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authorV3n3RiX <venerix@koprulu.sector>2023-02-24 09:47:15 +0000
committerV3n3RiX <venerix@koprulu.sector>2023-02-24 09:47:15 +0000
commit4003c614d3c4b320c45ab1f4b817459d4709443b (patch)
treefcc0c42e92c56abe0ea39b717b2c3b019c335e41 /metadata/md5-cache/sci-biology
parent58177544118b9a8393d7501ee5e0e35cd32f2ad4 (diff)
gentoo auto-resync : 24:02:2023 - 09:47:15
Diffstat (limited to 'metadata/md5-cache/sci-biology')
-rw-r--r--metadata/md5-cache/sci-biology/HTSeq-2.0.214
-rw-r--r--metadata/md5-cache/sci-biology/HTSeq-999914
-rw-r--r--metadata/md5-cache/sci-biology/Manifest.gzbin21025 -> 21493 bytes
-rw-r--r--metadata/md5-cache/sci-biology/biopandas-0.4.116
-rw-r--r--metadata/md5-cache/sci-biology/biopython-1.8116
-rw-r--r--metadata/md5-cache/sci-biology/bowtie-2.5.117
6 files changed, 63 insertions, 14 deletions
diff --git a/metadata/md5-cache/sci-biology/HTSeq-2.0.2 b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
index bf75dd2fbf72..0e26d00a46ac 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-2.0.2
+++ b/metadata/md5-cache/sci-biology/HTSeq-2.0.2
@@ -1,17 +1,17 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/pytest-7.2.1[python_targets_python3_9(-)?,python_targets_python3_10(-)?] ) python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) >=dev-python/setuptools-65.7.0[python_targets_python3_9(-)?,python_targets_python3_10(-)?]
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.2.1[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) >=dev-python/setuptools-65.7.0[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
DEFINED_PHASES=compile configure install prepare test
-DEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] )
+DEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/scipy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] )
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_9 python_targets_python3_10
+IUSE=test python_targets_python3_9 python_targets_python3_10 python_targets_python3_11
KEYWORDS=~amd64
LICENSE=GPL-3+
-RDEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 )
-REQUIRED_USE=|| ( python_targets_python3_9 python_targets_python3_10 )
-RESTRICT=!test? ( test ) !test? ( test )
+RDEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 )
+REQUIRED_USE=|| ( python_targets_python3_9 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_=distutils-r1 a9f2e2ae24bd496873c092a94cae1539 flag-o-matic 69394e25812406faa1f90edaf4969395 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib 5ca4e49abed8e3a2f7b56920eadee157 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 38c85b725d0467e51954ea921b6c104b out-of-source-utils 1a9007554652a6e627edbccb3c25a439 python-r1 666be58f658d6b32affe30f80e39a49e python-utils-r1 429bfd4e8d8e39db5385ba5744f30788 toolchain-funcs 6001248ef162a5fa2a21ce132a212f6b
-_md5_=a4190a44788cf7ade175eecc1b463758
+_md5_=29d76005d4f5d0a05fc0182fba12f7f5
diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999
index e2257abef0d3..3e82edf09445 100644
--- a/metadata/md5-cache/sci-biology/HTSeq-9999
+++ b/metadata/md5-cache/sci-biology/HTSeq-9999
@@ -1,16 +1,16 @@
-BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-python/pytest-7.2.1[python_targets_python3_9(-)?,python_targets_python3_10(-)?] ) python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) >=dev-python/setuptools-65.7.0[python_targets_python3_9(-)?,python_targets_python3_10(-)?] >=dev-vcs/git-1.8.2.1[curl]
+BDEPEND=>=dev-lang/swig-3.0.8 dev-python/cython[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/pytest-7.2.1[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) >=dev-python/setuptools-65.7.0[python_targets_python3_9(-)?,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_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] test? ( dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?] dev-python/scipy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] )
+DEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] test? ( dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/scipy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] )
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 git-r3
-IUSE=test test python_targets_python3_9 python_targets_python3_10
+IUSE=test python_targets_python3_9 python_targets_python3_10 python_targets_python3_11
LICENSE=GPL-3+
PROPERTIES=live
-RDEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 )
-REQUIRED_USE=|| ( python_targets_python3_9 python_targets_python3_10 )
-RESTRICT=!test? ( test ) !test? ( test )
+RDEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] sci-biology/pysam[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 )
+REQUIRED_USE=|| ( python_targets_python3_9 python_targets_python3_10 python_targets_python3_11 )
+RESTRICT=!test? ( test )
SLOT=0
_eclasses_=distutils-r1 a9f2e2ae24bd496873c092a94cae1539 flag-o-matic 69394e25812406faa1f90edaf4969395 git-r3 2347f8fe2d392b2a091191f94be37e6f multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib 5ca4e49abed8e3a2f7b56920eadee157 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 38c85b725d0467e51954ea921b6c104b out-of-source-utils 1a9007554652a6e627edbccb3c25a439 python-r1 666be58f658d6b32affe30f80e39a49e python-utils-r1 429bfd4e8d8e39db5385ba5744f30788 toolchain-funcs 6001248ef162a5fa2a21ce132a212f6b
-_md5_=a4190a44788cf7ade175eecc1b463758
+_md5_=29d76005d4f5d0a05fc0182fba12f7f5
diff --git a/metadata/md5-cache/sci-biology/Manifest.gz b/metadata/md5-cache/sci-biology/Manifest.gz
index 472218b94568..12740d822833 100644
--- a/metadata/md5-cache/sci-biology/Manifest.gz
+++ b/metadata/md5-cache/sci-biology/Manifest.gz
