gentoo resync : 09.07.2022

author: V3n3RiX <venerix@koprulu.sector> 2022-07-09 15:43:36 +0100
committer: V3n3RiX <venerix@koprulu.sector> 2022-07-09 15:43:36 +0100
commit: 2719f73b6813d11d13a9650cdd2ab8ec6e69385d (patch)
tree: 8c816148bcbd22757d892089c989ae614eae4f5a /metadata/md5-cache/sci-biology
parent: 0f558761aa2dee1017b4751e4017205e015a9560 (diff)
90 files changed, 346 insertions, 345 deletions
diff --git a/metadata/md5-cache/sci-biology/HTSeq-0.12.4 b/metadata/md5-cache/sci-biology/HTSeq-0.12.4
deleted file mode 100644
index 3c01f20f4b96..000000000000
--- a/metadata/md5-cache/sci-biology/HTSeq-0.12.4
+++ /dev/null
@@ -1,16 +0,0 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_8(-)?,python_targets_python3_9(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?]
-DEFINED_PHASES=compile configure install prepare test
-DEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?]
-DESCRIPTION=Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files
-EAPI=7
-HOMEPAGE=https://htseq.readthedocs.io/
-INHERIT=distutils-r1
-IUSE=python_targets_python3_8 python_targets_python3_9
-KEYWORDS=~amd64
-LICENSE=GPL-3+
-RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 )
-REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 )
-SLOT=0
-SRC_URI=https://github.com/htseq/htseq/archive/release_0.12.4.tar.gz -> HTSeq-0.12.4.tar.gz
-_eclasses_=distutils-r1	10a93585889c3ca7651cbcd2ee831e47	eapi8-dosym	cd7d420bb5be5ee079f27239ce76b8f5	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=ae9941d3e3234244619fdcb2b46c8e90
diff --git a/metadata/md5-cache/sci-biology/HTSeq-2.0.2 b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
new file mode 100644
index 000000000000..bfb04c040e75
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
@@ -0,0 +1,17 @@
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/pytest-7.1.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?]
+DEFINED_PHASES=compile configure install prepare test
+DEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] )
+DESCRIPTION=Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files
+EAPI=8
+HOMEPAGE=https://htseq.readthedocs.io/
+INHERIT=distutils-r1 flag-o-matic
+IUSE=test test python_targets_python3_8 python_targets_python3_9 python_targets_python3_10
+KEYWORDS=~amd64
+LICENSE=GPL-3+
+RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
+REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 )
+RESTRICT=!test? ( test ) !test? ( test )
+SLOT=0
+SRC_URI=https://github.com/htseq/htseq/archive/release_2.0.2.tar.gz -> HTSeq-2.0.2.gh.tar.gz
+_eclasses_=distutils-r1	64c5b9cc381383c9c1ef74fb199293ea	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=eaf0038e987d5268b687db2978b9cf87
diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999
index e1b2d0e5b143..c3bba2df7309 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-9999
+++ b/metadata/md5-cache/sci-biology/HTSeq-9999
@@ -1,15 +1,16 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_8(-)?,python_targets_python3_9(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?] >=dev-vcs/git-1.8.2.1[curl]
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/pytest-7.1.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-vcs/git-1.8.2.1[curl]
 DEFINED_PHASES=compile configure install prepare test unpack
-DEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?]
+DEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] )
 DESCRIPTION=Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files
-EAPI=7
+EAPI=8
 HOMEPAGE=https://htseq.readthedocs.io/
-INHERIT=distutils-r1 git-r3
-IUSE=python_targets_python3_8 python_targets_python3_9
+INHERIT=distutils-r1 flag-o-matic git-r3
+IUSE=test test python_targets_python3_8 python_targets_python3_9 python_targets_python3_10
 LICENSE=GPL-3+
 PROPERTIES=live
-RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 )
-REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 )
+RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
+REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 )
+RESTRICT=!test? ( test ) !test? ( test )
 SLOT=0
-_eclasses_=distutils-r1	10a93585889c3ca7651cbcd2ee831e47	eapi8-dosym	cd7d420bb5be5ee079f27239ce76b8f5	git-r3	b9ac6f96d2a88edb5b351df634dc5e53	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=ae9941d3e3234244619fdcb2b46c8e90
+_eclasses_=distutils-r1	64c5b9cc381383c9c1ef74fb199293ea	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	git-r3	b9ac6f96d2a88edb5b351df634dc5e53	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=eaf0038e987d5268b687db2978b9cf87
diff --git a/metadata/md5-cache/sci-biology/Manifest.gz b/metadata/md5-cache/sci-biology/Manifest.gz
index 6eb70f15b235..6bcb583588ef 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/abyss-2.3.4 b/metadata/md5-cache/sci-biology/abyss-2.3.4
index f754db4cdc31..b4ed6821c341 100644
--- a/metadata/md5-cache/sci-biology/abyss-2.3.4
+++ b/metadata/md5-cache/sci-biology/abyss-2.3.4
@@ -11,5 +11,5 @@ LICENSE=GPL-3
 RDEPEND=dev-cpp/sparsehash dev-libs/boost:= misc-haskell? ( dev-libs/gmp:0= dev-libs/libffi:0= ) sys-cluster/openmpi dev-db/sqlite:3
 SLOT=0
 SRC_URI=https://github.com/bcgsc/abyss/archive/2.3.4.tar.gz -> abyss-2.3.4.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=9a708eff89b221551fbb0bcc299ccfa3
diff --git a/metadata/md5-cache/sci-biology/amap-2.2-r4 b/metadata/md5-cache/sci-biology/amap-2.2-r4
deleted file mode 100644
index 48a186797165..000000000000
--- a/metadata/md5-cache/sci-biology/amap-2.2-r4
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=compile configure install preinst prepare setup
-DEPEND=java? ( >=virtual/jdk-1.8:* ) java? ( >=dev-java/java-config-2.2.0-r3 ) java? ( >=dev-java/ant-core-1.8.2:0 dev-java/javatoolkit )
-DESCRIPTION=Protein multiple-alignment-based sequence annealing
-EAPI=6
-HOMEPAGE=https://wiki.gentoo.org/wiki/No_homepage
-INHERIT=java-pkg-opt-2 java-ant-2 toolchain-funcs
-IUSE=java java
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-RDEPEND=java? ( >=virtual/jre-1.8:* ) java? ( >=dev-java/java-config-2.2.0-r3 )
-SLOT=0
-SRC_URI=http://baboon.math.berkeley.edu/amap/download/amap.2.2.tar.gz
-_eclasses_=desktop	22952d8f27cac191d75529d4c38e6bfa	eapi7-ver	1a0a60ad07c8b32d2faba2d085dc0f24	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	java-ant-2	5cf479aa9e0ac9cc55899f2762c2aaa0	java-pkg-opt-2	a71433e535af8faae0c0f6c861a32054	java-utils-2	cfb5f6911bb70204c94ceafd0372c716	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	versionator	d3fb3ba33acc3bbbdc4d7970227c100d	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=857434504156a8892f1335babe24f9f0
diff --git a/metadata/md5-cache/sci-biology/amap-2.2-r5 b/metadata/md5-cache/sci-biology/amap-2.2-r5
new file mode 100644
index 000000000000..17c41717b329
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/amap-2.2-r5
@@ -0,0 +1,15 @@
+BDEPEND=java? ( >=virtual/jre-1.8:* )
+DEFINED_PHASES=compile configure install preinst prepare setup
+DEPEND=java? ( >=dev-java/java-config-2.2.0-r3 ) java? ( >=dev-java/ant-core-1.8.2:0 dev-java/javatoolkit )
+DESCRIPTION=Protein multiple-alignment-based sequence annealing
+EAPI=8
+HOMEPAGE=https://wiki.gentoo.org/wiki/No_homepage
+INHERIT=java-pkg-opt-2 java-ant-2 toolchain-funcs
+IUSE=java java
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+RDEPEND=java? ( >=virtual/jre-1.8:* ) java? ( >=dev-java/java-config-2.2.0-r3 )
+SLOT=0
+SRC_URI=http://baboon.math.berkeley.edu/amap/download/amap.2.2.tar.gz
+_eclasses_=java-ant-2	5cf479aa9e0ac9cc55899f2762c2aaa0	java-pkg-opt-2	a71433e535af8faae0c0f6c861a32054	java-utils-2	c0a9bd68d938ab2d3a7e237fd05f1dd8	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=b4e132581d5e91612a875f7f94387a1b
diff --git a/metadata/md5-cache/sci-biology/bcftools-1.15.1 b/metadata/md5-cache/sci-biology/bcftools-1.15.1
index 9bc416ae1125..a0acbd70dcf8 100644
--- a/metadata/md5-cache/sci-biology/bcftools-1.15.1
+++ b/metadata/md5-cache/sci-biology/bcftools-1.15.1
@@ -1,6 +1,6 @@
-BDEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 )
+BDEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
 DEFINED_PHASES=configure prepare setup
-DEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15.1*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 )
+DEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15.1*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
 DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files
 EAPI=8
 HOMEPAGE=http://www.htslib.org
@@ -8,9 +8,9 @@ INHERIT=python-single-r1
 IUSE=python_single_target_python3_8 python_single_target_python3_9 python_single_target_python3_10
 KEYWORDS=~amd64 ~x86
 LICENSE=MIT
-RDEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15.1*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 )
+RDEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15.1*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
 REQUIRED_USE=^^ ( python_single_target_python3_8 python_single_target_python3_9 python_single_target_python3_10 )
 SLOT=0
 SRC_URI=https://github.com/samtools/bcftools/releases/download/1.15.1/bcftools-1.15.1.tar.bz2
-_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-single-r1	a5747fe6dc0651d95cb78eddd5e160a8	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-single-r1	a5747fe6dc0651d95cb78eddd5e160a8	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=a991b200539f7c26af7f584fe62e90f5
diff --git a/metadata/md5-cache/sci-biology/bedtools-2.30.0 b/metadata/md5-cache/sci-biology/bedtools-2.30.0
index fab2aa2e9e4e..6729693bdd30 100644
--- a/metadata/md5-cache/sci-biology/bedtools-2.30.0
+++ b/metadata/md5-cache/sci-biology/bedtools-2.30.0
@@ -1,8 +1,8 @@
-BDEPEND=|| ( >=dev-lang/python-3.9.9-r1:3.9 >=dev-lang/python-3.8.12_p1-r1:3.8 ) test? ( >=sci-biology/samtools-1.10:0 )
