summaryrefslogtreecommitdiffstats
path: root/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
diff options
context:
space:
mode:
Diffstat (limited to 'academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild')
-rw-r--r--academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild118
1 files changed, 0 insertions, 118 deletions
diff --git a/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild b/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
deleted file mode 100644
index eb2cb67f33..0000000000
--- a/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
+++ /dev/null
@@ -1,118 +0,0 @@
-#!/bin/sh
-
-# Slackware build script for ncbi-blast-plus
-
-# Copyright 2013-2018 Petar Petrov slackalaxy@gmail.com
-# All rights reserved.
-#
-# Redistribution and use of this script, with or without modification, 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.
-
-PRGNAM=ncbi-blast-plus
-VERSION=${VERSION:-2.7.1}
-BUILD=${BUILD:-1}
-TAG=${TAG:-_SBo}
-
-SRCNAM=ncbi-blast
-SRCVER=2.7.1+
-
-if [ -z "$ARCH" ]; then
- case "$( uname -m )" in
- i?86) ARCH=i386 ;;
- arm*) ARCH=arm ;;
- *) ARCH=$( uname -m ) ;;
- esac
-fi
-
-CWD=$(pwd)
-TMP=${TMP:-/tmp/SBo}
-PKG=$TMP/package-$PRGNAM
-OUTPUT=${OUTPUT:-/tmp}
-
-set -e
-
-# Check for host architecture. Distribution of 32bit binaries has been
-# dropped from NCBI. For more information, please read:
-# http://www.ncbi.nlm.nih.gov/mailman/pipermail/blast-announce/2015q2/000112.html
-if [ "$ARCH" != "x86_64" ]; then
- printf "\n\n$ARCH is not supported... \n"
- exit 1
-fi
-
-# Determine the source arch
-if [ "$ARCH" = "x86_64" ]; then
- SRCARCH="x64"
-else
- SRCARCH="ia32"
-fi
-
-# Construct the tarball name
-TARNAME=$SRCNAM-$SRCVER-$SRCARCH-linux
-
-rm -rf $PKG
-mkdir -p $TMP $PKG $OUTPUT
-cd $TMP
-rm -rf $SRCNAM-$SRCVER
-tar xvf $CWD/$TARNAME.tar.gz
-cd $SRCNAM-$SRCVER
-chown -R root:root .
-find -L . \
- \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \
- -o -perm 511 \) -exec chmod 755 {} \; -o \
- \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
- -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
-
-# Install the precompiled binaries.
-cd bin
-install -D -m755 blast_formatter $PKG/usr/bin/blast_formatter
-install -D -m755 blastdb_aliastool $PKG/usr/bin/blastdb_aliastool
-install -D -m755 blastdbcheck $PKG/usr/bin/blastdbcheck
-install -D -m755 blastdbcmd $PKG/usr/bin/blastdbcmd
-install -D -m755 blastn $PKG/usr/bin/blastn
-install -D -m755 blastp $PKG/usr/bin/blastp
-install -D -m755 blastx $PKG/usr/bin/blastx
-install -D -m755 convert2blastmask $PKG/usr/bin/convert2blastmask
-install -D -m755 deltablast $PKG/usr/bin/deltablast
-install -D -m755 dustmasker $PKG/usr/bin/dustmasker
-install -D -m755 legacy_blast.pl $PKG/usr/bin/legacy_blast.pl
-install -D -m755 makeblastdb $PKG/usr/bin/makeblastdb
-install -D -m755 makembindex $PKG/usr/bin/makembindex
-install -D -m755 makeprofiledb $PKG/usr/bin/makeprofiledb
-install -D -m755 psiblast $PKG/usr/bin/psiblast
-install -D -m755 rpsblast $PKG/usr/bin/rpsblast
-install -D -m755 rpstblastn $PKG/usr/bin/rpstblastn
-install -D -m755 segmasker $PKG/usr/bin/segmasker
-install -D -m755 tblastn $PKG/usr/bin/tblastn
-install -D -m755 tblastx $PKG/usr/bin/tblastx
-install -D -m755 update_blastdb.pl $PKG/usr/bin/update_blastdb.pl
-install -D -m755 windowmasker $PKG/usr/bin/windowmasker
-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
-
-mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
-cp -a \
- ChangeLog LICENSE README doc/README.txt \
- $PKG/usr/doc/$PRGNAM-$VERSION
-cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
-
-mkdir -p $PKG/install
-cat $CWD/slack-desc > $PKG/install/slack-desc
-
-cd $PKG
-/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}