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academic/hyphy/: update for version 2.5.31

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Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
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Petar Petrov 2021-05-18 16:25:15 +03:00 committed by Willy Sudiarto Raharjo
parent 91059909c5
commit f242439635
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GPG key ID: 3F617144D7238786
2 changed files with 18 additions and 15 deletions
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27
academic/hyphy/hyphy.SlackBuild
View file

@ -2,7 +2,7 @@
# Slackware build script for hyphy
# Copyright 2017-2018 Petar Petrov slackalaxy@gmail.com
# Copyright 2017-2021 Petar Petrov slackalaxy@gmail.com
# All rights reserved.
#
# Redistribution and use of this script, with or without modification, is
@ -23,7 +23,7 @@
# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
PRGNAM=hyphy
VERSION=${VERSION:-2.3.14}
VERSION=${VERSION:-2.5.31}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}
@ -71,11 +71,18 @@ find -L . \
# Fix the libraries path on 64 systems and use our compiler flags
sed -i "s:lib/hyphy:lib${LIBDIRSUFFIX}/hyphy:g" CMakeLists.txt
sed -i "s:-msse3:$SLKCFLAGS:g" CMakeLists.txt
sed -i "s:-march=corei7-avx -mtune=corei7-avx:$SLKCFLAGS:g" CMakeLists.txt
sed -i "s:-mno-avx:$SLKCFLAGS:g" CMakeLists.txt
sed -i "s:-mno-sse3:$SLKCFLAGS:g" CMakeLists.txt
sed -i "s:-fsigned-char -O3:$SLKCFLAGS:g" CMakeLists.txt
# Use our flags
sed -i "s:-fsigned-char -O3:$SLKCFLAGS -fsigned-char:g" CMakeLists.txt
# Use _only_ our flags. You may wish to comment out the lines below to
# enable flags automatically set for you architecture.
sed -i "s:-march=native -mtune=native -mavx::g" CMakeLists.txt
sed -i "s:-mavx::g" CMakeLists.txt
sed -i "s:-mfma::g" CMakeLists.txt
sed -i "s:-msse3::g" CMakeLists.txt
sed -i "s:-mno-avx::g" CMakeLists.txt
sed -i "s:-mno-sse3::g" CMakeLists.txt
mkdir -p build
cd build
@ -93,12 +100,8 @@ cd ..
find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \
| cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true
# Include a few examples
mkdir -p $PKG/usr/share/$PRGNAM
cp -a Examples $PKG/usr/share/$PRGNAM
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
cp -a help/*.pdf LICENSE README.md $PKG/usr/doc/$PRGNAM-$VERSION
cp -a LICENSE README.md CONTRIBUTING.md $PKG/usr/doc/$PRGNAM-$VERSION
cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References

6
academic/hyphy/hyphy.info
View file

@ -1,8 +1,8 @@
PRGNAM="hyphy"
VERSION="2.3.14"
VERSION="2.5.31"
HOMEPAGE="https://veg.github.io/hyphy-site/"
DOWNLOAD="https://github.com/veg/hyphy/archive/2.3.14/hyphy-2.3.14.tar.gz"
MD5SUM="d82809929d213e236078ed4853ea3962"
DOWNLOAD="https://github.com/veg/hyphy/archive/2.5.31/hyphy-2.5.31.tar.gz"
MD5SUM="f4d6e48aa47b657810e29dacf183860b"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES="openmpi"