diff options
| -rw-r--r-- | sci-biology/aaindex/ChangeLog | 7 | ||||
| -rw-r--r-- | sci-biology/aaindex/Manifest | 4 | ||||
| -rw-r--r-- | sci-biology/aaindex/aaindex-7.0.ebuild | 39 | ||||
| -rw-r--r-- | sci-biology/aaindex/files/digest-aaindex-7.0 | 1 | ||||
| -rw-r--r-- | sci-biology/prints/ChangeLog | 7 | ||||
| -rw-r--r-- | sci-biology/prints/Manifest | 4 | ||||
| -rw-r--r-- | sci-biology/prints/files/digest-prints-38.0 | 1 | ||||
| -rw-r--r-- | sci-biology/prints/prints-38.0.ebuild | 42 | ||||
| -rw-r--r-- | sci-biology/prosite/ChangeLog | 7 | ||||
| -rw-r--r-- | sci-biology/prosite/Manifest | 2 | ||||
| -rw-r--r-- | sci-biology/prosite/files/digest-prosite-19.12 | 1 | ||||
| -rw-r--r-- | sci-biology/prosite/prosite-19.12.ebuild | 40 |
12 files changed, 150 insertions, 5 deletions
diff --git a/sci-biology/aaindex/ChangeLog b/sci-biology/aaindex/ChangeLog index d09776390ae4..e73639c1fc2f 100644 --- a/sci-biology/aaindex/ChangeLog +++ b/sci-biology/aaindex/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/aaindex # Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/aaindex/ChangeLog,v 1.8 2005/09/04 14:51:37 blubb Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/aaindex/ChangeLog,v 1.9 2005/10/18 13:39:42 ribosome Exp $ + +*aaindex-7.0 (18 Oct 2005) + + 18 Oct 2005; Olivier Fisette <ribosome@gentoo.org> +aaindex-7.0.ebuild: + New version. 04 Sep 2005; Simon Stelling <blubb@gentoo.org> aaindex-6.0.ebuild: added ~amd64 keyword diff --git a/sci-biology/aaindex/Manifest b/sci-biology/aaindex/Manifest index 84ad4c792007..7e8e104832e6 100644 --- a/sci-biology/aaindex/Manifest +++ b/sci-biology/aaindex/Manifest @@ -1,4 +1,6 @@ -MD5 098113e3074ec63941de020648b214a0 ChangeLog 1495 MD5 3bc220ac778574c6b87960b9852955c7 aaindex-6.0.ebuild 1434 +MD5 9e0ac88b426600d4ccbc35e0210eda4f aaindex-7.0.ebuild 1129 +MD5 098113e3074ec63941de020648b214a0 ChangeLog 1495 MD5 d508af45f2137bf67613eb18d9f6f831 metadata.xml 1310 MD5 cd3e50367768bef809d98048504b43d6 files/digest-aaindex-6.0 278 +MD5 5ec69cfa775115b1de4b49fd85fcc7b9 files/digest-aaindex-7.0 63 diff --git a/sci-biology/aaindex/aaindex-7.0.ebuild b/sci-biology/aaindex/aaindex-7.0.ebuild new file mode 100644 index 000000000000..a8e1ef2dfeec --- /dev/null +++ b/sci-biology/aaindex/aaindex-7.0.ebuild @@ -0,0 +1,39 @@ +# Copyright 1999-2005 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/aaindex/aaindex-7.0.ebuild,v 1.1 2005/10/18 13:39:42 ribosome Exp $ + +DESCRIPTION="Amino acid indices and similarity matrices" +LICENSE="public-domain" +HOMEPAGE="http://www.genome.ad.jp/aaindex" +SRC_URI="mirror://gentoo/${P}.tar.bz2" + +SLOT="0" +# Minimal build keeps only the indexed files (if applicable) and the +# documentation. The non-indexed database is not installed. +IUSE="emboss minimal" +KEYWORDS="~amd64 ~ppc ~ppc-macos ~ppc64 ~x86" + +DEPEND="emboss? ( sci-biology/emboss )" + +src_compile() { + if use emboss; then + mkdir AAINDEX + echo + einfo "Indexing AAindex for usage with EMBOSS." + EMBOSS_DATA="." aaindexextract -auto -infile ${PN}1 || die \ + "Indexing AAindex failed." + echo + fi +} + +src_install() { + if ! use minimal; then + insinto /usr/share/${PN} + doins ${PN}{1,2} || die "Failed to install raw database." + fi + dodoc ${PN}.doc + if use emboss; then + insinto /usr/share/EMBOSS/data/AAINDEX + doins AAINDEX/* || die "Failed to install EMBOSS data files." + fi +} diff --git a/sci-biology/aaindex/files/digest-aaindex-7.0 b/sci-biology/aaindex/files/digest-aaindex-7.0 new file mode 100644 index 000000000000..ea4877d325a6 --- /dev/null +++ b/sci-biology/aaindex/files/digest-aaindex-7.0 @@ -0,0 +1 @@ +MD5 5ab27d95b2a4f3756c539333c18ebd54 aaindex-7.0.tar.bz2 94056 diff --git a/sci-biology/prints/ChangeLog b/sci-biology/prints/ChangeLog index 11d5ee05acc8..d9ae1520232e 100644 --- a/sci-biology/prints/ChangeLog +++ b/sci-biology/prints/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/prints # Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/prints/ChangeLog,v 1.9 2005/09/04 14:54:45 blubb Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/prints/ChangeLog,v 1.10 2005/10/18 13:44:26 ribosome Exp $ + +*prints-38.0 (18 Oct 2005) + + 18 Oct 2005; Olivier Fisette <ribosome@gentoo.org> +prints-38.0.ebuild: + New version. 04 Sep 2005; Simon Stelling <blubb@gentoo.org> prints-37.0.ebuild: added ~amd64 keyword diff --git a/sci-biology/prints/Manifest b/sci-biology/prints/Manifest index f80458f42be6..e695f77cede6 100644 --- a/sci-biology/prints/Manifest +++ b/sci-biology/prints/Manifest @@ -1,4 +1,6 @@ +MD5 11a2a6a90411587555140aca04678982 prints-38.0.ebuild 1253 +MD5 ce1197690baba2bc94dcae35cb6f7079 prints-37.0.ebuild 1397 MD5 814568ea948f01625f4fd8b61047b704 ChangeLog 1468 MD5 1ac1b9a7f4647c51e178fee97f2e8fa8 metadata.xml 876 -MD5 ce1197690baba2bc94dcae35cb6f7079 prints-37.0.ebuild 1397 MD5 480ec57dbfe7db281e30726e6e1160bd files/digest-prints-37.0 365 +MD5 aec0974e2bbc992669aec8865dae02fc files/digest-prints-38.0 66 diff --git a/sci-biology/prints/files/digest-prints-38.0 b/sci-biology/prints/files/digest-prints-38.0 new file mode 100644 index 000000000000..3925586e3558 --- /dev/null +++ b/sci-biology/prints/files/digest-prints-38.0 @@ -0,0 +1 @@ +MD5 a19ad9818160658d7c48f0886ea94614 prints-38.0.tar.bz2 25207529 diff --git a/sci-biology/prints/prints-38.0.ebuild b/sci-biology/prints/prints-38.0.ebuild new file mode 100644 index 000000000000..d0980a930eef --- /dev/null +++ b/sci-biology/prints/prints-38.0.ebuild @@ -0,0 +1,42 @@ +# Copyright 1999-2005 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/prints/prints-38.0.ebuild,v 1.1 2005/10/18 13:44:26 ribosome Exp $ + +MY_PV="${PV/./_}" + +DESCRIPTION="A protein motif fingerprint database" +LICENSE="public-domain" +HOMEPAGE="http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/" +SRC_URI="mirror://gentoo/${P}.tar.bz2" + +SLOT="0" +IUSE="emboss minimal" +# Minimal build keeps only the indexed files (if applicable) and the +# documentation. The non-indexed database is not installed. +KEYWORDS="~amd64 ~ppc ~ppc-macos ~ppc64 ~x86" + +DEPEND="emboss? ( sci-biology/emboss )" + +src_compile() { + if use emboss; then + mkdir PRINTS + echo + einfo "Indexing PRINTS for usage with EMBOSS." + EMBOSS_DATA="." printsextract -auto -infile prints${MY_PV}.dat || die \ + "Indexing PRINTS failed." + echo + fi +} + +src_install() { + if ! use minimal; then + insinto /usr/share/${PN} + doins newpr.lis ${PN}${MY_PV}.