diff options
Diffstat (limited to 'metadata/md5-cache/sci-biology')
53 files changed, 221 insertions, 180 deletions
diff --git a/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 b/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 index 14d2150d38b3..c4b096652215 100644 --- a/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 +++ b/metadata/md5-cache/sci-biology/GBrowse-2.48-r1 @@ -9,5 +9,5 @@ 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 de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module bd9574a79c5f0a347a9ea3db5ad9ca72 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 03b2fab39d555f46843c92f44a40a721 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 webapp 60f2eb31dec733d05e8114cc078ebc33 wrapper 4251d4c84c25f59094fd557e0063a974 +_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module bd9574a79c5f0a347a9ea3db5ad9ca72 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 2e16b7d5aafeda049669c53c05ce03c9 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 webapp 60f2eb31dec733d05e8114cc078ebc33 wrapper 4251d4c84c25f59094fd557e0063a974 _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 a72ef6cf681e..644a7964373d 100644 --- a/metadata/md5-cache/sci-biology/HTSeq-0.12.4 +++ b/metadata/md5-cache/sci-biology/HTSeq-0.12.4 @@ -11,5 +11,5 @@ 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 242601d395f54f27cfbc76e53f5e0203 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 0e7a98958af67ee30e3c2b2e3b37c0be python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 d540d96908dd5622f3dfa41d167e632d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 bcd408f1e4a9669198ef4dfcd5ab8696 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=ae9941d3e3234244619fdcb2b46c8e90 diff --git a/metadata/md5-cache/sci-biology/HTSeq-9999 b/metadata/md5-cache/sci-biology/HTSeq-9999 index 5735aec3e8fd..cfe2904ee76f 100644 --- a/metadata/md5-cache/sci-biology/HTSeq-9999 +++ b/metadata/md5-cache/sci-biology/HTSeq-9999 @@ -10,5 +10,5 @@ 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 242601d395f54f27cfbc76e53f5e0203 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 git-r3 cc875b0c1e9b3bdac1af0f82f3ba29da multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 0e7a98958af67ee30e3c2b2e3b37c0be python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 d540d96908dd5622f3dfa41d167e632d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 git-r3 cc875b0c1e9b3bdac1af0f82f3ba29da multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 bcd408f1e4a9669198ef4dfcd5ab8696 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 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 b94ed0552c69..a04711e5c76b 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-2.7.10a b/metadata/md5-cache/sci-biology/STAR-2.7.10a new file mode 100644 index 000000000000..1e2f041600c3 --- /dev/null +++ b/metadata/md5-cache/sci-biology/STAR-2.7.10a @@ -0,0 +1,13 @@ +BDEPEND=virtual/pkgconfig +DEFINED_PHASES=compile configure install prepare pretend setup +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 +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 de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=21d5f4869b5cd533b15046691475aae5 diff --git a/metadata/md5-cache/sci-biology/bamtools-2.5.2 b/metadata/md5-cache/sci-biology/bamtools-2.5.2 index b51b69a41eac..31af53a32104 100644 --- a/metadata/md5-cache/sci-biology/bamtools-2.5.2 +++ b/metadata/md5-cache/sci-biology/bamtools-2.5.2 @@ -9,5 +9,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=efdfbdbf4181a018ee9965d5c16be71f diff --git a/metadata/md5-cache/sci-biology/bamtools-9999 b/metadata/md5-cache/sci-biology/bamtools-9999 index 06dfdf41de73..75b95dc4ec4b 100644 --- a/metadata/md5-cache/sci-biology/bamtools-9999 +++ b/metadata/md5-cache/sci-biology/bamtools-9999 @@ -8,5 +8,5 @@ LICENSE=MIT PROPERTIES=live RDEPEND=>=dev-libs/jsoncpp-1.8.0:= sys-libs/zlib:= SLOT=0/9999 -_eclasses_=cmake 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 git-r3 cc875b0c1e9b3bdac1af0f82f3ba29da multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 git-r3 cc875b0c1e9b3bdac1af0f82f3ba29da multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=a2299dc6ca850c1c25582656d7586681 diff --git a/metadata/md5-cache/sci-biology/bcftools-1.13 b/metadata/md5-cache/sci-biology/bcftools-1.13 index 6cd2cd0f3a8e..bd3e43a7dcea 100644 --- a/metadata/md5-cache/sci-biology/bcftools-1.13 +++ b/metadata/md5-cache/sci-biology/bcftools-1.13 @@ -11,5 +11,5 @@ 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 de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 003123b4d7119cfd295a7566b1830904 python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 3c5721adc30f98c39739c5970a4762d8 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 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 new file mode 100644 index 000000000000..3eca78c35f9b --- /dev/null +++ b/metadata/md5-cache/sci-biology/bcftools-1.15 @@ -0,0 +1,15 @@ +BDEPEND=python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) +DEFINED_PHASES=configure prepare setup +DEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) +DESCRIPTION=Utilities for variant calling and manipulating VCF and BCF files +EAPI=8 +HOMEPAGE=http://www.htslib.org +IUSE=python_single_target_python3_8 