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authorRepository mirror & CI <repomirrorci@gentoo.org>2023-07-17 09:48:05 +0000
committerRepository mirror & CI <repomirrorci@gentoo.org>2023-07-17 09:48:05 +0000
commit342de83f24befba75cf62780e6bbe735c0eea871 (patch)
tree3309803c2683aed2482a561b66d7af6ec48b5241 /metadata/md5-cache/sci-biology
parentMerge updates from master (diff)
downloadgentoo-342de83f24befba75cf62780e6bbe735c0eea871.tar.gz
gentoo-342de83f24befba75cf62780e6bbe735c0eea871.tar.bz2
gentoo-342de83f24befba75cf62780e6bbe735c0eea871.zip
2023-07-17 09:48:03 UTC
Diffstat (limited to 'metadata/md5-cache/sci-biology')
-rw-r--r--metadata/md5-cache/sci-biology/HTSeq-2.0.26
-rw-r--r--metadata/md5-cache/sci-biology/HTSeq-99996
-rw-r--r--metadata/md5-cache/sci-biology/bcftools-1.178
-rw-r--r--metadata/md5-cache/sci-biology/bedtools-2.30.04
-rw-r--r--metadata/md5-cache/sci-biology/biopandas-0.4.16
-rw-r--r--metadata/md5-cache/sci-biology/biopython-1.816
-rw-r--r--metadata/md5-cache/sci-biology/bowtie-2.4.46
-rw-r--r--metadata/md5-cache/sci-biology/bowtie-2.5.16
-rw-r--r--metadata/md5-cache/sci-biology/pysam-0.21.06
-rw-r--r--metadata/md5-cache/sci-biology/pysam-99996
10 files changed, 30 insertions, 30 deletions
diff --git a/metadata/md5-cache/sci-biology/HTSeq-2.0.2 b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
index fb72adf60339..8d3fb69ad567 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-2.0.2
+++ b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
@@ -1,4 +1,4 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DEFINED_PHASES=compile configure install prepare test
DEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/matplotlib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/scipy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] )
DESCRIPTION=Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files
@@ -8,10 +8,10 @@ INHERIT=distutils-r1 flag-o-matic
IUSE=test python_targets_python3_10 python_targets_python3_11
KEYWORDS=~amd64
LICENSE=GPL-3+
-RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
RESTRICT=!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_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00 flag-o-matic ad475baa777c9978fa035216c8264a10
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228
_md5_=29d76005d4f5d0a05fc0182fba12f7f5
diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999
index a817c78faf0e..66c4b39f29e5 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-9999
+++ b/metadata/md5-cache/sci-biology/HTSeq-9999
@@ -1,4 +1,4 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-vcs/git-1.8.2.1[curl]
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-vcs/git-1.8.2.1[curl]
DEFINED_PHASES=compile configure install prepare test unpack
DEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/matplotlib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/scipy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] )
DESCRIPTION=Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files
@@ -8,9 +8,9 @@ INHERIT=distutils-r1 flag-o-matic git-r3
IUSE=test python_targets_python3_10 python_targets_python3_11
LICENSE=GPL-3+
PROPERTIES=live
-RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
RESTRICT=!test? ( test )
SLOT=0
-_eclasses_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00 flag-o-matic ad475baa777c9978fa035216c8264a10 git-r3 27e13c09a4c7e4c78ac812f74727e676
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228 git-r3 27e13c09a4c7e4c78ac812f74727e676
_md5_=29d76005d4f5d0a05fc0182fba12f7f5
diff --git a/metadata/md5-cache/sci-biology/bcftools-1.17 b/metadata/md5-cache/sci-biology/bcftools-1.17
index 70e5555ed187..8530f2d1f81a 100644
--- a/metadata/md5-cache/sci-biology/bcftools-1.17
+++ b/metadata/md5-cache/sci-biology/bcftools-1.17
@@ -1,6 +1,6 @@
-BDEPEND=python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+BDEPEND=python_single_target_python3_10? ( dev-lang/python:3.10 ) python_single_target_python3_11? ( dev-lang/python:3.11 )
DEFINED_PHASES=configure prepare setup