+BDEPEND=|| ( >=dev-lang/python-3.11.0_beta3:3.11 >=dev-lang/python-3.10.4:3.10 >=dev-lang/python-3.9.12:3.9 >=dev-lang/python-3.8.13:3.8 ) test? ( >=sci-biology/samtools-1.10:0 )
 DEFINED_PHASES=configure install setup
 DEPEND=app-arch/bzip2 app-arch/xz-utils sys-libs/zlib
 DESCRIPTION=Tools for manipulation and analysis of BED, GFF/GTF, VCF, SAM/BAM file formats
-EAPI=7
+EAPI=8
 HOMEPAGE=https://bedtools.readthedocs.io/
 INHERIT=python-any-r1 toolchain-funcs
 IUSE=test
@@ -12,5 +12,5 @@ RDEPEND=app-arch/bzip2 app-arch/xz-utils sys-libs/zlib
 RESTRICT=!test? ( test )
 SLOT=0
 SRC_URI=https://github.com/arq5x/bedtools2/releases/download/v2.30.0/bedtools-2.30.0.tar.gz
-_eclasses_=eapi8-dosym	cd7d420bb5be5ee079f27239ce76b8f5	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-any-r1	a3e9c0524a795d7f2767a2cf12a2e8c0	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=14bf1e3697276975f4e8b47a297b1bf5
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-any-r1	a3e9c0524a795d7f2767a2cf12a2e8c0	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=5f18ddd41275559b1783fee4a2405f1f
diff --git a/metadata/md5-cache/sci-biology/bfast-0.7.0a b/metadata/md5-cache/sci-biology/bfast-0.7.0a
index 688e20431a7c..d8bad62b3224 100644
--- a/metadata/md5-cache/sci-biology/bfast-0.7.0a
+++ b/metadata/md5-cache/sci-biology/bfast-0.7.0a
@@ -11,5 +11,5 @@ RDEPEND=dev-perl/XML-Simple
 RESTRICT=test
 SLOT=0
 SRC_URI=mirror://sourceforge/bfast/bfast-0.7.0a.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=e64abecddb86e9860edc80410f299d83
diff --git a/metadata/md5-cache/sci-biology/biogrep-1.0-r2 b/metadata/md5-cache/sci-biology/biogrep-1.0-r2
deleted file mode 100644
index 08808dbdd644..000000000000
--- a/metadata/md5-cache/sci-biology/biogrep-1.0-r2
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=install prepare
-DEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Multithreaded tool for matching large sets of patterns against biosequence DBs
-EAPI=6
-HOMEPAGE=http://stephanopoulos.openwetware.org/BIOGREP.html
-INHERIT=autotools
-IUSE=doc examples
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-SLOT=0
-SRC_URI=http://www.openwetware.org/images/3/3d/Biogrep-1.0.tar.gz -> biogrep-1.0.tar.gz doc? ( http://www.openwetware.org/images/4/49/Biogrep.pdf -> biogrep-1.0.pdf )
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=9731727dae2a2514bcaa486b0059272e
diff --git a/metadata/md5-cache/sci-biology/biogrep-1.0-r3 b/metadata/md5-cache/sci-biology/biogrep-1.0-r3
new file mode 100644
index 000000000000..a21daf3c6bba
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/biogrep-1.0-r3
@@ -0,0 +1,13 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=install prepare
+DESCRIPTION=Multithreaded tool for matching large sets of patterns against biosequence DBs
+EAPI=8
+HOMEPAGE=http://stephanopoulos.openwetware.org/BIOGREP.html
+INHERIT=autotools
+IUSE=doc examples
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+SLOT=0
+SRC_URI=http://www.openwetware.org/images/3/3d/Biogrep-1.0.tar.gz -> biogrep-1.0.tar.gz doc? ( http://www.openwetware.org/images/4/49/Biogrep.pdf -> biogrep-1.0.pdf )
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=18fc653ace8feaf53e4d1c1818b7b00c
diff --git a/metadata/md5-cache/sci-biology/biopandas-0.2.7 b/metadata/md5-cache/sci-biology/biopandas-0.2.7
index 157de29dd193..cde7c19e5554 100644
--- a/metadata/md5-cache/sci-biology/biopandas-0.2.7
+++ b/metadata/md5-cache/sci-biology/biopandas-0.2.7
@@ -1,16 +1,16 @@
-BDEPEND=test? ( dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] >=dev-python/nose-1.3.7-r4[python_targets_python3_8(-)?,python_targets_python3_9(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?]
+BDEPEND=test? ( dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/nose-1.3.7_p20211111_p1-r1[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?]
 DEFINED_PHASES=compile configure install prepare test
 DESCRIPTION=Molecular Structures in Pandas DataFrames
-EAPI=7
+EAPI=8
 HOMEPAGE=https://rasbt.github.io/biopandas/ https://github.com/rasbt/biopandas https://pypi.org/project/BioPandas/
 INHERIT=distutils-r1
-IUSE=test test python_targets_python3_8 python_targets_python3_9
+IUSE=test test python_targets_python3_8 python_targets_python3_9 python_targets_python3_10
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
 LICENSE=BSD
-RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 )
-REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 )
+RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
+REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 )
 RESTRICT=!test? ( test ) !test? ( test )
 SLOT=0
 SRC_URI=mirror://pypi/B/BioPandas/biopandas-0.2.7.tar.gz
-_eclasses_=distutils-r1	10a93585889c3ca7651cbcd2ee831e47	eapi8-dosym	cd7d420bb5be5ee079f27239ce76b8f5	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=6e4b8600d4f3c3ac26b099a9c4577ca0
+_eclasses_=distutils-r1	64c5b9cc381383c9c1ef74fb199293ea	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=493935812e002415b6fce30c9e9dc8f8
diff --git a/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 b/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1
index 00e4e8c89ab3..752317e59046 100644
--- a/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1
+++ b/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1
@@ -14,5 +14,5 @@ REQUIRED_USE=minimal? ( !graphviz )
 RESTRICT=!test? ( test )
 SLOT=0
 SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.901.tar.gz
-_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	fea344a91ebf37efadf172c6a3de5a72	perl-module	8eed4e2982026c684ff7c19cd4c88ed0	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
+_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	perl-module	f2c1b0dd41761ffc8441cd041e4bb7ec	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
 _md5_=e2bc1ba3ce7d3071e3bfff1ff59b93fa
diff --git a/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r1 b/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r2
index d6811fbeb8d1..2d59a22808bd 100644
--- a/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r1
+++ b/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r2
@@ -1,15 +1,16 @@
+BDEPEND=dev-perl/Module-Build dev-lang/perl test? ( virtual/perl-Test-Simple )
 DEFINED_PHASES=compile configure install prepare test
-DEPEND=>=sci-biology/bioperl-1.6.9 dev-perl/DBD-mysql dev-perl/DBI sci-biology/biosql dev-perl/Module-Build test? ( dev-perl/Data-Stag dev-perl/Sub-Uplevel dev-perl/Test-Warn dev-perl/Test-Exception virtual/perl-Test-Simple ) dev-lang/perl
+DEPEND=>=sci-biology/bioperl-1.6.9 dev-perl/DBD-mysql dev-perl/DBI sci-biology/biosql test? ( dev-perl/Data-Stag dev-perl/Sub-Uplevel dev-perl/Test-Warn dev-perl/Test-Exception virtual/perl-Test-Simple ) dev-lang/perl
 DESCRIPTION=Perl tools for bioinformatics - Perl API that accesses the BioSQL schema
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.bioperl.org/
 INHERIT=perl-module
-IUSE=test
+IUSE=test test
 KEYWORDS=amd64 x86
 LICENSE=|| ( Artistic GPL-1+ )
 RDEPEND=>=sci-biology/bioperl-1.6.9 dev-perl/DBD-mysql dev-perl/DBI sci-biology/biosql dev-lang/perl:=
-RESTRICT=test
+RESTRICT=test !test? ( test )
 SLOT=0
 SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-DB-1.006900.tar.gz
-_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	fea344a91ebf37efadf172c6a3de5a72	perl-module	8eed4e2982026c684ff7c19cd4c88ed0
-_md5_=014aeb00c18e1619bc28c3cc890bf145
+_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	perl-module	f2c1b0dd41761ffc8441cd041e4bb7ec	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
+_md5_=ec0bd67d52c316d61cf5adb758afcf04
diff --git a/metadata/md5-cache/sci-biology/bioperl-network-1.6.9-r1 b/metadata/md5-cache/sci-biology/bioperl-network-1.6.9-r1
index 245d39961f5d..95c647e7b230 100644
--- a/metadata/md5-cache/sci-biology/bioperl-network-1.6.9-r1
+++ b/metadata/md5-cache/sci-biology/bioperl-network-1.6.9-r1
@@ -12,5 +12,5 @@ RDEPEND=>=sci-biology/bioperl-1.6.9 >=dev-perl/Graph-0.86 dev-lang/perl:=
 RESTRICT=test !test? ( test )
 SLOT=0
 SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-Network-1.006900.tar.gz
-_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	fea344a91ebf37efadf172c6a3de5a72	perl-module	8eed4e2982026c684ff7c19cd4c88ed0	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
+_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	perl-module	f2c1b0dd41761ffc8441cd041e4bb7ec	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
 _md5_=062cfc681671741bdf0ce203cd9f0854
diff --git a/metadata/md5-cache/sci-biology/bioperl-run-1.6.9-r1 b/metadata/md5-cache/sci-biology/bioperl-run-1.6.9-r1
index fba1cfe14179..399ebe249b34 100644
--- a/metadata/md5-cache/sci-biology/bioperl-run-1.6.9-r1
+++ b/metadata/md5-cache/sci-biology/bioperl-run-1.6.9-r1
@@ -12,5 +12,5 @@ RDEPEND=>=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl
 RESTRICT=test !test? ( test )
 SLOT=0
 SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-Run-1.006900.tar.gz
-_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	fea344a91ebf37efadf172c6a3de5a72	perl-module	8eed4e2982026c684ff7c19cd4c88ed0	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
+_eclasses_=multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	perl-module	f2c1b0dd41761ffc8441cd041e4bb7ec	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55
 _md5_=89a50a53d48e4dddb7f36a35c0407fdb
diff --git a/metadata/md5-cache/sci-biology/biopython-1.79 b/metadata/md5-cache/sci-biology/biopython-1.79
index a49efa928d5a..5484cabb790d 100644
--- a/metadata/md5-cache/sci-biology/biopython-1.79
+++ b/metadata/md5-cache/sci-biology/biopython-1.79
@@ -1,4 +1,4 @@
-BDEPEND=sys-devel/flex python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?]
