gentoo resync : 10.02.2020

20 files changed, 56 insertions, 56 deletions

diff --git a/metadata/md5-cache/sci-biology/HTSeq-0.9.1 b/metadata/md5-cache/sci-biology/HTSeq-0.9.1
index 5bda20184c26..eb54209ff7ce 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-0.9.1
+++ b/metadata/md5-cache/sci-biology/HTSeq-0.9.1
@@ -10,5 +10,5 @@ RDEPEND=dev-python/numpy[python_targets_python3_6(-)?,-python_single_target_pyth
 REQUIRED_USE=|| ( python_targets_python3_6 )
 SLOT=0
 SRC_URI=mirror://pypi/H/HTSeq/HTSeq-0.9.1.tar.gz
-_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	c576838cd67e384002a18edd54be710e	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
+_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	24ad93542cf9d80a03d58784093b1d44	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
 _md5_=1a7e20f6705425c8dc29ce2c240db0b2
diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999
index 17c9c8faa44e..bb2c8c831a35 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-9999
+++ b/metadata/md5-cache/sci-biology/HTSeq-9999
@@ -9,5 +9,5 @@ PROPERTIES=live
 RDEPEND=dev-python/numpy[python_targets_python3_6(-)?,-python_single_target_python3_6(-)] dev-python/matplotlib[python_targets_python3_6(-)?,-python_single_target_python3_6(-)] sci-biology/pysam[python_targets_python3_6(-)?,-python_single_target_python3_6(-)] python_targets_python3_6? ( dev-lang/python:3.6 ) >=dev-lang/python-exec-2:=[python_targets_python3_6(-)?,-python_single_target_python3_6(-)]
 REQUIRED_USE=|| ( python_targets_python3_6 )
 SLOT=0
-_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	c576838cd67e384002a18edd54be710e	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	git-r3	809e27702c573cbba31c08ed00bbad33	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
+_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	24ad93542cf9d80a03d58784093b1d44	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	git-r3	809e27702c573cbba31c08ed00bbad33	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
 _md5_=1a7e20f6705425c8dc29ce2c240db0b2
diff --git a/metadata/md5-cache/sci-biology/Manifest.gz b/metadata/md5-cache/sci-biology/Manifest.gz
index b928e351b759..cbe4b5a1cd72 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/amos-3.1.0-r4 b/metadata/md5-cache/sci-biology/amos-3.1.0-r4
index cdc1848c8e15..ea3aa2c0d462 100644
--- a/metadata/md5-cache/sci-biology/amos-3.1.0-r4
+++ b/metadata/md5-cache/sci-biology/amos-3.1.0-r4
@@ -3,12 +3,12 @@ DEPEND=>=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.1:1.16
 DESCRIPTION=A Modular, Open-Source whole genome assembler
 EAPI=6
 HOMEPAGE=http://amos.sourceforge.net/
-IUSE=+python_targets_python2_7 +python_single_target_python2_7
+IUSE=+python_single_target_python2_7
 KEYWORDS=~amd64 ~x86
 LICENSE=Artistic
 RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) dev-perl/DBI dev-perl/Statistics-Descriptive sci-biology/mummer
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0
 SRC_URI=mirror://sourceforge/amos/amos-3.1.0.tar.gz https://dev.gentoo.org/~soap/distfiles/amos-3.1.0-fix-c++14.patch.bz2
-_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	libtool	f143db5a74ccd9ca28c1234deffede96	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
+_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	libtool	f143db5a74ccd9ca28c1234deffede96	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
 _md5_=aec6d1c76d5ea621c66e803800e2b3c4
diff --git a/metadata/md5-cache/sci-biology/bcftools-1.9 b/metadata/md5-cache/sci-biology/bcftools-1.9
deleted file mode 100644
index 50012519e8be..000000000000
--- a/metadata/md5-cache/sci-biology/bcftools-1.9
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=configure prepare setup
-DEPEND=dev-lang/perl =sci-libs/htslib-1.9*:= sys-libs/zlib:= python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] )
-DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files
-EAPI=7
-HOMEPAGE=http://www.htslib.org
-IUSE=+python_targets_python2_7 +python_single_target_python2_7
-KEYWORDS=~amd64 ~x86
-LICENSE=MIT
-RDEPEND=dev-lang/perl =sci-libs/htslib-1.9*:= sys-libs/zlib:= python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] )
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
-SLOT=0
-SRC_URI=https://github.com/samtools/bcftools/releases/download/1.9/bcftools-1.9.tar.bz2
-_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
-_md5_=67c63191569c3370d6eca3ec783afbea
diff --git a/metadata/md5-cache/sci-biology/bcftools-1.9-r2 b/metadata/md5-cache/sci-biology/bcftools-1.9-r2
new file mode 100644
index 000000000000..fc51fe9deea3
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/bcftools-1.9-r2
@@ -0,0 +1,14 @@
+DEFINED_PHASES=configure prepare setup
+DEPEND=dev-lang/perl python_single_target_python3_6? ( dev-python/matplotlib[python_targets_python3_6(-)] ) =sci-libs/htslib-1.9*:= sys-libs/zlib:= python_single_target_python3_6? ( dev-lang/python:3.6 >=dev-lang/python-exec-2:=[python_targets_python3_6] )
+DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files
+EAPI=7
+HOMEPAGE=http://www.htslib.org
+IUSE=+python_single_target_python3_6
+KEYWORDS=~amd64 ~x86
+LICENSE=MIT
+RDEPEND=dev-lang/perl python_single_target_python3_6? ( dev-python/matplotlib[python_targets_python3_6(-)] ) =sci-libs/htslib-1.9*:= sys-libs/zlib:= python_single_target_python3_6? ( dev-lang/python:3.6 >=dev-lang/python-exec-2:=[python_targets_python3_6] )
+REQUIRED_USE=^^ ( python_single_target_python3_6 )
+SLOT=0
+SRC_URI=https://github.com/samtools/bcftools/releases/download/1.9/bcftools-1.9.tar.bz2
+_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
+_md5_=12e708ee9cbff94d9e05cdd879d1ed3a
diff --git a/metadata/md5-cache/sci-biology/bedtools-2.26.0 b/metadata/md5-cache/sci-biology/bedtools-2.26.0
index a391db0844e9..76195e3dee24 100644
--- a/metadata/md5-cache/sci-biology/bedtools-2.26.0
+++ b/metadata/md5-cache/sci-biology/bedtools-2.26.0
@@ -1,5 +1,5 @@
 DEFINED_PHASES=configure install setup
-DEPEND=|| ( dev-lang/python:3.6 >=dev-lang/python-2.7.5-r2:2.7 ) test? ( sci-libs/htslib sci-biology/samtools:0 )
+DEPEND=|| ( dev-lang/python:3.6 ) test? ( sci-libs/htslib sci-biology/samtools:0 )
 DESCRIPTION=Tools for manipulation and analysis of BED, GFF/GTF, VCF, SAM/BAM file formats
 EAPI=6
 HOMEPAGE=https://bedtools.readthedocs.io/
@@ -11,4 +11,4 @@ RESTRICT=!test? ( test )
 SLOT=0
 SRC_URI=https://github.com/arq5x/bedtools2/releases/download/v2.26.0/bedtools-2.26.0.tar.gz https://dev.gentoo.org/~mgorny/dist/bedtools-2.26.0-fix-buildsystem.patch.bz2
 _eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-any-r1	b6db354660033efd06cd6d7f4905ccea	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
-_md5_=7823f0eb8a9e0d9782d2caf65208df9e
+_md5_=1b65bed58bf80baf59cb7772dbdb6023
diff --git a/metadata/md5-cache/sci-biology/biopandas-0.2.1 b/metadata/md5-cache/sci-biology/biopandas-0.2.1
index 389c4f8456bf..918f8356dcab 100644
--- a/metadata/md5-cache/sci-biology/biopandas-0.2.1
+++ b/metadata/md5-cache/sci-biology/biopandas-0.2.1
@@ -11,5 +11,5 @@ REQUIRED_USE=|| ( python_targets_python3_6 )
 RESTRICT=!test? ( test )
 SLOT=0
 SRC_URI=mirror://pypi/B/BioPandas/biopandas-0.2.1.tar.gz
-_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	c576838cd67e384002a18edd54be710e	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
+_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	24ad93542cf9d80a03d58784093b1d44	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
 _md5_=9aa50282a8f020366a788665165393c5
diff --git a/metadata/md5-cache/sci-biology/biopython-1.73 b/metadata/md5-cache/sci-biology/biopython-1.73
