diff options
Diffstat (limited to 'metadata/md5-cache/sci-biology')
67 files changed, 105 insertions, 90 deletions
diff --git a/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 b/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 deleted file mode 100644 index 962321953af7..000000000000 --- a/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 +++ /dev/null @@ -1,13 +0,0 @@ -DEFINED_PHASES=compile configure install postinst prepare prerm setup test unpack -DEPEND=dev-perl/Module-Build dev-perl/Capture-Tiny !<sci-biology/GBrowse-2.44-r1 >=sci-biology/bioperl-1.6.9 >=dev-perl/Bio-Graphics-2.09 >=dev-perl/GD-2.07 >=dev-perl/CGI-Session-4.02 dev-perl/IO-String dev-perl/JSON dev-perl/libwww-perl dev-perl/Statistics-Descriptive !minimal? ( dev-perl/Bio-Das >=dev-perl/Bio-SamTools-1.20 dev-perl/Crypt-SSLeay dev-perl/DB_File-Lock dev-perl/DBI mysql? ( dev-perl/DBD-mysql ) postgres? ( dev-perl/DBD-Pg ) sqlite? ( dev-perl/DBD-SQLite ) dev-perl/FCGI dev-perl/File-NFSLock dev-perl/GD-SVG dev-perl/Net-OpenID-Consumer dev-perl/Net-SMTP-SSL ) dev-lang/perl:=[-build(-)] app-admin/webapp-config -DESCRIPTION=Generic Model Organism Database Project - The Generic Genome Browser -EAPI=5 -HOMEPAGE=http://gmod.org/wiki/GBrowse -IUSE=minimal mysql postgres +sqlite vhosts -KEYWORDS=~amd64 ~x86 -LICENSE=|| ( Artistic GPL-1+ ) -RDEPEND=!<sci-biology/GBrowse-2.44-r1 >=sci-biology/bioperl-1.6.9 >=dev-perl/Bio-Graphics-2.09 >=dev-perl/GD-2.07 >=dev-perl/CGI-Session-4.02 dev-perl/IO-String dev-perl/JSON dev-perl/libwww-perl dev-perl/Statistics-Descriptive !minimal? ( dev-perl/Bio-Das >=dev-perl/Bio-SamTools-1.20 dev-perl/Crypt-SSLeay dev-perl/DB_File-Lock dev-perl/DBI mysql? ( dev-perl/DBD-mysql ) postgres? ( dev-perl/DBD-Pg ) sqlite? ( dev-perl/DBD-SQLite ) dev-perl/FCGI dev-perl/File-NFSLock dev-perl/GD-SVG dev-perl/Net-OpenID-Consumer dev-perl/Net-SMTP-SSL ) dev-lang/perl:=[-build(-)] app-admin/webapp-config -SLOT=0 -SRC_URI=mirror://cpan/authors/id/L/LD/LDS/GBrowse-2.48.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 697382d119fd3d195f110b7979184285 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 webapp d872f28d7595b70dd46545199ef35fb0 wrapper 4a1902f969e5718126434fc35f3a0d9c -_md5_=088b19055886b41078acab0f96df204a diff --git a/metadata/md5-cache/sci-biology/HTSeq-0.12.4 b/metadata/md5-cache/sci-biology/HTSeq-0.12.4 index 2b6713611b8e..4d1c38842427 100644 --- a/metadata/md5-cache/sci-biology/HTSeq-0.12.4 +++ b/metadata/md5-cache/sci-biology/HTSeq-0.12.4 @@ -4,6 +4,7 @@ DEPEND=dev-python/numpy[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+ @@ -11,5 +12,5 @@ RDEPEND=dev-python/numpy[python_targets_python3_8(-)?,python_targets_python3_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 779bc733c68a72273cfce64602bada1d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 3b871cf4724e3abc9b4ff059289f0d45 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=ae9941d3e3234244619fdcb2b46c8e90 diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999 index bde1cf980cb0..0c8562b81561 100644 --- a/metadata/md5-cache/sci-biology/HTSeq-9999 +++ b/metadata/md5-cache/sci-biology/HTSeq-9999 @@ -4,11 +4,12 @@ DEPEND=dev-python/numpy[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 git-r3 IUSE=python_targets_python3_8 python_targets_python3_9 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 ) SLOT=0 -_eclasses_=distutils-r1 779bc733c68a72273cfce64602bada1d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 git-r3 b9ac6f96d2a88edb5b351df634dc5e53 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 3b871cf4724e3abc9b4ff059289f0d45 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 git-r3 b9ac6f96d2a88edb5b351df634dc5e53 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=ae9941d3e3234244619fdcb2b46c8e90 diff --git a/metadata/md5-cache/sci-biology/Manifest.gz b/metadata/md5-cache/sci-biology/Manifest.gz Binary files differindex 881b56843ed2..103ec1a965d2 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/STAR-2.5.3a b/metadata/md5-cache/sci-biology/STAR-2.5.3a deleted file mode 100644 index c3daaaf58e69..000000000000 --- a/metadata/md5-cache/sci-biology/STAR-2.5.3a +++ /dev/null @@ -1,12 +0,0 @@ -DEFINED_PHASES=compile configure install pretend setup -DEPEND=sci-libs/htslib:= virtual/pkgconfig -DESCRIPTION=STAR aligner: align RNA-seq reads to reference genome uncompressed suffix arrays -EAPI=6 -HOMEPAGE=https://github.com/alexdobin/STAR -KEYWORDS=~amd64 -LICENSE=GPL-3 -RDEPEND=sci-libs/htslib:= -SLOT=0 -SRC_URI=https://github.com/alexdobin/STAR/archive/2.5.3a.tar.gz -> STAR-2.5.3a.tar.gz -_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 -_md5_=1eb821b9192887ab1f2ac6b1536037ac diff --git a/metadata/md5-cache/sci-biology/STAR-2.7.10a b/metadata/md5-cache/sci-biology/STAR-2.7.10a index a0a10a01b28b..71cbe1d3070e 100644 --- a/metadata/md5-cache/sci-biology/STAR-2.7.10a +++ b/metadata/md5-cache/sci-biology/STAR-2.7.10a @@ -4,10 +4,11 @@ DEPEND=sci-libs/htslib:= DESCRIPTION=STAR aligner: align RNA-seq reads to reference genome uncompressed suffix arrays EAPI=8 HOMEPAGE=https://github.com/alexdobin/STAR +INHERIT=toolchain-funcs KEYWORDS=~amd64 LICENSE=GPL-3 RDEPEND=sci-libs/htslib:= SLOT=0 SRC_URI=https://github.com/alexdobin/STAR/archive/2.7.10a.tar.gz -> STAR-2.7.10a.tar.gz _eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 -_md5_=21d5f4869b5cd533b15046691475aae5 +_md5_=521aed057c81cfa841ab4b2dcf63e65b diff --git a/metadata/md5-cache/sci-biology/abyss-2.3.4 b/metadata/md5-cache/sci-biology/abyss-2.3.4 index ae0da7cd4a7f..60bce26029b1 100644 --- a/metadata/md5-cache/sci-biology/abyss-2.3.4 +++ b/metadata/md5-cache/sci-biology/abyss-2.3.4 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=9a708eff89b221551fbb0bcc299ccfa3 diff --git a/metadata/md5-cache/sci-biology/amap-2.2-r4 b/metadata/md5-cache/sci-biology/amap-2.2-r4 index 1ab3b580090d..c6b35d13ff51 100644 --- a/metadata/md5-cache/sci-biology/amap-2.2-r4 +++ b/metadata/md5-cache/sci-biology/amap-2.2-r4 @@ -3,11 +3,12 @@ DEPEND=java? ( >=virtual/jdk-1.8:* ) java? ( >=dev-java/java-config-2.2.0-r3 ) j 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 c0d27bf73aa08ca05b663dbd31fbef28 eapi7-ver 1a0a60ad07c8b32d2faba2d085dc0f24 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff java-ant-2 5cf479aa9e0ac9cc55899f2762c2aaa0 java-pkg-opt-2 a71433e535af8faae0c0f6c861a32054 java-utils-2 92b5a4d196abffe2dbe3bdc1cf4ef2ae ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 versionator d3fb3ba33acc3bbbdc4d7970227c100d wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 eapi7-ver 1a0a60ad07c8b32d2faba2d085dc0f24 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff java-ant-2 5cf479aa9e0ac9cc55899f2762c2aaa0 java-pkg-opt-2 a71433e535af8faae0c0f6c861a32054 java-utils-2 e38ea02d8ed864a74078ecf46aa06f30 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 versionator d3fb3ba33acc3bbbdc4d7970227c100d wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=857434504156a8892f1335babe24f9f0 diff --git a/metadata/md5-cache/sci-biology/bamtools-2.5.2 b/metadata/md5-cache/sci-biology/bamtools-2.5.2 index 484f8ab30c95..fc6b49b34c9b 100644 --- a/metadata/md5-cache/sci-biology/bamtools-2.5.2 +++ b/metadata/md5-cache/sci-biology/bamtools-2.5.2 @@ -4,10 +4,11 @@ DEPEND=>=dev-libs/jsoncpp-1.8.0:= sys-libs/zlib:= DESCRIPTION=A programmer's API and an end-user's toolkit for handling BAM files EAPI=7 HOMEPAGE=https://github.com/pezmaster31/bamtools +INHERIT=cmake KEYWORDS=~amd64 ~x86 LICENSE=MIT RDEPEND=>=dev-libs/jsoncpp-1.8.0:= sys-libs/zlib:= SLOT=0/2.5.2 SRC_URI=https://github.com/pezmaster31/bamtools/archive/v2.5.2.tar.gz -> bamtools-2.5.2.tar.gz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=efdfbdbf4181a018ee9965d5c16be71f diff --git a/metadata/md5-cache/sci-biology/bamtools-9999 b/metadata/md5-cache/sci-biology/bamtools-9999 index cddd65e24976..e3abb5a825ed 100644 --- a/metadata/md5-cache/sci-biology/bamtools-9999 +++ b/metadata/md5-cache/sci-biology/bamtools-9999 @@ -4,9 +4,10 @@ DEPEND=>=dev-libs/jsoncpp-1.8.0:= sys-libs/zlib:= DESCRIPTION=A programmer's API and an end-user's toolkit for handling BAM files EAPI=7 HOMEPAGE=https://github.com/pezmaster31/bamtools +INHERIT=cmake git-r3 LICENSE=MIT PROPERTIES=live RDEPEND=>=dev-libs/jsoncpp-1.8.0:= sys-libs/zlib:= SLOT=0/9999 -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 git-r3 b9ac6f96d2a88edb5b351df634dc5e53 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 git-r3 b9ac6f96d2a88edb5b351df634dc5e53 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=a2299dc6ca850c1c25582656d7586681 diff --git a/metadata/md5-cache/sci-biology/bcftools-1.13 b/metadata/md5-cache/sci-biology/bcftools-1.13 index e905773e0272..18de037e70c2 100644 --- a/metadata/md5-cache/sci-biology/bcftools-1.13 +++ b/metadata/md5-cache/sci-biology/bcftools-1.13 @@ -4,6 +4,7 @@ DEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[pyt DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files EAPI=8 HOMEPAGE=http://www.htslib.org +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 @@ -11,5 +12,5 @@ RDEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[py 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/1.13/bcftools-1.13.tar.bz2 -_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=a7d6aa14a25dfbfd5fa4547dea06070c diff --git a/metadata/md5-cache/sci-biology/bcftools-1.15 b/metadata/md5-cache/sci-biology/bcftools-1.15 index fce52ffc8698..c2dce0ab8942 100644 --- a/metadata/md5-cache/sci-biology/bcftools-1.15 +++ b/metadata/md5-cache/sci-biology/bcftools-1.15 @@ -4,6 +4,7 @@ DEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[pyt DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files EAPI=8 HOMEPAGE=http://www.htslib.org +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 @@ -11,5 +12,5 @@ RDEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[py 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/bcftools-1.15.tar.bz2 -_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=2b2091a43195aec58a417e5334bfa2fc diff --git a/metadata/md5-cache/sci-biology/bedtools-2.30.0 b/metadata/md5-cache/sci-biology/bedtools-2.30.0 index 43d065929587..5e26675ace14 100644 --- a/metadata/md5-cache/sci-biology/bedtools-2.30.0 +++ b/metadata/md5-cache/sci-biology/bedtools-2.30.0 @@ -4,6 +4,7 @@ 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 HOMEPAGE=https://bedtools.readthedocs.io/ +INHERIT=python-any-r1 toolchain-funcs IUSE=test KEYWORDS=~amd64 ~x86 LICENSE=GPL-2 @@ -11,5 +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 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-any-r1 9006edf4b9c90f9ba1dc9ea9fee1b0bd python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-any-r1 9006edf4b9c90f9ba1dc9ea9fee1b0bd python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=14bf1e3697276975f4e8b47a297b1bf5 diff --git a/metadata/md5-cache/sci-biology/bfast-0.7.0a b/metadata/md5-cache/sci-biology/bfast-0.7.0a index 1a5afd9eb71b..beda105a62b0 100644 --- a/metadata/md5-cache/sci-biology/bfast-0.7.0a +++ b/metadata/md5-cache/sci-biology/bfast-0.7.0a @@ -10,5 +10,5 @@ RDEPEND=dev-perl/XML-Simple RESTRICT=test SLOT=0 SRC_URI=mirror://sourceforge/bfast/bfast-0.7.0a.tar.gz -_eclasses_=autotools 9724194ab651ce63fd9bc06e4e1410b4 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=e64abecddb86e9860edc80410f299d83 diff --git a/metadata/md5-cache/sci-biology/biogrep-1.0-r2 b/metadata/md5-cache/sci-biology/biogrep-1.0-r2 index 7e6523c99f81..06ae0ae14a63 100644 --- a/metadata/md5-cache/sci-biology/biogrep-1.0-r2 +++ b/metadata/md5-cache/sci-biology/biogrep-1.0-r2 @@ -3,10 +3,11 @@ DEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/a 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=9731727dae2a2514bcaa486b0059272e diff --git a/metadata/md5-cache/sci-biology/biopandas-0.2.7 b/metadata/md5-cache/sci-biology/biopandas-0.2.7 index ea8b03ae432f..9abd60aaffe3 100644 --- a/metadata/md5-cache/sci-biology/biopandas-0.2.7 +++ b/metadata/md5-cache/sci-biology/biopandas-0.2.7 @@ -3,6 +3,7 @@ DEFINED_PHASES=compile configure install prepare test DESCRIPTION=Molecular Structures in Pandas DataFrames EAPI=7 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 KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux LICENSE=BSD @@ -11,5 +12,5 @@ REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 ) RESTRICT=!test? ( test ) !test? ( test ) SLOT=0 SRC_URI=mirror://pypi/B/BioPandas/biopandas-0.2.7.tar.gz -_eclasses_=distutils-r1 779bc733c68a72273cfce64602bada1d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 3b871cf4724e3abc9b4ff059289f0d45 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=6e4b8600d4f3c3ac26b099a9c4577ca0 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 f9e3f340b466..00e4e8c89ab3 100644 --- a/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 +++ b/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 @@ -4,6 +4,7 @@ DEPEND=dev-perl/libwww-perl !minimal? ( dev-perl/Algorithm-Munkres dev-perl/Arra DESCRIPTION=Perl tools for bioinformatics - Core modules EAPI=8 HOMEPAGE=http://www.bioperl.org/ +INHERIT=perl-module IUSE=minimal graphviz sqlite +db +network +run test KEYWORDS=amd64 x86 LICENSE=|| ( Artistic GPL-1+ ) @@ -13,5 +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 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 readme.gentoo-r1 b776ad4b42f564c406a95c41ccb42c55 +_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 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-r1 index 945635e972a3..d6811fbeb8d1 100644 --- a/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r1 +++ b/metadata/md5-cache/sci-biology/bioperl-db-1.6.9-r1 @@ -3,6 +3,7 @@ DEPEND=>=sci-biology/bioperl-1.6.9 dev-perl/DBD-mysql dev-perl/DBI sci-biology/b DESCRIPTION=Perl tools for bioinformatics - Perl API that accesses the BioSQL schema EAPI=6 HOMEPAGE=http://www.bioperl.org/ +INHERIT=perl-module IUSE=test KEYWORDS=amd64 x86 LICENSE=|| ( Artistic GPL-1+ ) @@ -10,5 +11,5 @@ RDEPEND=>=sci-biology/bioperl-1.6.9 dev-perl/DBD-mysql dev-perl/DBI sci-biology/ RESTRICT=test SLOT=0 SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-DB-1.006900.tar.gz -_eclasses_=multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 +_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 _md5_=014aeb00c18e1619bc28c3cc890bf145 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 adc700ac1060..245d39961f5d 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 @@ -4,6 +4,7 @@ DEPEND=>=sci-biology/bioperl-1.6.9 >=dev-perl/Graph-0.86 dev-lang/perl DESCRIPTION=Perl tools for bioinformatics - Analysis of protein-protein interaction networks EAPI=8 HOMEPAGE=http://www.bioperl.org/ +INHERIT=perl-module IUSE=test KEYWORDS=amd64 