-DEPEND=dev-lang/perl python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) python_single_target_python3_11? ( dev-python/matplotlib[python_targets_python3_11(-)] ) =sci-libs/htslib-1.17*:= sys-libs/zlib python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+DEPEND=dev-lang/perl python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) python_single_target_python3_11? ( dev-python/matplotlib[python_targets_python3_11(-)] ) =sci-libs/htslib-1.17*:= sys-libs/zlib python_single_target_python3_10? ( dev-lang/python:3.10 ) python_single_target_python3_11? ( dev-lang/python:3.11 )
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_10 python_single_target_python3_11
KEYWORDS=~amd64 ~x86
LICENSE=MIT
-RDEPEND=dev-lang/perl python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) python_single_target_python3_11? ( dev-python/matplotlib[python_targets_python3_11(-)] ) =sci-libs/htslib-1.17*:= sys-libs/zlib python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=dev-lang/perl python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) python_single_target_python3_11? ( dev-python/matplotlib[python_targets_python3_11(-)] ) =sci-libs/htslib-1.17*:= sys-libs/zlib python_single_target_python3_10? ( dev-lang/python:3.10 ) python_single_target_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=^^ ( python_single_target_python3_10 python_single_target_python3_11 )
SLOT=0
SRC_URI=https://github.com/samtools/bcftools/releases/download/1.17/bcftools-1.17.tar.bz2
-_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-single-r1 75118e916668a74c660a13b0ecb22562
+_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-single-r1 75118e916668a74c660a13b0ecb22562
_md5_=5271780ace94107aae357a985f191e14
diff --git a/metadata/md5-cache/sci-biology/bedtools-2.30.0 b/metadata/md5-cache/sci-biology/bedtools-2.30.0
index e0c20916207c..49ff080bbc11 100644
--- a/metadata/md5-cache/sci-biology/bedtools-2.30.0
+++ b/metadata/md5-cache/sci-biology/bedtools-2.30.0
@@ -1,4 +1,4 @@
-BDEPEND=|| ( >=dev-lang/python-3.11.4:3.11 >=dev-lang/python-3.10.12:3.10 ) test? ( >=sci-biology/samtools-1.10:0 )
+BDEPEND=|| ( dev-lang/python:3.11 dev-lang/python:3.10 ) 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
@@ -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_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-any-r1 d2955aaac8daaaa69fcc6dc93ed19f29
+_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-any-r1 845fed6b6dfc35679a4fea289272ddc0
_md5_=6362b2cc40163766b0448cea57894c3a
diff --git a/metadata/md5-cache/sci-biology/biopandas-0.4.1 b/metadata/md5-cache/sci-biology/biopandas-0.4.1
index 170ec2f25705..f41664316b0f 100644
--- a/metadata/md5-cache/sci-biology/biopandas-0.4.1
+++ b/metadata/md5-cache/sci-biology/biopandas-0.4.1
@@ -1,4 +1,4 @@
-BDEPEND=test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/nose-1.3.7_p20221026[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/gpep517-13[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/wheel-0.40.0[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+BDEPEND=test? ( dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/nose-1.3.7_p20221026[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/gpep517-13[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DEFINED_PHASES=compile configure install prepare test
DESCRIPTION=Molecular Structures in Pandas DataFrames
EAPI=8
@@ -7,10 +7,10 @@ INHERIT=distutils-r1
IUSE=test python_targets_python3_10 python_targets_python3_11
KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
LICENSE=BSD
-RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
RESTRICT=!test? ( test )
SLOT=0
SRC_URI=https://github.com/BioPandas/biopandas/archive/refs/tags/v0.4.1.tar.gz -> biopandas-0.4.1.gh.tar.gz
-_eclasses_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228
_md5_=3b87692064234ef962aa52c8f93f9e17
diff --git a/metadata/md5-cache/sci-biology/biopython-1.81 b/metadata/md5-cache/sci-biology/biopython-1.81
index fa0f4844121d..4a74438b6e3c 100644
--- a/metadata/md5-cache/sci-biology/biopython-1.81
+++ b/metadata/md5-cache/sci-biology/biopython-1.81
@@ -1,4 +1,4 @@
-BDEPEND=sys-devel/flex python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+BDEPEND=sys-devel/flex python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DEFINED_PHASES=compile configure install postinst prepare test
