[gentoo-commits] proj/sci:master commit in: profiles/, sci-biology/ePCR/, sci-biology/ePCR/files/

[gentoo-commits] proj/sci:master commit in: profiles/, sci-biology/ePCR/, sci-biology/ePCR/files/

[Andrew Ammerlaan]

commit:     d652cfed793983d85a41dc9314f8ecbd11579b07
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 14:14:22 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 14:14:22 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=d652cfed

sci-biology/ePCR: remove pack, upstream says use PrimerBLAST instead

Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>

 profiles/package.mask                  |  1 -
 sci-biology/ePCR/ePCR-2.3.12.ebuild    | 33 ---------------------------------
 sci-biology/ePCR/files/config.mk.patch | 18 ------------------
 sci-biology/ePCR/metadata.xml          | 12 ------------
 4 files changed, 64 deletions(-)

diff --git a/profiles/package.mask b/profiles/package.mask
index 37fdc49bb..01dfb9327 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -55,4 +55,3 @@ sci-biology/cross_genome
 sci-biology/dawg
 sci-biology/EBARDenovo
 sci-biology/ensembl-tools
-sci-biology/ePCR

diff --git a/sci-biology/ePCR/ePCR-2.3.12.ebuild b/sci-biology/ePCR/ePCR-2.3.12.ebuild
deleted file mode 100644
index ce500a659..000000000
--- a/sci-biology/ePCR/ePCR-2.3.12.ebuild
+++ /dev/null
@@ -1,33 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit eutils
-
-DESCRIPTION="Search for sub-sequences matching PCR primers"
-HOMEPAGE="https://www.ncbi.nlm.nih.gov/tools/epcr/"
-SRC_URI="ftp://ftp.ncbi.nlm.nih.gov/pub/schuler/e-PCR/e-PCR-"${PV}"-src.tar.gz"
-
-LICENSE="public-domain"
-SLOT="0"
-KEYWORDS=""
-IUSE=""
-
-DEPEND=""
-RDEPEND="${DEPEND}"
-
-S=${WORKDIR}"/e-PCR-"${PV}
-
-src_prepare(){
-	epatch "${FILESDIR}"/config.mk.patch
-}
-
-src_compile(){
-	emake -j1 srcdir="${S}" objdir="${S}"
-}
-
-src_install(){
-	dobin e-PCR famap fahash re-PCR
-	dodoc README.TXT
-}

diff --git a/sci-biology/ePCR/files/config.mk.patch b/sci-biology/ePCR/files/config.mk.patch
deleted file mode 100644
index 1960b43f7..000000000
--- a/sci-biology/ePCR/files/config.mk.patch
+++ /dev/null
@@ -1,18 +0,0 @@
---- stand/config.mk.ori	2012-01-16 17:38:11.000000000 +0100
-+++ stand/config.mk	2012-01-16 17:39:12.000000000 +0100
-@@ -52,11 +52,11 @@
- 
- #########################################################################
- # GNU compiler flags
--CC = gcc
--CXX = g++
--CXXFLAGS = -I$(srcdir) -I$(INCDIR) $(CC_FLAGS) $(PART_CXXFLAGS) \
-+#CC = gcc
-+#CXX = g++
-+CXXFLAGS = -I$(srcdir) -I$(INCDIR) -I`pwd` \
- 	-DDEALLOCATE=0 $(LF64CCFLAGS) $(VERSION_FLAGS) -DSTANDALONE=1
--LDFLAGS = $(LD_FLAGS) $(LF64LDFLAGS) -L$(tgtdir) -L$(LIBDIR) $(PART_LDFLAGS) 
-+LDFLAGS = $(LF64LDFLAGS) -L$(tgtdir) -L$(LIBDIR) 
- #	$(PART_PRELIBS) $(LIBS:%=-l%) $(PART_POSTLIBS)
- 
- LF64CCFLAGS = `getconf LFS_CFLAGS` 

diff --git a/sci-biology/ePCR/metadata.xml b/sci-biology/ePCR/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/ePCR/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>mmokrejs@fold.natur.cuni.cz</email>
-		<name>Martin Mokrejs</name>
-	</maintainer>
-	<maintainer type="project">
-		<email>sci-biology@gentoo.org</email>
-		<name>Gentoo Biology Project</name>
-	</maintainer>
-</pkgmetadata>