gentoo resync : 18.08.2019

6 files changed, 0 insertions, 110 deletions

diff --git a/sci-chemistry/reduce/Manifest b/sci-chemistry/reduce/Manifest
deleted file mode 100644
index 411c0992e7a1..000000000000
--- a/sci-chemistry/reduce/Manifest
+++ /dev/null
@@ -1,6 +0,0 @@
-AUX 3.13.080428-LDFLAGS.patch 230 BLAKE2B 7741ea4ed815ec490f6ad17760520984b03637cc14f910978a6e6bbb959b39cf9075459527e082673a0ca6e4ec9573d2f20e749b3c906de0d2cf0a8d046fd016 SHA512 f7b471998c1fa5bb5c4eba7fd3f0900469b3ce1d90399413a18b736e5d35d93875c2b1666afe307935c9e71c516a7bd2db7eee1fba9640d403a2401a4427a539
-AUX 3.14.080821-CFLAGS.patch 736 BLAKE2B b64f12827243d8e8055aaf4602a60d910ece7bb73893907f278deace5b612cd64ae44ed064ae537d09f43b31053fc4060b0b2ef997acf06670550b4b856373d6 SHA512 f435a889845065374753841a0ba5de64e5be0d73935bd145d2e69980671cb3620441e99ec68bedbd876f45a0d61f406dc1a98f1ed7affaf4c923105d7540530a
-AUX reduce-3.16.111118-fix-c++14.patch 565 BLAKE2B dc170d9f3ef4718bae108e83ece1faf3bf8ebe41dc2ff34827f7af54425944babaac54ad70fd6892eb63e5488a77f252b612f5ba674cb441734cd7c25d005739 SHA512 8b38d5cbcc76318bb1309185858000daf8cca15a466ce0d4174126c9a5caa50e79d8198d3e3ff3427aa4629d51d0e50773d96b7bce7d94e16cace4bb80f4eed0
-DIST reduce.3.16.111118.src.zip 20342632 BLAKE2B 8c00e4ca881680404777cb788a0f6b4a5a0683ee33492c0050e503ce765d68117159bafded0f04c76f35ebd2f69fafbe471ff9798bea722be6d1585d128dae61 SHA512 f7b4d8d91f1f57e9e96c91139fa919c570aebd07f3a440faf3df54bf5deb3a05ad998996a24b5fe9aff6280e00329c9914e338cbfe802c047c055f52ce8312a9
-EBUILD reduce-3.16.111118.ebuild 1149 BLAKE2B 801ec29606876173d8194a70367fc217ee3950476fa236a1fffd565d57b59c59cfa5bd21482b69a9b3bd2b4bcf608e0d4815f76529f9bcc696218cd0a678b626 SHA512 18b7e9573b1364de97bc7ed54a7ff4480cc79a80dd2a6b1de551d22ef3bc7c0011ac99cc5d5c98f0a434ae99905d982e6f481e14a5a9cf0f43fa82cc0a522a55
-MISC metadata.xml 265 BLAKE2B d5a98b9309829a0486c4b8a4336c2d24a0fe34e926d52afd0cc87e16fcc887ca4c18851e58afb33866823121fa8f221a90e0d726dbd85552a4caf66cf03b7b4a SHA512 470f6c178e88c4e83afa46d5e901a45fc2427a779ae832df7fa2d6e25e9e8b4ce77cd3a8fe191e6242d6df3b673f0de6b4f90f1e147aa8b8dd566f18163cc73a
diff --git a/sci-chemistry/reduce/files/3.13.080428-LDFLAGS.patch b/sci-chemistry/reduce/files/3.13.080428-LDFLAGS.patch
deleted file mode 100644
index a615be088b24..000000000000
--- a/sci-chemistry/reduce/files/3.13.080428-LDFLAGS.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- a/reduce_src/Makefile
-+++ b/reduce_src/Makefile
-@@ -34,7 +34,7 @@
- all:    reduce
- 
- reduce: $(OBJLIST)
--	$(CXX) -o $@ $(OBJLIST) $(LFLAGS)
-+	$(CXX) $(LDFLAGS) -o $@ $(OBJLIST) $(LFLAGS)
- 
- clean:
- 	@rm -rf *.o *.ckp ii_files
diff --git a/sci-chemistry/reduce/files/3.14.080821-CFLAGS.patch b/sci-chemistry/reduce/files/3.14.080821-CFLAGS.patch
deleted file mode 100644
index 8294c8ca385d..000000000000
--- a/sci-chemistry/reduce/files/3.14.080821-CFLAGS.patch
+++ /dev/null
@@ -1,22 +0,0 @@
-diff --git a/reduce_src/Makefile b/reduce_src/Makefile
-index 598e367..067ace4 100644
---- a/reduce_src/Makefile
-+++ b/reduce_src/Makefile
-@@ -12,7 +12,7 @@ PROG_FLGS   = -DAROMATICS_ACCEPT_HBONDS \
- #              -DDEBUGMOVABLENODE -DDEBUGDOTCOUNTS