python_single_target_python3_9 python_single_target_python3_10 +KEYWORDS=~amd64 ~x86 +LICENSE=MIT +RDEPEND=dev-lang/perl python_single_target_python3_8? ( dev-python/matplotlib[python_targets_python3_8(-)] ) python_single_target_python3_9? ( dev-python/matplotlib[python_targets_python3_9(-)] ) python_single_target_python3_10? ( dev-python/matplotlib[python_targets_python3_10(-)] ) =sci-libs/htslib-1.15*:= sys-libs/zlib python_single_target_python3_8? ( >=dev-lang/python-3.8.12_p1-r1:3.8 ) python_single_target_python3_9? ( >=dev-lang/python-3.9.9-r1:3.9 ) python_single_target_python3_10? ( >=dev-lang/python-3.10.0_p1-r1:3.10 ) +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 de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 3c5721adc30f98c39739c5970a4762d8 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=2b2091a43195aec58a417e5334bfa2fc diff --git a/metadata/md5-cache/sci-biology/bedtools-2.29.2 b/metadata/md5-cache/sci-biology/bedtools-2.29.2 deleted file mode 100644 index 58708cfe499e..000000000000 --- a/metadata/md5-cache/sci-biology/bedtools-2.29.2 +++ /dev/null @@ -1,15 +0,0 @@ -BDEPEND=|| ( >=dev-lang/python-3.9.9-r1:3.9 >=dev-lang/python-3.8.12_p1-r1:3.8 ) test? ( >=sci-biology/samtools-1.10:0 ) -DEFINED_PHASES=configure install setup -DEPEND=app-arch/bzip2 app-arch/xz-utils sys-libs/zlib -DESCRIPTION=Tools for manipulation and analysis of BED, GFF/GTF, VCF, SAM/BAM file formats -EAPI=7 -HOMEPAGE=https://bedtools.readthedocs.io/ -IUSE=test -KEYWORDS=~amd64 ~x86 -LICENSE=GPL-2 -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/v2.29.2/bedtools-2.29.2.tar.gz -_eclasses_=eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-any-r1 1ff02d11ad6a5e4729b321ce843e0a33 python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 -_md5_=f3eef2425b0d021201cd5bb705836375 diff --git a/metadata/md5-cache/sci-biology/bedtools-2.30.0 b/metadata/md5-cache/sci-biology/bedtools-2.30.0 index 757169989d5a..f9d919be7efe 100644 --- a/metadata/md5-cache/sci-biology/bedtools-2.30.0 +++ b/metadata/md5-cache/sci-biology/bedtools-2.30.0 @@ -11,5 +11,5 @@ 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 de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-any-r1 1ff02d11ad6a5e4729b321ce843e0a33 python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-any-r1 54666a8fa603df658d9284845fc3d755 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=14bf1e3697276975f4e8b47a297b1bf5 diff --git a/metadata/md5-cache/sci-biology/biopandas-0.2.7 b/metadata/md5-cache/sci-biology/biopandas-0.2.7 index 6ba259f179bd..25d7850f1727 100644 --- a/metadata/md5-cache/sci-biology/biopandas-0.2.7 +++ b/metadata/md5-cache/sci-biology/biopandas-0.2.7 @@ -11,5 +11,5 @@ 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 242601d395f54f27cfbc76e53f5e0203 eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 0e7a98958af67ee30e3c2b2e3b37c0be python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 d540d96908dd5622f3dfa41d167e632d eapi8-dosym cd7d420bb5be5ee079f27239ce76b8f5 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 bcd408f1e4a9669198ef4dfcd5ab8696 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=6e4b8600d4f3c3ac26b099a9c4577ca0 diff --git a/metadata/md5-cache/sci-biology/bioperl-1.6.9 b/metadata/md5-cache/sci-biology/bioperl-1.6.9 deleted file mode 100644 index 4e6d2523b436..000000000000 --- a/metadata/md5-cache/sci-biology/bioperl-1.6.9 +++ /dev/null @@ -1,15 +0,0 @@ -DEFINED_PHASES=compile configure install prepare test unpack -DEPEND=dev-perl/Module-Build dev-perl/libwww-perl !minimal? ( dev-perl/Algorithm-Munkres dev-perl/Array-Compare dev-perl/YAML dev-perl/Bio-ASN1-EntrezGene dev-perl/Clone dev-perl/Convert-Binary-C dev-perl/Data-Stag dev-perl/GD dev-perl/Graph >=dev-perl/HTML-Parser-3.60 dev-perl/List-MoreUtils dev-perl/Math-Random dev-perl/PostScript dev-perl/Set-Scalar dev-perl/SOAP-Lite dev-perl/Sort-Naturally dev-perl/Spreadsheet-ParseExcel >=virtual/perl-Storable-2.05 >=dev-perl/SVG-2.26 >=dev-perl/SVG-Graph-0.01 dev-perl/URI >=dev-perl/XML-DOM-XPath-0.13 dev-perl/XML-Parser >=dev-perl/XML-SAX-0.15 dev-perl/XML-Simple dev-perl/XML-Twig >=dev-perl/XML-Writer-0.4 dev-perl/XML-DOM dev-perl/XML-XPath ) graphviz? ( dev-perl/GraphViz ) sqlite? ( dev-perl/DBD-SQLite ) dev-lang/perl:=[-build(-)] -DESCRIPTION=Perl tools for bioinformatics - Core modules -EAPI=5 -HOMEPAGE=http://www.bioperl.org/ -IUSE=minimal graphviz sqlite +db +network +run -KEYWORDS=amd64 x86 -LICENSE=|| ( Artistic GPL-1+ ) -PDEPEND=db? ( >=sci-biology/bioperl-db-1.6.9 ) network? ( >=sci-biology/bioperl-network-1.6.9 ) run? ( >=sci-biology/bioperl-run-1.6.9 ) -RDEPEND=dev-perl/libwww-perl !minimal? ( dev-perl/Algorithm-Munkres dev-perl/Array-Compare dev-perl/YAML dev-perl/Bio-ASN1-EntrezGene dev-perl/Clone dev-perl/Convert-Binary-C dev-perl/Data-Stag dev-perl/GD dev-perl/Graph >=dev-perl/HTML-Parser-3.60 dev-perl/List-MoreUtils dev-perl/Math-Random dev-perl/PostScript dev-perl/Set-Scalar dev-perl/SOAP-Lite dev-perl/Sort-Naturally dev-perl/Spreadsheet-ParseExcel >=virtual/perl-Storable-2.05 >=dev-perl/SVG-2.26 >=dev-perl/SVG-Graph-0.01 dev-perl/URI >=dev-perl/XML-DOM-XPath-0.13 dev-perl/XML-Parser >=dev-perl/XML-SAX-0.15 dev-perl/XML-Simple dev-perl/XML-Twig >=dev-perl/XML-Writer-0.4 dev-perl/XML-DOM dev-perl/XML-XPath ) graphviz? ( dev-perl/GraphViz ) sqlite? ( dev-perl/DBD-SQLite ) dev-lang/perl:=[-build(-)] -REQUIRED_USE=minimal? ( !graphviz ) -SLOT=0 -SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.901.