Browse Source

ap/ncbi-blast: Added ncbi-blast-2.2.28.

slackware-14.2
Damien Goutte-Gattat 8 years ago
parent
commit
8599536838
  1. 1
      ap/ncbi-blast/ncbi-blast-2.2.28+-src.tar.gz.sha1
  2. 120
      ap/ncbi-blast/ncbi-blast.SlackBuild
  3. 12
      ap/ncbi-blast/slack-desc

1
ap/ncbi-blast/ncbi-blast-2.2.28+-src.tar.gz.sha1

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6941d2b83c410b2e2424266d8ee29ee7581c23d6 ncbi-blast-2.2.28+-src.tar.gz

120
ap/ncbi-blast/ncbi-blast.SlackBuild

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#!/bin/bash
# Build script for Slackware
# Copyright (C) 2013 Damien Goutte-Gattat
#
# Redistribution and use of this script, with or without modifications,
# is permitted provided that the following conditions are met:
#
# 1. Redistributions of this script must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# THIS SOFTWARE IS PROVIDED BY THE AUTHOR AS IS'' AND ANY EXPRESS OR
# IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
# DISCLAIMED. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT,
# INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT,
# STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING
# IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
# POSSIBILITY OF SUCH DAMAGE.
#
# Contact: Damien Goutte-Gattat <dgouttegattat@incenp.org>
#
# Latest ncbi-blast sourcecode is available at:
# <http://www.ncbi.nlm.nih.gov/>.
# Source package infos
NAMESRC=${NAMESRC:-ncbi-blast}
VERSION=${VERSION:-2.2.28}
ARCHIVE=${ARCHIVE:-$NAMESRC-$VERSION+-src.tar.gz}
WGET=${WGET:-ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/$VERSION/$ARCHIVE}
# Build infos
NAMEPKG=${NAMEPKG:-ncbi-blast}
BUILD=${BUILD:-1GGD}
ARCH=${ARCH:-$(uname -m | sed 's/^i.86$/i486/;s/^arm.*/arm/')}
JOBS=${JOBS:-1}
EXT=${EXT:-txz}
# Directories
TMP=${TMP:-/tmp}
OUT=${OUT:-$TMP/build}
PKG=${PKG:-$OUT/$NAMEPKG}
CWD=$(pwd)
set -e # Quit if a command returns non-zero
# Sanity checks
if [ $UID -eq 0 ]; then
echo "You should NOT run this script as ROOT!"
exit 1
fi
if [ ! -d $TMP ]; then
echo "$TMP does not exists or is not a directory!"
exit 1
fi
# Compilation flags
LIBDIRSUFFIX=""
OPT64=""
case "$ARCH" in
i?86)
CPUOPT="-O2 -march=$ARCH -mtune=i686"
;;
x86_64)
CPUOPT="-O2 -fPIC"
LIBDIRSUFFIX="64"
OPT64="--with-64"
;;
*)
CPUOPT="-O2"
;;
esac
# Get and verify the source archive
if [ ! -r $ARCHIVE ]; then
wget -c -O $ARCHIVE.part "$WGET"
mv $ARCHIVE.part $ARCHIVE
fi
sha1sum -c $ARCHIVE.sha1
NAME=$(tar ft $ARCHIVE | head -n 1 | cut -d / -f 1)
# Compile
cd $TMP
echo "Building $ARCHIVE..."
tar xf $CWD/$ARCHIVE
cd $NAME/c++
CFLAGS=$CPUOPT \
CXXFLAGS=$CPUOPT \
./configure \
--prefix=/usr \
--libdir=/usr/lib$LIBDIRSUFFIX $OPT64 \
--without-debug \
--with-dll \
--with-bin-release \
--with-mt \
--with-strip \
--without-gnutls
make -j $JOBS
make install prefix=$PKG/usr libdir=$PKG/usr/lib$LIBDIRSUFFIX
rm -f $PKG/usr/bin/*unit_test
# Copy slack-desc and doinst.sh files
install -D -m 644 $CWD/slack-desc $PKG/install/slack-desc
# Package the tree
cd $PKG
mkdir -p $OUT
PACKAGING="
chown root:root . -R
/sbin/makepkg -l y -c n $OUT/$NAMEPKG-$VERSION-$ARCH-$BUILD.$EXT
rm -rf $PKG
rm -rf $TMP/$NAME
"
if type -p fakeroot ; then
echo "$PACKAGING" | fakeroot
else
su -c "$PACKAGING"
fi

12
ap/ncbi-blast/slack-desc

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|-----handy-ruler---------------------------------------------------|
ncbi-blast: ncbi-blast (NCBI Blast tools)
ncbi-blast:
ncbi-blast: BLAST+ is a new suite of BLAST tools that utilizes the NCBI C++
ncbi-blast: Toolkit. The BLAST+ applications have a number of performance and
ncbi-blast: feature improvements over the legacy BLAST applications.
ncbi-blast:
ncbi-blast:
ncbi-blast:
ncbi-blast:
ncbi-blast:
ncbi-blast:
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