index e24a94a5fc94..ea26c1149772 100644
--- a/metadata/md5-cache/sci-biology/biopython-1.73
+++ b/metadata/md5-cache/sci-biology/biopython-1.73
@@ -11,5 +11,5 @@ RDEPEND=dev-python/matplotlib[python_targets_python3_6(-)?,python_targets_python
 REQUIRED_USE=|| ( python_targets_python3_6 python_targets_python3_7 )
 SLOT=0
 SRC_URI=mirror://pypi/b/biopython/biopython-1.73.tar.gz
-_eclasses_=distutils-r1	c576838cd67e384002a18edd54be710e	eutils	fcb2aa98e1948b835b5ae66ca52868c5	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
+_eclasses_=distutils-r1	24ad93542cf9d80a03d58784093b1d44	eutils	fcb2aa98e1948b835b5ae66ca52868c5	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
 _md5_=a7d43dcf81616b69a0167851abcbe227
diff --git a/metadata/md5-cache/sci-biology/foldingathome-7.5.1 b/metadata/md5-cache/sci-biology/foldingathome-7.5.1
index 6d182505c317..895557ad12b0 100644
--- a/metadata/md5-cache/sci-biology/foldingathome-7.5.1
+++ b/metadata/md5-cache/sci-biology/foldingathome-7.5.1
@@ -9,5 +9,5 @@ RDEPEND=app-arch/bzip2 || ( dev-libs/openssl-compat:1.0.0 =dev-libs/openssl-1.0*
 RESTRICT=mirror bindist strip
 SLOT=0
 SRC_URI=https://download.foldingathome.org/releases/public/release/fahclient/centos-6.7-64bit/v7.5/fahclient_7.5.1-64bit-release.tar.bz2
-_eclasses_=estack	686eaab303305a908fd57b2fd7617800	multilib	1d91b03d42ab6308b5f4f6b598ed110e	systemd	71fd8d2065d102753fb9e4d20eaf3e9f	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	user	00484e1be1aac73e24fca1c99557a7d6	versionator	2352c3fc97241f6a02042773c8287748
+_eclasses_=estack	686eaab303305a908fd57b2fd7617800	multilib	1d91b03d42ab6308b5f4f6b598ed110e	systemd	71fd8d2065d102753fb9e4d20eaf3e9f	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	user	95500565ced27667aca7cf7da2d46068	user-info	a2abd4e2f4c3b9b06d64bf1329359a02	versionator	2352c3fc97241f6a02042773c8287748
 _md5_=a1c1420f8b9044694473f469d5e750af
diff --git a/metadata/md5-cache/sci-biology/last-299-r1 b/metadata/md5-cache/sci-biology/last-299-r1
index 9607479e3870..67b6754d1243 100644
--- a/metadata/md5-cache/sci-biology/last-299-r1
+++ b/metadata/md5-cache/sci-biology/last-299-r1
@@ -3,12 +3,12 @@ DEPEND=app-arch/unzip
 DESCRIPTION=Genome-scale comparison of biological sequences
 EAPI=6
 HOMEPAGE=http://last.cbrc.jp/
-IUSE=+python_targets_python2_7 +python_single_target_python2_7
+IUSE=+python_single_target_python2_7
 KEYWORDS=~amd64 ~x86
 LICENSE=GPL-3
 RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] )
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0
 SRC_URI=http://last.cbrc.jp/last-299.zip
-_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
+_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
 _md5_=ec5206661373a6ef6ad77450dfbdb915
diff --git a/metadata/md5-cache/sci-biology/meme-4.11.2_p2 b/metadata/md5-cache/sci-biology/meme-4.11.2_p2
index edb91025ba4b..eb38f3d1bcb3 100644
--- a/metadata/md5-cache/sci-biology/meme-4.11.2_p2
+++ b/metadata/md5-cache/sci-biology/meme-4.11.2_p2
@@ -3,12 +3,12 @@ DEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-la
 DESCRIPTION=The MEME/MAST system - Motif discovery and search
 EAPI=6
 HOMEPAGE=http://meme-suite.org/tools/meme
-IUSE=debug doc examples mpi +python_targets_python2_7 +python_single_target_python2_7
+IUSE=debug doc examples mpi +python_single_target_python2_7
 KEYWORDS=~amd64 ~x86
 LICENSE=meme
 RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) app-shells/tcsh dev-libs/libxml2:2 dev-libs/libxslt sys-libs/zlib app-text/ghostscript-gpl media-gfx/imagemagick dev-lang/perl:= dev-perl/HTML-Parser dev-perl/HTML-Template dev-perl/Log-Log4perl dev-perl/Math-CDF dev-perl/XML-Compile-SOAP dev-perl/XML-Compile-WSDL11 dev-perl/XML-Parser dev-perl/XML-Simple virtual/perl-Data-Dumper virtual/perl-Exporter virtual/perl-File-Path virtual/perl-File-Spec virtual/perl-File-Temp virtual/perl-Getopt-Long virtual/perl-Scalar-List-Utils virtual/perl-Time-HiRes mpi? ( virtual/mpi )