x86 LICENSE=|| ( Artistic GPL-1+ ) @@ -11,5 +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 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 readme.gentoo-r1 b776ad4b42f564c406a95c41ccb42c55 +_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 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 3e1bdae67a5f..fba1cfe14179 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 @@ -4,6 +4,7 @@ DEPEND=>=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl/ DESCRIPTION=Perl wrapper modules for key bioinformatics applications EAPI=8 HOMEPAGE=http://www.bioperl.org/ +INHERIT=perl-module IUSE=minimal test test KEYWORDS=amd64 x86 LICENSE=|| ( Artistic GPL-1+ ) @@ -11,5 +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 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 readme.gentoo-r1 b776ad4b42f564c406a95c41ccb42c55 +_eclasses_=multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module 8eed4e2982026c684ff7c19cd4c88ed0 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 8ec7aa4dbb18..b250703d720d 100644 --- a/metadata/md5-cache/sci-biology/biopython-1.79 +++ b/metadata/md5-cache/sci-biology/biopython-1.79 @@ -4,6 +4,7 @@ DEPEND=dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python3 DESCRIPTION=Python modules for computational molecular biology EAPI=8 HOMEPAGE=https://www.biopython.org/ https://pypi.org/project/biopython/ +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 @@ -11,5 +12,5 @@ RDEPEND=dev-python/matplotlib[python_targets_python3_8(-)?,python_targets_python 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 779bc733c68a72273cfce64602bada1d multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b optfeature d524f291c80f9d21ad80fe978e3ca760 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 3b871cf4724e3abc9b4ff059289f0d45 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 optfeature d524f291c80f9d21ad80fe978e3ca760 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=4e2a43ec127b152970bd1c43306e9418 diff --git a/metadata/md5-cache/sci-biology/bowtie-2.4.4 b/metadata/md5-cache/sci-biology/bowtie-2.4.4 index 06d89eef76e5..f5ca79e86148 100644 --- a/metadata/md5-cache/sci-biology/bowtie-2.4.4 +++ b/metadata/md5-cache/sci-biology/bowtie-2.4.4 @@ -4,6 +4,7 @@ DEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) py DESCRIPTION=Popular short read aligner for Next-generation sequencing data EAPI=8 HOMEPAGE=http://bowtie-bio.sourceforge.net/bowtie2/ +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 @@ -11,5 +12,5 @@ RDEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) p 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 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-single-r1 a5747fe6dc0651d95cb78eddd5e160a8 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 index 8aaa3ced6b07..bda89bdcc232 100644 --- a/metadata/md5-cache/sci-biology/cd-hit-4.6.6 +++ b/metadata/md5-cache/sci-biology/cd-hit-4.6.6 @@ -2,11 +2,12 @@ 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 c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=bbe0ae10275a73485487e08f19f4ac1b diff --git a/metadata/md5-cache/sci-biology/clustal-omega-1.2.4 b/metadata/md5-cache/sci-biology/clustal-omega-1.2.4 index cb5bdb1c27e3..50dca567ec7b 100644 --- a/metadata/md5-cache/sci-biology/clustal-omega-1.2.4 +++ b/metadata/md5-cache/sci-biology/clustal-omega-1.2.4 @@ -3,11 +3,12 @@ DEPEND=dev-libs/argtable sys-devel/gnuconfig >=app-portage/elt-patches-20170815 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=9ade45d2e283bc5fcc7eef16725e18ae diff --git a/metadata/md5-cache/sci-biology/clustalx-2.1-r3 b/metadata/md5-cache/sci-biology/clustalx-2.1-r3 index bfb5cc781fed..5459284860a9 100644 --- a/metadata/md5-cache/sci-biology/clustalx-2.1-r3 +++ b/metadata/md5-cache/sci-biology/clustalx-2.1-r3 @@ -3,10 +3,11 @@ DEPEND=dev-qt/qtcore:5 dev-qt/qtgui:5 dev-qt/qtwidgets:5 dev-qt/qtxml:5 DESCRIPTION=Graphical interface for the ClustalW multiple alignment program EAPI=7 HOMEPAGE=https://www.ebi.ac.uk/Tools/msa/clustalw2/ +INHERIT=desktop qmake-utils KEYWORDS=amd64 x86 LICENSE=GPL-3 LGPL-3 RDEPEND=dev-qt/qtcore:5 dev-qt/qtgui:5 dev-qt/qtwidgets:5 dev-qt/qtxml:5 >=sci-biology/clustalw-2.1 SLOT=0 SRC_URI=http://www.clustal.org/download/current/clustalx-2.1.tar.gz https://dev.gentoo.org/~jlec/distfiles/clustalx.png.xz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 multilib 4a33c9008e5ee30cb8840a3fdc24df2b qmake-utils f5eb2f69fffe94292aaaf802fb21c8d1 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 multilib 4a33c9008e5ee30cb8840a3fdc24df2b qmake-utils 59420c906278d16deaaa629f9d115707 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=3f60f1952758458fc3cd4e2789a942f5 diff --git a/metadata/md5-cache/sci-biology/consed-29 b/metadata/md5-cache/sci-biology/consed-29 index b3b76279a64f..b7e62081cec8 100644 --- a/metadata/md5-cache/sci-biology/consed-29 +++ b/metadata/md5-cache/sci-biology/consed-29 @@ -3,6 +3,7 @@ DEPEND=x11-libs/libX11 x11-libs/motif:0 sci-biology/samtools:0.1-legacy virtual/ DESCRIPTION=A genome sequence finishing program EAPI=6 HOMEPAGE=http://bozeman.mbt.washington.edu/consed/consed.html +INHERIT=flag-o-matic toolchain-funcs IUSE=examples KEYWORDS=~amd64 ~x86 LICENSE=phrap @@ -10,5 +11,5 @@ RDEPEND=x11-libs/libX11 x11-libs/motif:0 sci-biology/samtools:0.1-legacy dev-lan RESTRICT=fetch SLOT=0 SRC_URI=consed-29-sources.tar.gz consed-29-linux.