From d3560e1b3d26eda4c94485f679ec42101d3aaa01 Mon Sep 17 00:00:00 2001 From: Olivier Fisette Date: Fri, 25 Jun 2004 03:34:12 +0000 Subject: Initial import for app-sci/prints --- app-sci/prints/ChangeLog | 11 +++++++++ app-sci/prints/files/digest-prints-37.0 | 6 +++++ app-sci/prints/metadata.xml | 20 +++++++++++++++++ app-sci/prints/prints-37.0.ebuild | 40 +++++++++++++++++++++++++++++++++ app-sci/prosite/Manifest | 4 ++++ 5 files changed, 81 insertions(+) create mode 100644 app-sci/prints/ChangeLog create mode 100644 app-sci/prints/files/digest-prints-37.0 create mode 100644 app-sci/prints/metadata.xml create mode 100644 app-sci/prints/prints-37.0.ebuild create mode 100644 app-sci/prosite/Manifest (limited to 'app-sci') diff --git a/app-sci/prints/ChangeLog b/app-sci/prints/ChangeLog new file mode 100644 index 000000000000..e08b59f6e602 --- /dev/null +++ b/app-sci/prints/ChangeLog @@ -0,0 +1,11 @@ +# ChangeLog for app-sci/prints +# Copyright 2000-2004 Gentoo Technologies, Inc.; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/app-sci/prints/ChangeLog,v 1.1 2004/06/25 03:34:12 ribosome Exp $ + +*prints-37.0 (24 Jun 2004) + + 24 Jun 2004; Olivier Fisette + prints-37.0.ebuild, metadata.xml : + Initial import. Ebuild submitted by Olivier Fisette . + Reference: Gentoo Bugzilla, bug #54325 + diff --git a/app-sci/prints/files/digest-prints-37.0 b/app-sci/prints/files/digest-prints-37.0 new file mode 100644 index 000000000000..660c4ee3c1ef --- /dev/null +++ b/app-sci/prints/files/digest-prints-37.0 @@ -0,0 +1,6 @@ +MD5 8d15b420f8fb946085364b95550557c9 newpr.lis.gz 1446 +MD5 0b250e6966d83573609d6afe3f6442ce prints37_0.all.fasta.Z 19434403 +MD5 750992359d84739bf9d08894271c34ad prints37_0.dat.gz 7145345 +MD5 4b25791302554f8ea87358156b2b6b89 prints37_0.lis.gz 30354 +MD5 72215bb4d79ba0e2503ecb6614f74834 prints37_0.nam.gz 584 +MD5 2472d9ba65b3bfc4cd054f18d5b26a67 prints37_0.vsn.gz 73 diff --git a/app-sci/prints/metadata.xml b/app-sci/prints/metadata.xml new file mode 100644 index 000000000000..4d3ac3ee6b21 --- /dev/null +++ b/app-sci/prints/metadata.xml @@ -0,0 +1,20 @@ + + + + + ribosome@gentoo.org + Olivier Fisette + + sci + + A protein motif fingerprint database maintained at the University of + Manchester. A fingerprint is a group of conserved motifs used to + characterise a protein family; its diagnostic power is refined by + iterative scanning of a SWISS-PROT/TrEMBL composite. Usually the motifs + do not overlap, but are separated along a sequence, though they may be + contiguous in 3D-space. Fingerprints can encode protein folds and + functionalities more flexibly and powerfully than can single motifs, + full diagnostic potency deriving from the mutual context provided by + motif neighbours. + + diff --git a/app-sci/prints/prints-37.0.ebuild b/app-sci/prints/prints-37.0.ebuild new file mode 100644 index 000000000000..461328353dd9 --- /dev/null +++ b/app-sci/prints/prints-37.0.ebuild @@ -0,0 +1,40 @@ +# Copyright 1999-2004 Gentoo Technologies, Inc. +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/app-sci/prints/prints-37.0.ebuild,v 1.1 2004/06/25 03:34:12 ribosome Exp $ + +DESCRIPTION="A protein motif fingerprint database" +HOMEPAGE="http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/" +SRC_URI="ftp://ftp.ebi.ac.uk/pub/databases/${PN}/newpr.lis.gz + ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}37_0.all.fasta.Z + ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}37_0.dat.gz + ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}37_0.lis.gz + ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}37_0.nam.gz + ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}37_0.vsn.gz" +LICENSE="public-domain" +SLOT="0" +KEYWORDS="~x86" +IUSE="no-emboss no-rawdb" + +S=${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/printsextract ] && ! use no-emboss; then + mkdir PRINTS + einfo "Indexing PRINTS for usage with EMBOSS." + EMBOSS_DATA=. printsextract -auto -infile prints37_0.dat || die \ + "Indexing PRINTS failed." + fi +} + +src_install() { + if ! use no-rawdb; then + insinto /usr/share/${PN} + doins ${PN}37_0.{all.fasta,dat,lis,nam,vsn} newpr.lis + fi + if [ -e /usr/bin/printsextract ] && ! use no-emboss; then + insinto /usr/share/EMBOSS/data/PRINTS + doins PRINTS/* + fi +} diff --git a/app-sci/prosite/Manifest b/app-sci/prosite/Manifest new file mode 100644 index 000000000000..5a4ddcea894c --- /dev/null +++ b/app-sci/prosite/Manifest @@ -0,0 +1,4 @@ +MD5 c3c532ef85f4907c38d40f425f3e3140 prosite-18.26.ebuild 1425 +MD5 db69308e5869d6521fd4b942f8dacd13 ChangeLog 455 +MD5 81b73af5f2f4778bea2dde0b55620129 metadata.xml 810 +MD5 93e518c7b278bf20d3d76135c4f9fc25 files/digest-prosite-18.26 281 -- cgit v1.2.3-65-gdbad