DEPEND=dev-python/matplotlib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/networkx[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/rdflib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pygraphviz[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pydot[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DESCRIPTION=Python modules for computational molecular biology
@@ -8,9 +8,9 @@ INHERIT=distutils-r1 optfeature pypi
IUSE=python_targets_python3_10 python_targets_python3_11
KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
LICENSE=HPND
-RDEPEND=dev-python/matplotlib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/networkx[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/rdflib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pygraphviz[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pydot[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=dev-python/matplotlib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/networkx[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/numpy[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/rdflib[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pygraphviz[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pydot[python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
SLOT=0
SRC_URI=https://files.pythonhosted.org/packages/source/b/biopython/biopython-1.81.tar.gz
-_eclasses_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00 optfeature 222cb475c5a4f7ae7cfb0bf510a6fe54 pypi 6b97d2db40ff6be180030687e6003199
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228 optfeature 222cb475c5a4f7ae7cfb0bf510a6fe54 pypi 2eecb475512bc76e5ea9192a681b9e6b
_md5_=0633a971fcefdf1bd3b56330238719a8
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.4.4 b/metadata/md5-cache/sci-biology/bowtie-2.4.4
index 7cda45687c0f..93615790ab0b 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_10? ( >=dev-lang/python-3.10.12:3.10 ) dev-lang/perl sys-libs/zlib
+DEPEND=python_single_target_python3_10? ( dev-lang/python: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_10
KEYWORDS=~amd64 ~x86
LICENSE=GPL-3
-RDEPEND=python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) dev-lang/perl sys-libs/zlib
+RDEPEND=python_single_target_python3_10? ( dev-lang/python:3.10 ) dev-lang/perl sys-libs/zlib
REQUIRED_USE=cpu_flags_x86_sse2 ^^ ( 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_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-single-r1 75118e916668a74c660a13b0ecb22562
+_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-single-r1 75118e916668a74c660a13b0ecb22562
_md5_=7e782380091eb080dc11ed573335cbf2
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.5.1 b/metadata/md5-cache/sci-biology/bowtie-2.5.1
index 43daef59da6a..aa3f1de00535 100644
--- a/metadata/md5-cache/sci-biology/bowtie-2.5.1
+++ b/metadata/md5-cache/sci-biology/bowtie-2.5.1
@@ -1,6 +1,6 @@
BDEPEND=app-arch/unzip test? ( dev-perl/App-cpanminus dev-perl/B-COW dev-perl/Clone dev-perl/Config-General dev-perl/File-Which dev-perl/local-lib dev-perl/Math-Random dev-perl/Test-Deep dev-perl/Text-Template )
DEFINED_PHASES=compile install setup
-DEPEND=python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) dev-lang/perl sys-libs/zlib
+DEPEND=python_single_target_python3_10? ( dev-lang/python:3.10 ) python_single_target_python3_11? ( dev-lang/python:3.11 ) dev-lang/perl sys-libs/zlib
DESCRIPTION=Popular short read aligner for Next-generation sequencing data
EAPI=8
HOMEPAGE=https://bowtie-bio.sourceforge.net/bowtie2/
@@ -8,10 +8,10 @@ INHERIT=python-single-r1 toolchain-funcs
IUSE=test cpu_flags_x86_sse2 examples python_single_target_python3_10 python_single_target_python3_11
KEYWORDS=~amd64 ~x86
LICENSE=GPL-3
-RDEPEND=python_single_target_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) dev-lang/perl sys-libs/zlib
+RDEPEND=python_single_target_python3_10? ( dev-lang/python:3.10 ) python_single_target_python3_11? ( dev-lang/python:3.11 ) dev-lang/perl sys-libs/zlib
REQUIRED_USE=cpu_flags_x86_sse2 ^^ ( python_single_target_python3_10 python_single_target_python3_11 )