+BDEPEND=sys-devel/flex python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?]
 DEFINED_PHASES=compile configure install postinst prepare test
 DEPEND=dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/networkx[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/rdflib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pygraphviz[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pydot[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?]
 DESCRIPTION=Python modules for computational molecular biology
@@ -8,9 +8,9 @@ INHERIT=distutils-r1 optfeature
 IUSE=python_targets_python3_8 python_targets_python3_9 python_targets_python3_10
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
 LICENSE=HPND
-RDEPEND=dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/networkx[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/rdflib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pygraphviz[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pydot[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 )
+RDEPEND=dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/networkx[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/rdflib[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pygraphviz[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pydot[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 )
 REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 )
 SLOT=0
 SRC_URI=mirror://pypi/b/biopython/biopython-1.79.tar.gz
-_eclasses_=distutils-r1	10a93585889c3ca7651cbcd2ee831e47	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	optfeature	d524f291c80f9d21ad80fe978e3ca760	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=distutils-r1	64c5b9cc381383c9c1ef74fb199293ea	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	optfeature	d524f291c80f9d21ad80fe978e3ca760	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=89d2124a2c9f76eda9c399f23c96a8b8
diff --git a/metadata/md5-cache/sci-biology/biosql-1.0.1-r1 b/metadata/md5-cache/sci-biology/biosql-1.0.1-r2
index 2a7fa17d9aa9..54c0036aa974 100644
--- a/metadata/md5-cache/sci-biology/biosql-1.0.1-r1
+++ b/metadata/md5-cache/sci-biology/biosql-1.0.1-r2
@@ -1,7 +1,7 @@
 DEFINED_PHASES=install postinst
 DEPEND=mysql? ( dev-perl/DBD-mysql ) postgres? ( dev-perl/DBD-Pg )
 DESCRIPTION=A generic bioinformatics relational database model
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.biosql.org/
 IUSE=mysql postgres
 KEYWORDS=amd64 x86
@@ -9,4 +9,4 @@ LICENSE=LGPL-3
 RDEPEND=mysql? ( dev-perl/DBD-mysql ) postgres? ( dev-perl/DBD-Pg ) dev-lang/perl
 SLOT=0
 SRC_URI=http://biosql.org/DIST/biosql-1.0.1.tar.bz2
-_md5_=c3363146ed9daed7fd12e748db91abe0
+_md5_=6438fefd6b37886a8a237f7e9b0c1258
diff --git a/metadata/md5-cache/sci-biology/blat-34-r2 b/metadata/md5-cache/sci-biology/blat-34-r3
index f059302301d8..193e7cd8a129 100644
--- a/metadata/md5-cache/sci-biology/blat-34-r2
+++ b/metadata/md5-cache/sci-biology/blat-34-r3
@@ -1,7 +1,7 @@
+BDEPEND=app-arch/unzip
 DEFINED_PHASES=compile install
-DEPEND=app-arch/unzip
 DESCRIPTION=The BLAST-Like Alignment Tool, a fast genomic sequence aligner
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.cse.ucsc.edu/~kent/
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64 ~x86
@@ -9,4 +9,4 @@ LICENSE=blat
 SLOT=0
 SRC_URI=http://www.soe.ucsc.edu/~kent/src/blatSrc34.zip
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=9fb0b819fe1d2fa16c86c748d885fc84
+_md5_=5de19b6facdbdd7214fad082a7d27f77
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.4.4 b/metadata/md5-cache/sci-biology/bowtie-2.4.4
index 5ef261c838d1..6caa4175b82e 100644
--- a/metadata/md5-cache/sci-biology/bowtie-2.4.4
+++ b/metadata/md5-cache/sci-biology/bowtie-2.4.4
@@ -1,6 +1,6 @@
 BDEPEND=app-arch/unzip
 DEFINED_PHASES=compile install setup
-DEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) dev-lang/perl sys-libs/zlib
+DEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) 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/
@@ -8,9 +8,9 @@ INHERIT=python-single-r1 toolchain-funcs
 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-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) dev-lang/perl sys-libs/zlib
+RDEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) 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	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-single-r1	a5747fe6dc0651d95cb78eddd5e160a8	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-single-r1	a5747fe6dc0651d95cb78eddd5e160a8	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=a169406c93e64d9cae6cbb8ad262f62b
diff --git a/metadata/md5-cache/sci-biology/cd-hit-4.6.6 b/metadata/md5-cache/sci-biology/cd-hit-4.6.6
deleted file mode 100644
index eeaa83c15f5e..000000000000
--- a/metadata/md5-cache/sci-biology/cd-hit-4.6.6
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=compile install pretend setup
-DESCRIPTION=Clustering Database at High Identity with Tolerance
-EAPI=6
-HOMEPAGE=http://weizhong-lab.ucsd.edu/cd-hit/
-INHERIT=flag-o-matic toolchain-funcs
-IUSE=openmp
-KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
-LICENSE=GPL-2
-RDEPEND=dev-lang/perl
-SLOT=0
-SRC_URI=https://github.com/weizhongli/cdhit/releases/download/V4.6.6/cd-hit-v4.6.6-2016-0711.tar.gz -> cd-hit-4.6.6.tar.gz
-_eclasses_=desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=bbe0ae10275a73485487e08f19f4ac1b
diff --git a/metadata/md5-cache/sci-biology/cd-hit-4.6.6-r1 b/metadata/md5-cache/sci-biology/cd-hit-4.6.6-r1
new file mode 100644
index 000000000000..4feed67b5de1
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/cd-hit-4.6.6-r1
@@ -0,0 +1,13 @@
+DEFINED_PHASES=compile install pretend setup
+DESCRIPTION=Clustering Database at High Identity with Tolerance
+EAPI=8
+HOMEPAGE=http://weizhong-lab.ucsd.edu/cd-hit/
+INHERIT=toolchain-funcs
+IUSE=openmp
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
+LICENSE=GPL-2
+RDEPEND=dev-lang/perl
+SLOT=0
+SRC_URI=https://github.com/weizhongli/cdhit/releases/download/V4.6.6/cd-hit-v4.6.6-2016-0711.tar.gz -> cd-hit-4.6.6.tar.gz
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=72c254d2d4b43c49ff9b0ddcde699acb
diff --git a/metadata/md5-cache/sci-biology/clustal-omega-1.2.4 b/metadata/md5-cache/sci-biology/clustal-omega-1.2.4
deleted file mode 100644
index b7f312ff11b9..000000000000
--- a/metadata/md5-cache/sci-biology/clustal-omega-1.2.4
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=configure install prepare
-DEPEND=dev-libs/argtable sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Scalable multiple alignment of protein sequences
-EAPI=6
-HOMEPAGE=http://www.clustal.org/omega/
-INHERIT=autotools
-IUSE=static-libs
-KEYWORDS=amd64 x86
-LICENSE=GPL-2
-RDEPEND=dev-libs/argtable
-SLOT=0
-SRC_URI=http://www.clustal.org/omega/clustal-omega-1.2.4.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=9ade45d2e283bc5fcc7eef16725e18ae
diff --git a/metadata/md5-cache/sci-biology/clustal-omega-1.2.4-r1 b/metadata/md5-cache/sci-biology/clustal-omega-1.2.4-r1
new file mode 100644
index 000000000000..407187fa61cf
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/clustal-omega-1.2.4-r1
@@ -0,0 +1,14 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=install prepare
+DEPEND=dev-libs/argtable
+DESCRIPTION=Scalable multiple alignment of protein sequences
+EAPI=8
+HOMEPAGE=http://www.clustal.org/omega/
+INHERIT=autotools
+KEYWORDS=amd64 x86
+LICENSE=GPL-2
+RDEPEND=dev-libs/argtable
+SLOT=0
+SRC_URI=http://www.clustal.org/omega/clustal-omega-1.2.4.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=1fe31c7bf68a0e3d5cd862d476a40e5b
diff --git a/metadata/md5-cache/sci-biology/clustalw-1.83-r4 b/metadata/md5-cache/sci-biology/clustalw-1.83-r4
index 6616885bb2b3..e3db3fb394ab 100644
--- a/metadata/md5-cache/sci-biology/clustalw-1.83-r4
+++ b/metadata/md5-cache/sci-biology/clustalw-1.83-r4
@@ -1,6 +1,6 @@
-DEFINED_PHASES=install prepare
+DEFINED_PHASES=configure install prepare
 DESCRIPTION=General purpose multiple alignment program for DNA and proteins
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.embl-heidelberg.de/~seqanal/
 INHERIT=toolchain-funcs
 KEYWORDS=amd64 ~ppc ppc64 sparc x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris
@@ -8,4 +8,4 @@ LICENSE=clustalw
 SLOT=1
 SRC_URI=ftp://ftp.ebi.ac.uk/pub/software/unix/clustalw/clustalw1.83.UNIX.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=0bc3b2f2f4e07f1d81ee076b0fbe6c60
+_md5_=ddae5c7662955525ce9e2a946d0d953c
diff --git a/metadata/md5-cache/sci-biology/clustalw-2.1-r1 b/metadata/md5-cache/sci-biology/clustalw-2.1-r2
index 4efa2f629660..7b122c7fd0d2 100644
--- a/metadata/md5-cache/sci-biology/clustalw-2.1-r1
+++ b/metadata/md5-cache/sci-biology/clustalw-2.1-r2
@@ -1,9 +1,9 @@
 DEFINED_PHASES=install
 DESCRIPTION=General purpose multiple alignment program for DNA and proteins
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.clustal.org/
 KEYWORDS=amd64 ~ppc ~ppc64 ~sparc x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris
 LICENSE=GPL-3 LGPL-3
 SLOT=2
 SRC_URI=http://www.clustal.org/download/current/clustalw-2.1.tar.gz
-_md5_=c164ea7c4a56d9c6619a6d13320cb5bd
+_md5_=41f8e585e292038a668776536cc42cb8
diff --git a/metadata/md5-cache/sci-biology/dialign2-2.2.1 b/metadata/md5-cache/sci-biology/dialign2-2.2.1
deleted file mode 100644
index a8d66d62dd0f..000000000000
--- a/metadata/md5-cache/sci-biology/dialign2-2.2.1
+++ /dev/null
@@ -1,11 +0,0 @@
-DEFINED_PHASES=compile configure install
-DESCRIPTION=Multiple sequence alignment
-EAPI=6
-HOMEPAGE=http://bibiserv.techfak.uni-bielefeld.de/dialign
-INHERIT=flag-o-matic toolchain-funcs
-KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
-LICENSE=LGPL-2.1
-SLOT=0
-SRC_URI=http://bibiserv.techfak.uni-bielefeld.de/applications/dialign/resources/downloads/dialign-2.2.1-src.tar.gz
-_eclasses_=desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=3761a69a47f38308f54ae0b051361ed6
diff --git a/metadata/md5-cache/sci-biology/dialign2-2.2.1-r1 b/metadata/md5-cache/sci-biology/dialign2-2.2.1-r1
new file mode 100644
index 000000000000..9d8758f2e0f3
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/dialign2-2.2.1-r1
@@ -0,0 +1,11 @@
+DEFINED_PHASES=compile configure install
+DESCRIPTION=Multiple sequence alignment
+EAPI=8
+HOMEPAGE=http://bibiserv.techfak.uni-bielefeld.de/dialign
+INHERIT=toolchain-funcs
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
+LICENSE=LGPL-2.1
+SLOT=0
+SRC_URI=http://bibiserv.techfak.uni-bielefeld.de/applications/dialign/resources/downloads/dialign-2.2.1-src.tar.gz
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=879353dc71e4dca1cd8026068a0c808c
diff --git a/metadata/md5-cache/sci-biology/elph-1.0.1-r1 b/metadata/md5-cache/sci-biology/elph-1.0.1-r2
index 2886618e63da..3dc5e2cc66a0 100644
--- a/metadata/md5-cache/sci-biology/elph-1.0.1-r1
+++ b/metadata/md5-cache/sci-biology/elph-1.0.1-r2
@@ -1,6 +1,6 @@
 DEFINED_PHASES=configure install
 DESCRIPTION=Estimated Locations of Pattern Hits - Motif finder program
-EAPI=6
+EAPI=8
 HOMEPAGE=http://cbcb.umd.edu/software/ELPH/
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos
@@ -8,4 +8,4 @@ LICENSE=Artistic
 SLOT=0
 SRC_URI=ftp://ftp.cbcb.umd.edu/pub/software/elph/ELPH-1.0.1.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=dbee2f511488caf9eadadb20d043a2da
+_md5_=12ec147b7c0b74b6a61b6fb56542afb5
diff --git a/metadata/md5-cache/sci-biology/embassy-6.6.0-r2 b/metadata/md5-cache/sci-biology/embassy-6.6.0-r3
index da79487711b8..0e21d758fe16 100644
--- a/metadata/md5-cache/sci-biology/embassy-6.6.0-r2
+++ b/metadata/md5-cache/sci-biology/embassy-6.6.0-r3
@@ -1,9 +1,9 @@
 DEFINED_PHASES=-
 DESCRIPTION=A meta-package for installing all EMBASSY packages (EMBOSS add-ons)
-EAPI=6
+EAPI=8
 HOMEPAGE=http://emboss.sourceforge.net/embassy/
 KEYWORDS=~amd64 ~x86 ~x86-linux
 LICENSE=metapackage
 RDEPEND=>=sci-biology/embassy-cbstools-1.0.0.660 >=sci-biology/embassy-clustalomega-1.1.0.660 >=sci-biology/embassy-domainatrix-0.1.660 >=sci-biology/embassy-domalign-0.1.660 >=sci-biology/embassy-domsearch-0.1.660 >=sci-biology/embassy-emnu-1.05.660 >=sci-biology/embassy-esim4-1.0.0.660 >=sci-biology/embassy-hmmer-2.3.2.660 >=sci-biology/embassy-iprscan-4.3.1.660 >=sci-biology/embassy-mse-3.0.0.660 >=sci-biology/embassy-phylipnew-3.69.660 >=sci-biology/embassy-signature-0.1.660 >=sci-biology/embassy-structure-0.1.660 >=sci-biology/embassy-topo-2.0.660 >=sci-biology/embassy-vienna-1.7.2.660
 SLOT=0
-_md5_=f0bb78193b5ac077edf12dbcf43e4eb2
+_md5_=333771824b2ddf2c69b9e8dbf988bfd9
diff --git a/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1 b/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1
index 10d55ccff044..ed4062729832 100644
--- a/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/CBSTOOLS-1.0.0.660.tar.gz -> embassy-cbstools-1.0.0.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=56469e1c3bb7c4baac8ad99638b59ff0
diff --git a/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1 b/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1
index d4cf7b557344..c0bb46743684 100644
--- a/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=sci-biology/clustal-omega 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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/CLUSTALOMEGA-1.1.0.660.tar.gz -> embassy-clustalomega-1.1.0.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=864a13621791118f794da4601dcde749
diff --git a/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1
index 6d5257dce61d..3380916a0ec8 100644
--- a/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/DOMAINATRIX-0.1.660.tar.gz -> embassy-domainatrix-0.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=af29c98cab7134ba05c6d874e37d95dc
diff --git a/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1
index 177bf066ef83..1af4ace1add2 100644
--- a/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/DOMALIGN-0.1.660.tar.gz -> embassy-domalign-0.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=677a5e171c80e94969c1ab9c0b55e283
diff --git a/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1
index 9e079f2b506f..98d3a8c7ff8b 100644
--- a/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/DOMSEARCH-0.1.660.tar.gz -> embassy-domsearch-0.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=e0ca10c2776835b0cd20c1b0f0721a1a
diff --git a/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1 b/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1
index 2a7cd9a0be6c..3f0a7d0703ad 100644
--- a/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=sys-libs/ncurses:0= 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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/EMNU-1.05.660.tar.gz -> embassy-emnu-1.05.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=a33d45b5be798e7ebfcef8c59a300c88
diff --git a/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1 b/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1
index cdbfd38e32c5..f28531fff37d 100644
--- a/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/ESIM4-1.0.0.660.tar.gz -> embassy-esim4-1.0.0.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=95026ca22c2bacedf52a70b4428e7753
diff --git a/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1 b/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1
index f5f2d34fcc60..361bf041401d 100644
--- a/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=sci-biology/hmmer:2 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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/HMMER-2.3.2.660.tar.gz -> embassy-hmmer-2.3.2.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=fb64fb071ec661ab550e0b33bc78b536
diff --git a/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1
index cced827d3eaf..76de3cb17234 100644
--- a/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/IPRSCAN-4.3.1.660.tar.gz -> embassy-iprscan-4.3.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=06b3cb4ecb53ada6b96c0f8fe91680e9
diff --git a/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660-r1 b/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660-r1
index 4303277ccdc0..4030dc4c54bf 100644
--- a/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=sys-libs/ncurses:= 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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/MSE-3.0.0.660.tar.gz -> embassy-mse-3.0.0.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=b6d66fbfe89f6c64f635551357dc90f4
diff --git a/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1 b/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1
index f12cc0af0050..c85cbb8a8e31 100644
--- a/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2 free-noncomm
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/PHYLIPNEW-3.69.660.tar.gz -> embassy-phylipnew-3.69.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=93c762366f9cfe8fbfdffd0fdc0483d5
diff --git a/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1
index 8fc16177c7b0..cb436eb9be15 100644
--- a/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/SIGNATURE-0.1.660.tar.gz -> embassy-signature-0.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=193e23282bfd7f7751d7e37988a0ec44
diff --git a/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1 b/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1
index 06c20cb10683..f298ab7e973c 100644
--- a/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/STRUCTURE-0.1.660.tar.gz -> embassy-structure-0.1.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=c54138383c80476f9d515e5e2a33acaf
diff --git a/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1 b/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1
index b61c57001d8b..410316d6d622 100644
--- a/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/TOPO-2.0.660.tar.gz -> embassy-topo-2.0.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=30ddf1c7471e11d692477ffa5a3a9956
diff --git a/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1 b/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1
