diff options
| -rw-r--r-- | sci-biology/emboss/Manifest | 24 | ||||
| -rw-r--r-- | sci-biology/emboss/emboss-3.0.0-r1.ebuild | 81 | ||||
| -rw-r--r-- | sci-biology/emboss/files/digest-emboss-3.0.0-r1 | 3 |
3 files changed, 8 insertions, 100 deletions
diff --git a/sci-biology/emboss/Manifest b/sci-biology/emboss/Manifest index e6337d2ff91d..264f97ac4eae 100644 --- a/sci-biology/emboss/Manifest +++ b/sci-biology/emboss/Manifest @@ -6,27 +6,19 @@ AUX README.Gentoo 1326 RMD160 bfaa4d7d1218d3bd4ea58d54d000da7f58b6bca6 SHA1 8cf1 MD5 615888722f8d6a0c918f936e0cc1cfcd files/README.Gentoo 1326 RMD160 bfaa4d7d1218d3bd4ea58d54d000da7f58b6bca6 files/README.Gentoo 1326 SHA256 33b517b977cc85824847bd6cf4113489a5554fb014f1a6b1d22d6f80c3487e9f files/README.Gentoo 1326 -DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231 -EBUILD emboss-3.0.0-r1.ebuild 2956 RMD160 eaef19d1dda88d7c0843b176fd39937d6b149dac SHA1 c095793682f8e60ab8acea6b421a6913e77542d2 SHA256 2c4c75fba37c145dc6b0ffbc76e0fe9d75670c8b88ab31b5e757780550ed5a83 -MD5 9ec2af538dd9f88c227529490cc7d07f emboss-3.0.0-r1.ebuild 2956 -RMD160 eaef19d1dda88d7c0843b176fd39937d6b149dac emboss-3.0.0-r1.ebuild 2956 -SHA256 2c4c75fba37c145dc6b0ffbc76e0fe9d75670c8b88ab31b5e757780550ed5a83 emboss-3.0.0-r1.ebuild 2956 -EBUILD emboss-4.0.0.ebuild 3046 RMD160 580d0a1580dd3d964f23ee83d189b73e561cdf93 SHA1 d3a1634ff8aed1dba66ce4157562736a23e76212 SHA256 1446c7afa33abc80842cf45381d3015716671dc9baf9b42fd91d07aa061e8b0e -MD5 ee670b83790c622f50c9483a5f4a3017 emboss-4.0.0.ebuild 3046 -RMD160 580d0a1580dd3d964f23ee83d189b73e561cdf93 emboss-4.0.0.ebuild 3046 -SHA256 1446c7afa33abc80842cf45381d3015716671dc9baf9b42fd91d07aa061e8b0e emboss-4.0.0.ebuild 3046 -MISC ChangeLog 7285 RMD160 128ef44e190d3cd84d210013d2409af53001696f SHA1 5abf661a71fadc0ef56eb7d54d29d9cc3794a852 SHA256 a1b66f182f827980bca943c6ad35f280d9487003d09b031582948e60b640cc15 -MD5 e2e5b98539b696ec7a0c33204b573d33 ChangeLog 7285 -RMD160 128ef44e190d3cd84d210013d2409af53001696f ChangeLog 7285 -SHA256 a1b66f182f827980bca943c6ad35f280d9487003d09b031582948e60b640cc15 ChangeLog 7285 +EBUILD emboss-4.0.0.ebuild 3038 RMD160 0d4477134db67b8ed9edf180d81a8ad545643e5b SHA1 4eae18942dad62860e692dae9b8fb0d6869b2229 SHA256 cc610e2b746878e9452b2293bade9739b26cb6bceb50336671c059c3ba623aa2 +MD5 8ba3872c6752008ee96188053b2d7a49 emboss-4.0.0.ebuild 3038 +RMD160 0d4477134db67b8ed9edf180d81a8ad545643e5b emboss-4.0.0.ebuild 3038 +SHA256 cc610e2b746878e9452b2293bade9739b26cb6bceb50336671c059c3ba623aa2 emboss-4.0.0.ebuild 3038 +MISC ChangeLog 7522 RMD160 9918a042adf79e1b0f4fd9d329971542e18a3bc7 SHA1 51f606216c110d8bcf1ba4f93e7b56610e397144 SHA256 22c025294fb2fed7801a4b0a599fbc027e5d739b3d496f509ab23ce8aa4533c5 +MD5 eee5be80ffd518e7dcf83734ba929260 ChangeLog 7522 +RMD160 9918a042adf79e1b0f4fd9d329971542e18a3bc7 ChangeLog 7522 +SHA256 22c025294fb2fed7801a4b0a599fbc027e5d739b3d496f509ab23ce8aa4533c5 ChangeLog 7522 MISC metadata.xml 1021 RMD160 ee767f436af5f815ecb9526df9063438dab8eb14 SHA1 eff46db435f88e0b457ce2a38e5ff786ae6324e1 SHA256 0c5af548d0483d41a3344695cb04acaf0974fb56b70bc1e2ec0a9749ecbc45a0 MD5 ecba11e4d50ee5cc740817f5becffa83 metadata.xml 1021 RMD160 ee767f436af5f815ecb9526df9063438dab8eb14 metadata.xml 1021 SHA256 0c5af548d0483d41a3344695cb04acaf0974fb56b70bc1e2ec0a9749ecbc45a0 metadata.xml 1021 -MD5 ad3e7f9b714ce612677b632c7728f9b9 files/digest-emboss-3.0.0-r1 244 -RMD160 9fa235c91cc4e4a753ad4c7c3fe48c25cd01e43f files/digest-emboss-3.0.0-r1 244 -SHA256 011c076207998316f797d151591daa9ae4afb9494ce7c4d53c6738db025ed35b files/digest-emboss-3.0.0-r1 244 MD5 868d3a498e023c8ac4cd1ae2504bc8b0 files/digest-emboss-4.0.0 244 RMD160 9ceca3f11bf27999c9a49c4ae6a438ef8640762f files/digest-emboss-4.0.0 