diff options
| author | Matteo Bernardini <ponce@slackbuilds.org> | 2022-02-28 14:12:28 +0100 |
|---|---|---|
| committer | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2022-03-01 19:35:46 +0700 |
| commit | 137a3373465736f4c260ba679be92fa67ca295b5 (patch) | |
| tree | 04184785ce20d959e75c3eff42df979e86b0783c /academic | |
| parent | 9a3af401a51f50bdcb77b66b222d5c5668a8fef8 (diff) | |
academic/t_coffee: Updated for version 13.45.58.c355d11.
Signed-off-by: Matteo Bernardini <ponce@slackbuilds.org>
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/t_coffee/README | 2 | ||||
| -rw-r--r-- | academic/t_coffee/t_coffee.SlackBuild | 22 | ||||
| -rw-r--r-- | academic/t_coffee/t_coffee.info | 6 |
3 files changed, 17 insertions, 13 deletions
diff --git a/academic/t_coffee/README b/academic/t_coffee/README index f5f6689f7d915..a52a9692f0e1b 100644 --- a/academic/t_coffee/README +++ b/academic/t_coffee/README @@ -8,6 +8,8 @@ to combine sequence information with protein structural information 3D-Coffee/Expresso), profile information (PSI-Coffee) or RNA secondary structures (R-Coffee). +examples are installed in /usr/share/t_coffee/ + For detailed information and citation: T-Coffee: A novel method for multiple sequence alignments. Notredame, Higgins,Heringa,JMB,302(205-217)2000 diff --git a/academic/t_coffee/t_coffee.SlackBuild b/academic/t_coffee/t_coffee.SlackBuild index 0da6aae74035e..94d3e3918d56b 100644 --- a/academic/t_coffee/t_coffee.SlackBuild +++ b/academic/t_coffee/t_coffee.SlackBuild @@ -25,13 +25,12 @@ cd $(dirname $0) ; CWD=$(pwd) PRGNAM=t_coffee -VERSION=${VERSION:-13.41.0_git28bdc39} +VERSION=${VERSION:-13.45.58.c355d11} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} PKGTYPE=${PKGTYPE:-tgz} -TARNAM=tcoffee -COMMIT=28bdc39911d10d8597db8513f9515fb2ed7a9158 +TARNAM=T-COFFEE_distribution_Version if [ -z "$ARCH" ]; then case "$( uname -m )" in @@ -72,9 +71,9 @@ set -e rm -rf $PKG mkdir -p $TMP $PKG $OUTPUT cd $TMP -rm -rf ${TARNAM}-${COMMIT} -tar xvf $CWD/${TARNAM}-${COMMIT}.tar.gz -cd ${TARNAM}-${COMMIT} +rm -rf ${TARNAM}_${VERSION} +tar xvf $CWD/${TARNAM}_${VERSION}.tar.gz +cd ${TARNAM}_${VERSION} chown -R root:root . find -L . \ \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ @@ -83,17 +82,20 @@ find -L . \ -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; # Use our CFLAGS -sed -i "/^CFLAGS/s/=/+=/" t_coffee/src/makefile +sed -i "s|-O3 -Wno-write-strings|$SLKCFLAGS|" t_coffee_source/makefile -CFLAGS="$SLKCFLAGS" make t_coffee -C t_coffee/src -install -D -m755 t_coffee/src/$PRGNAM $PKG/usr/bin/$PRGNAM +CFLAGS="$SLKCFLAGS" make t_coffee -C t_coffee_source +install -D -m755 t_coffee_source/$PRGNAM $PKG/usr/bin/$PRGNAM + +mkdir -p $PKG/usr/share/t_coffee +cp -a example $PKG/usr/share/t_coffee/ 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 \ - HOW_BUILD_WORKS.md README.md docs/*.rst \ + README doc license.txt \ $PKG/usr/doc/$PRGNAM-$VERSION cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References diff --git a/academic/t_coffee/t_coffee.info b/academic/t_coffee/t_coffee.info index ec75e49f23e9f..355fa22ca295a 100644 --- a/academic/t_coffee/t_coffee.info +++ b/academic/t_coffee/t_coffee.info @@ -1,8 +1,8 @@ PRGNAM="t_coffee" -VERSION="13.41.0_git28bdc39" +VERSION="13.45.58.c355d11" HOMEPAGE="http://www.tcoffee.org/" -DOWNLOAD="https://github.com/cbcrg/tcoffee/archive/28bdc39/tcoffee-28bdc39911d10d8597db8513f9515fb2ed7a9158.tar.gz" -MD5SUM="3392d55a2817575ce90c1c3e94e08c0b" +DOWNLOAD="https://ponce.cc/slackware/sources/repo/T-COFFEE_distribution_Version_13.45.58.c355d11.tar.gz" +MD5SUM="8b5d42142b531f913429dd9c2d4c8b27" DOWNLOAD_x86_64="" MD5SUM_x86_64="" REQUIRES="" |