index abd7243e1690..1a7610def98c 100644
--- a/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1
+++ b/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1
@@ -11,5 +11,5 @@ LICENSE=LGPL-2 GPL-2
 RDEPEND=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 ) >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,X=]
 SLOT=0
 SRC_URI=ftp://emboss.open-bio.org/pub/EMBOSS/VIENNA-1.7.2.660.tar.gz -> embassy-vienna-1.7.2.660.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=ba0cdfe4fa4ef35b15cb45a53f81f3b7
diff --git a/metadata/md5-cache/sci-biology/emboss-6.6.0-r2 b/metadata/md5-cache/sci-biology/emboss-6.6.0-r2
index 8619727c1291..d4c7d1590d5d 100644
--- a/metadata/md5-cache/sci-biology/emboss-6.6.0-r2
+++ b/metadata/md5-cache/sci-biology/emboss-6.6.0-r2
@@ -12,5 +12,5 @@ PDEPEND=!minimal? ( sci-biology/aaindex sci-biology/cutg sci-biology/primer3 sci
 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 https://dev.gentoo.org/~soap/distfiles/emboss-6.6.0-patches-r1.tar.xz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	emboss-r3	ed4c0b270092039c992b771a26ca322a	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	readme.gentoo-r1	b776ad4b42f564c406a95c41ccb42c55	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=9856dbbe227d34ba8fd5a46c30dc912f
diff --git a/metadata/md5-cache/sci-biology/eugene-4.1d b/metadata/md5-cache/sci-biology/eugene-4.1d
deleted file mode 100644
index b8cd28293f13..000000000000
--- a/metadata/md5-cache/sci-biology/eugene-4.1d
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=prepare
-DEPEND=media-libs/gd[png] media-libs/libpng:0= sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Prokaryotic and Eukaryotic gene predictor
-EAPI=6
-HOMEPAGE=http://eugene.toulouse.inra.fr/
-INHERIT=autotools
-KEYWORDS=amd64 x86
-LICENSE=Artistic
-RDEPEND=media-libs/gd[png] media-libs/libpng:0=
-RESTRICT=test
-SLOT=0
-SRC_URI=https://mulcyber.toulouse.inra.fr/frs/download.php/1359/eugene-4.1d.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=683d1e7f9daeda6cd20b92117330ea81
diff --git a/metadata/md5-cache/sci-biology/eugene-4.1d-r1 b/metadata/md5-cache/sci-biology/eugene-4.1d-r1
new file mode 100644
index 000000000000..dd78187e04cc
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/eugene-4.1d-r1
@@ -0,0 +1,15 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=prepare
+DEPEND=media-libs/gd[png] media-libs/libpng:=
+DESCRIPTION=Prokaryotic and Eukaryotic gene predictor
+EAPI=8
+HOMEPAGE=http://eugene.toulouse.inra.fr/
+INHERIT=autotools
+KEYWORDS=amd64 x86
+LICENSE=Artistic
+RDEPEND=media-libs/gd[png] media-libs/libpng:=
+RESTRICT=test
+SLOT=0
+SRC_URI=https://mulcyber.toulouse.inra.fr/frs/download.php/1359/eugene-4.1d.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=b4126568295c4b4191d28a10bcea4c55
diff --git a/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2 b/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2
deleted file mode 100644
index 203901830e49..000000000000
--- a/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2
+++ /dev/null
@@ -1,16 +0,0 @@
-DEFINED_PHASES=configure install prepare
-DEPEND=dev-libs/glib:2 sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Generic tool for pairwise sequence comparison
-EAPI=6
-HOMEPAGE=https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate
-INHERIT=autotools toolchain-funcs
-IUSE=test threads utils
-KEYWORDS=~amd64 ~x86 ~ppc-macos ~x64-macos
-LICENSE=GPL-3
-RDEPEND=dev-libs/glib:2
-REQUIRED_USE=test? ( utils )
-RESTRICT=!test? ( test )
-SLOT=0
-SRC_URI=http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/exonerate-2.2.0.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=05c99b447503c7a3fae4594cd126939a
diff --git a/metadata/md5-cache/sci-biology/exonerate-2.2.0-r3 b/metadata/md5-cache/sci-biology/exonerate-2.2.0-r3
new file mode 100644
index 000000000000..2e959158af8a
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/exonerate-2.2.0-r3
@@ -0,0 +1,17 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=configure install prepare
+DEPEND=dev-libs/glib:2
+DESCRIPTION=Generic tool for pairwise sequence comparison
+EAPI=8
+HOMEPAGE=https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate
+INHERIT=autotools toolchain-funcs
+IUSE=test utils
+KEYWORDS=~amd64 ~x86 ~ppc-macos ~x64-macos
+LICENSE=GPL-3
+RDEPEND=dev-libs/glib:2
+REQUIRED_USE=test? ( utils )
+RESTRICT=!test? ( test )
+SLOT=0
+SRC_URI=http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/exonerate-2.2.0.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=1e7139985e79a73dd3eda616d23bafc0
diff --git a/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14-r1 b/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14-r1
index df0e6a15f6e0..075f19e7d5aa 100644
--- a/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14-r1
+++ b/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14-r1
@@ -10,5 +10,5 @@ LICENSE=AGPL-3
 RDEPEND=sci-biology/libgtextutils:= dev-perl/PerlIO-gzip dev-perl/GDGraph sci-visualization/gnuplot
 SLOT=0
 SRC_URI=https://github.com/agordon/fastx_toolkit/releases/download/0.0.14/fastx_toolkit-0.0.14.tar.bz2
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=e0ed8e935eca944dc874fee38c4435ad
diff --git a/metadata/md5-cache/sci-biology/hmmer-2.3.2-r4 b/metadata/md5-cache/sci-biology/hmmer-2.3.2-r4
deleted file mode 100644
index 9bc345ffd85e..000000000000
--- a/metadata/md5-cache/sci-biology/hmmer-2.3.2-r4
+++ /dev/null
@@ -1,12 +0,0 @@
-DEFINED_PHASES=configure install postinst
-DEPEND=test? ( dev-lang/perl )
-DESCRIPTION=Sequence analysis using profile hidden Markov models
-EAPI=6
-HOMEPAGE=http://hmmer.org/
-IUSE=altivec test threads
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-RESTRICT=!test? ( test )
-SLOT=2
-SRC_URI=http://eddylab.org/software/hmmer/2.3.2/hmmer-2.3.2.tar.gz
-_md5_=e7199c0c0fe31d6c32ec1e285d23d2c8
diff --git a/metadata/md5-cache/sci-biology/hmmer-2.3.2-r5 b/metadata/md5-cache/sci-biology/hmmer-2.3.2-r5
new file mode 100644
index 000000000000..67f66331caa4
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/hmmer-2.3.2-r5
@@ -0,0 +1,14 @@
+BDEPEND=test? ( dev-lang/perl )
+DEFINED_PHASES=compile configure install postinst
+DESCRIPTION=Sequence analysis using profile hidden Markov models
+EAPI=8
+HOMEPAGE=http://hmmer.org/
+INHERIT=toolchain-funcs
+IUSE=cpu_flags_ppc_altivec test
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+RESTRICT=!test? ( test )
+SLOT=2
+SRC_URI=http://eddylab.org/software/hmmer/2.3.2/hmmer-2.3.2.tar.gz
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=5aebac9d4eaee8ecbd0bff74b7b68c5e
diff --git a/metadata/md5-cache/sci-biology/hmmer-3.1_beta2 b/metadata/md5-cache/sci-biology/hmmer-3.1_beta2
deleted file mode 100644
index 0dfc8524d7bb..000000000000
--- a/metadata/md5-cache/sci-biology/hmmer-3.1_beta2
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=configure install
-DEPEND=mpi? ( virtual/mpi ) gsl? ( sci-libs/gsl:= ) test? ( dev-lang/perl )
-DESCRIPTION=Sequence analysis using profile hidden Markov models
-EAPI=6
-HOMEPAGE=http://hmmer.org/
-IUSE=altivec cpu_flags_x86_sse gsl mpi test +threads
-KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos
-LICENSE=GPL-3
-RDEPEND=mpi? ( virtual/mpi ) gsl? ( sci-libs/gsl:= )
-RESTRICT=!test? ( test )
-SLOT=0
-SRC_URI=http://eddylab.org/software/hmmer3/3.1b2/hmmer-3.1b2.tar.gz
-_md5_=96e45fe8b653c57b833ec948674bbe69
diff --git a/metadata/md5-cache/sci-biology/hmmer-3.1_beta2-r1 b/metadata/md5-cache/sci-biology/hmmer-3.1_beta2-r1
new file mode 100644
index 000000000000..0780595e6547
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/hmmer-3.1_beta2-r1
@@ -0,0 +1,16 @@
+BDEPEND=test? ( dev-lang/perl )
+DEFINED_PHASES=compile configure install
+DEPEND=mpi? ( virtual/mpi ) gsl? ( sci-libs/gsl:= )
+DESCRIPTION=Sequence analysis using profile hidden Markov models
+EAPI=8
+HOMEPAGE=http://hmmer.org/
+INHERIT=toolchain-funcs
+IUSE=cpu_flags_ppc_altivec cpu_flags_x86_sse gsl mpi test
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos
+LICENSE=GPL-3
+RDEPEND=mpi? ( virtual/mpi ) gsl? ( sci-libs/gsl:= )
+RESTRICT=!test? ( test )
+SLOT=0
+SRC_URI=http://eddylab.org/software/hmmer3/3.1b2/hmmer-3.1b2.tar.gz
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=66609c69302596b8671531f5be5cf6c1
diff --git a/metadata/md5-cache/sci-biology/iedera-1.05-r1 b/metadata/md5-cache/sci-biology/iedera-1.05-r1
deleted file mode 100644
index 17964bdb426c..000000000000
--- a/metadata/md5-cache/sci-biology/iedera-1.05-r1
+++ /dev/null
@@ -1,12 +0,0 @@
-DEFINED_PHASES=prepare
-DEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=A subset seed design tool for DNA sequence alignment
-EAPI=6
-HOMEPAGE=http://bioinfo.lifl.fr/yass/iedera.php
-INHERIT=autotools
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-SLOT=0
-SRC_URI=http://bioinfo.lifl.fr/yass/files/iedera-1.05.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=ce77e1e27bd52fed2fd2af52744d6288
diff --git a/metadata/md5-cache/sci-biology/iedera-1.05-r2 b/metadata/md5-cache/sci-biology/iedera-1.05-r2