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module bd9574a79c5f0a347a9ea3db5ad9ca72 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 03b2fab39d555f46843c92f44a40a721 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=8a48cf5c6cd3d568ec12cc4fdb88021b diff --git a/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 b/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 new file mode 100644 index 000000000000..10bc7efe4295 --- /dev/null +++ b/metadata/md5-cache/sci-biology/bioperl-1.6.9-r1 @@ -0,0 +1,17 @@ +BDEPEND=dev-perl/Module-Build dev-lang/perl test? ( virtual/perl-Test-Simple ) +DEFINED_PHASES=compile configure install prepare test +DEPEND=dev-perl/libwww-perl !minimal? ( dev-perl/Algorithm-Munkres dev-perl/Array-Compare dev-perl/YAML dev-perl/Bio-ASN1-EntrezGene dev-perl/Clone dev-perl/Convert-Binary-C dev-perl/Data-Stag dev-perl/GD dev-perl/Graph >=dev-perl/HTML-Parser-3.60 dev-perl/List-MoreUtils dev-perl/Math-Random dev-perl/PostScript dev-perl/Set-Scalar dev-perl/SOAP-Lite dev-perl/Sort-Naturally dev-perl/Spreadsheet-ParseExcel >=virtual/perl-Storable-2.05 >=dev-perl/SVG-2.26 >=dev-perl/SVG-Graph-0.01 dev-perl/URI >=dev-perl/XML-DOM-XPath-0.13 dev-perl/XML-Parser >=dev-perl/XML-SAX-0.15 dev-perl/XML-Simple dev-perl/XML-Twig >=dev-perl/XML-Writer-0.4 dev-perl/XML-DOM dev-perl/XML-XPath ) graphviz? ( dev-perl/GraphViz ) sqlite? ( dev-perl/DBD-SQLite ) dev-lang/perl +DESCRIPTION=Perl tools for bioinformatics - Core modules +EAPI=8 +HOMEPAGE=http://www.bioperl.org/ +IUSE=minimal graphviz sqlite +db +network +run test +KEYWORDS=amd64 x86 +LICENSE=|| ( Artistic GPL-1+ ) +PDEPEND=db? ( >=sci-biology/bioperl-db-1.6.9 ) network? ( >=sci-biology/bioperl-network-1.6.9 ) run? ( >=sci-biology/bioperl-run-1.6.9 ) +RDEPEND=dev-perl/libwww-perl !minimal? ( dev-perl/Algorithm-Munkres dev-perl/Array-Compare dev-perl/YAML dev-perl/Bio-ASN1-EntrezGene dev-perl/Clone dev-perl/Convert-Binary-C dev-perl/Data-Stag dev-perl/GD dev-perl/Graph >=dev-perl/HTML-Parser-3.60 dev-perl/List-MoreUtils dev-perl/Math-Random dev-perl/PostScript dev-perl/Set-Scalar dev-perl/SOAP-Lite dev-perl/Sort-Naturally dev-perl/Spreadsheet-ParseExcel >=virtual/perl-Storable-2.05 >=dev-perl/SVG-2.26 >=dev-perl/SVG-Graph-0.01 dev-perl/URI >=dev-perl/XML-DOM-XPath-0.13 dev-perl/XML-Parser >=dev-perl/XML-SAX-0.15 dev-perl/XML-Simple dev-perl/XML-Twig >=dev-perl/XML-Writer-0.4 dev-perl/XML-DOM dev-perl/XML-XPath ) graphviz? ( dev-perl/GraphViz ) sqlite? ( dev-perl/DBD-SQLite ) dev-lang/perl:= +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 bd9574a79c5f0a347a9ea3db5ad9ca72 readme.gentoo-r1 eebd0164fe61f4f7b64a683e83fdceb1 +_md5_=e2bc1ba3ce7d3071e3bfff1ff59b93fa diff --git a/metadata/md5-cache/sci-biology/bioperl-network-1.6.9 b/metadata/md5-cache/sci-biology/bioperl-network-1.6.9 deleted file mode 100644 index c555f888ba52..000000000000 --- a/metadata/md5-cache/sci-biology/bioperl-network-1.6.9 +++ /dev/null @@ -1,14 +0,0 @@ -DEFINED_PHASES=compile configure install prepare test unpack -DEPEND=dev-perl/Module-Build >=sci-biology/bioperl-1.6.9 >=dev-perl/Graph-0.86 dev-lang/perl:=[-build(-)] -DESCRIPTION=Perl tools for bioinformatics - Analysis of protein-protein interaction networks -EAPI=5 -HOMEPAGE=http://www.bioperl.org/ -IUSE=test -KEYWORDS=amd64 x86 -LICENSE=|| ( Artistic GPL-1+ ) -RDEPEND=>=sci-biology/bioperl-1.6.9 >=dev-perl/Graph-0.86 dev-lang/perl:=[-build(-)] -RESTRICT=!test? ( test ) -SLOT=0 -SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-Network-1.006900.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module bd9574a79c5f0a347a9ea3db5ad9ca72 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 03b2fab39d555f46843c92f44a40a721 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=8f7c4053ffbec76cfad29cca2d99847b 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 new file mode 100644 index 000000000000..3ce0de4c127b --- /dev/null +++ b/metadata/md5-cache/sci-biology/bioperl-network-1.6.9-r1 @@ -0,0 +1,15 @@ +BDEPEND=dev-perl/Module-Build dev-lang/perl test? ( virtual/perl-Test-Simple ) +DEFINED_PHASES=compile configure install prepare test +DEPEND=>=sci-biology/bioperl-1.6.9 >=dev-perl/Graph-0.86 dev-lang/perl +DESCRIPTION=Perl tools for bioinformatics - Analysis of protein-protein interaction networks +EAPI=8 +HOMEPAGE=http://www.bioperl.org/ +IUSE=test +KEYWORDS=amd64 x86 +LICENSE=|| ( Artistic GPL-1+ ) +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 bd9574a79c5f0a347a9ea3db5ad9ca72 readme.gentoo-r1 eebd0164fe61f4f7b64a683e83fdceb1 +_md5_=062cfc681671741bdf0ce203cd9f0854 diff --git a/metadata/md5-cache/sci-biology/bioperl-run-1.6.9 b/metadata/md5-cache/sci-biology/bioperl-run-1.6.9 deleted file mode 100644 index df272b3b5b91..000000000000 --- a/metadata/md5-cache/sci-biology/bioperl-run-1.6.9 +++ /dev/null @@ -1,14 +0,0 @@ -DEFINED_PHASES=compile configure install prepare test unpack -DEPEND=dev-perl/Module-Build >=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl/XML-Twig dev-perl/IO-String dev-perl/IPC-Run dev-perl/File-Sort ) dev-lang/perl:=[-build(-)] -DESCRIPTION=Perl wrapper modules for key bioinformatics applications -EAPI=5 -HOMEPAGE=http://www.bioperl.org/ -IUSE=minimal test -KEYWORDS=amd64 x86 -LICENSE=|| ( Artistic GPL-1+ ) -RDEPEND=>=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl/XML-Twig dev-perl/IO-String dev-perl/IPC-Run dev-perl/File-Sort ) dev-lang/perl:=[-build(-)] -RESTRICT=test -SLOT=0 -SRC_URI=mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-Run-1.006900.