[gentoo-commits] repo/gentoo:master commit in: sci-biology/mosaik/

[gentoo-commits] repo/gentoo:master commit in: sci-biology/mosaik/

[David Seifert]

commit:     abe1e98a9ca7e95bb94345ef2c2c567a9d9d781a
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sat Feb 25 16:35:43 2017 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Feb 25 17:12:56 2017 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=abe1e98a

sci-biology/mosaik: Remove old

Package-Manager: Portage-2.3.3, Repoman-2.3.1
Closes: https://github.com/gentoo/gentoo/pull/4076

 sci-biology/mosaik/Manifest               |  2 --
 sci-biology/mosaik/mosaik-1.0.1367.ebuild | 34 ---------------------------
 sci-biology/mosaik/mosaik-1.0.1388.ebuild | 38 -------------------------------
 3 files changed, 74 deletions(-)

diff --git a/sci-biology/mosaik/Manifest b/sci-biology/mosaik/Manifest
index de9954a2fc..ae455ae8b3 100644
--- a/sci-biology/mosaik/Manifest
+++ b/sci-biology/mosaik/Manifest
@@ -1,3 +1 @@
-DIST Mosaik-1.0.1367-source.tar.bz2 8700231 SHA256 2a6ee1d25af835028b71f2518c6a00e929e64e7be6305183dfe0e242a015c750 SHA512 2100cd3b182a77be9a7411dce61ee51cb28b5e8e64282ec26e74d86c1e41d3254f7f62bd69f2ee4ad4d60c535e00e604b5f84f748f5c43ad4b0ac939cf8ed81a WHIRLPOOL cf25de6062201956068f02c339216d11fc1b473d68d7b4e9aed12d6f53ac5485995082a386b972d9545672346fac08f607bae34ac839bc8edf461b84e7430456
-DIST Mosaik-1.0.1388-source.tar.bz2 8730164 SHA256 d6a8effa49adac617a388e2132aaf1a6b0679c783574d7df2cbd952a5f96e60c SHA512 cb6c4035cf9a6433b25800d841b74add3c88f06a87ac0261ffbba7be0528bcb02460fbbd0095656e60ca44c28ea249fe702bb0a4262d2ba64574a7e54a05a2bb WHIRLPOOL 5bf926898ab0f40f21858e511c366586d82450f4ef9af14e4add2e7e889be27a543afa23006de3bb2f49d2a43a81d32473958946a5cc08da0a26feee41c7a3e0
 DIST mosaik-2.2.30.tar.gz 4387062 SHA256 685dcc4cde1b56d19be37bfb238ae4cddeb25dced6da7b3880e68973957e940e SHA512 1acf534e6defc927fc22937a7bae6786e85ab7aa234b4209169f1267f1a9bd68415b441c6aed2e7cd667f694a562017ebc9457251958f77386259ffce9812b10 WHIRLPOOL 493291cc94cc5f95f5f1f62c3208f1c8dbb8cb0efcf6a21cca3e3963228f02ab0e59f11e00d8a9724a99733ffd290bc979262c0e553a1ee55c1adc9c392c3813

diff --git a/sci-biology/mosaik/mosaik-1.0.1367.ebuild b/sci-biology/mosaik/mosaik-1.0.1367.ebuild
deleted file mode 100644
index 1813735f11..0000000000
--- a/sci-biology/mosaik/mosaik-1.0.1367.ebuild
+++ /dev/null
@@ -1,34 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI="2"
-
-DESCRIPTION="A reference-guided aligner for next-generation sequencing technologies"
-HOMEPAGE="https://code.google.com/p/mosaik-aligner/"
-SRC_URI="https://mosaik-aligner.googlecode.com/files/Mosaik-${PV}-source.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/${PN}-source"
-
-src_compile() {
-	emake -C src || die
-#	emake -C MosaikTools/c++ || die
-#	emake -C MosaikTools/perl || die
-}
-
-src_install() {
-	dobin bin/* || die
-
-	insinto /usr/share/${PN}
-	doins -r MosaikTools || die
-
-	dodoc README Mosaik-1.0-Documentation.pdf
-}

diff --git a/sci-biology/mosaik/mosaik-1.0.1388.ebuild b/sci-biology/mosaik/mosaik-1.0.1388.ebuild
deleted file mode 100644
index ce345c09eb..0000000000
--- a/sci-biology/mosaik/mosaik-1.0.1388.ebuild
+++ /dev/null
@@ -1,38 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI="2"
-
-DESCRIPTION="A reference-guided aligner for next-generation sequencing technologies"
-HOMEPAGE="https://code.google.com/p/mosaik-aligner/"
-SRC_URI="https://mosaik-aligner.googlecode.com/files/Mosaik-${PV}-source.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=""
-RDEPEND=""
-
-S="${WORKDIR}/mosaik-aligner"
-
-src_prepare() {
-	sed -i 's/-static//' src/includes/linux.inc || die
-}
-
-src_compile() {
-	emake -C src || die
-#	emake -C MosaikTools/c++ || die
-#	emake -C MosaikTools/perl || die
-}
-
-src_install() {
-	dobin bin/* || die
-
-	insinto /usr/share/${PN}
-	doins -r MosaikTools || die
-
-	dodoc README Mosaik-1.0-Documentation.pdf
-}

[gentoo-commits] repo/gentoo:master commit in: sci-biology/mosaik/

[Sam James]

commit:     cb339254365b65f490858cddbdac98cf7dd92a6b
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sun Mar 20 18:49:35 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sun Mar 20 18:50:55 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cb339254

sci-biology/mosaik: [QA] fix tc-get* quoting

This can cause build problems for e.g. 32-bit (gcc -m32 ...)

Signed-off-by: Sam James <sam <AT> gentoo.org>

 sci-biology/mosaik/mosaik-2.2.30.ebuild | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/sci-biology/mosaik/mosaik-2.2.30.ebuild b/sci-biology/mosaik/mosaik-2.2.30.ebuild
index 633738b8f4c2..0aee0a2cfbd9 100644
--- a/sci-biology/mosaik/mosaik-2.2.30.ebuild
+++ b/sci-biology/mosaik/mosaik-2.2.30.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2022 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
@@ -31,8 +31,8 @@ src_configure() {
 
 src_compile() {
 	emake \
-		CC=$(tc-getCC) \
-		CXX=$(tc-getCXX) \
+		CC="$(tc-getCC)" \
+		CXX="$(tc-getCXX)" \
 		CFLAGS="${CFLAGS}" \
 		CXXFLAGS="${CXXFLAGS}" \
 		CPPFLAGS="${CPPFLAGS}" \