- #              -DMINPREDEFINED -DMAXPREDEFINED\
- 
--CFLAGS = $(OPT) $(DEBUG) $(PROG_FLGS) $(DICT_LOC) $(DICT_LOCOLD)\
-+CXXFLAGS = $(OPT) $(DEBUG) $(PROG_FLGS) $(DICT_LOC) $(DICT_LOCOLD)\
-          -I$(PDBHOME) -I$(TOOLHOME) 
- #         -Wall
- 
-@@ -26,7 +26,7 @@ OBJLIST = GraphToHoldScores.o reduce.o CTab.o ElementInfo.o StdResH.o ResBlk.o A
- CXX		= g++
- 
- .cpp.o:
--	$(CXX) -c $*.cpp $(CFLAGS)
-+	$(CXX) -c $*.cpp $(CXXFLAGS)
- 
- OPT             = -O3
- DEBUG           = $(CXXDEBUGFLAGS)
diff --git a/sci-chemistry/reduce/files/reduce-3.16.111118-fix-c++14.patch b/sci-chemistry/reduce/files/reduce-3.16.111118-fix-c++14.patch
deleted file mode 100644
index 5a45b7cef49c..000000000000
--- a/sci-chemistry/reduce/files/reduce-3.16.111118-fix-c++14.patch
+++ /dev/null
@@ -1,14 +0,0 @@
-Fix building with C++14, which errors out due to an erroneous std::cerr.
-See also: https://bugs.gentoo.org/show_bug.cgi?id=594202
-
---- a/reduce_src/GraphToHoldScores.cpp
-+++ b/reduce_src/GraphToHoldScores.cpp
-@@ -1150,7 +1150,7 @@
- 		}
- 	}
- 	std::cerr << "CRITICAL ERROR IN whichVertex(" << vertex_index << ") called on edge [" <<
--	std::cerr << vertex_indices_[ 0 ] << ", " << vertex_indices_[ 1 ] << "]" << std::endl;
-+		vertex_indices_[ 0 ] << ", " << vertex_indices_[ 1 ] << "]" << std::endl;
- 	assert(false);
- 	exit(1);
-         return 0; // to avoid warnings
diff --git a/sci-chemistry/reduce/metadata.xml b/sci-chemistry/reduce/metadata.xml
deleted file mode 100644
index da36ecbfcd6a..000000000000
--- a/sci-chemistry/reduce/metadata.xml
+++ /dev/null
@@ -1,8 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-	<maintainer type="project">
-		<email>sci-chemistry@gentoo.org</email>
-		<name>Gentoo Chemistry Project</name>
-	</maintainer>
-</pkgmetadata>
diff --git a/sci-chemistry/reduce/reduce-3.16.111118.ebuild b/sci-chemistry/reduce/reduce-3.16.111118.ebuild
deleted file mode 100644
index ef1349e6adef..000000000000
--- a/sci-chemistry/reduce/reduce-3.16.111118.ebuild
+++ /dev/null
@@ -1,49 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit toolchain-funcs
-
-MY_P="${PN}.${PV}.src"
-
-DESCRIPTION="Adds hydrogens to a Protein Data Bank (PDB) molecule structure file"
-HOMEPAGE="http://kinemage.biochem.duke.edu/software/reduce.php"
-SRC_URI="http://kinemage.biochem.duke.edu/downloads/software/reduce31/${MY_P}.zip"
-
-LICENSE="richardson"
-SLOT="0"
-KEYWORDS="amd64 ppc x86 ~amd64-linux ~x86-linux"
-IUSE=""
-
-RDEPEND=""
-DEPEND="${RDEPEND}
-	app-arch/unzip"
-
-S="${WORKDIR}/"
-PATCHES=(
-	"${FILESDIR}"/3.13.080428-LDFLAGS.patch
-	"${FILESDIR}"/3.14.080821-CFLAGS.patch
-	"${FILESDIR}"/${PN}-3.16.111118-fix-c++14.patch
-)
-
-src_compile() {
-	DICT_DIR="/usr/share/reduce"
-	DICT_FOLD="reduce_het_dict.txt"
-	DICT_FNEW="reduce_wwPDB_het_dict.txt"
-
-	emake clean
-	emake \
-		CC="$(tc-getCC)" \
-		CXX="$(tc-getCXX)" \
-		OPT="${CXXFLAGS}" \
-		DICT_HOME="${EPREFIX}/${DICT_DIR}/${DICT_FNEW}" \
-		DICT_OLD="${EPREFIX}/${DICT_DIR}/${DICT_FOLD}"
-}
-
-src_install() {
-	dobin "${S}"/reduce_src/reduce
-	insinto ${DICT_DIR}
-	doins "${S}"/${DICT_FOLD} "${S}"/${DICT_FNEW}
-	dodoc README.usingReduce.txt
-}