summaryrefslogtreecommitdiff
diff options
context:
space:
mode:
authorMatt Turner <mattst88@gentoo.org>2019-08-09 21:03:21 -0700
committerMatt Turner <mattst88@gentoo.org>2019-08-09 21:05:35 -0700
commita3ffd565b7bbfa3491aa1c554fa15c10ad23265d (patch)
treed45378a6114811777bac4f88cfa4fdb5f54c2121 /sci-chemistry
parentsci-chemistry/coot: Remove (diff)
downloadgentoo-a3ffd565b7bbfa3491aa1c554fa15c10ad23265d.tar.gz
gentoo-a3ffd565b7bbfa3491aa1c554fa15c10ad23265d.tar.bz2
gentoo-a3ffd565b7bbfa3491aa1c554fa15c10ad23265d.zip
sci-chemistry/reduce: Remove
Closes: https://bugs.gentoo.org/639760 Signed-off-by: Matt Turner <mattst88@gentoo.org>
Diffstat (limited to 'sci-chemistry')
-rw-r--r--sci-chemistry/reduce/Manifest1
-rw-r--r--sci-chemistry/reduce/files/3.13.080428-LDFLAGS.patch11
-rw-r--r--sci-chemistry/reduce/files/3.14.080821-CFLAGS.patch22
-rw-r--r--sci-chemistry/reduce/files/reduce-3.16.111118-fix-c++14.patch14
-rw-r--r--sci-chemistry/reduce/metadata.xml8
-rw-r--r--sci-chemistry/reduce/reduce-3.16.111118.ebuild49
6 files changed, 0 insertions, 105 deletions
diff --git a/sci-chemistry/reduce/Manifest b/sci-chemistry/reduce/Manifest
deleted file mode 100644
index 6f59e8193a47..000000000000
--- a/sci-chemistry/reduce/Manifest
+++ /dev/null
@@ -1 +0,0 @@
-DIST reduce.3.16.111118.src.zip 20342632 BLAKE2B 8c00e4ca881680404777cb788a0f6b4a5a0683ee33492c0050e503ce765d68117159bafded0f04c76f35ebd2f69fafbe471ff9798bea722be6d1585d128dae61 SHA512 f7b4d8d91f1f57e9e96c91139fa919c570aebd07f3a440faf3df54bf5deb3a05ad998996a24b5fe9aff6280e00329c9914e338cbfe802c047c055f52ce8312a9
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
-}