{all.fasta,dat,kdat,lis,nam,vsn} || die \ + "Installing raw database failed." + fi + if use emboss; then + insinto /usr/share/EMBOSS/data/PRINTS + doins PRINTS/* || die "Installing EMBOSS data files failed." + fi + dodoc README || die "Documentation installation failed." +} diff --git a/sci-biology/prosite/ChangeLog b/sci-biology/prosite/ChangeLog index 338b77a5c720..4528735c4bcb 100644 --- a/sci-biology/prosite/ChangeLog +++ b/sci-biology/prosite/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/prosite # Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/prosite/ChangeLog,v 1.50 2005/10/04 00:13:13 ribosome Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/prosite/ChangeLog,v 1.51 2005/10/18 13:47:17 ribosome Exp $ + +*prosite-19.12 (18 Oct 2005) + + 18 Oct 2005; Olivier Fisette <ribosome@gentoo.org> +prosite-19.12.ebuild: + New version. 04 Oct 2005; Olivier Fisette <ribosome@gentoo.org> -prosite-19.6.ebuild: Removed obsolete version. diff --git a/sci-biology/prosite/Manifest b/sci-biology/prosite/Manifest index a5b67c92f222..0cfd43e2c5dd 100644 --- a/sci-biology/prosite/Manifest +++ b/sci-biology/prosite/Manifest @@ -2,5 +2,7 @@ MD5 324f25c7e64f0b16c397bc5b21a5991a prosite-19.11.ebuild 1091 MD5 9431707b2855909119752ded034ad2db prosite-19.10.ebuild 1087 MD5 dbf9a685dbd73e0a855ef92d95b0e341 ChangeLog 8735 MD5 81b73af5f2f4778bea2dde0b55620129 metadata.xml 810 +MD5 544f63ac9402fd6cf8dc380edf55405c prosite-19.12.ebuild 1246 MD5 10437130b20baaac5ed4b4f6d3b4c8b6 files/digest-prosite-19.10 67 MD5 76de17f75bb2711010384038f2f0a2bc files/digest-prosite-19.11 67 +MD5 f910141ce9f0c61b5b84c488164a8751 files/digest-prosite-19.12 67 diff --git a/sci-biology/prosite/files/digest-prosite-19.12 b/sci-biology/prosite/files/digest-prosite-19.12 new file mode 100644 index 000000000000..84d0616b21d3 --- /dev/null +++ b/sci-biology/prosite/files/digest-prosite-19.12 @@ -0,0 +1 @@ +MD5 ef2c12d1b2a8798735760083d6bef35b prosite-19.12.tar.bz2 3709028 diff --git a/sci-biology/prosite/prosite-19.12.ebuild b/sci-biology/prosite/prosite-19.12.ebuild new file mode 100644 index 000000000000..93a4a17413b2 --- /dev/null +++ b/sci-biology/prosite/prosite-19.12.ebuild @@ -0,0 +1,40 @@ +# Copyright 1999-2005 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/prosite/prosite-19.12.ebuild,v 1.1 2005/10/18 13:47:17 ribosome Exp $ + +DESCRIPTION="A protein families and domains database" +LICENSE="swiss-prot" +HOMEPAGE="http://ca.expasy.org/prosite" +SRC_URI="mirror://gentoo/${P}.tar.bz2" + +SLOT="0" +# Minimal build keeps only the indexed files (if applicable) and the +# documentation. The non-indexed database is not installed. +IUSE="emboss minimal" +KEYWORDS="~amd64 ~ppc ~ppc-macos ~ppc64 ~x86" + +DEPEND="emboss? ( >=sci-biology/emboss-3.0.0 )" + +src_compile() { + if use emboss; then + mkdir PROSITE + echo + einfo "Indexing PROSITE for usage with EMBOSS." + EMBOSS_DATA="." prosextract -auto -prositedir "${S}" || die \ + "Indexing PROSITE failed." + echo + fi +} + +src_install() { + if ! use minimal; then + insinto /usr/share/${PN} + doins ${PN}.{doc,dat,lis} || die "Installing raw database failed." + fi + dodoc *.txt || die "Documentation installation failed." + dohtml *.htm || die "HTML documentation installation failed." + if use emboss; then + insinto /usr/share/EMBOSS/data/PROSITE + doins PROSITE/* || die "Installing EMBOSS data files failed." + fi +} |