From 185fd00cd2c760239029f2d35f6f02e4dc57ec58 Mon Sep 17 00:00:00 2001 From: Olivier Fisette Date: Thu, 23 Dec 2004 18:42:37 +0000 Subject: [PATCH] Moving to sci-biology/hmmer --- app-sci/hmmer/ChangeLog | 33 --------------- app-sci/hmmer/Manifest | 5 --- app-sci/hmmer/files/Makefile-hmmer-2.2g.patch | 33 --------------- app-sci/hmmer/files/digest-hmmer-2.3.2 | 1 - app-sci/hmmer/hmmer-2.3.2.ebuild | 41 ------------------- app-sci/hmmer/metadata.xml | 6 --- 6 files changed, 119 deletions(-) delete mode 100644 app-sci/hmmer/ChangeLog delete mode 100644 app-sci/hmmer/Manifest delete mode 100644 app-sci/hmmer/files/Makefile-hmmer-2.2g.patch delete mode 100644 app-sci/hmmer/files/digest-hmmer-2.3.2 delete mode 100644 app-sci/hmmer/hmmer-2.3.2.ebuild delete mode 100644 app-sci/hmmer/metadata.xml diff --git a/app-sci/hmmer/ChangeLog b/app-sci/hmmer/ChangeLog deleted file mode 100644 index 6f0396940559..000000000000 --- a/app-sci/hmmer/ChangeLog +++ /dev/null @@ -1,33 +0,0 @@ -# ChangeLog for app-sci/hmmer -# Copyright 2000-2004 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/app-sci/hmmer/ChangeLog,v 1.8 2004/11/01 01:53:06 ribosome Exp $ - - 31 Oct 2004; Olivier Fisette -hmmer-2.3.1.ebuild, - hmmer-2.3.2.ebuild: - Added 2.3.2 to x86. Removed old version. - - 17 Oct 2004; David Holm hmmer-2.3.2.ebuild: - Added to ~ppc. - - 14 Oct 2004; Hasan Khalil hmmer-2.3.2.ebuild: - Keyworded ~ppc-macos. - -*hmmer-2.3.2 (29 Sep 2004) - - 29 Sep 2004; Olivier Fisette -hmmer-2.2g.ebuild, - +hmmer-2.3.2.ebuild: - New version 2.3.2. Removed old version. - - 18 Nov 2003; Stephen Diener hmmer-2.3.1.ebuild: - ~x86 -> x86 - -*hmmer-2.3.1 (28 Aug 2003) - - 28 Aug 2003; hmmer-2.3.1.ebuild: - Version bump - -*hmmer-2.2g (07 May 2003) - - 07 May 2003; Jon Portnoy hmmer-2.2g.ebuild : - Initial import. Ebuild submitted by Steve Diener and Gontran Zepeda - in bug #20449. diff --git a/app-sci/hmmer/Manifest b/app-sci/hmmer/Manifest deleted file mode 100644 index cf277751a5e8..000000000000 --- a/app-sci/hmmer/Manifest +++ /dev/null @@ -1,5 +0,0 @@ -MD5 ed03b6e6648bd60f1149620f07ae50a9 hmmer-2.3.2.ebuild 914 -MD5 a9bf71231ee1afc22643abab488afea6 ChangeLog 1053 -MD5 e8b4df3df76800c376905734d8043cfa metadata.xml 216 -MD5 9fbc129db1a886510ff026fd89e131f1 files/Makefile-hmmer-2.2g.patch 1040 -MD5 355efcc8eaed16353cd1ed41c2d63b4e files/digest-hmmer-2.3.2 64 diff --git a/app-sci/hmmer/files/Makefile-hmmer-2.2g.patch b/app-sci/hmmer/files/Makefile-hmmer-2.2g.patch deleted file mode 100644 index fe9c8fdbcbfa..000000000000 --- a/app-sci/hmmer/files/Makefile-hmmer-2.2g.patch +++ /dev/null @@ -1,33 +0,0 @@ ---- Makefile.in.orig 2003-05-05 15:21:41.000000000 +0100 -+++ Makefile.in 2003-05-05 15:22:11.000000000 +0100 -@@ -84,6 +84,12 @@ - sindex\ - shuffle\ - sreformat -+SQUIDMANS = afetch\ -+ alistat\ -+ seqstat\ -+ sfetch\ -+ shuffle\ -+ sreformat - - # all: Compile everything (except the testsuite), - # and stick the supported programs in binaries/ -@@ -146,13 +152,14 @@ - for file in $(PROGS) $(SQUIDPROGS) $(PVMPROGS); do\ - cp binaries/$$file $(BINDIR)/;\ - done -- for file in hmmer $(PROGS) $(SQUIDPROGS); do\ -+ for file in hmmer $(PROGS); do\ - $(INSTMAN) documentation/man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ -+ chmod 0644 $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ - done -- for file in $(SQUIDPROGS); do\ -+ for file in $(SQUIDMANS); do\ - $(INSTMAN) squid/Man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ -+ chmod 0644 $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ - done -- - # "make clean" removes almost everything except configuration files - # and binaries. - clean: diff --git a/app-sci/hmmer/files/digest-hmmer-2.3.2 b/app-sci/hmmer/files/digest-hmmer-2.3.2 deleted file mode 100644 index a923f14534a4..000000000000 --- a/app-sci/hmmer/files/digest-hmmer-2.3.2 +++ /dev/null @@ -1 +0,0 @@ -MD5 5f073340c0cf761288f961a73821228a hmmer-2.3.2.tar.gz 1024933 diff --git a/app-sci/hmmer/hmmer-2.3.2.ebuild b/app-sci/hmmer/hmmer-2.3.2.ebuild deleted file mode 100644 index cfc4639c1e9f..000000000000 --- a/app-sci/hmmer/hmmer-2.3.2.ebuild +++ /dev/null @@ -1,41 +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/hmmer/hmmer-2.3.2.ebuild,v 1.4 2004/11/01 01:53:06 ribosome Exp $ - -DESCRIPTION="HMMER - Biological sequence analysis with profile HMMs" -HOMEPAGE="http://hmmer.wustl.edu/" -SRC_URI="ftp://ftp.genetics.wustl.edu/pub/eddy/${PN}/${PV}/${P}.tar.gz" -LICENSE="GPL-2" - -SLOT="0" -KEYWORDS="x86 ~ppc-macos ~ppc" -IUSE="" - -src_compile() { - ./configure \ - --host=${CHOST} \ - --prefix=${D}/usr \ - --exec_prefix=${D}/usr \ - --mandir=${D}/usr/share/man || die - -# econf || die - emake || die -} - -src_install() { - einstall || die - - dodoc 00README NOTES - - insinto /usr/share/doc/${PF} - doins Userguide.pdf - - cd squid - - dobin afetch alistat compalign compstruct revcomp seqstat seqsplit sfetch shuffle sreformat sindex weight translate - dolib libsquid.a -} - -src_test() { - make check -} diff --git a/app-sci/hmmer/metadata.xml b/app-sci/hmmer/metadata.xml deleted file mode 100644 index 8a4bcd47220d..000000000000 --- a/app-sci/hmmer/metadata.xml +++ /dev/null @@ -1,6 +0,0 @@ - - - -sci -sediener@gentoo.org - -- 2.26.2