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0
 SRC_URI=http://meme-suite.org/meme-software/4.11.2/meme_4.11.2.tar.gz
-_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	estack	686eaab303305a908fd57b2fd7617800	libtool	f143db5a74ccd9ca28c1234deffede96	multilib	1d91b03d42ab6308b5f4f6b598ed110e	perl-functions	6ec4c4d8fc8324200f1c14e8d158c59b	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	versionator	2352c3fc97241f6a02042773c8287748
+_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	estack	686eaab303305a908fd57b2fd7617800	libtool	f143db5a74ccd9ca28c1234deffede96	multilib	1d91b03d42ab6308b5f4f6b598ed110e	perl-functions	6ec4c4d8fc8324200f1c14e8d158c59b	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	versionator	2352c3fc97241f6a02042773c8287748
 _md5_=a4080439675628436c06de8db9f59c6e
diff --git a/metadata/md5-cache/sci-biology/pysam-0.12.0.1 b/metadata/md5-cache/sci-biology/pysam-0.12.0.1
index 7ee1800a9e63..8d3c6f517e56 100644
--- a/metadata/md5-cache/sci-biology/pysam-0.12.0.1
+++ b/metadata/md5-cache/sci-biology/pysam-0.12.0.1
@@ -10,5 +10,5 @@ RDEPEND==sci-libs/htslib-1.5*:= python_targets_python2_7? ( >=dev-lang/python-2.
 REQUIRED_USE=|| ( python_targets_python2_7 python_targets_python3_6 )
 SLOT=0
 SRC_URI=mirror://pypi/p/pysam/pysam-0.12.0.1.tar.gz
-_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	c576838cd67e384002a18edd54be710e	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
+_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	24ad93542cf9d80a03d58784093b1d44	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	ltprune	2729691420b6deeda2a90b1f1183fb55	multibuild	40fe59465edacd730c644ec2bc197809	multilib	1d91b03d42ab6308b5f4f6b598ed110e	multiprocessing	cac3169468f893670dac3e7cb940e045	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-r1	4eed5e0c72d4544a2291ae46515f5d79	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	ff2ff954e6b17929574eee4efc5152ba
 _md5_=3982e194da0412a02dc76e2431b051de
diff --git a/metadata/md5-cache/sci-biology/samtools-0.1.20-r3 b/metadata/md5-cache/sci-biology/samtools-0.1.20-r3
index 6e19d460f95a..26c92999ebf8 100644
--- a/metadata/md5-cache/sci-biology/samtools-0.1.20-r3
+++ b/metadata/md5-cache/sci-biology/samtools-0.1.20-r3
@@ -3,12 +3,12 @@ DEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-la
 DESCRIPTION=Utilities for analysing and manipulating the SAM/BAM alignment formats
 EAPI=6
 HOMEPAGE=http://samtools.sourceforge.net/
-IUSE=examples +python_targets_python2_7 +python_single_target_python2_7
+IUSE=examples +python_single_target_python2_7
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos
 LICENSE=MIT
 RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) sys-libs/ncurses:0= dev-lang/perl
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0.1-legacy
 SRC_URI=https://github.com/samtools/samtools/archive/0.1.20.tar.gz -> samtools-0.1.20.tar.gz
-_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
+_eclasses_=multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
 _md5_=fa48f0b2be780a9264eb9d727ec53335
diff --git a/metadata/md5-cache/sci-biology/samtools-1.9 b/metadata/md5-cache/sci-biology/samtools-1.9
index 763cf4ac915a..efc21cb14b90 100644
--- a/metadata/md5-cache/sci-biology/samtools-1.9
+++ b/metadata/md5-cache/sci-biology/samtools-1.9
@@ -4,12 +4,12 @@ DEPEND=dev-lang/perl =sci-libs/htslib-1.9* sys-libs/ncurses:0= sys-libs/zlib:= p
 DESCRIPTION=Utilities for analysing and manipulating the SAM/BAM alignment formats
 EAPI=7
 HOMEPAGE=http://www.htslib.org/
-IUSE=examples +python_targets_python2_7 +python_single_target_python2_7