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=1e30f1827727dab34c75c8c026745369 diff --git a/metadata/md5-cache/sci-biology/dialign2-2.2.1 b/metadata/md5-cache/sci-biology/dialign2-2.2.1 index 64c019a58528..e644593b97d8 100644 --- a/metadata/md5-cache/sci-biology/dialign2-2.2.1 +++ b/metadata/md5-cache/sci-biology/dialign2-2.2.1 @@ -2,9 +2,10 @@ 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 c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=3761a69a47f38308f54ae0b051361ed6 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 45f5d1c3451a..71800c1fa506 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 3ef67337b989..dd5fb76df3fd 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 4a345a986269..c98f800555d3 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 82547d7dd382..add209e7262a 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 f333d4e084da..50fcf2b70f0e 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 b8e5f97653ba..4450b0a5fd04 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 81332cf2d4e1..0fa3e24ef873 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 bb5c0edf1985..2fcce8122664 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 ae02e92723f8..b072308440ac 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 658e06a75c90..386cf6cc9f8d 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 58820a7e65e7..4279a18be629 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 f4407b3f3a47..978cc14dc4de 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 65bbe6501a6e..0f5b0658c7ae 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 dbf2a7106617..922b7af0a4f5 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 3c7dd64f7ab2..738438195736 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 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _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 f9dd3bc088a9..e7fb978de95f 100644 --- a/metadata/md5-cache/sci-biology/emboss-6.6.0-r2 +++ b/metadata/md5-cache/sci-biology/emboss-6.6.0-r2 @@ -11,5 +11,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b readme.gentoo-r1 b776ad4b42f564c406a95c41ccb42c55 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 emboss-r3 ed4c0b270092039c992b771a26ca322a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b readme.gentoo-r1 b776ad4b42f564c406a95c41ccb42c55 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=9856dbbe227d34ba8fd5a46c30dc912f diff --git a/metadata/md5-cache/sci-biology/eugene-4.1d b/metadata/md5-cache/sci-biology/eugene-4.1d index 080a5fb7d2b9..8bcf01bad788 100644 --- a/metadata/md5-cache/sci-biology/eugene-4.1d +++ b/metadata/md5-cache/sci-biology/eugene-4.1d @@ -3,11 +3,12 @@ DEPEND=media-libs/gd[png] media-libs/libpng:0= sys-devel/gnuconfig >=app-portage 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=683d1e7f9daeda6cd20b92117330ea81 diff --git a/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2 b/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2 index d849a3da9b26..f5648549c8f4 100644 --- a/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2 +++ b/metadata/md5-cache/sci-biology/exonerate-2.2.0-r2 @@ -3,6 +3,7 @@ DEPEND=dev-libs/glib:2 sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || 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 @@ -11,5 +12,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=05c99b447503c7a3fae4594cd126939a diff --git a/metadata/md5-cache/sci-biology/express-1.5.1 b/metadata/md5-cache/sci-biology/express-1.5.1 index f854c42bfdfa..e05154cd349f 100644 --- a/metadata/md5-cache/sci-biology/express-1.5.1 +++ b/metadata/md5-cache/sci-biology/express-1.5.1 @@ -4,10 +4,11 @@ DEPEND=>=dev-libs/boost-1.52.0:= dev-libs/protobuf dev-util/google-perftools sci DESCRIPTION=Streaming RNA-Seq Analysis EAPI=7 HOMEPAGE=https://pachterlab.github.io/eXpress/ +INHERIT=cmake KEYWORDS=~amd64 ~x86 LICENSE=Artistic RDEPEND=>=dev-libs/boost-1.52.0:= dev-libs/protobuf dev-util/google-perftools sci-biology/bamtools sys-libs/zlib SLOT=0 SRC_URI=https://pachterlab.github.io/eXpress/downloads/express-1.5.1/express-1.5.1-src.tgz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=b4fcbc714ea460615318f4baa4bc347a diff --git a/metadata/md5-cache/sci-biology/fasttree-2.1.11 b/metadata/md5-cache/sci-biology/fasttree-2.1.11 index 0a3c71fc1aa9..0c46b56fffa1 100644 --- a/metadata/md5-cache/sci-biology/fasttree-2.1.11 +++ b/metadata/md5-cache/sci-biology/fasttree-2.1.11 @@ -3,11 +3,12 @@ DEFINED_PHASES=compile configure install prepare test unpack DESCRIPTION=Fast inference of approximately-maximum-likelihood phylogenetic trees EAPI=7 HOMEPAGE=http://www.microbesonline.org/fasttree/ +INHERIT=cmake IUSE=double-precision openmp cpu_flags_x86_sse3 KEYWORDS=~amd64 ~x86 LICENSE=GPL-2 REQUIRED_USE=?? ( double-precision cpu_flags_x86_sse3 ) SLOT=0 SRC_URI=http://www.microbesonline.org/fasttree/FastTree-2.1.11.c http://www.microbesonline.org/fasttree/FastTreeUPGMA.c -> FastTreeUPGMA-2.1.11.c http://www.microbesonline.org/fasttree/MOTreeComparison.tar.gz -> MOTreeComparison-2.1.11.tar.gz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=4a94b8db43f0aadb5ece67757ccbe635 diff --git a/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14 b/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14 index 56bb8dd635c1..85c33284ab20 100644 --- a/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14 +++ b/metadata/md5-cache/sci-biology/fastx_toolkit-0.0.14 @@ -3,10 +3,11 @@ DEPEND=sci-biology/libgtextutils virtual/pkgconfig sys-devel/gnuconfig >=app-por DESCRIPTION=Tools for Short Read FASTA/FASTQ file processing EAPI=6 HOMEPAGE=http://hannonlab.cshl.edu/fastx_toolkit +INHERIT=autotools KEYWORDS=~amd64 ~x86 LICENSE=AGPL-3 RDEPEND=dev-perl/PerlIO-gzip dev-perl/GDGraph sci-biology/libgtextutils:= 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=c3bb0edd6b01a31019cf5fd59e22122a diff --git a/metadata/md5-cache/sci-biology/iedera-1.05-r1 b/metadata/md5-cache/sci-biology/iedera-1.05-r1 index c77c61763713..2f685df34b73 100644 --- a/metadata/md5-cache/sci-biology/iedera-1.05-r1 +++ b/metadata/md5-cache/sci-biology/iedera-1.05-r1 @@ -3,9 +3,10 @@ DEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/a 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=ce77e1e27bd52fed2fd2af52744d6288 diff --git a/metadata/md5-cache/sci-biology/kallisto-0.46.2 b/metadata/md5-cache/sci-biology/kallisto-0.46.2 index f309f220ea53..36d918938ae6 100644 --- a/metadata/md5-cache/sci-biology/kallisto-0.46.2 +++ b/metadata/md5-cache/sci-biology/kallisto-0.46.2 @@ -4,6 +4,7 @@ DEPEND=sci-libs/htslib:= sys-libs/zlib:= hdf5? ( sci-libs/hdf5:= ) test? ( dev-c DESCRIPTION=Near-optimal RNA-Seq quantification EAPI=7 HOMEPAGE=http://pachterlab.github.io/kallisto/ +INHERIT=cmake IUSE=hdf5 test KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux LICENSE=BSD @@ -11,5 +12,5 @@ RDEPEND=sci-libs/htslib:= sys-libs/zlib:= hdf5? ( sci-libs/hdf5:= ) RESTRICT=!test? ( test ) SLOT=0 SRC_URI=https://github.com/pachterlab/kallisto/archive/v0.46.2.tar.gz -> kallisto-0.46.2.tar.gz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=1b739cad0275e6dc5a320723611b78e9 diff --git a/metadata/md5-cache/sci-biology/libgtextutils-0.6.1 b/metadata/md5-cache/sci-biology/libgtextutils-0.6.1 index a9e02ad630a4..5331c57d89ed 100644 --- a/metadata/md5-cache/sci-biology/libgtextutils-0.6.1 +++ b/metadata/md5-cache/sci-biology/libgtextutils-0.6.1 @@ -3,9 +3,10 @@ DEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/a DESCRIPTION=Gordon Text utils Library EAPI=6 HOMEPAGE=http://hannonlab.cshl.edu/fastx_toolkit/ +INHERIT=autotools 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=867c9b9e4eee26ad2a76ff6ff0594f52 diff --git a/metadata/md5-cache/sci-biology/mafft-7.305 b/metadata/md5-cache/sci-biology/mafft-7.305 index 8bf44f263bcc..31193fbffb29 100644 --- a/metadata/md5-cache/sci-biology/mafft-7.305 +++ b/metadata/md5-cache/sci-biology/mafft-7.305 @@ -2,10 +2,11 @@ DEFINED_PHASES=compile install prepare test DESCRIPTION=Multiple sequence alignments using a variety of algorithms EAPI=6 HOMEPAGE=https://mafft.cbrc.jp/alignment/software/index.html +INHERIT=flag-o-matic toolchain-funcs IUSE=threads KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos LICENSE=BSD SLOT=0 SRC_URI=https://mafft.cbrc.jp/alignment/software/mafft-7.305-without-extensions-src.tgz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=0f3bc4071e292477254a6b10ab15b328 diff --git a/metadata/md5-cache/sci-biology/maq-0.7.1-r2 b/metadata/md5-cache/sci-biology/maq-0.7.1-r2 index fd7a4b217f02..33a7ed2f89ae 100644 --- a/metadata/md5-cache/sci-biology/maq-0.7.1-r2 +++ b/metadata/md5-cache/sci-biology/maq-0.7.1-r2 @@ -3,10 +3,11 @@ DEPEND=sys-libs/zlib sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=39ffb0025210075a8d7d7f6f81f8da56 diff --git a/metadata/md5-cache/sci-biology/maqview-0.2.5-r3 b/metadata/md5-cache/sci-biology/maqview-0.2.5-r3 index 3ebc53ede005..20b8c654dd41 100644 --- a/metadata/md5-cache/sci-biology/maqview-0.2.5-r3 +++ b/metadata/md5-cache/sci-biology/maqview-0.2.5-r3 @@ -3,10 +3,11 @@ DEPEND=media-libs/freeglut sys-libs/zlib sys-devel/gnuconfig >=app-portage/elt-p 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=dee50558d10e75ff9e96f4c3f177c55f diff --git a/metadata/md5-cache/sci-biology/mcl-14.137 b/metadata/md5-cache/sci-biology/mcl-14.137 