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academic/tophat: Updated for version 2.1.2.

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Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
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Petar Petrov 2019-08-03 07:11:25 +07:00 committed by Willy Sudiarto Raharjo
parent 40f47fa702
commit 45e3e0299e
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GPG key ID: 887B8374D7333381
3 changed files with 11 additions and 9 deletions
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2
academic/tophat/slack-desc
View file

@ -14,6 +14,6 @@ tophat: high-throughput short read aligner Bowtie, and then analyzes the
tophat: mapping results to identify splice junctions between exons. tophat: mapping results to identify splice junctions between exons.
tophat: tophat:
tophat: Home: http://tophat.cbcb.umd.edu/ tophat: Home: http://tophat.cbcb.umd.edu/
tophat: References: /usr/doc/tophat-2.1.1/References tophat: https://github.com/infphilo/tophat/
tophat: tophat:
tophat: tophat:

12
academic/tophat/tophat.SlackBuild
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@ -2,7 +2,7 @@
# Slackware build script for tophat # Slackware build script for tophat
# Copyright 2013-2016 Petar Petrov slackalaxy@gmail.com # Copyright 2013-2019 Petar Petrov slackalaxy@gmail.com
# All rights reserved. # All rights reserved.
# #
# Redistribution and use of this script, with or without modification, is # Redistribution and use of this script, with or without modification, is
@ -23,13 +23,13 @@
# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. # ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
PRGNAM=tophat PRGNAM=tophat
VERSION=${VERSION:-2.1.1} VERSION=${VERSION:-2.1.2}
BUILD=${BUILD:-1} BUILD=${BUILD:-1}
TAG=${TAG:-_SBo} TAG=${TAG:-_SBo}
if [ -z "$ARCH" ]; then if [ -z "$ARCH" ]; then
case "$( uname -m )" in case "$( uname -m )" in
i?86) ARCH=i486 ;; i?86) ARCH=i586 ;;
arm*) ARCH=arm ;; arm*) ARCH=arm ;;
*) ARCH=$( uname -m ) ;; *) ARCH=$( uname -m ) ;;
esac esac
@ -40,8 +40,8 @@ TMP=${TMP:-/tmp/SBo}
PKG=$TMP/package-$PRGNAM PKG=$TMP/package-$PRGNAM
OUTPUT=${OUTPUT:-/tmp} OUTPUT=${OUTPUT:-/tmp}
if [ "$ARCH" = "i486" ]; then if [ "$ARCH" = "i586" ]; then
SLKCFLAGS="-O2 -march=i486 -mtune=i686" SLKCFLAGS="-O2 -march=i586 -mtune=i686"
LIBDIRSUFFIX="" LIBDIRSUFFIX=""
elif [ "$ARCH" = "i686" ]; then elif [ "$ARCH" = "i686" ]; then
SLKCFLAGS="-O2 -march=i686 -mtune=i686" SLKCFLAGS="-O2 -march=i686 -mtune=i686"
@ -69,6 +69,8 @@ find -L . \
\( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
-o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
./autogen.sh
CFLAGS="$SLKCFLAGS" \ CFLAGS="$SLKCFLAGS" \
CXXFLAGS="$SLKCFLAGS" \ CXXFLAGS="$SLKCFLAGS" \
./configure \ ./configure \

6
academic/tophat/tophat.info
View file

@ -1,8 +1,8 @@
PRGNAM="tophat" PRGNAM="tophat"
VERSION="2.1.1" VERSION="2.1.2"
HOMEPAGE="http://ccb.jhu.edu/software/tophat/" HOMEPAGE="http://ccb.jhu.edu/software/tophat/"
DOWNLOAD="http://ccb.jhu.edu/software/tophat/downloads/tophat-2.1.1.tar.gz" DOWNLOAD="https://github.com/infphilo/tophat/archive/v2.1.2/tophat-2.1.2.tar.gz"
MD5SUM="4b2391de46457ba6b2b7268a9da593e4" MD5SUM="db844fd7f53c519e716cd6222e6195b2"
DOWNLOAD_x86_64="" DOWNLOAD_x86_64=""
MD5SUM_x86_64="" MD5SUM_x86_64=""
REQUIRES="" REQUIRES=""