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b perl-functions fea344a91ebf37efadf172c6a3de5a72 perl-module bd9574a79c5f0a347a9ea3db5ad9ca72 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 unpacker 03b2fab39d555f46843c92f44a40a721 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=990b4cff1e1e1338ee686efddaad7810 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 new file mode 100644 index 000000000000..9d8225a25d6b --- /dev/null +++ b/metadata/md5-cache/sci-biology/bioperl-run-1.6.9-r1 @@ -0,0 +1,15 @@ +BDEPEND=dev-perl/Module-Build dev-lang/perl test? ( virtual/perl-Test-Simple ) +DEFINED_PHASES=compile configure install prepare test +DEPEND=>=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl/XML-Twig dev-perl/IO-String dev-perl/IPC-Run dev-perl/File-Sort ) dev-lang/perl +DESCRIPTION=Perl wrapper modules for key bioinformatics applications +EAPI=8 +HOMEPAGE=http://www.bioperl.org/ +IUSE=minimal test test +KEYWORDS=amd64 x86 +LICENSE=|| ( Artistic GPL-1+ ) +RDEPEND=>=sci-biology/bioperl-1.6.9 !minimal? ( dev-perl/Algorithm-Diff dev-perl/XML-Twig dev-perl/IO-String dev-perl/IPC-Run dev-perl/File-Sort ) dev-lang/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 bd9574a79c5f0a347a9ea3db5ad9ca72 readme.gentoo-r1 eebd0164fe61f4f7b64a683e83fdceb1 +_md5_=89a50a53d48e4dddb7f36a35c0407fdb diff --git a/metadata/md5-cache/sci-biology/biopython-1.79 b/metadata/md5-cache/sci-biology/biopython-1.79 index 25872c83a719..427e6d79a4e8 100644 --- a/metadata/md5-cache/sci-biology/biopython-1.79 +++ b/metadata/md5-cache/sci-biology/biopython-1.79 @@ -11,5 +11,5 @@ 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 242601d395f54f27cfbc76e53f5e0203 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b optfeature 30ce9dec2b8943338c9b015bd32bac6a python-r1 0e7a98958af67ee30e3c2b2e3b37c0be python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 d540d96908dd5622f3dfa41d167e632d multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b optfeature 30ce9dec2b8943338c9b015bd32bac6a python-r1 bcd408f1e4a9669198ef4dfcd5ab8696 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 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 c17042c50cb7..b6d183784cd2 100644 --- a/metadata/md5-cache/sci-biology/bowtie-2.4.4 +++ b/metadata/md5-cache/sci-biology/bowtie-2.4.4 @@ -11,5 +11,5 @@ 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 de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 003123b4d7119cfd295a7566b1830904 python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-single-r1 3c5721adc30f98c39739c5970a4762d8 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=a169406c93e64d9cae6cbb8ad262f62b diff --git a/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660 b/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1 index 4ad52efa05f0..68a840461d00 100644 --- a/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660 +++ b/metadata/md5-cache/sci-biology/embassy-cbstools-1.0.0.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Applications from the CBS group -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=77305643fe2a87a5fac7d915688baa6a +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=56469e1c3bb7c4baac8ad99638b59ff0 diff --git a/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660 b/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1 index 27ea4daf7a69..2b3eabdd435d 100644 --- a/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660 +++ b/metadata/md5-cache/sci-biology/embassy-clustalomega-1.1.0.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Clustal Omega - Multiple Sequence Alignment -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=58b5684a48770c482660c463cca0df76 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=864a13621791118f794da4601dcde749 diff --git a/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660 b/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1 index b821f7a9d2fe..c2b53af3291d 100644 --- a/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-domainatrix-0.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Protein domain analysis add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=20f6c7abf908473570516ff49847a320 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=af29c98cab7134ba05c6d874e37d95dc diff --git a/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660 b/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1 index a9c6b50afe62..66417c3e702f 100644 --- a/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-domalign-0.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Protein domain alignment add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=fc6983ff5591fa7825d4cd99d376c861 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=677a5e171c80e94969c1ab9c0b55e283 diff --git a/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660 b/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1 index 2fac6bbb9d97..8795c1abe908 100644 --- a/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-domsearch-0.