RESTRICT=test
SLOT=2
SRC_URI=mirror://sourceforge/project/bowtie-bio/bowtie2/2.5.1/bowtie2-2.5.1-source.zip
-_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-single-r1 75118e916668a74c660a13b0ecb22562
+_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-single-r1 75118e916668a74c660a13b0ecb22562
_md5_=831933c38b43e507442ee567a3c3583f
diff --git a/metadata/md5-cache/sci-biology/pysam-0.21.0 b/metadata/md5-cache/sci-biology/pysam-0.21.0
index e5381dea9038..1e42d83bf080 100644
--- a/metadata/md5-cache/sci-biology/pysam-0.21.0
+++ b/metadata/md5-cache/sci-biology/pysam-0.21.0
@@ -1,4 +1,4 @@
-BDEPEND=test? ( =sci-biology/bcftools-1.17* =sci-biology/samtools-1.17* ) test? ( =sci-libs/htslib-1.17*:= >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+BDEPEND=test? ( =sci-biology/bcftools-1.17* =sci-biology/samtools-1.17* ) test? ( =sci-libs/htslib-1.17*:= >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DEFINED_PHASES=compile configure install prepare test
DEPEND==sci-libs/htslib-1.17*:= dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/setuptools[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_10 python_targets_python3_11
KEYWORDS=~amd64 ~x86
LICENSE=MIT
-RDEPEND==sci-libs/htslib-1.17*:= python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND==sci-libs/htslib-1.17*:= python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
RESTRICT=!test? ( test )
SLOT=0
SRC_URI=https://github.com/pysam-developers/pysam/archive/v0.21.0.tar.gz -> pysam-0.21.0.gh.tar.gz
-_eclasses_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228
_md5_=d2f337ee806641d85739cd55c8698806
diff --git a/metadata/md5-cache/sci-biology/pysam-9999 b/metadata/md5-cache/sci-biology/pysam-9999
index 186ca545f807..a23e10659c13 100644
--- a/metadata/md5-cache/sci-biology/pysam-9999
+++ b/metadata/md5-cache/sci-biology/pysam-9999
@@ -1,4 +1,4 @@
-BDEPEND=test? ( >=sci-biology/bcftools-1.17 >=sci-biology/samtools-1.17 ) test? ( >=sci-libs/htslib-1.17 >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 ) >=dev-python/setuptools-67.7.2[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-vcs/git-1.8.2.1[curl]
+BDEPEND=test? ( >=sci-biology/bcftools-1.17 >=sci-biology/samtools-1.17 ) test? ( >=sci-libs/htslib-1.17 >=dev-python/pytest-7.3.1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 ) >=dev-python/setuptools-67.8.0-r1[python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-vcs/git-1.8.2.1[curl]
DEFINED_PHASES=compile configure install prepare test unpack
DEPEND=>=sci-libs/htslib-1.17 dev-python/cython[python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/setuptools[python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DESCRIPTION=Python interface for the SAM/BAM sequence alignment and mapping format
@@ -8,9 +8,9 @@ INHERIT=distutils-r1 git-r3
IUSE=test python_targets_python3_10 python_targets_python3_11
LICENSE=MIT
PROPERTIES=live
-RDEPEND=>=sci-libs/htslib-1.17 python_targets_python3_10? ( >=dev-lang/python-3.10.12:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.4:3.11 )
+RDEPEND=>=sci-libs/htslib-1.17 python_targets_python3_10? ( dev-lang/python:3.10 ) python_targets_python3_11? ( dev-lang/python:3.11 )
REQUIRED_USE=|| ( python_targets_python3_10 python_targets_python3_11 )
RESTRICT=!test? ( test )
SLOT=0
-_eclasses_=out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib c19072c3cd7ac5cb21de013f7e9832e0 toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 a013e16d5d896b3d8be68dd2a0e846ea python-r1 3c6cd0f418ba702c186a9865b85e704d distutils-r1 1c9a447ab8b90199e719e0e3a9a5cb00 git-r3 27e13c09a4c7e4c78ac812f74727e676
+_eclasses_=toolchain-funcs 513c31b3346458ed1f3878b57da6d61c multilib c19072c3cd7ac5cb21de013f7e9832e0 flag-o-matic ad475baa777c9978fa035216c8264a10 out-of-source-utils 1a9007554652a6e627edbccb3c25a439 multibuild 30dbf3c5a31db09a19f31ad0a68f2405 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 76050953ad5b70d7e09a6ca55558db92 python-utils-r1 7661dc585f75dd1f81eccefe37bef093 python-r1 b3f874304c1bda6ffc3450ebb4ae5169 distutils-r1 b7cd5736a595ec0df9b164d5aec6f228 git-r3 27e13c09a4c7e4c78ac812f74727e676
_md5_=bcdb07ed2c7ed322810daba181d02da3