new file mode 100644
index 000000000000..06b9531ac0f8
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/iedera-1.05-r2
@@ -0,0 +1,12 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=prepare
+DESCRIPTION=A subset seed design tool for DNA sequence alignment
+EAPI=8
+HOMEPAGE=http://bioinfo.lifl.fr/yass/iedera.php
+INHERIT=autotools
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+SLOT=0
+SRC_URI=http://bioinfo.lifl.fr/yass/files/iedera-1.05.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=a94a95bf7657c616d7b48d8bc45068c7
diff --git a/metadata/md5-cache/sci-biology/iqpnni-3.3.2-r1 b/metadata/md5-cache/sci-biology/iqpnni-3.3.2-r2
index 975248a39250..c7959fab6eed 100644
--- a/metadata/md5-cache/sci-biology/iqpnni-3.3.2-r1
+++ b/metadata/md5-cache/sci-biology/iqpnni-3.3.2-r2
@@ -1,10 +1,10 @@
 DEFINED_PHASES=install
 DESCRIPTION=Important Quartet Puzzling and NNI Operation
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.cibiv.at/software/iqpnni/
 IUSE=doc
 KEYWORDS=~amd64 ~x86
 LICENSE=GPL-2
 SLOT=0
 SRC_URI=http://www.cibiv.at/software/iqpnni/iqpnni-3.3.2.tar.gz
-_md5_=871193b79341fc00590227fc8ec7d4d4
+_md5_=6aae6556c487f2f133af3a40ec0d227b
diff --git a/metadata/md5-cache/sci-biology/kalign-2.03-r2 b/metadata/md5-cache/sci-biology/kalign-2.03-r2
deleted file mode 100644
index 00c2b282957b..000000000000
--- a/metadata/md5-cache/sci-biology/kalign-2.03-r2
+++ /dev/null
@@ -1,11 +0,0 @@
-DEFINED_PHASES=compile install prepare
-DESCRIPTION=Global and progressive multiple sequence alignment
-EAPI=6
-HOMEPAGE=http://msa.cgb.ki.se/
-INHERIT=toolchain-funcs
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-SLOT=0
-SRC_URI=mirror://debian/pool/main/k/kalign/kalign_2.03.orig.tar.gz
-_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=175d26382226c7bed2b44be485b01d01
diff --git a/metadata/md5-cache/sci-biology/kalign-2.03-r3 b/metadata/md5-cache/sci-biology/kalign-2.03-r3
new file mode 100644
index 000000000000..1c563dbab5c8
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/kalign-2.03-r3
@@ -0,0 +1,9 @@
+DEFINED_PHASES=-
+DESCRIPTION=Global and progressive multiple sequence alignment
+EAPI=8
+HOMEPAGE=http://msa.cgb.ki.se/
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+SLOT=0
+SRC_URI=mirror://debian/pool/main/k/kalign/kalign_2.03.orig.tar.gz
+_md5_=6f3350a7a60bf9efddc24e958998f592
diff --git a/metadata/md5-cache/sci-biology/libgtextutils-0.6.1-r1 b/metadata/md5-cache/sci-biology/libgtextutils-0.6.1-r1
index 4eb11089d93a..10f122d4ab55 100644
--- a/metadata/md5-cache/sci-biology/libgtextutils-0.6.1-r1
+++ b/metadata/md5-cache/sci-biology/libgtextutils-0.6.1-r1
@@ -8,5 +8,5 @@ KEYWORDS=~amd64 ~x86
 LICENSE=AGPL-3
 SLOT=0/0
 SRC_URI=http://hannonlab.cshl.edu/fastx_toolkit/libgtextutils-0.6.1.tar.bz2
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=bf69c3370f31858d1ff072c30305ca99
diff --git a/metadata/md5-cache/sci-biology/maq-0.7.1-r2 b/metadata/md5-cache/sci-biology/maq-0.7.1-r2
deleted file mode 100644
index c17f54cc216a..000000000000
--- a/metadata/md5-cache/sci-biology/maq-0.7.1-r2
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=install prepare
-DEPEND=sys-libs/zlib sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Mapping and Assembly with Qualities, mapping NGS reads to reference genomes
-EAPI=6
-HOMEPAGE=http://maq.sourceforge.net/
-INHERIT=autotools
-KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
-LICENSE=GPL-3
-RDEPEND=sys-libs/zlib
-SLOT=0
-SRC_URI=mirror://sourceforge/maq/maq-0.7.1.tar.bz2 mirror://sourceforge/maq/calib-36.dat.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=39ffb0025210075a8d7d7f6f81f8da56
diff --git a/metadata/md5-cache/sci-biology/maq-0.7.1-r3 b/metadata/md5-cache/sci-biology/maq-0.7.1-r3
new file mode 100644
index 000000000000..0d0d7eea8b3f
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/maq-0.7.1-r3
@@ -0,0 +1,14 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=install prepare
+DEPEND=sys-libs/zlib
+DESCRIPTION=Mapping and Assembly with Qualities, mapping NGS reads to reference genomes
+EAPI=8
+HOMEPAGE=http://maq.sourceforge.net/
+INHERIT=autotools
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
+LICENSE=GPL-3
+RDEPEND=sys-libs/zlib
+SLOT=0
+SRC_URI=mirror://sourceforge/maq/maq-0.7.1.tar.bz2 mirror://sourceforge/maq/calib-36.dat.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=063e8f4add19e5b685018dfb11be0196
diff --git a/metadata/md5-cache/sci-biology/maqview-0.2.5-r3 b/metadata/md5-cache/sci-biology/maqview-0.2.5-r3
deleted file mode 100644
index a60b0e13e116..000000000000
--- a/metadata/md5-cache/sci-biology/maqview-0.2.5-r3
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=prepare
-DEPEND=media-libs/freeglut sys-libs/zlib sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=GUI for sci-biology/maq, a short read mapping assembler
-EAPI=6
-HOMEPAGE=http://maq.sourceforge.net/
-INHERIT=autotools
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-3
-RDEPEND=media-libs/freeglut sys-libs/zlib sci-biology/maq
-SLOT=0
-SRC_URI=mirror://sourceforge/maq/maqview-0.2.5.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=dee50558d10e75ff9e96f4c3f177c55f
diff --git a/metadata/md5-cache/sci-biology/maqview-0.2.5-r4 b/metadata/md5-cache/sci-biology/maqview-0.2.5-r4
new file mode 100644
index 000000000000..f6bb93aee175
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/maqview-0.2.5-r4
@@ -0,0 +1,14 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=prepare
+DEPEND=media-libs/freeglut sys-libs/zlib
+DESCRIPTION=GUI for sci-biology/maq, a short read mapping assembler
+EAPI=8
+HOMEPAGE=http://maq.sourceforge.net/
+INHERIT=autotools
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-3
+RDEPEND=media-libs/freeglut sys-libs/zlib sci-biology/maq
+SLOT=0
+SRC_URI=mirror://sourceforge/maq/maqview-0.2.5.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=ce6e22a8dca500f24263e27d73b9eda4
diff --git a/metadata/md5-cache/sci-biology/mcl-14.137 b/metadata/md5-cache/sci-biology/mcl-14.137
index c797da2af65c..5962e9089076 100644
--- a/metadata/md5-cache/sci-biology/mcl-14.137
+++ b/metadata/md5-cache/sci-biology/mcl-14.137
@@ -9,5 +9,5 @@ KEYWORDS=~amd64 ~x86
 LICENSE=GPL-2
 SLOT=0
 SRC_URI=http://micans.org/mcl/src/mcl-14-137.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=9779366f51f2fea08274072a9a019159
diff --git a/metadata/md5-cache/sci-biology/mummer-3.23 b/metadata/md5-cache/sci-biology/mummer-3.23
deleted file mode 100644
index d59cbf202c98..000000000000
--- a/metadata/md5-cache/sci-biology/mummer-3.23
+++ /dev/null
@@ -1,13 +0,0 @@
-DEFINED_PHASES=configure install
-DESCRIPTION=A rapid whole genome aligner
-EAPI=6
-HOMEPAGE=http://mummer.sourceforge.net/
-INHERIT=flag-o-matic toolchain-funcs
-IUSE=doc
-KEYWORDS=~amd64 ~x86
-LICENSE=Artistic
-RDEPEND=app-shells/tcsh dev-lang/perl
-SLOT=0
-SRC_URI=mirror://sourceforge/mummer/MUMmer3.23.tar.gz
-_eclasses_=desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=c256f298b416306c1be7005e7877f7b9
diff --git a/metadata/md5-cache/sci-biology/mummer-3.23-r1 b/metadata/md5-cache/sci-biology/mummer-3.23-r1
new file mode 100644
index 000000000000..133cc006d6c5
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/mummer-3.23-r1
@@ -0,0 +1,13 @@
+DEFINED_PHASES=configure install
+DESCRIPTION=A rapid whole genome aligner
+EAPI=8
+HOMEPAGE=http://mummer.sourceforge.net/
+INHERIT=flag-o-matic toolchain-funcs
+IUSE=doc
+KEYWORDS=~amd64 ~x86
+LICENSE=Artistic
+RDEPEND=app-shells/tcsh dev-lang/perl
+SLOT=0
+SRC_URI=mirror://sourceforge/mummer/MUMmer3.23.tar.gz
+_eclasses_=flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=7103f6fc8a8d965ba2e5b71b09010e1d
diff --git a/metadata/md5-cache/sci-biology/newick-utils-1.6-r1 b/metadata/md5-cache/sci-biology/newick-utils-1.6-r1
index 87d1d473c1ac..632f7b57a009 100644
--- a/metadata/md5-cache/sci-biology/newick-utils-1.6-r1
+++ b/metadata/md5-cache/sci-biology/newick-utils-1.6-r1
@@ -11,5 +11,5 @@ LICENSE=BSD
 RDEPEND=xml? ( dev-libs/libxml2 ) !dev-games/libnw
 SLOT=0
 SRC_URI=http://cegg.unige.ch/pub/newick-utils-1.6.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=fac40fe86b457a75883a5eb465ce18d8
diff --git a/metadata/md5-cache/sci-biology/pals-1.0-r1 b/metadata/md5-cache/sci-biology/pals-1.0-r2
index 273273cafd60..20d35db4c003 100644
--- a/metadata/md5-cache/sci-biology/pals-1.0-r1
+++ b/metadata/md5-cache/sci-biology/pals-1.0-r2
@@ -1,6 +1,6 @@
 DEFINED_PHASES=configure install
 DESCRIPTION=Pairwise Aligner for Long Sequences
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.drive5.com/pals/
 INHERIT=toolchain-funcs
 KEYWORDS=amd64 x86
@@ -8,4 +8,4 @@ LICENSE=public-domain
 SLOT=0
 SRC_URI=http://www.drive5.com/pals/pals_source.tar.gz -> pals-1.0.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=b0df20d47905df6a290c5fe2f79fd48b
+_md5_=0374a4cc1893f560fdb963ab9e27c56b
diff --git a/metadata/md5-cache/sci-biology/phred-071220-r1 b/metadata/md5-cache/sci-biology/phred-071220-r2
