commit: 3a0fce6ce8953047488158bc0f5655875cdd3419
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 14:57:35 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 14:57:35 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3a0fce6c
sci-biology/cd-hit-auxtools: remove pack, upstream gone
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
profiles/package.mask | 1 -
.../cd-hit-auxtools/cd-hit-auxtools-0.5.ebuild | 43 --------------------
sci-biology/cd-hit-auxtools/files/0.5-gentoo.patch | 47 ----------------------
sci-biology/cd-hit-auxtools/metadata.xml | 12 ------
4 files changed, 103 deletions(-)
diff --git a/profiles/package.mask b/profiles/package.mask
index b30e95d7a..bfd691718 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -44,4 +44,3 @@ sci-biology/bambino
sci-biology/BBmap
sci-biology/beagle
sci-biology/blue
-sci-biology/cd-hit-auxtools
diff --git a/sci-biology/cd-hit-auxtools/cd-hit-auxtools-0.5.ebuild
b/sci-biology/cd-hit-auxtools/cd-hit-auxtools-0.5.ebuild
deleted file mode 100644
index 3c3de8097..000000000
--- a/sci-biology/cd-hit-auxtools/cd-hit-auxtools-0.5.ebuild
+++ /dev/null
@@ -1,43 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit eutils flag-o-matic toolchain-funcs
-
-RELDATE="2012-03-07"
-RELEASE="${PN}-v${PV}-${RELDATE}"
-
-DESCRIPTION="Additional cd-hit itools: read-linker, cd-hit-lap and cd-hit-dup"
-HOMEPAGE="http://weizhong-lab.ucsd.edu/cd-hit/";
-SRC_URI="
- http://cdhit.googlecode.com/files/${RELEASE}.tgz
-
http://weizhong-lab.ucsd.edu/cd-hit/wiki/doku.php?id=cd-hit-auxtools-manual ->
cd-hit-auxtools-manual.html"
-
-SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-LICENSE="GPL-2"
-IUSE="doc openmp"
-
-S="${WORKDIR}"/${RELEASE}
-
-pkg_setup() {
- use openmp && ! tc-has-openmp && die "Please switch to an openmp
compatible compiler"
-}
-
-src_prepare() {
- tc-export CXX
- use openmp || append-flags -DNO_OPENMP
- epatch "${FILESDIR}"/${PV}-gentoo.patch
-}
-
-src_compile() {
- local myconf=
- use openmp && myconf="openmp=yes"
- emake ${myconf}
-}
-
-src_install() {
- dobin read-linker cd-hit-lap cd-hit-dup
- use doc && dodoc "${DISTDIR}"/cd-hit-auxtools-manual.html
-}
diff --git a/sci-biology/cd-hit-auxtools/files/0.5-gentoo.patch
b/sci-biology/cd-hit-auxtools/files/0.5-gentoo.patch
deleted file mode 100644
index 3977cbee3..000000000
--- a/sci-biology/cd-hit-auxtools/files/0.5-gentoo.patch
+++ /dev/null
@@ -1,47 +0,0 @@
---- Makefile.ori 2014-06-01 20:25:53.000000000 +0200
-+++ Makefile 2014-06-01 20:27:15.000000000 +0200
-@@ -1,8 +1,8 @@
-
--CC = g++
-+CXX = g++
-
--CFLAGS = -Wall -Wno-unused -I. -Imintlib
--LFLAGS = -fPIC
-+CXXFLAGS = -I. -Imintlib
-+LDFLAGS = -fPIC
-
-
- UNAME = $(shell uname)
-@@ -16,9 +16,9 @@
- endif
-
- ifeq ($(debug),yes)
--CFLAGS += -ggdb
-+CiXXFLAGS +=
- else
--CFLAGS += -O2
-+CXXFLAGS +=
- endif
-
-
-@@ -32,16 +32,16 @@
- .SUFFIXES: .c .obj .cpp .cc .cxx .C
-
- .cxx.o:
-- $(CC) -c $(CFLAGS) -o $@ $<
-+ $(CXX) -c $(CXXFLAGS) -o $@ $<
-
- cd-hit-dup: $(OBJECTS) cdhit-dup.o
-- $(CC) $(LFLAGS) $(OBJECTS) cdhit-dup.o -o cd-hit-dup
-+ $(CXX) $(LDFLAGS) $(OBJECTS) cdhit-dup.o -o cd-hit-dup
-
- cd-hit-lap: $(OBJECTS) cdhit-lap.o
-- $(CC) $(LFLAGS) $(OBJECTS) cdhit-lap.o -o cd-hit-lap
-+ $(CXX) $(LDFLAGS) $(OBJECTS) cdhit-lap.o -o cd-hit-lap
-
- read-linker: $(OBJECTS) read-linker.o
-- $(CC) $(LFLAGS) $(OBJECTS) read-linker.o -o read-linker
-+ $(CXX) $(LDFLAGS) $(OBJECTS) read-linker.o -o read-linker
-
- clean:
- rm $(OBJECTS) cdhit-dup.o cdhit-lap.o read-linker.o
diff --git a/sci-biology/cd-hit-auxtools/metadata.xml
b/sci-biology/cd-hit-auxtools/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/cd-hit-auxtools/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";>
-<pkgmetadata>
- <maintainer type="person">
- <email>[email protected]</email>
- <name>Martin Mokrejs</name>
- </maintainer>
- <maintainer type="project">
- <email>[email protected]</email>
- <name>Gentoo Biology Project</name>
- </maintainer>
-</pkgmetadata>