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Protein domain search add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=00bdcd88d6e9743af4531e223888195b +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=e0ca10c2776835b0cd20c1b0f0721a1a diff --git a/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660 b/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1 index f00680bbd6e3..b545f53aec9e 100644 --- a/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660 +++ b/metadata/md5-cache/sci-biology/embassy-emnu-1.05.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Simple menu of EMBOSS applications -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=54738204e5b5aeb9aa0216f7c53c77df +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=a33d45b5be798e7ebfcef8c59a300c88 diff --git a/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660 b/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1 index 659dff7d6c5c..c73ee208d6d4 100644 --- a/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660 +++ b/metadata/md5-cache/sci-biology/embassy-esim4-1.0.0.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of sim4 - Alignment of cDNA and genomic DNA -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=63d13362b3c8b045b78ed452697b59f3 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=95026ca22c2bacedf52a70b4428e7753 diff --git a/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660 b/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1 index 70eaa2b5b309..1454f153f029 100644 --- a/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660 +++ b/metadata/md5-cache/sci-biology/embassy-hmmer-2.3.2.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of HMMER wrapper - sequence analysis with profile HMMs -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=c5399e3d4e7e59aaa70e6477a41a7345 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=fb64fb071ec661ab550e0b33bc78b536 diff --git a/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660 b/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1 index 50fc20d9cd01..95953264c1fe 100644 --- a/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-iprscan-4.3.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of InterProScan motif detection add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=88c3ac6be6849f4230f25bf463931561 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=06b3cb4ecb53ada6b96c0f8fe91680e9 diff --git a/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660 b/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660 deleted file mode 100644 index 73122e676a47..000000000000 --- a/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660 +++ /dev/null @@ -1,14 +0,0 @@ -BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.4:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4 -DEFINED_PHASES=configure install prepare -DEPEND=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=] -DESCRIPTION=EMBOSS integrated version of MSE - Multiple Sequence Screen Editor -EAPI=7 -HOMEPAGE=http://emboss.sourceforge.net/ -IUSE=mysql pdf png postgres X -KEYWORDS=~amd64 ~x86 ~x86-linux -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/MSE-3.0.0.660.tar.gz -> embassy-mse-3.0.0.660.tar.gz -_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=c9843cceb68b918a80ed15c2043942d3 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 new file mode 100644 index 000000000000..d955f15722e5 --- /dev/null +++ b/metadata/md5-cache/sci-biology/embassy-mse-3.0.0.660-r1 @@ -0,0 +1,14 @@ +BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.4:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4 +DEFINED_PHASES=configure install prepare +DEPEND=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=] +DESCRIPTION=EMBOSS integrated version of MSE - Multiple Sequence Screen Editor +EAPI=8 +HOMEPAGE=http://emboss.sourceforge.net/ +IUSE=mysql pdf png postgres X +KEYWORDS=~amd64 ~x86 ~x86-linux +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 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=b6d66fbfe89f6c64f635551357dc90f4 diff --git a/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660 b/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1 index 31a24e6dbd8d..d1aa8fc78f95 100644 --- a/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660 +++ b/metadata/md5-cache/sci-biology/embassy-phylipnew-3.69.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of The Phylogeny Inference Package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=9ecb2590e9a1ae2353dafa387e89d48c +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=93c762366f9cfe8fbfdffd0fdc0483d5 diff --git a/metadata/md5-cache/sci-biology/embassy-signature-0.1.660 b/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1 index eba2d70e829a..59be57a74f69 100644 --- a/metadata/md5-cache/sci-biology/embassy-signature-0.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-signature-0.