diff options
| author | V3n3RiX <venerix@redcorelinux.org> | 2017-10-09 18:53:29 +0100 |
|---|---|---|
| committer | V3n3RiX <venerix@redcorelinux.org> | 2017-10-09 18:53:29 +0100 |
| commit | 4f2d7949f03e1c198bc888f2d05f421d35c57e21 (patch) | |
| tree | ba5f07bf3f9d22d82e54a462313f5d244036c768 /sci-biology/cutg | |
reinit the tree, so we can have metadata
Diffstat (limited to 'sci-biology/cutg')
| -rw-r--r-- | sci-biology/cutg/Manifest | 5 | ||||
| -rw-r--r-- | sci-biology/cutg/cutg-160-r1.ebuild | 49 | ||||
| -rw-r--r-- | sci-biology/cutg/metadata.xml | 15 |
3 files changed, 69 insertions, 0 deletions
diff --git a/sci-biology/cutg/Manifest b/sci-biology/cutg/Manifest new file mode 100644 index 000000000000..fd6ef56d4789 --- /dev/null +++ b/sci-biology/cutg/Manifest @@ -0,0 +1,5 @@ +DIST cutg-160.tar.xz 178015420 SHA256 faa2e5e4417e5cadd67bfff0c011f2f3e2e0c5d8b324fc441f9346808f6ed1fa SHA512 9b72283f311fb805b7b22f59f3ca8fed2ab0af72b82247900922999792c1b112dcaca9b29b265a1e0e7b9eaf9ff846a1dc4c196fb95ddbfb3ee5175755ffb8e7 WHIRLPOOL 540f9ba9f2f69718688531c85729c567cd6ba260f12d23b5f3c00d9689da93aefab588fe3dd926defacf4a21982406055ebee413e39ce53a2916e5e571037e93 +EBUILD cutg-160-r1.ebuild 1250 SHA256 59e602274fd15e923603bb7c4f0c8f1a09048b136773adffcd03c71d129958eb SHA512 4b7e71b255def1ece36d75ac85aa39e82b9e224317631801731fa0621e4841b00f6aa830e1fc43bb7e74fb387a2663c3848d9e0a5f99f550778448ab571ccacf WHIRLPOOL f3bded2d09f31650ff2c92b38a1dd91030c094ee29251d154d136d831413e88dd0a036b4b8f87fe2dbe9061cd584a310de0d80169327b4dcab51f05d919e6deb +MISC ChangeLog 2445 SHA256 d883f2b9bd991a0972e5739d3b89bb6dc47deeb4a3564c5fadae3c6a6054b732 SHA512 6dcbd245ade5394b4060b89833986d887e53d4d2fee8ac4f8f1dd705d900385922604a54ce45b4eabfe1997a2ac2b22a6cf08f52151f1b384372d13e2429ca35 WHIRLPOOL ae0770ac8aba3b6ca2701f2dbdc6593dd12b590d6dc6913455d1b6262d1545dafa9a8065b9cb534385fba353701ae258cbbb64d144094ef9a80df1d436562337 +MISC ChangeLog-2015 7744 SHA256 8723977349cf96250cecdefadb05bbe8270822b5baffbc477ca5a476792ce8fd SHA512 b365d6eb0563c1cdcd118e9efb1a1d12cec87fb6404f7161c9f43ecddc01523ec8dcfe0903887aca928893a32d5daa9987c15362892588b39dff4e14dff03673 WHIRLPOOL 178caf9920cb8f7b99c026196301bdaed6a42ffee61fec64d265b3aa752942adaa4d67877f62b7792ac63877aa9192cc892b27410311b1a221775c3cf397f75c +MISC metadata.xml 608 SHA256 215bb030a1c392e7e84bd43d2df7e8e2452223df44165544fbb88e97cecf8d76 SHA512 cf8142c4e77b18076f1916311ef85d9fac5d85c2b2139923c0bfb2ec5c8cae9d40d5f09c17128c531c850d726ba30f94b20c92415cb75f05e8f1d829f751d6eb WHIRLPOOL 3116cf5de61304c4a3034385a0cb3f20770026f400fa79dff9ed4a4030633fb876af51963dcddf4f9133070fdea9d2657fe355490664396cf0429baa0badc3b8 diff --git a/sci-biology/cutg/cutg-160-r1.ebuild b/sci-biology/cutg/cutg-160-r1.ebuild new file mode 100644 index 000000000000..9a8130969019 --- /dev/null +++ b/sci-biology/cutg/cutg-160-r1.ebuild @@ -0,0 +1,49 @@ +# Copyright 1999-2017 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=5 + +DESCRIPTION="Codon usage tables calculated from GenBank" +HOMEPAGE="http://www.kazusa.or.jp/codon/" +SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz" + +SLOT="0" +LICENSE="public-domain" +# Minimal build keeps only the indexed files (if applicable) and the +# documentation. The non-indexed database is not installed. +IUSE="emboss minimal" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" + +DEPEND="emboss? ( sci-biology/emboss )" +RDEPEND="${DEPEND}" + +RESTRICT="binchecks strip" + +src_compile() { + if use emboss; then + mkdir CODONS || die + ebegin "Indexing CUTG for usage with EMBOSS." + EMBOSS_DATA="." cutgextract -auto -directory "${S}" || die \ + "Indexing CUTG failed." + eend + fi +} + +src_install() { + local file + dodoc README CODON_LABEL SPSUM_LABEL + if ! use minimal; then + dodir /usr/share/${PN} + mv *.codon *.spsum "${ED}"/usr/share/${PN} || die \ + "Installing raw CUTG database failed." + fi + + if use emboss; then + dodir /usr/share/EMBOSS/data/CODONS + cd CODONS || die + for file in *; do + mv ${file} "${ED}"/usr/share/EMBOSS/data/CODONS/ || die \ + "Installing the EMBOSS-indexed database failed." + done + fi +} diff --git a/sci-biology/cutg/metadata.xml b/sci-biology/cutg/metadata.xml new file mode 100644 index 000000000000..d91990ea170f --- /dev/null +++ b/sci-biology/cutg/metadata.xml @@ -0,0 +1,15 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> + <longdescription> + Codon usage tables maintained at the Kazusa DNA Research Institute. + Codon usage in individual genes has been calculated using the + nucleotide sequence data obtained from the GenBank Genetic Sequence + Database. The compilation of codon usage is synchronized with each + major release of GenBank. + </longdescription> +</pkgmetadata> |