Binary files differ
diff --git a/metadata/md5-cache/sci-biology/biopandas-0.4.1 b/metadata/md5-cache/sci-biology/biopandas-0.4.1
new file mode 100644
index 000000000000..43595e98d620
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/biopandas-0.4.1
@@ -0,0 +1,16 @@
+BDEPEND=test? ( dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/nose-1.3.7_p20221026[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) >=dev-python/gpep517-13[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] || ( >=dev-python/setuptools-67.2.0[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] <dev-python/setuptools-65.7.1[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] ) >=dev-python/wheel-0.38.4[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+DEFINED_PHASES=compile configure install prepare test
+DESCRIPTION=Molecular Structures in Pandas DataFrames
+EAPI=8
+HOMEPAGE=https://rasbt.github.io/biopandas/ https://github.com/BioPandas/biopandas https://pypi.org/project/biopandas/
+INHERIT=distutils-r1
+IUSE=test python_targets_python3_9 python_targets_python3_10 python_targets_python3_11
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
+LICENSE=BSD
+RDEPEND=dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pandas[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 )
+REQUIRED_USE=|| ( python_targets_python3_9 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_=distutils-r1 a9f2e2ae24bd496873c092a94cae1539 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib 5ca4e49abed8e3a2f7b56920eadee157 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 38c85b725d0467e51954ea921b6c104b out-of-source-utils 1a9007554652a6e627edbccb3c25a439 python-r1 666be58f658d6b32affe30f80e39a49e python-utils-r1 429bfd4e8d8e39db5385ba5744f30788 toolchain-funcs 6001248ef162a5fa2a21ce132a212f6b
+_md5_=3b87692064234ef962aa52c8f93f9e17
diff --git a/metadata/md5-cache/sci-biology/biopython-1.81 b/metadata/md5-cache/sci-biology/biopython-1.81
new file mode 100644
index 000000000000..70c189c607c1
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/biopython-1.81
@@ -0,0 +1,16 @@
+BDEPEND=sys-devel/flex python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) >=dev-python/setuptools-65.7.0[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+DEFINED_PHASES=compile configure install postinst prepare test
+DEPEND=dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/networkx[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/rdflib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pygraphviz[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pydot[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?]
+DESCRIPTION=Python modules for computational molecular biology
+EAPI=8
+HOMEPAGE=https://www.biopython.org/ https://pypi.org/project/biopython/
+INHERIT=distutils-r1 optfeature pypi
+IUSE=python_targets_python3_9 python_targets_python3_10 python_targets_python3_11
+KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux
+LICENSE=HPND
+RDEPEND=dev-python/matplotlib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/networkx[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/numpy[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/rdflib[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pygraphviz[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] >=dev-python/reportlab-3.5.13-r1[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] dev-python/pydot[python_targets_python3_9(-)?,python_targets_python3_10(-)?,python_targets_python3_11(-)?] python_targets_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_targets_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_targets_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 )
+REQUIRED_USE=|| ( python_targets_python3_9 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_=distutils-r1 a9f2e2ae24bd496873c092a94cae1539 multibuild bddcb51b74f4a76724ff7cf8e7388869 multilib 5ca4e49abed8e3a2f7b56920eadee157 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 38c85b725d0467e51954ea921b6c104b optfeature 1a2157392a869265b2afcb63a26c12ac out-of-source-utils 1a9007554652a6e627edbccb3c25a439 pypi 1bc874ed4adb7d785e7201acbbb8347a python-r1 666be58f658d6b32affe30f80e39a49e python-utils-r1 429bfd4e8d8e39db5385ba5744f30788 toolchain-funcs 6001248ef162a5fa2a21ce132a212f6b
+_md5_=0633a971fcefdf1bd3b56330238719a8
diff --git a/metadata/md5-cache/sci-biology/bowtie-2.5.1 b/metadata/md5-cache/sci-biology/bowtie-2.5.1
new file mode 100644
index 000000000000..23d29f7b121d
--- /dev/null
+++ b/metadata/md5-cache/sci-biology/bowtie-2.5.1
@@ -0,0 +1,17 @@
+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_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) 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/
+INHERIT=python-single-r1 toolchain-funcs
+IUSE=test cpu_flags_x86_sse2 examples python_single_target_python3_9 python_single_target_python3_10 python_single_target_python3_11
+KEYWORDS=~amd64 ~x86
+LICENSE=GPL-3
+RDEPEND=python_single_target_python3_9? ( >=dev-lang/python-3.9.16-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.9-r1:3.10 ) python_single_target_python3_11? ( >=dev-lang/python-3.11.1-r1:3.11 ) dev-lang/perl sys-libs/zlib
+REQUIRED_USE=cpu_flags_x86_sse2 ^^ ( python_single_target_python3_9 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_=multilib 5ca4e49abed8e3a2f7b56920eadee157 multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-single-r1 75118e916668a74c660a13b0ecb22562 python-utils-r1 429bfd4e8d8e39db5385ba5744f30788 toolchain-funcs 6001248ef162a5fa2a21ce132a212f6b
+_md5_=831933c38b43e507442ee567a3c3583f
generated by cgit v1.2.3 (git 2.25.1) at 2024-07-18 09:16:43 +0000