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Protein signature add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=0be4d65f424916bbe6d7f507fed3014f +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=193e23282bfd7f7751d7e37988a0ec44 diff --git a/metadata/md5-cache/sci-biology/embassy-structure-0.1.660 b/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1 index 600c34e66398..491c2fd4a82b 100644 --- a/metadata/md5-cache/sci-biology/embassy-structure-0.1.660 +++ b/metadata/md5-cache/sci-biology/embassy-structure-0.1.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Protein structure add-on package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=a0f67c8d9181b193f43eb5e99fdbe92f +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=c54138383c80476f9d515e5e2a33acaf diff --git a/metadata/md5-cache/sci-biology/embassy-topo-2.0.660 b/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1 index 2f6edc60a30a..9fa033a9195c 100644 --- a/metadata/md5-cache/sci-biology/embassy-topo-2.0.660 +++ b/metadata/md5-cache/sci-biology/embassy-topo-2.0.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Transmembrane protein display -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=9ecbee609930ce8d1c14b72746c0ff64 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=30ddf1c7471e11d692477ffa5a3a9956 diff --git a/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660 b/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1 index fefaaa185ee3..0dcefc37cbab 100644 --- a/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660 +++ b/metadata/md5-cache/sci-biology/embassy-vienna-1.7.2.660-r1 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install prepare DEPEND=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=] DESCRIPTION=EMBOSS integrated version of Vienna RNA package - RNA folding -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux @@ -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 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=a8689fa9b1b33a787474fc8f11e65998 +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=ba0cdfe4fa4ef35b15cb45a53f81f3b7 diff --git a/metadata/md5-cache/sci-biology/emboss-6.6.0-r1 b/metadata/md5-cache/sci-biology/emboss-6.6.0-r2 index 0cc2f525f0d9..21a0db8553a2 100644 --- a/metadata/md5-cache/sci-biology/emboss-6.6.0-r1 +++ b/metadata/md5-cache/sci-biology/emboss-6.6.0-r2 @@ -2,7 +2,7 @@ BDEPEND=sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/ DEFINED_PHASES=configure install postinst prepare DEPEND=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 ) DESCRIPTION=The European Molecular Biology Open Software Suite - A sequence analysis package -EAPI=7 +EAPI=8 HOMEPAGE=http://emboss.sourceforge.net/ IUSE=minimal mysql pdf png postgres X KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux @@ -10,6 +10,6 @@ LICENSE=LGPL-2 GPL-2 Apache-2.0 GPL-3+ CC-BY-3.0 PDEPEND=!minimal? ( sci-biology/aaindex sci-biology/cutg sci-biology/primer3 sci-biology/prints sci-biology/prosite sci-biology/rebase ) 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.tar.xz -_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e edos2unix 33e347e171066657f91f8b0c72ec8773 emboss-r2 6149b9a50119f07968449cfd6874508a eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 readme.gentoo-r1 eebd0164fe61f4f7b64a683e83fdceb1 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=ca77e598a1b176f454ece551aad686da +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 6cc26735fa9dd59e8c62880beda05b6e emboss-r3 f814fbb5ffa5d098b607eeea7f80e76a flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 readme.gentoo-r1 eebd0164fe61f4f7b64a683e83fdceb1 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=9856dbbe227d34ba8fd5a46c30dc912f diff --git a/metadata/md5-cache/sci-biology/express-1.5.1 b/metadata/md5-cache/sci-biology/express-1.5.1 index 623be7f2f8dc..85baf5421536 100644 --- a/metadata/md5-cache/sci-biology/express-1.5.1 +++ b/metadata/md5-cache/sci-biology/express-1.5.1 @@ -9,5 +9,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=b4fcbc714ea460615318f4baa4bc347a diff --git a/metadata/md5-cache/sci-biology/fasta-36.3.5e b/metadata/md5-cache/sci-biology/fasta-36.3.5e deleted file mode 100644 index e491bba86e5c..000000000000 --- a/metadata/md5-cache/sci-biology/fasta-36.3.5e +++ /dev/null @@ -1,13 +0,0 @@ -DEFINED_PHASES=compile install prepare test -DEPEND=test? ( app-shells/tcsh ) -DESCRIPTION=FASTA is a DNA and Protein sequence alignment software package -EAPI=5 -HOMEPAGE=https://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml -IUSE=debug cpu_flags_x86_sse2 test -KEYWORDS=~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux ~x64-macos -LICENSE=fasta -RESTRICT=!test? ( test ) -SLOT=0 -SRC_URI=http://faculty.virginia.edu/wrpearson/fasta/fasta36/fasta-36.3.5e.tar.gz -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=43c2cf221a4fd397bebdbe11749a1707 diff --git a/metadata/md5-cache/sci-biology/fasta-36.3.8h-r1 b/metadata/md5-cache/sci-biology/fasta-36.3.8h-r1 new file mode 100644 index 000000000000..75a19a52f07b --- /dev/null +++ b/metadata/md5-cache/sci-biology/fasta-36.3.8h-r1 @@ -0,0 +1,13 @@ +BDEPEND=test? ( app-shells/tcsh ) +DEFINED_PHASES=compile install prepare test +DESCRIPTION=FASTA is a DNA and Protein sequence alignment software package +EAPI=8 +HOMEPAGE=https://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml +IUSE=debug