244 SHA256 4c40525329b260ca9b0ee00d4275b85fd29fc0ea18c51d58dac8534dd19b8179 files/digest-emboss-4.0.0 244 diff --git a/sci-biology/emboss/emboss-3.0.0-r1.ebuild b/sci-biology/emboss/emboss-3.0.0-r1.ebuild deleted file mode 100644 index d3b05263775d..000000000000 --- a/sci-biology/emboss/emboss-3.0.0-r1.ebuild +++ /dev/null @@ -1,81 +0,0 @@ -# Copyright 1999-2006 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/emboss/emboss-3.0.0-r1.ebuild,v 1.8 2006/11/03 08:40:49 je_fro Exp $ - -DESCRIPTION="The European Molecular Biology Open Software Suite - A sequence analysis package" -HOMEPAGE="http://emboss.sourceforge.net/" -SRC_URI="ftp://${PN}.open-bio.org/pub/EMBOSS/EMBOSS-${PV}.tar.gz" -LICENSE="GPL-2 LGPL-2" - -SLOT="0" -KEYWORDS="amd64 ppc ppc-macos ppc64 ~sparc x86" -IUSE="X png minimal" - -DEPEND="X? ( || ( x11-libs/libXt virtual/x11 ) ) - png? ( - sys-libs/zlib - media-libs/libpng - >=media-libs/gd-1.8 - ) - !minimal? ( - sci-biology/primer3 - sci-biology/clustalw - ) - !<dev-util/pscan-20000721-r1" - -PDEPEND="!minimal? ( - sci-biology/aaindex - sci-biology/cutg - sci-biology/prints - >=sci-biology/prosite-19.7 - >=sci-biology/rebase-601-r1 - sci-biology/transfac - )" - -S=${WORKDIR}/EMBOSS-${PV} - -src_compile() { - EXTRA_CONF="--includedir=${D}/usr/include/emboss" - ! use X && EXTRA_CONF="${EXTRA_CONF} --without-x" - ! use png && EXTRA_CONF="${EXTRA_CONF} --without-pngdriver" - - econf ${EXTRA_CONF} || die - # Do not install the JEMBOSS component (the --without-java configure option - # does not work). JEMBOSS will be available as a separate package. - sed -i -e 's/SUBDIRS = plplot ajax nucleus emboss test doc jemboss/SUBDIRS = plplot ajax nucleus emboss test doc/' Makefile || die - emake || die -} - -src_install() { - einstall || die "Failed to install program files." - dodoc AUTHORS ChangeLog FAQ NEWS README THANKS "${FILESDIR}"/README.Gentoo \ - || die "Failed to install documentation." - - # Install env file for setting libplplot and acd files path. - insinto /etc/env.d - newins ${FILESDIR}/22emboss-r1 22emboss || \ - die "Failed to install environment file." - - # Symlink preinstalled docs to /usr/share/doc. - dosym /usr/share/EMBOSS/doc/manuals /usr/share/doc/${PF}/manuals || die - dosym /usr/share/EMBOSS/doc/programs /usr/share/doc/${PF}/programs || die - dosym /usr/share/EMBOSS/doc/tutorials /usr/share/doc/${PF}/tutorials || die - - # Remove useless dummy files from the image. - rm "${D}"/usr/share/EMBOSS/data/{AAINDEX,PRINTS,PROSITE,REBASE}/dummyfile \ - || die "Failed to remove dummy files." - - # Move the provided codon files to a different directory. This will avoid - # user confusion and file collisions on case-insensitive file systems (see - # bug #115446). This change is documented in "README.Gentoo". - mv "${D}"/usr/share/EMBOSS/data/CODONS \ - "${D}"/usr/share/EMBOSS/data/CODONS.orig || \ - die "Failed to move CODON directory." - - # Move the provided restriction enzyme prototypes file to a different name. - # This will avoid file collisions with future versions of rebase that will - # install their own enzyme prototypes file (see bug #118832). - mv "${D}"/usr/share/EMBOSS/data/embossre.equ \ - "${D}"/usr/share/EMBOSS/data/embossre.equ.orig || \ - die "Failed to move enzyme equivalence file." -} diff --git a/sci-biology/emboss/files/digest-emboss-3.0.0-r1 b/sci-biology/emboss/files/digest-emboss-3.0.0-r1 deleted file mode 100644 index 286e8dad1075..000000000000 --- a/sci-biology/emboss/files/digest-emboss-3.0.0-r1 +++ /dev/null @@ -1,3 +0,0 @@ -MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908 -RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908 -SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908 |