+IUSE=examples +python_single_target_python2_7
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos
 LICENSE=MIT
 RDEPEND=dev-lang/perl =sci-libs/htslib-1.9* sys-libs/ncurses:0= sys-libs/zlib:= python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] )
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0
 SRC_URI=mirror://sourceforge/samtools/samtools-1.9.tar.bz2
-_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	libtool	f143db5a74ccd9ca28c1234deffede96	multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
+_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	libtool	f143db5a74ccd9ca28c1234deffede96	multilib	1d91b03d42ab6308b5f4f6b598ed110e	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c
 _md5_=7e8913a97cbbcf5ee0158a89a42fa92c
diff --git a/metadata/md5-cache/sci-biology/shrimp-2.2.3 b/metadata/md5-cache/sci-biology/shrimp-2.2.3
index 4241a49b91d8..ea88951aada0 100644
--- a/metadata/md5-cache/sci-biology/shrimp-2.2.3
+++ b/metadata/md5-cache/sci-biology/shrimp-2.2.3
@@ -3,12 +3,12 @@ DEPEND=!sci-mathematics/cado-nfs
 DESCRIPTION=SHort Read Mapping Package
 EAPI=5
 HOMEPAGE=http://compbio.cs.toronto.edu/shrimp/
-IUSE=custom-cflags +cpu_flags_x86_sse2 +python_targets_python2_7 +python_single_target_python2_7
+IUSE=custom-cflags +cpu_flags_x86_sse2 +python_single_target_python2_7
 KEYWORDS=~amd64 ~x86
 LICENSE=shrimp
 RDEPEND=!sci-mathematics/cado-nfs python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] )
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
 SLOT=0
 SRC_URI=http://compbio.cs.toronto.edu/shrimp/releases/SHRiMP_2_2_3.src.tar.gz
-_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
+_eclasses_=desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
 _md5_=98a7a2b9765ad5e245b1b7b9be67060b
diff --git a/metadata/md5-cache/sci-biology/tophat-2.1.1-r4 b/metadata/md5-cache/sci-biology/tophat-2.1.1-r4
deleted file mode 100644
index 8632aca8b94f..000000000000
--- a/metadata/md5-cache/sci-biology/tophat-2.1.1-r4
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=configure install postinst prepare setup
-DEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) dev-libs/boost:=[threads] dev-python/intervaltree[python_targets_python2_7(-)?,-python_single_target_pypy3(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),-python_single_target_python3_8(-),python_single_target_python2_7(+)?] dev-python/sortedcontainers[python_targets_python2_7(-)?,-python_single_target_pypy3(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),-python_single_target_python3_8(-),python_single_target_python2_7(+)?] sci-biology/samtools:0.1-legacy sci-biology/bowtie:2 virtual/pkgconfig sci-biology/seqan:1.4 >=sys-devel/autoconf-archive-2016.09.16 >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.1:1.16 >=sys-devel/automake-1.15.1:1.15 ) >=sys-devel/autoconf-2.69 >=sys-devel/libtool-2.4
-DESCRIPTION=Python-based splice junction mapper for RNA-Seq reads using bowtie2
-EAPI=6
-HOMEPAGE=https://ccb.jhu.edu/software/tophat/
-IUSE=debug +python_targets_python2_7 +python_single_target_python2_7
-KEYWORDS=~amd64 ~x86
-LICENSE=Artistic
-RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) dev-libs/boost:=[threads] dev-python/intervaltree[python_targets_python2_7(-)?,-python_single_target_pypy3(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),-python_single_target_python3_8(-),python_single_target_python2_7(+)?] dev-python/sortedcontainers[python_targets_python2_7(-)?,-python_single_target_pypy3(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),-python_single_target_python3_8(-),python_single_target_python2_7(+)?] sci-biology/samtools:0.1-legacy sci-biology/bowtie:2
-REQUIRED_USE=^^ ( python_single_target_python2_7 ) python_single_target_python2_7? ( python_targets_python2_7 )