cpu_flags_x86_sse2 test +KEYWORDS=~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux ~x64-macos +LICENSE=fasta +RESTRICT=!test? ( test ) +SLOT=0 +SRC_URI=https://github.com/wrpearson/fasta36/archive/refs/tags/v36.3.8h_04-May-2020.tar.gz -> fasta-36.3.8h.tar.gz +_eclasses_=flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=8b14cc52861a94b12ee8505f2306234d diff --git a/metadata/md5-cache/sci-biology/fasttree-2.1.11 b/metadata/md5-cache/sci-biology/fasttree-2.1.11 index 50fc9eb6daa5..994b8534f962 100644 --- a/metadata/md5-cache/sci-biology/fasttree-2.1.11 +++ b/metadata/md5-cache/sci-biology/fasttree-2.1.11 @@ -9,5 +9,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=4a94b8db43f0aadb5ece67757ccbe635 diff --git a/metadata/md5-cache/sci-biology/foldingathome-7.6.21 b/metadata/md5-cache/sci-biology/foldingathome-7.6.21 new file mode 100644 index 000000000000..733e531b7d8f --- /dev/null +++ b/metadata/md5-cache/sci-biology/foldingathome-7.6.21 @@ -0,0 +1,14 @@ +BDEPEND=virtual/pkgconfig +DEFINED_PHASES=config install postinst postrm setup +DEPEND=dev-util/patchelf +DESCRIPTION=Folding@Home is a distributed computing project for protein folding +EAPI=8 +HOMEPAGE=https://foldingathome.org/ +KEYWORDS=~amd64 +LICENSE=FAH-EULA-2014 FAH-special-permission +RDEPEND=acct-group/foldingathome acct-group/video acct-user/foldingathome app-arch/bzip2 || ( dev-libs/openssl-compat:1.0.0 =dev-libs/openssl-1.0*:* ) sys-devel/gcc sys-libs/glibc sys-libs/zlib +RESTRICT=mirror bindist strip +SLOT=0 +SRC_URI=https://download.foldingathome.org/releases/public/release/fahclient/centos-6.7-64bit/v7.6/fahclient_7.6.21-64bit-release.tar.bz2 +_eclasses_=multilib de4beb52bfa93c4c5d96792a6b5e1784 systemd 2736b403a83f194b59b767f3b344c2c1 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=50de4ff6faf3b5ac3ed140d8e1653c23 diff --git a/metadata/md5-cache/sci-biology/kallisto-0.46.2 b/metadata/md5-cache/sci-biology/kallisto-0.46.2 index e441d3c10858..988925272788 100644 --- a/metadata/md5-cache/sci-biology/kallisto-0.46.2 +++ b/metadata/md5-cache/sci-biology/kallisto-0.46.2 @@ -11,5 +11,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=1b739cad0275e6dc5a320723611b78e9 diff --git a/metadata/md5-cache/sci-biology/mothur-1.27.0-r1 b/metadata/md5-cache/sci-biology/mothur-1.27.0-r1 index ffa8194c52b4..7dfbbdc416e3 100644 --- a/metadata/md5-cache/sci-biology/mothur-1.27.0-r1 +++ b/metadata/md5-cache/sci-biology/mothur-1.27.0-r1 @@ -10,5 +10,5 @@ LICENSE=GPL-3 RDEPEND=sci-biology/uchime mpi? ( virtual/mpi ) virtual/fortran SLOT=0 SRC_URI=https://www.mothur.org/w/images/c/cb/Mothur.1.27.0.zip -> mothur-1.27.0.zip -_eclasses_=edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 fortran-2 7e39eb204d37699d5f1eaf9f4d61888a multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 +_eclasses_=edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 fortran-2 a85daa133d055abaa5ec7504ab4a4c27 multilib de4beb52bfa93c4c5d96792a6b5e1784 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 _md5_=2a931ea6d0536a0cb3441d235f5d2d6b diff --git a/metadata/md5-cache/sci-biology/pysam-0.17.0 b/metadata/md5-cache/sci-biology/pysam-0.17.0 index 065440a94f9b..f0eeb0c00d8b 100644 --- a/metadata/md5-cache/sci-biology/pysam-0.17.0 +++ b/metadata/md5-cache/sci-biology/pysam-0.17.0 @@ -12,5 +12,5 @@ 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 242601d395f54f27cfbc76e53f5e0203 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 0e7a98958af67ee30e3c2b2e3b37c0be python-utils-r1 7ee47726753a2bd062a05f6643d849da toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_eclasses_=distutils-r1 d540d96908dd5622f3dfa41d167e632d multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b python-r1 bcd408f1e4a9669198ef4dfcd5ab8696 python-utils-r1 d3d7da5aff94a677154819e0cb95ee36 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 _md5_=5afaf93aeaee2506b60aa22aac9b3a2c diff --git a/metadata/md5-cache/sci-biology/repeatmasker-4.0.1 b/metadata/md5-cache/sci-biology/repeatmasker-4.0.1 deleted file mode 100644 index 901277aaf4b1..000000000000 --- a/metadata/md5-cache/sci-biology/repeatmasker-4.0.1 +++ /dev/null @@ -1,10 +0,0 @@ -DEFINED_PHASES=configure install -DESCRIPTION=Screen DNA sequences for interspersed repeats and low complexity DNA -EAPI=5 -HOMEPAGE=http://repeatmasker.org/ -KEYWORDS=~amd64 ~x86 -LICENSE=OSL-2.1 -RDEPEND=sci-biology/rmblast sci-biology/trf sci-biology/repeatmasker-libraries -SLOT=0 -SRC_URI=http://www.repeatmasker.org/RepeatMasker-open-4-0-1.tar.gz -_md5_=fb121561694712a9551278581c495f9c diff --git a/metadata/md5-cache/sci-biology/repeatmasker-libraries-20120418 b/metadata/md5-cache/sci-biology/repeatmasker-libraries-20120418 deleted file mode 100644 index 0dd1ccd3f778..000000000000 --- a/metadata/md5-cache/sci-biology/repeatmasker-libraries-20120418 +++ /dev/null @@ -1,10 +0,0 @@ -DEFINED_PHASES=install nofetch -DESCRIPTION=A special version of RepBase used by RepeatMasker -EAPI=7 -HOMEPAGE=http://repeatmasker.org/ -KEYWORDS=~amd64 ~x86 -LICENSE=all-rights-reserved -RESTRICT=fetch -SLOT=0 -SRC_URI=repeatmaskerlibraries-20120418.tar.gz -_md5_=e6c77d1df625fce2b312351e310cfae8 diff --git a/metadata/md5-cache/sci-biology/rmblast-1.2-r1 b/metadata/md5-cache/sci-biology/rmblast-1.2-r1 deleted file mode 100644 