index 991a521302ac..bb7e6ba6bf54 100644 --- a/metadata/md5-cache/sci-biology/mcl-14.137 +++ b/metadata/md5-cache/sci-biology/mcl-14.137 @@ -8,5 +8,5 @@ KEYWORDS=~amd64 ~x86 LICENSE=GPL-2 SLOT=0 SRC_URI=http://micans.org/mcl/src/mcl-14-137.tar.gz -_eclasses_=autotools 9724194ab651ce63fd9bc06e4e1410b4 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=9779366f51f2fea08274072a9a019159 diff --git a/metadata/md5-cache/sci-biology/mummer-3.23 b/metadata/md5-cache/sci-biology/mummer-3.23 index 5a69293f7d38..3e7a9792fee2 100644 --- a/metadata/md5-cache/sci-biology/mummer-3.23 +++ b/metadata/md5-cache/sci-biology/mummer-3.23 @@ -2,11 +2,12 @@ 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 c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=c256f298b416306c1be7005e7877f7b9 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 0096d46c70fa..ece92e43759f 100644 --- a/metadata/md5-cache/sci-biology/newick-utils-1.6-r1 +++ b/metadata/md5-cache/sci-biology/newick-utils-1.6-r1 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=fac40fe86b457a75883a5eb465ce18d8 diff --git a/metadata/md5-cache/sci-biology/pysam-0.17.0 b/metadata/md5-cache/sci-biology/pysam-0.17.0 index 6aab2fad72f4..748745c88b61 100644 --- a/metadata/md5-cache/sci-biology/pysam-0.17.0 +++ b/metadata/md5-cache/sci-biology/pysam-0.17.0 @@ -4,6 +4,7 @@ DEPEND==sci-libs/htslib-1.13*:= dev-python/cython[python_targets_python3_8(-)?,p DESCRIPTION=Python interface for the SAM/BAM sequence alignment and mapping format EAPI=8 HOMEPAGE=https://github.com/pysam-developers/pysam https://pypi.org/project/pysam/ +INHERIT=distutils-r1 IUSE=test python_targets_python3_8 python_targets_python3_9 python_targets_python3_10 KEYWORDS=~amd64 ~x86 LICENSE=MIT @@ -12,5 +13,5 @@ REQUIRED_USE=|| ( python_targets_python3_8 python_targets_python3_9 python_targe RESTRICT=!test? ( test ) SLOT=0 SRC_URI=https://github.com/pysam-developers/pysam/archive/v0.17.0.tar.gz -> pysam-0.17.0.tar.gz -_eclasses_=distutils-r1 779bc733c68a72273cfce64602bada1d multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 59dddabd6a41ab69723654916142f63b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 3b871cf4724e3abc9b4ff059289f0d45 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 python-r1 8638751691200e941f26fe0ac3aef1d1 python-utils-r1 5dc84801daa87406aafaf535cb947a64 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=5afaf93aeaee2506b60aa22aac9b3a2c diff --git a/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 b/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 index 75b4b8d5fd16..3f75013a34af 100644 --- a/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 +++ b/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 @@ -4,6 +4,7 @@ DEPEND=app-arch/bzip2:= sys-libs/zlib !!sci-biology/seqan:2.0 !!sci-biology/seqa DESCRIPTION=C++ Sequence Analysis Library EAPI=7 HOMEPAGE=https://www.seqan.de/ +INHERIT=cmake multibuild toolchain-funcs IUSE=cpu_flags_x86_sse4_1 tools KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux LICENSE=BSD GPL-3 @@ -11,5 +12,5 @@ RDEPEND=app-arch/bzip2:= sys-libs/zlib !!sci-biology/seqan:2.0 !!sci-biology/seq REQUIRED_USE=cpu_flags_x86_sse4_1 SLOT=0 SRC_URI=https://github.com/seqan/seqan/archive/seqan-v2.4.0.tar.gz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multibuild d26d81f242cb193d899a72bca423d0bd multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=8796fa7c1594d16d8a9b96920de5cf2b diff --git a/metadata/md5-cache/sci-biology/seqan-3.1.0 b/metadata/md5-cache/sci-biology/seqan-3.1.0 index 949ac6f7b591..ebec83050450 100644 --- a/metadata/md5-cache/sci-biology/seqan-3.1.0 +++ b/metadata/md5-cache/sci-biology/seqan-3.1.0 @@ -4,6 +4,7 @@ DEPEND=app-arch/bzip2:= dev-cpp/range-v3 dev-libs/cereal sci-libs/lemon sys-libs DESCRIPTION=C++ Sequence Analysis Library EAPI=8 HOMEPAGE=https://www.seqan.de/ +INHERIT=cmake IUSE=cpu_flags_x86_sse4_2 KEYWORDS=~amd64 ~amd64-linux LICENSE=BSD GPL-3 @@ -11,5 +12,5 @@ RDEPEND=app-arch/bzip2:= dev-cpp/range-v3 dev-libs/cereal sci-libs/lemon sys-lib REQUIRED_USE=cpu_flags_x86_sse4_2 SLOT=0 SRC_URI=https://github.com/seqan/seqan3/releases/download/3.1.0/seqan3-3.1.0-Source.tar.xz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=79bf85e28c26de53181c27b102f90252 diff --git a/metadata/md5-cache/sci-biology/tree-puzzle-5.2 b/metadata/md5-cache/sci-biology/tree-puzzle-5.2 index ad63af3ec989..1f85353e0257 100644 --- a/metadata/md5-cache/sci-biology/tree-puzzle-5.2 +++ b/metadata/md5-cache/sci-biology/tree-puzzle-5.2 @@ -10,5 +10,4 @@ RDEPEND=mpi? ( virtual/mpi ) RESTRICT=test SLOT=0 SRC_URI=http://www.tree-puzzle.de/tree-puzzle-5.2.tar.gz -_eclasses_=multilib 4a33c9008e5ee30cb8840a3fdc24df2b toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 -_md5_=85e34285819a20cc5c21228a9714ba2d +_md5_=178c8189201c9260cbf615f7ed0192bc 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 