-SLOT=0
-SRC_URI=https://ccb.jhu.edu/software/tophat/downloads/tophat-2.1.1.tar.gz
-_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	libtool	f143db5a74ccd9ca28c1234deffede96	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	36ac48e647d2627de28c87aaffb94753	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
-_md5_=efee8069c83c578acac8e57b429ad985
diff --git a/metadata/md5-cache/sci-biology/tophat-2.1.1-r5 b/metadata/md5-cache/sci-biology/tophat-2.1.1-r5
new file mode 100644
index 000000000000..132c8260adab
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/tophat-2.1.1-r5
@@ -0,0 +1,14 @@
+DEFINED_PHASES=configure install postinst prepare setup
+DEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) dev-libs/boost:=[threads] python_single_target_python2_7? ( dev-python/intervaltree[python_targets_python2_7(-)] dev-python/sortedcontainers[python_targets_python2_7(-)] ) sci-biology/samtools:0.1-legacy sci-biology/bowtie:2 virtual/pkgconfig sci-biology/seqan:1.4 >=sys-devel/autoconf-archive-2016.09.16 >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.1:1.16 >=sys-devel/automake-1.15.1:1.15 ) >=sys-devel/autoconf-2.69 >=sys-devel/libtool-2.4
+DESCRIPTION=Python-based splice junction mapper for RNA-Seq reads using bowtie2
+EAPI=6
+HOMEPAGE=https://ccb.jhu.edu/software/tophat/
+IUSE=debug +python_single_target_python2_7
+KEYWORDS=~amd64 ~x86
+LICENSE=Artistic
+RDEPEND=python_single_target_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 >=dev-lang/python-exec-2:=[python_targets_python2_7] ) dev-libs/boost:=[threads] python_single_target_python2_7? ( dev-python/intervaltree[python_targets_python2_7(-)] dev-python/sortedcontainers[python_targets_python2_7(-)] ) sci-biology/samtools:0.1-legacy sci-biology/bowtie:2
+REQUIRED_USE=^^ ( python_single_target_python2_7 )
+SLOT=0
+SRC_URI=https://ccb.jhu.edu/software/tophat/downloads/tophat-2.1.1.tar.gz
+_eclasses_=autotools	ea7865c8fba1ea8d3639f355fffe1a3c	desktop	b1d22ac8bdd4679ab79c71aca235009d	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	686eaab303305a908fd57b2fd7617800	eutils	fcb2aa98e1948b835b5ae66ca52868c5	flag-o-matic	dc34234e8c43343da45853da22dcf14b	libtool	f143db5a74ccd9ca28c1234deffede96	ltprune	2729691420b6deeda2a90b1f1183fb55	multilib	1d91b03d42ab6308b5f4f6b598ed110e	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	fdfdbe462f245e931069310e892a8538	python-utils-r1	611c493a4cfef5254350fabc04b606f5	toolchain-funcs	512eb3367f507ebaa1d1d43ab7d66e6c	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf
+_md5_=c9fc6f9296f2363e8ed22fc512275f32
diff --git a/metadata/md5-cache/sci-biology/vienna-rna-2.1.1 b/metadata/md5-cache/sci-biology/vienna-rna-2.1.1
index 8279035b3268..fbee9c8a1e97 100644
--- a/metadata/md5-cache/sci-biology/vienna-rna-2.1.1
+++ b/metadata/md5-cache/sci-biology/vienna-rna-2.1.1
@@ -10,5 +10,5 @@ RDEPEND=dev-lang/perl media-libs/gd doc? ( dev-texlive/texlive-latex ) python? (
 REQUIRED_USE=python? ( || ( python_targets_python2_7 ) )
 SLOT=0
 SRC_URI=http://www.tbi.univie.ac.at/~ronny/RNA/ViennaRNA-2.1.1.tar.gz
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 _md5_=1e58c830b49ced05ae9960fcc2dead13
diff --git a/metadata/md5-cache/sci-biology/vienna-rna-2.1.8 b/metadata/md5-cache/sci-biology/vienna-rna-2.1.8
index b8cf7b3dad0f..2ae48d47423e 100644
--- a/metadata/md5-cache/sci-biology/vienna-rna-2.1.8
+++ b/metadata/md5-cache/sci-biology/vienna-rna-2.1.8
@@ -10,5 +10,5 @@ RDEPEND=dev-lang/perl media-libs/gd doc? ( dev-texlive/texlive-latex ) python? (
 REQUIRED_USE=python? ( || ( python_targets_python2_7 ) )
 SLOT=0
 SRC_URI=http://www.tbi.univie.ac.at/RNA/packages/source/ViennaRNA-2.1.8.tar.gz
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 _md5_=b2a6486af275e75c6365ab7eeba1e0bd