index 881bf80fa6b1..000000000000 --- a/metadata/md5-cache/sci-biology/rmblast-1.2-r1 +++ /dev/null @@ -1,12 +0,0 @@ -DEFINED_PHASES=configure prepare -DEPEND=dev-libs/boost app-arch/cpio -DESCRIPTION=RepeatMasker compatible version of NCBI BLAST+ -EAPI=5 -HOMEPAGE=http://www.repeatmasker.org/RMBlast.html -KEYWORDS=~amd64 ~x86 -LICENSE=OSL-2.1 -RDEPEND=dev-libs/boost -SLOT=0 -SRC_URI=http://www.repeatmasker.org/rmblast-1.2-ncbi-blast-2.2.23+-src.tar.gz https://dev.gentoo.org/~mgorny/dist/rmblast-1.2-gcc47.patch.bz2 -_eclasses_=desktop c0d27bf73aa08ca05b663dbd31fbef28 edos2unix 33e347e171066657f91f8b0c72ec8773 epatch 9f813bb3c47cf2e60619a663b87c5f4e estack 055c42df72f76a4f45ec92b35e83cd56 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 ltprune 4f3f2db5ce3ccbeeacdf3f94954043aa multilib de4beb52bfa93c4c5d96792a6b5e1784 preserve-libs dbc9f8d2d49c66467bc327fddd8317bd strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 vcs-clean d271b7bc7e6a009758d7d4ef749174e3 wrapper 4251d4c84c25f59094fd557e0063a974 -_md5_=2f7831c50cdca352d9a7b340a8bee159 diff --git a/metadata/md5-cache/sci-biology/samtools-1.15 b/metadata/md5-cache/sci-biology/samtools-1.15 new file mode 100644 index 000000000000..1c32b0f8f610 --- /dev/null +++ b/metadata/md5-cache/sci-biology/samtools-1.15 @@ -0,0 +1,13 @@ +BDEPEND=virtual/pkgconfig +DEFINED_PHASES=compile configure install prepare +DEPEND=dev-lang/perl =sci-libs/htslib-1.15*:= sys-libs/ncurses:=[unicode(+)] sys-libs/zlib +DESCRIPTION=Utilities for analysing and manipulating the SAM/BAM alignment formats +EAPI=8 +HOMEPAGE=http://www.htslib.org/ +KEYWORDS=~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos +LICENSE=MIT +RDEPEND=dev-lang/perl =sci-libs/htslib-1.15*:= sys-libs/ncurses:=[unicode(+)] sys-libs/zlib +SLOT=0 +SRC_URI=mirror://sourceforge/samtools/samtools-1.15.tar.bz2 +_eclasses_=multilib de4beb52bfa93c4c5d96792a6b5e1784 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=8e65ef700f1f60118807cb5e9e36a185 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 2e5609fa3ff2..3f4ed9c61a6f 100644 --- a/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 +++ b/metadata/md5-cache/sci-biology/seqan-2.4.0-r1 @@ -11,5 +11,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multibuild d79bd5b4bc4edcb1f5bc19591f8d4714 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=8796fa7c1594d16d8a9b96920de5cf2b diff --git a/metadata/md5-cache/sci-biology/seqan-3.1.0 b/metadata/md5-cache/sci-biology/seqan-3.1.0 new file mode 100644 index 000000000000..fce49c854575 --- /dev/null +++ b/metadata/md5-cache/sci-biology/seqan-3.1.0 @@ -0,0 +1,15 @@ +BDEPEND=dev-util/ninja >=dev-util/cmake-3.20.5 +DEFINED_PHASES=compile configure install prepare test +DEPEND=app-arch/bzip2:= dev-cpp/range-v3 dev-libs/cereal sci-libs/lemon sys-libs/zlib:= +DESCRIPTION=C++ Sequence Analysis Library +EAPI=8 +HOMEPAGE=https://www.seqan.de/ +IUSE=cpu_flags_x86_sse4_2 +KEYWORDS=~amd64 ~amd64-linux +LICENSE=BSD GPL-3 +RDEPEND=app-arch/bzip2:= dev-cpp/range-v3 dev-libs/cereal sci-libs/lemon sys-libs/zlib:= +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 9f12546ab831b81c615d90e6b9e34e68 flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_md5_=79bf85e28c26de53181c27b102f90252 diff --git a/metadata/md5-cache/sci-biology/uchime-4.2.40 b/metadata/md5-cache/sci-biology/uchime-4.2.40 index ed2f012b8788..57c0a2566352 100644 --- a/metadata/md5-cache/sci-biology/uchime-4.2.40 +++ b/metadata/md5-cache/sci-biology/uchime-4.2.40 @@ -7,5 +7,5 @@ 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 11fee991ab428a3370e5c20fa8231fb6 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 +_eclasses_=cmake 9f12546ab831b81c615d90e6b9e34e68 edos2unix 33e347e171066657f91f8b0c72ec8773 eutils dab5d8ec471d025b79c9e6906bcf3bff flag-o-matic a500d7cc40da3de38c361e889153bdf7 multilib de4beb52bfa93c4c5d96792a6b5e1784 multiprocessing 61c959fc55c15c00bbb1079d6a71370b ninja-utils a4dab848a4490e8e48cf0baab3e61bc2 strip-linguas ac3ee41ee2d31d8c41a77c0838320cc7 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 wrapper 4251d4c84c25f59094fd557e0063a974 xdg-utils 4f29a8b760a594a212abe9c2ba957c31 _md5_=421c75fd545cd9d38575321e00aeab36 diff --git a/metadata/md5-cache/sci-biology/vcftools-0.1.16 b/metadata/md5-cache/sci-biology/vcftools-0.1.16 new file mode 100644 index 000000000000..0ad052d6f83b --- /dev/null +++ b/metadata/md5-cache/sci-biology/vcftools-0.1.16 @@ -0,0 +1,14 @@ +BDEPEND=virtual/pkgconfig sys-devel/gnuconfig >=app-portage/elt-patches-20170815 || ( >=sys-devel/automake-1.16.4:1.16 ) >=sys-devel/autoconf-2.71 >=sys-devel/libtool-2.4 +DEFINED_PHASES=configure prepare +DEPEND=sys-libs/zlib dev-lang/perl:= lapack? ( virtual/lapack ) +DESCRIPTION=Tools for working with VCF (Variant Call Format) files +EAPI=8 +HOMEPAGE=http://vcftools.sourceforge.net/ +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/v0.1.16/vcftools-0.1.16.tar.gz +_eclasses_=autotools 6cc26735fa9dd59e8c62880beda05b6e flag-o-matic a500d7cc40da3de38c361e889153bdf7 gnuconfig 262062cef0ba4f22b397193da514a350 libtool 241a8f577b9781a42a7421e53448a44e multilib de4beb52bfa93c4c5d96792a6b5e1784 perl-functions fea344a91ebf37efadf172c6a3de5a72 toolchain-funcs badd6e329e1f3e6bee99b35bf8763ce8 +_md5_=faeb202e0aded0cb660ea87d6d7be81b |