index 5ecf5b9e49e8..f5cc5126f497 100644
--- a/metadata/md5-cache/sci-biology/phred-071220-r1
+++ b/metadata/md5-cache/sci-biology/phred-071220-r2
@@ -1,6 +1,6 @@
 DEFINED_PHASES=compile install nofetch
 DESCRIPTION=A base caller for Sanger DNA sequencing
-EAPI=6
+EAPI=8
 HOMEPAGE=http://phrap.org/phredphrapconsed.html
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64 ~x86
@@ -9,4 +9,4 @@ RESTRICT=fetch
 SLOT=0
 SRC_URI=phred-dist-071220.b-acd.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=6cb07f602eee34da61fd893818f30936
+_md5_=b4f0ecabb29f6151604a63619790300c
diff --git a/metadata/md5-cache/sci-biology/phyml-2.4.5-r3 b/metadata/md5-cache/sci-biology/phyml-2.4.5-r4
index adea41dcfeca..dd49ca833505 100644
--- a/metadata/md5-cache/sci-biology/phyml-2.4.5-r3
+++ b/metadata/md5-cache/sci-biology/phyml-2.4.5-r4
@@ -1,6 +1,6 @@
-DEFINED_PHASES=install prepare
+DEFINED_PHASES=configure install
 DESCRIPTION=Estimation of large phylogenies by maximum likelihood
-EAPI=6
+EAPI=8
 HOMEPAGE=http://atgc.lirmm.fr/phyml/
 INHERIT=toolchain-funcs
 KEYWORDS=amd64 ~ppc x86
@@ -8,4 +8,4 @@ LICENSE=GPL-2
 SLOT=0
 SRC_URI=http://www.lirmm.fr/~guindon/phyml_v2.4.5.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=8909f510fa1072825fa60fbc8a72920e
+_md5_=d7f38a7c0005dca5f3da1d1fbd9780ae
diff --git a/metadata/md5-cache/sci-biology/piler-1.0-r1 b/metadata/md5-cache/sci-biology/piler-1.0-r2
index 37cefb4af481..34de7e61b143 100644
--- a/metadata/md5-cache/sci-biology/piler-1.0-r1
+++ b/metadata/md5-cache/sci-biology/piler-1.0-r2
@@ -1,6 +1,6 @@
 DEFINED_PHASES=configure install
 DESCRIPTION=Analysis of repetitive DNA found in genome sequences
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.drive5.com/piler/
 INHERIT=toolchain-funcs
 KEYWORDS=amd64 x86
@@ -9,4 +9,4 @@ RDEPEND=|| ( sci-biology/muscle sci-libs/libmuscle ) sci-biology/pals
 SLOT=0
 SRC_URI=http://www.drive5.com/piler/piler_source.tar.gz -> piler-1.0.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=7b5a6d618aac08240cf165a04509c319
+_md5_=5a8dffca1e2b80e93cf1efdff5fd3fd0
diff --git a/metadata/md5-cache/sci-biology/pilercr-1.0-r1 b/metadata/md5-cache/sci-biology/pilercr-1.0-r2
index ab7fc7d1e02d..04373bb63bc2 100644
--- a/metadata/md5-cache/sci-biology/pilercr-1.0-r1
+++ b/metadata/md5-cache/sci-biology/pilercr-1.0-r2
@@ -1,6 +1,6 @@
 DEFINED_PHASES=configure install
 DESCRIPTION=Analysis of Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs)
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.drive5.com/pilercr/
 INHERIT=toolchain-funcs
 KEYWORDS=amd64 x86
@@ -8,4 +8,4 @@ LICENSE=public-domain
 SLOT=0
 SRC_URI=http://www.drive5.com/pilercr/pilercr1.06.tar.gz -> pilercr-1.0.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=d9f7901d3776c424cfb93782cc6ddafa
+_md5_=d6fca147863ed9ae98f77d0b6f762060
diff --git a/metadata/md5-cache/sci-biology/prank-140603 b/metadata/md5-cache/sci-biology/prank-140603-r1
index 466a5226a02e..dadaa8d9256c 100644
--- a/metadata/md5-cache/sci-biology/prank-140603
+++ b/metadata/md5-cache/sci-biology/prank-140603-r1
@@ -1,6 +1,6 @@
-DEFINED_PHASES=compile install prepare
+DEFINED_PHASES=configure install
 DESCRIPTION=Probabilistic Alignment Kit
-EAPI=6
+EAPI=8
 HOMEPAGE=http://wasabiapp.org/software/prank/
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64 ~x86
@@ -8,4 +8,4 @@ LICENSE=GPL-3
 SLOT=0
 SRC_URI=http://wasabiapp.org/download/prank/prank.source.140603.tgz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=17023476000980284365a9c0ed04a6f0
+_md5_=07f1836dd1c44c4ebf19bb6a59f7141a
diff --git a/metadata/md5-cache/sci-biology/prodigal-2.6.3 b/metadata/md5-cache/sci-biology/prodigal-2.6.3-r1
index c0ce255add3d..7a6b1a43a7e4 100644
--- a/metadata/md5-cache/sci-biology/prodigal-2.6.3
+++ b/metadata/md5-cache/sci-biology/prodigal-2.6.3-r1
@@ -1,6 +1,6 @@
 DEFINED_PHASES=configure
 DESCRIPTION=Prokaryotic Dynamic Programming Genefinding Algorithm
-EAPI=6
+EAPI=8
 HOMEPAGE=http://prodigal.ornl.gov/
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64
@@ -8,4 +8,4 @@ LICENSE=GPL-3
 SLOT=0
 SRC_URI=https://github.com/hyattpd/Prodigal/archive/v2.6.3.tar.gz -> prodigal-2.6.3.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=9cea3bcc55e864076d7e4b542f657f96
+_md5_=fbd84f84d9eeda38c197893cf2c079c8
diff --git a/metadata/md5-cache/sci-biology/pysam-0.19.1 b/metadata/md5-cache/sci-biology/pysam-0.19.1
index 36eb5745fbdf..2390a25dbc83 100644
--- a/metadata/md5-cache/sci-biology/pysam-0.19.1
+++ b/metadata/md5-cache/sci-biology/pysam-0.19.1
@@ -1,4 +1,4 @@
-BDEPEND=test? ( =sci-biology/bcftools-1.15.1* =sci-biology/samtools-1.15.1* ) test? ( =sci-libs/htslib-1.15.1*:= >=dev-python/pytest-7.0.1[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.0_beta1-r1:3.11 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+BDEPEND=test? ( =sci-biology/bcftools-1.15.1* =sci-biology/samtools-1.15.1* ) test? ( =sci-libs/htslib-1.15.1*:= >=dev-python/pytest-7.1.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.0_beta3:3.11 ) >=dev-python/setuptools-42.0.2[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
 DEFINED_PHASES=compile configure install prepare test
 DEPEND==sci-libs/htslib-1.15.1*:= dev-python/cython[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/setuptools[python_targets_python3_8(-)?,python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
 DESCRIPTION=Python interface for the SAM/BAM sequence alignment and mapping format
@@ -8,10 +8,10 @@ INHERIT=distutils-r1
 IUSE=test python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 python_targets_python3_11
 KEYWORDS=~amd64 ~x86
 LICENSE=MIT
-RDEPEND==sci-libs/htslib-1.15.1*:= python_targets_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.0_beta1-r1:3.11 )
+RDEPEND==sci-libs/htslib-1.15.1*:= python_targets_python3_8? ( >=dev-lang/python-3.8.13:3.8 ) python_targets_python3_9? ( >=dev-lang/python-3.9.12:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.4:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.0_beta3:3.11 )
 REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 python_targets_python3_11 )
 RESTRICT=!test? ( test )
 SLOT=0
 SRC_URI=https://github.com/pysam-developers/pysam/archive/v0.19.1.tar.gz -> pysam-0.19.1.gh.tar.gz
-_eclasses_=distutils-r1	10a93585889c3ca7651cbcd2ee831e47	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	648fe6a039e87233d7f48da72cadb76f	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=distutils-r1	64c5b9cc381383c9c1ef74fb199293ea	multibuild	d26d81f242cb193d899a72bca423d0bd	multilib	4fbbbc98f236f1b43acd99476bc3cd85	multiprocessing	b4e253ab22cef7b1085e9b67c7a3b730	python-r1	e2883e4f04f0503cdf7f2954e2bf5e15	python-utils-r1	32313e7e2fbfba8f62a99ef923fc923c	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=baed35c86cd8709cd139815786cd17ac
diff --git a/metadata/md5-cache/sci-biology/rebase-1901-r1 b/metadata/md5-cache/sci-biology/rebase-1901-r2
index 592b54d4bf16..ad9217bf40ea 100644
--- a/metadata/md5-cache/sci-biology/rebase-1901-r1
+++ b/metadata/md5-cache/sci-biology/rebase-1901-r2
@@ -6,7 +6,8 @@ HOMEPAGE=http://rebase.neb.com
 IUSE=emboss minimal
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris
 LICENSE=public-domain
+RDEPEND=emboss? ( sci-biology/emboss )
 RESTRICT=binchecks strip
 SLOT=0
 SRC_URI=https://dev.gentoo.org/~jlec/distfiles/rebase-1901.tar.xz
-_md5_=0d6e32883752d19d6e086fd1a9f809ac
+_md5_=572ea72ec5c0d1c0dcb153e7d16c64e5
diff --git a/metadata/md5-cache/sci-biology/recon-1.08 b/metadata/md5-cache/sci-biology/recon-1.08-r1
index 569e69489aa4..79bb6ab426f4 100644
--- a/metadata/md5-cache/sci-biology/recon-1.08
+++ b/metadata/md5-cache/sci-biology/recon-1.08-r1
@@ -1,6 +1,6 @@
 DEFINED_PHASES=compile install prepare
 DESCRIPTION=Automated de novo identification of repeat families from genomic sequences
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.repeatmasker.org/RepeatModeler.html
 INHERIT=toolchain-funcs
 IUSE=examples
@@ -10,4 +10,4 @@ RDEPEND=dev-lang/perl
 SLOT=0
 SRC_URI=http://www.repeatmasker.org/RECON-1.08.tar.gz
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=2ddd537d912c7c88b6f0b0d203a51613
+_md5_=36772ec3438da03e296e39fc88b347ee
diff --git a/metadata/md5-cache/sci-biology/rnaview-20040713-r4 b/metadata/md5-cache/sci-biology/rnaview-20040713-r5
index dace43fe9f21..697376de99bc 100644
--- a/metadata/md5-cache/sci-biology/rnaview-20040713-r4
+++ b/metadata/md5-cache/sci-biology/rnaview-20040713-r5
@@ -1,6 +1,6 @@
-DEFINED_PHASES=install prepare
+DEFINED_PHASES=configure install
 DESCRIPTION=Generates 2D displays of RNA/DNA secondary structures with tertiary interactions
-EAPI=6
+EAPI=8
 HOMEPAGE=http://ndbserver.rutgers.edu/services/download/index.html
 INHERIT=toolchain-funcs
 KEYWORDS=~amd64 ~x86
@@ -8,4 +8,4 @@ LICENSE=public-domain
 SLOT=0
 SRC_URI=mirror://gentoo/rnaview-20040713.tar.bz2
 _eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=788c156d45287bef4f6aa876055bde4c
+_md5_=dd5336243d83138448c13acb7f4d4ba2
