gentoo resync : 01.08.2021

4 files changed, 17 insertions, 15 deletions

diff --git a/metadata/md5-cache/sci-biology/Manifest.gz b/metadata/md5-cache/sci-biology/Manifest.gz
index 5778079c40c0..cf91a93ac012 100644
--- a/metadata/md5-cache/sci-biology/Manifest.gz
+++ b/metadata/md5-cache/sci-biology/Manifest.gz
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.2.9 b/metadata/md5-cache/sci-biology/bowtie-2.2.9
deleted file mode 100644
index 3f8c65c1ac95..000000000000
--- a/metadata/md5-cache/sci-biology/bowtie-2.2.9
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=compile install pretend
-DEPEND=dev-lang/perl tbb? ( dev-cpp/tbb ) app-arch/unzip
-DESCRIPTION=Popular short read aligner for Next-generation sequencing data
-EAPI=6
-HOMEPAGE=http://bowtie-bio.sourceforge.net/bowtie2/
-IUSE=examples cpu_flags_x86_sse2 +tbb
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-3
-RDEPEND=dev-lang/perl tbb? ( dev-cpp/tbb )
-SLOT=2
-SRC_URI=mirror://sourceforge/project/bowtie-bio/bowtie2/2.2.9/bowtie2-2.2.9-source.zip
-_eclasses_=multilib	97566c1a256d07b00848aa767e38a352	toolchain-funcs	9ea1c67b6f8315fdc2568abb674519aa
-_md5_=46d87c867cd445707dc1913cf3dd7eb6
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.4.4 b/metadata/md5-cache/sci-biology/bowtie-2.4.4
new file mode 100644
index 000000000000..7ac1b71be9eb
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/bowtie-2.4.4
@@ -0,0 +1,15 @@
+BDEPEND=app-arch/unzip
+DEFINED_PHASES=compile install setup
+DEPEND=python_single_target_python3_8? ( dev-lang/python:3.8 >=dev-lang/python-exec-2:=[python_targets_python3_8] ) python_single_target_python3_9? ( dev-lang/python:3.9 >=dev-lang/python-exec-2:=[python_targets_python3_9] ) python_single_target_python3_10? ( dev-lang/python:3.10 >=dev-lang/python-exec-2:=[python_targets_python3_10] ) dev-lang/perl sys-libs/zlib
+DESCRIPTION=Popular short read aligner for Next-generation sequencing data
+EAPI=8
+HOMEPAGE=http://bowtie-bio.sourceforge.net/bowtie2/
+IUSE=cpu_flags_x86_sse2 examples python_single_target_python3_8 python_single_target_python3_9 python_single_target_python3_10
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-3
+RDEPEND=python_single_target_python3_8? ( dev-lang/python:3.8 >=dev-lang/python-exec-2:=[python_targets_python3_8] ) python_single_target_python3_9? ( dev-lang/python:3.9 >=dev-lang/python-exec-2:=[python_targets_python3_9] ) python_single_target_python3_10? ( dev-lang/python:3.10 >=dev-lang/python-exec-2:=[python_targets_python3_10] ) dev-lang/perl sys-libs/zlib
+REQUIRED_USE=cpu_flags_x86_sse2 ^^ ( python_single_target_python3_8 python_single_target_python3_9 python_single_target_python3_10 )
+SLOT=2
+SRC_URI=mirror://sourceforge/project/bowtie-bio/bowtie2/2.4.4/bowtie2-2.4.4-source.zip
+_eclasses_=multilib	97566c1a256d07b00848aa767e38a352	python-single-r1	73f113f91928e0d16bceb65ecbcd8e75	python-utils-r1	2f5967e7ced9abfa71ff7b0ea8d61b3a	toolchain-funcs	9ea1c67b6f8315fdc2568abb674519aa
+_md5_=a169406c93e64d9cae6cbb8ad262f62b
diff --git a/metadata/md5-cache/sci-biology/emboss-6.6.0-r1 b/metadata/md5-cache/sci-biology/emboss-6.6.0-r1
index 5ed53d5b0273..874dba6953c9 100644
--- a/metadata/md5-cache/sci-biology/emboss-6.6.0-r1
+++ b/metadata/md5-cache/sci-biology/emboss-6.6.0-r1
@@ -10,6 +10,6 @@ LICENSE=LGPL-2 GPL-2 Apache-2.0 GPL-3+ CC-BY-3.0
 PDEPEND=!minimal? ( sci-biology/aaindex sci-biology/cutg sci-biology/primer3 sci-biology/prints sci-biology/prosite sci-biology/rebase )
 RDEPEND=!games-action/xbomber !sys-devel/cons dev-libs/expat dev-libs/libpcre:3 sci-libs/plplot:= sys-libs/zlib mysql? ( dev-db/mysql-connector-c:0= ) pdf? ( media-libs/libharu:= ) png? ( media-libs/gd:2=[png] ) postgres? ( dev-db/postgresql:= ) X? ( x11-libs/libXt )
 SLOT=0
-SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.6.0.tar.gz
+SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.6.0.tar.gz https://dev.gentoo.org/~soap/distfiles/emboss-6.6.0-patches.tar.xz
 _eclasses_=autotools	2a36908d5f63f41614b450a2459567da	edos2unix	33e347e171066657f91f8b0c72ec8773	emboss-r2	93f4f6ac626ed63f042344dd76574b41	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	4134b5c0fb719b9161d10bdaba9e09e5	gnuconfig	262062cef0ba4f22b397193da514a350	libtool	241a8f577b9781a42a7421e53448a44e	multilib	97566c1a256d07b00848aa767e38a352	readme.gentoo-r1	e51390d48521eb3d400db57d557b7530	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	9ea1c67b6f8315fdc2568abb674519aa	wrapper	4251d4c84c25f59094fd557e0063a974
-_md5_=72c86b427ea83b8feb792884f23feaf3
+_md5_=ca77e598a1b176f454ece551aad686da