8a966b7af9f1..326322db07fa 100644 --- a/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3 +++ b/metadata/md5-cache/sci-biology/treeviewx-0.5.1-r3 @@ -9,5 +9,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c wxwidgets c09e9b94378cadaf6ef86ec1534c0fd6 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c wxwidgets c09e9b94378cadaf6ef86ec1534c0fd6 _md5_=14493f936bb599dd7faec748cece70f3 diff --git a/metadata/md5-cache/sci-biology/uchime-4.2.40 b/metadata/md5-cache/sci-biology/uchime-4.2.40 index cae56b1d6bde..30f1db729ec4 100644 --- a/metadata/md5-cache/sci-biology/uchime-4.2.40 +++ b/metadata/md5-cache/sci-biology/uchime-4.2.40 @@ -3,9 +3,10 @@ DEFINED_PHASES=compile configure install prepare test DESCRIPTION=Fast, accurate chimera detection EAPI=7 HOMEPAGE=https://www.drive5.com/usearch/manual/uchime_algo.html +INHERIT=cmake flag-o-matic KEYWORDS=amd64 x86 ~amd64-linux ~x86-linux LICENSE=public-domain SLOT=0 SRC_URI=https://www.drive5.com/uchime/uchime4.2.40_src.tar.gz -_eclasses_=cmake 3c38df051095289667b6f09ebd0cc149 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils fef481272d4a8e136a7d8a0fb1329384 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e +_eclasses_=cmake 90e2b29417d53718328f3a95227137a0 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib 4a33c9008e5ee30cb8840a3fdc24df2b multiprocessing b4e253ab22cef7b1085e9b67c7a3b730 ninja-utils 58ec4e54962bf45d065fb95030701514 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4a1902f969e5718126434fc35f3a0d9c xdg-utils fffb53a53cf17c9c0c998a3c0a590c7e _md5_=421c75fd545cd9d38575321e00aeab36 diff --git a/metadata/md5-cache/sci-biology/ucsc-genome-browser-260-r1 b/metadata/md5-cache/sci-biology/ucsc-genome-browser-260-r1 index 2cec5f18d959..68bbd74a9ba9 100644 --- a/metadata/md5-cache/sci-biology/ucsc-genome-browser-260-r1 +++ b/metadata/md5-cache/sci-biology/ucsc-genome-browser-260-r1 @@ -3,6 +3,7 @@ DEPEND=dev-libs/openssl:0= media-libs/libpng:0= !<sci-biology/ucsc-genome-browse DESCRIPTION=The UCSC genome browser suite, also known as Jim Kent's library and GoldenPath EAPI=6 HOMEPAGE=http://genome.ucsc.edu/ +INHERIT=toolchain-funcs flag-o-matic webapp IUSE=+mysql +server static-libs vhosts KEYWORDS=~amd64 ~x86 LICENSE=blat @@ -10,5 +11,5 @@ RDEPEND=dev-libs/openssl:0= media-libs/libpng:0= !<sci-biology/ucsc-genome-brows REQUIRED_USE=server? ( mysql ) SLOT=0 SRC_URI=http://hgdownload.cse.ucsc.edu/admin/jksrc.v260.zip -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 webapp d872f28d7595b70dd46545199ef35fb0 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 webapp d872f28d7595b70dd46545199ef35fb0 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=35cb93e40ad2d78c190e860dd3944557 diff --git a/metadata/md5-cache/sci-biology/vcftools-0.1.14 b/metadata/md5-cache/sci-biology/vcftools-0.1.14 index 508353b1d6ae..d3eb09a79260 100644 --- a/metadata/md5-cache/sci-biology/vcftools-0.1.14 +++ b/metadata/md5-cache/sci-biology/vcftools-0.1.14 @@ -3,11 +3,12 @@ DEPEND=sys-libs/zlib dev-lang/perl:= lapack? ( virtual/lapack ) virtual/pkgconfi 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b perl-functions fea344a91ebf37efadf172c6a3de5a72 preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b perl-functions fea344a91ebf37efadf172c6a3de5a72 preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 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 dfe05981816f..de36683b071a 100644 --- a/metadata/md5-cache/sci-biology/vcftools-0.1.16 +++ b/metadata/md5-cache/sci-biology/vcftools-0.1.16 @@ -10,5 +10,5 @@ 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 9724194ab651ce63fd9bc06e4e1410b4 flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b perl-functions fea344a91ebf37efadf172c6a3de5a72 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e multilib 4a33c9008e5ee30cb8840a3fdc24df2b perl-functions fea344a91ebf37efadf172c6a3de5a72 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=faeb202e0aded0cb660ea87d6d7be81b diff --git a/metadata/md5-cache/sci-biology/yass-1.14-r2 b/metadata/md5-cache/sci-biology/yass-1.14-r2 index 1a548f8dc25d..fb0a4b230fc0 100644 --- a/metadata/md5-cache/sci-biology/yass-1.14-r2 +++ b/metadata/md5-cache/sci-biology/yass-1.14-r2 @@ -3,11 +3,12 @@ DEPEND=dmalloc? ( dev-libs/dmalloc ) sys-devel/gnuconfig >=app-portage/elt-patch 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 9724194ab651ce63fd9bc06e4e1410b4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c +_eclasses_=autotools b46e8992a8126c894fbdc8084fc040c4 desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff gnuconfig b6b3e92f8b8c996400074b5f61a59256 libtool 241a8f577b9781a42a7421e53448a44e ltprune 97143780d341cc8d8f1d4c6187a36d29 multilib 4a33c9008e5ee30cb8840a3fdc24df2b preserve-libs a8e50acee31b5759b4df1f7707cae54b strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4a1902f969e5718126434fc35f3a0d9c _md5_=3a4ba9b4e7b8efec51cfc79d261fefd3 |