diff --git a/metadata/md5-cache/sci-biology/t-coffee-11.00-r2 b/metadata/md5-cache/sci-biology/t-coffee-11.00-r3
index 89baa6b4617c..8b2e7a3a24d7 100644
--- a/metadata/md5-cache/sci-biology/t-coffee-11.00-r2
+++ b/metadata/md5-cache/sci-biology/t-coffee-11.00-r3
@@ -1,12 +1,12 @@
-DEFINED_PHASES=compile install prepare
+DEFINED_PHASES=compile configure install
 DESCRIPTION=A multiple sequence alignment package
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.tcoffee.org/Projects_home_page/t_coffee_home_page.html
-INHERIT=toolchain-funcs
+INHERIT=flag-o-matic toolchain-funcs
 KEYWORDS=~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux
 LICENSE=GPL-2
 RDEPEND=sci-biology/clustalw sci-chemistry/tm-align
 SLOT=0
 SRC_URI=http://www.tcoffee.org/Packages/Beta/Latest/T-COFFEE_distribution_Version_11.00.4466924.tar.gz
-_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=5c54b109c5b8bef93adbc5f99ddd7114
+_eclasses_=flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=4f19327a55b73328939540ced2179d21
diff --git a/metadata/md5-cache/sci-biology/transfac-3.2-r1 b/metadata/md5-cache/sci-biology/transfac-3.2-r2
index 91dec5eae8be..4c28d14c7975 100644
--- a/metadata/md5-cache/sci-biology/transfac-3.2-r1
+++ b/metadata/md5-cache/sci-biology/transfac-3.2-r2
@@ -1,7 +1,7 @@
+BDEPEND=emboss? ( sci-biology/emboss )
 DEFINED_PHASES=compile install
-DEPEND=emboss? ( sci-biology/emboss )
 DESCRIPTION=A database of eucaryotic transcription factors
-EAPI=6
+EAPI=8
 HOMEPAGE=http://www.gene-regulation.com/pub/databases.html
 IUSE=emboss minimal
 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
@@ -9,4 +9,4 @@ LICENSE=public-domain
 RDEPEND=emboss? ( sci-biology/emboss )
 SLOT=3
 SRC_URI=ftp://ftp.ebi.ac.uk/pub/databases/transfac/transfac32.tar.Z
-_md5_=d8fcea543b5af9fc877c63800e1bd6d3
+_md5_=6312c1bc4fc292848eed00fb67efa7c9
diff --git a/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3 b/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3
index f226841c1a25..3bd54e36c139 100644
--- a/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3
+++ b/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3
@@ -10,5 +10,5 @@ LICENSE=GPL-2
 RDEPEND=x11-libs/wxGTK:3.0[X]
 SLOT=0
 SRC_URI=http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/download/0.5/tv-0.5.1.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	edos2unix	33e347e171066657f91f8b0c72ec8773	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	wrapper	4a1902f969e5718126434fc35f3a0d9c	wxwidgets	c09e9b94378cadaf6ef86ec1534c0fd6
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	edos2unix	33e347e171066657f91f8b0c72ec8773	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	wrapper	4a1902f969e5718126434fc35f3a0d9c	wxwidgets	c09e9b94378cadaf6ef86ec1534c0fd6
 _md5_=14493f936bb599dd7faec748cece70f3
diff --git a/metadata/md5-cache/sci-biology/trf-4.04-r1 b/metadata/md5-cache/sci-biology/trf-4.04-r2
index 3195b5c5feec..30e1962524fe 100644
--- a/metadata/md5-cache/sci-biology/trf-4.04-r1
+++ b/metadata/md5-cache/sci-biology/trf-4.04-r2
@@ -1,10 +1,10 @@
 DEFINED_PHASES=install unpack
 DESCRIPTION=Tandem Repeats Finder
-EAPI=6
+EAPI=8
 HOMEPAGE=http://tandem.bu.edu/trf/trf.html
 KEYWORDS=amd64 x86
 LICENSE=trf
 RESTRICT=mirror bindist
 SLOT=0
 SRC_URI=http://tandem.bu.edu/trf/downloads/trf404.linux
-_md5_=51a51c14c6646aaa7d7494d561535729
+_md5_=7a6d356b931b70a39c33d922bd23adb1
diff --git a/metadata/md5-cache/sci-biology/trnascan-se-1.31 b/metadata/md5-cache/sci-biology/trnascan-se-1.31-r2
index b0f8d68f6b93..e0434ace0e21 100644
--- a/metadata/md5-cache/sci-biology/trnascan-se-1.31
+++ b/metadata/md5-cache/sci-biology/trnascan-se-1.31-r2
@@ -1,11 +1,13 @@
-DEFINED_PHASES=install prepare test
+BDEPEND=dev-lang/perl:=
+DEFINED_PHASES=configure install test
 DESCRIPTION=tRNA detection in large-scale genome sequences
-EAPI=6
+EAPI=8
 HOMEPAGE=http://lowelab.ucsc.edu/tRNAscan-SE/
 INHERIT=perl-functions toolchain-funcs
-KEYWORDS=amd64 x86
+KEYWORDS=~amd64 ~x86
 LICENSE=GPL-2
+RDEPEND=dev-lang/perl:=
 SLOT=0
 SRC_URI=http://lowelab.ucsc.edu/software/tRNAscan-SE.tar.gz -> trnascan-se-1.31.tar.gz
-_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	perl-functions	fea344a91ebf37efadf172c6a3de5a72	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
-_md5_=3f4bcdf31fe276f90a95e2f4b311deae
+_eclasses_=multilib	4fbbbc98f236f1b43acd99476bc3cd85	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=573bacb37768044a51d4a9ab21cdcf8c
diff --git a/metadata/md5-cache/sci-biology/vcftools-0.1.14 b/metadata/md5-cache/sci-biology/vcftools-0.1.14
deleted file mode 100644
index 6378220f4ac9..000000000000
--- a/metadata/md5-cache/sci-biology/vcftools-0.1.14
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=configure prepare
-DEPEND=sys-libs/zlib dev-lang/perl:= lapack? ( virtual/lapack ) virtual/pkgconfig sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Tools for working with VCF (Variant Call Format) files
-EAPI=6
-HOMEPAGE=http://vcftools.sourceforge.net/
-INHERIT=autotools flag-o-matic perl-functions toolchain-funcs
-IUSE=lapack
-KEYWORDS=~amd64 ~x86
-LICENSE=LGPL-3
-RDEPEND=sys-libs/zlib dev-lang/perl:= lapack? ( virtual/lapack )
-SLOT=0
-SRC_URI=https://github.com/vcftools/vcftools/releases/download/v0.1.14/vcftools-0.1.14.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	perl-functions	fea344a91ebf37efadf172c6a3de5a72	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=82adffd84f2a93745e683b498b79fbe8
diff --git a/metadata/md5-cache/sci-biology/vcftools-0.1.16 b/metadata/md5-cache/sci-biology/vcftools-0.1.16
index 84542d84c101..ce06e0654848 100644
--- a/metadata/md5-cache/sci-biology/vcftools-0.1.16
+++ b/metadata/md5-cache/sci-biology/vcftools-0.1.16
@@ -11,5 +11,5 @@ LICENSE=LGPL-3
 RDEPEND=sys-libs/zlib dev-lang/perl:= lapack? ( virtual/lapack )
 SLOT=0
 SRC_URI=https://github.com/vcftools/vcftools/releases/download/v0.1.16/vcftools-0.1.16.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	perl-functions	fea344a91ebf37efadf172c6a3de5a72	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	flag-o-matic	a3abd6002fafb3022597be6b8d01f88b	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	perl-functions	95b2df43c5f3057b6e77bd00b4d953da	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
 _md5_=faeb202e0aded0cb660ea87d6d7be81b
diff --git a/metadata/md5-cache/sci-biology/yass-1.14-r2 b/metadata/md5-cache/sci-biology/yass-1.14-r2
deleted file mode 100644
index 0728a88ebf47..000000000000
--- a/metadata/md5-cache/sci-biology/yass-1.14-r2
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=configure prepare
-DEPEND=dmalloc? ( dev-libs/dmalloc ) sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
-DESCRIPTION=Genomic similarity search with multiple transition constrained spaced seeds
-EAPI=6
-HOMEPAGE=http://bioinfo.lifl.fr/yass/
-INHERIT=autotools
-IUSE=dmalloc lowmem threads
-KEYWORDS=~amd64 ~x86
-LICENSE=GPL-2
-RDEPEND=dmalloc? ( dev-libs/dmalloc )
-SLOT=0
-SRC_URI=http://bioinfo.lifl.fr/yass/files/yass-1.14.tar.gz
-_eclasses_=autotools	136117fb43a9bf5598530e9cc642f710	desktop	22952d8f27cac191d75529d4c38e6bfa	edos2unix	33e347e171066657f91f8b0c72ec8773	epatch	28f0f3c0226306ec5f49e13bf851f171	estack	055c42df72f76a4f45ec92b35e83cd56	eutils	dab5d8ec471d025b79c9e6906bcf3bff	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	ltprune	97143780d341cc8d8f1d4c6187a36d29	multilib	4fbbbc98f236f1b43acd99476bc3cd85	preserve-libs	a8e50acee31b5759b4df1f7707cae54b	strip-linguas	ac3ee41ee2d31d8c41a77c0838320cc7	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb	vcs-clean	d271b7bc7e6a009758d7d4ef749174e3	wrapper	4a1902f969e5718126434fc35f3a0d9c
-_md5_=3a4ba9b4e7b8efec51cfc79d261fefd3
diff --git a/metadata/md5-cache/sci-biology/yass-1.14-r3 b/metadata/md5-cache/sci-biology/yass-1.14-r3
new file mode 100644
index 000000000000..926e17bc1f83
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/yass-1.14-r3
@@ -0,0 +1,15 @@
+BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.5:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4
+DEFINED_PHASES=configure prepare
+DEPEND=dmalloc? ( dev-libs/dmalloc )
+DESCRIPTION=Genomic similarity search with multiple transition constrained spaced seeds
+EAPI=8
+HOMEPAGE=http://bioinfo.lifl.fr/yass/
+INHERIT=autotools
+IUSE=dmalloc lowmem threads
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-2
+RDEPEND=dmalloc? ( dev-libs/dmalloc )
+SLOT=0
+SRC_URI=http://bioinfo.lifl.fr/yass/files/yass-1.14.tar.gz
+_eclasses_=autotools	2fd69a56a527d12409ba43c733b7ac8f	gnuconfig	b6b3e92f8b8c996400074b5f61a59256	libtool	241a8f577b9781a42a7421e53448a44e	multilib	4fbbbc98f236f1b43acd99476bc3cd85	toolchain-funcs	e9da88162e7a3c60376e80c2c2adcdfb
+_md5_=9e0eb1b35801ce703a9a397be6421d47
author	V3n3RiX <venerix@koprulu.sector>	2022-07-09 15:43:36 +0100
committer	V3n3RiX <venerix@koprulu.sector>	2022-07-09 15:43:36 +0100
commit	2719f73b6813d11d13a9650cdd2ab8ec6e69385d (patch)
tree	8c816148bcbd22757d892089c989ae614eae4f5a /metadata/md5-cache/sci-biology
parent	0f558761aa2dee1017b4751e4017205e015a9560 (diff)