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| author | Petar Petrov <slackalaxy@gmail.com> | 2020-09-16 07:31:54 +0700 |
|---|---|---|
| committer | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2020-09-16 07:31:54 +0700 |
| commit | eedf938615c6ad9f06aa9b9fa04b1dc76e8f1c52 (patch) | |
| tree | 6e3ad3707250114669f53440dcf9a9c1fd3bf18a /academic | |
| parent | c5bfd8830ed6e75bb8e1507294d9a90184a18e02 (diff) | |
| download | slackbuilds-eedf938615c6ad9f06aa9b9fa04b1dc76e8f1c52.tar.gz | |
academic/treerecs: Updated for version 1.2.
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/treerecs/README | 7 | ||||
| -rw-r--r-- | academic/treerecs/treerecs.SlackBuild | 27 | ||||
| -rw-r--r-- | academic/treerecs/treerecs.info | 6 |
3 files changed, 19 insertions, 21 deletions
diff --git a/academic/treerecs/README b/academic/treerecs/README index cd3794ca26..e338496bfb 100644 --- a/academic/treerecs/README +++ b/academic/treerecs/README @@ -28,3 +28,10 @@ Bio++ use. 2) genetreeEditor: a small program which provides editing of gene names using species names and format conversion (Newick, Nhx or PhyloXML) . + +For more information, see preprint at bioRxiv: +Treerecs: an integrated phylogenetic tool, from sequences to reconciliations +Nicolas Comte, Benoit Morel, Damir Hasic, Laurent Guéguen, Bastien Boussau, +Vincent Daubin, Simon Penel, Celine Scornavacca, Manolo Gouy, Alexandros +Stamatakis, Eric Tannier, View ORCID ProfileDavid P. Parsons +https://www.biorxiv.org/content/10.1101/782946v1 diff --git a/academic/treerecs/treerecs.SlackBuild b/academic/treerecs/treerecs.SlackBuild index 4bff8e9c09..6fa09cdb0b 100644 --- a/academic/treerecs/treerecs.SlackBuild +++ b/academic/treerecs/treerecs.SlackBuild @@ -22,17 +22,14 @@ # OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF # ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +# Thanks to David Parsons for clarifications about the scipt and suggestions! + PRGNAM=treerecs -VERSION=${VERSION:-1.1_gitd1c1bfaf} +VERSION=${VERSION:-1.2} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} -COMMIT=d1c1bfaf3e6f072436661c80346dee9ae54b3310 - -# Depending on whether you clicked or used wget to download, the tarball -# name is different. Bleh... -WGETNAME=archive -CLICKNAME=Treerecs-master +SRCNAM=Treerecs if [ -z "$ARCH" ]; then case "$( uname -m )" in @@ -66,15 +63,9 @@ set -e rm -rf $PKG mkdir -p $TMP $PKG $OUTPUT cd $TMP -rm -rf $CLICKNAME-$COMMIT - -if [ -e $CWD/$WGETNAME.tar.gz ]; then - tar xvf $CWD/$WGETNAME.tar.gz -else - tar xvf $CWD/$CLICKNAME-$COMMIT.tar.gz -fi - -cd $CLICKNAME-$COMMIT +rm -rf $SRCNAM-v${VERSION} +tar xvf $CWD/$SRCNAM-v${VERSION}.tar.gz +cd $SRCNAM-v${VERSION} chown -R root:root . find -L . \ \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ @@ -87,12 +78,12 @@ cd build cmake \ -DCMAKE_C_FLAGS:STRING="$SLKCFLAGS" \ -DCMAKE_CXX_FLAGS:STRING="$SLKCFLAGS" \ - -DCMAKE_BUILD_TYPE=MinSizeRel .. + -DCMAKE_BUILD_TYPE=Release .. make cd .. # This is the program executable. Using "make install DESTDIR=$PKG" -# works, but is simply puts the treerecs in /usr/local/bin and that's it +# works, but it simply puts treerecs in /usr/local/bin and that's it install -D -m755 build/bin/$PRGNAM $PKG/usr/bin/$PRGNAM # Include the extra binaries diff --git a/academic/treerecs/treerecs.info b/academic/treerecs/treerecs.info index 12feb2eed3..f6a81aa05b 100644 --- a/academic/treerecs/treerecs.info +++ b/academic/treerecs/treerecs.info @@ -1,8 +1,8 @@ PRGNAM="treerecs" -VERSION="1.1_gitd1c1bfaf" +VERSION="1.2" HOMEPAGE="https://project.inria.fr/treerecs/" -DOWNLOAD="https://gitlab.inria.fr/Phylophile/Treerecs/repository/archive.tar.gz" -MD5SUM="1a378daca947481f08071b51950e021e" +DOWNLOAD="https://gitlab.inria.fr/Phylophile/Treerecs/-/archive/v1.2/Treerecs-v1.2.tar.gz" +MD5SUM="a85d2dc0047278bfb0017c2b69824b56" DOWNLOAD_x86_64="" MD5SUM_x86_64="" REQUIRES="" |