From: Olivier Fisette Date: Thu, 23 Dec 2004 21:19:03 +0000 (+0000) Subject: Moving to sci-biology/cutg X-Git-Url: http://git.tremily.us/?a=commitdiff_plain;h=e6c23c167660f116f1b9e7e2301fd2884d72e26c;p=gentoo.git Moving to sci-biology/cutg --- diff --git a/app-sci/cutg/ChangeLog b/app-sci/cutg/ChangeLog deleted file mode 100644 index e1b2938beffb..000000000000 --- a/app-sci/cutg/ChangeLog +++ /dev/null @@ -1,37 +0,0 @@ -# ChangeLog for app-sci/cutg -# Copyright 2000-2004 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/app-sci/cutg/ChangeLog,v 1.7 2004/11/23 20:23:18 ribosome Exp $ - -*cutg-144 (23 Nov 2004) - - 23 Nov 2004; Olivier Fisette +cutg-144.ebuild: - New version. - - 31 Oct 2004; Olivier Fisette -cutg-142.ebuild, - cutg-143.ebuild: - Removed old version. Added 143 to x86. - -*cutg-143 (29 Sep 2004) - - 29 Sep 2004; Olivier Fisette -cutg-141.0.ebuild, - cutg-142.ebuild, +cutg-143.ebuild: - Added 142 to x86. Added new version 142. Removed old version. - -*cutg-142 (10 Aug 2004) - - 10 Aug 2004; Olivier Fisette - cutg-141.0.ebuild: - Added to x86. - cutg-142.ebuild: - Updated package. - - 26 Jun 2004; David Holm cutg-141.0.ebuild: - Added to ~ppc. - -*cutg-141.0 (24 Jun 2004) - - 24 Jun 2004; Olivier Fisette - cutg-141.0.ebuild, metadata.xml : - Initial import. Ebuild submitted by Olivier Fisette . - Reference: Gentoo Bugzilla, bug #54322 - diff --git a/app-sci/cutg/Manifest b/app-sci/cutg/Manifest deleted file mode 100644 index d81a49b14c73..000000000000 --- a/app-sci/cutg/Manifest +++ /dev/null @@ -1,6 +0,0 @@ -MD5 e4a9cb7a750c45b5f064e0791a6db623 cutg-143.ebuild 1178 -MD5 2bb31e68b962982d6890f9636a4bac63 ChangeLog 1115 -MD5 d14f29edef39d8d89b39a5787c3d141c metadata.xml 594 -MD5 3e219869a7440d22d1a3e3b6605429f4 cutg-144.ebuild 1179 -MD5 94ad06877dbe9065273a7ee15904c7ec files/digest-cutg-143 63 -MD5 e35ab30eae79e0600feabc028e0db162 files/digest-cutg-144 63 diff --git a/app-sci/cutg/cutg-143.ebuild b/app-sci/cutg/cutg-143.ebuild deleted file mode 100644 index c0704b3725cf..000000000000 --- a/app-sci/cutg/cutg-143.ebuild +++ /dev/null @@ -1,40 +0,0 @@ -# Copyright 1999-2004 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/app-sci/cutg/cutg-143.ebuild,v 1.3 2004/11/01 01:48:18 ribosome Exp $ - -DESCRIPTION="Codon usage tables calculated from GenBank" -HOMEPAGE="http://www.kazusa.or.jp/codon/" -SRC_URI="ftp://ftp.kazusa.or.jp/pub/codon/current/compressed/CUTG.${PV}.tar.gz" -LICENSE="public-domain" - -SLOT="0" -KEYWORDS="x86 ~ppc" -IUSE="no-emboss no-rawdb" - -S=${WORKDIR} - -src_compile() { - # Index the database for use with emboss if emboss is installed and - # the user did not explicitly request not to index the database. - if [ -e /usr/bin/cutgextract ] && ! use no-emboss; then - mkdir CODONS - einfo "Indexing CUTG for usage with EMBOSS." - EMBOSS_DATA=. cutgextract -auto -directory ${S} || die \ - "Indexing CUTG failed." - fi -} - -src_install() { - if ! use no-rawdb; then - mkdir -p ${D}/usr/share/${PN} - mv *.codon *.spsum ${D}/usr/share/${PN} - fi - dodoc README - if [ -e /usr/bin/cutgextract ] && ! use no-emboss; then - mkdir -p ${D}/usr/share/EMBOSS/data/CODONS - cd CODONS - for file in *; do - mv ${file} ${D}/usr/share/EMBOSS/data/CODONS - done - fi -} diff --git a/app-sci/cutg/cutg-144.ebuild b/app-sci/cutg/cutg-144.ebuild deleted file mode 100644 index e198ba24a7b6..000000000000 --- a/app-sci/cutg/cutg-144.ebuild +++ /dev/null @@ -1,40 +0,0 @@ -# Copyright 1999-2004 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/app-sci/cutg/cutg-144.ebuild,v 1.1 2004/11/23 20:23:18 ribosome Exp $ - -DESCRIPTION="Codon usage tables calculated from GenBank" -HOMEPAGE="http://www.kazusa.or.jp/codon/" -SRC_URI="ftp://ftp.kazusa.or.jp/pub/codon/current/compressed/CUTG.${PV}.tar.gz" -LICENSE="public-domain" - -SLOT="0" -KEYWORDS="~x86 ~ppc" -IUSE="no-emboss no-rawdb" - -S=${WORKDIR} - -src_compile() { - # Index the database for use with emboss if emboss is installed and - # the user did not explicitly request not to index the database. - if [ -e /usr/bin/cutgextract ] && ! use no-emboss; then - mkdir CODONS - einfo "Indexing CUTG for usage with EMBOSS." - EMBOSS_DATA=. cutgextract -auto -directory ${S} || die \ - "Indexing CUTG failed." - fi -} - -src_install() { - if ! use no-rawdb; then - mkdir -p ${D}/usr/share/${PN} - mv *.codon *.spsum ${D}/usr/share/${PN} - fi - dodoc README - if [ -e /usr/bin/cutgextract ] && ! use no-emboss; then - mkdir -p ${D}/usr/share/EMBOSS/data/CODONS - cd CODONS - for file in *; do - mv ${file} ${D}/usr/share/EMBOSS/data/CODONS - done - fi -} diff --git a/app-sci/cutg/files/digest-cutg-143 b/app-sci/cutg/files/digest-cutg-143 deleted file mode 100644 index 55572f7df18e..000000000000 --- a/app-sci/cutg/files/digest-cutg-143 +++ /dev/null @@ -1 +0,0 @@ -MD5 8f3ccb3c31e1383ac987d8e46c9f5610 CUTG.143.tar.gz 117357602 diff --git a/app-sci/cutg/files/digest-cutg-144 b/app-sci/cutg/files/digest-cutg-144 deleted file mode 100644 index f79c6a6dc995..000000000000 --- a/app-sci/cutg/files/digest-cutg-144 +++ /dev/null @@ -1 +0,0 @@ -MD5 2bea63f0124ef7cb360bddeb0465e548 CUTG.144.tar.gz 124856915 diff --git a/app-sci/cutg/metadata.xml b/app-sci/cutg/metadata.xml deleted file mode 100644 index b89e0f65dac4..000000000000 --- a/app-sci/cutg/metadata.xml +++ /dev/null @@ -1,16 +0,0 @@ - - - - - ribosome@gentoo.org - Olivier Fisette - - sci - - 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. - -