-		-i src/build-system/configure || die
-	epatch "${FILESDIR}"/${P}-gcc47.patch
-}
-
-src_configure() {
-	tc-export CXX CC
-
-	"${S}"/configure --without-debug \
-		--with-mt \
-		--without-static \
-		--with-dll \
-		--prefix="${ED}"/opt/${PN} \
-		--with-boost="${EPREFIX}/usr/include/boost" \
-		|| die
-}