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academic/jalview: Updated for version 2.11.2.7.

Browse source 
Signed-off-by: Andrew Clemons <andrew.clemons@gmail.com>

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
This commit is contained in:
Petar Petrov 2023-09-14 21:24:50 +09:00 committed by Willy Sudiarto Raharjo
parent a2c3fdc1cd
commit 907b85818e
No known key found for this signature in database
GPG key ID: 3F617144D7238786
5 changed files with 19 additions and 9 deletions
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5
academic/jalview/README
View file

@ -11,4 +11,7 @@ Jalview Version 2-a multiple sequence alignment editor and analysis
workbench. Bioinformatics 25: 1189-1191.
NOTE:
The 'source' is hosted at SourceForge by the SlackBuild maintainer.
If you have several jdk-s/jre-s installed, the program may have trouble
starting. If that's the case check the instructions in the wrapper:
/usr/bin/jalview

11
academic/jalview/jalview Normal file → Executable file
View file

@ -1,3 +1,10 @@
#!/bin/sh
#!/bin/bash
java -jar /opt/jalview/jalview
# If you have several jdk-s/jre-s, zulu-openjdk8 may not be the "active"
# one. If that's the case, uncomment the three lines below:
# export JAVA_HOME=/usr/lib64/zulu-openjdk8
# export MANPATH="${MANPATH}:${JAVA_HOME}/man"
# export PATH="${JAVA_HOME}/bin:${JAVA_HOME}/jre/bin:${PATH}"
java -jar /usr/share/jalview/jalview

4
academic/jalview/jalview.SlackBuild
View file

@ -25,7 +25,7 @@
cd $(dirname $0) ; CWD=$(pwd)
PRGNAM=jalview
VERSION=${VERSION:-2.11.2.5}
VERSION=${VERSION:-2.11.2.7}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}
PKGTYPE=${PKGTYPE:-tgz}
@ -52,7 +52,7 @@ rm -rf $PKG
mkdir -p $TMP $PKG $OUTPUT
cd $TMP
install -D -m755 $CWD/$PRGNAM-all-$VERSION-$JAVA.jar $PKG/opt/$PRGNAM/$PRGNAM
install -D -m755 $CWD/$PRGNAM-all-$VERSION-$JAVA.jar $PKG/usr/share/$PRGNAM/$PRGNAM
install -D -m755 $CWD/$PRGNAM $PKG/usr/bin/$PRGNAM
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION

6
academic/jalview/jalview.info
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@ -1,8 +1,8 @@
PRGNAM="jalview"
VERSION="2.11.2.5"
VERSION="2.11.2.7"
HOMEPAGE="http://www.jalview.org/"
DOWNLOAD="http://www.jalview.org/getdown/release/jalview-all-2.11.2.5-j1.8.jar"
MD5SUM="b9a7edd98105b5df22a825adb95f2209"
DOWNLOAD="http://www.jalview.org/getdown/release/jalview-all-2.11.2.7-j1.8.jar"
MD5SUM="15b9f3e9ca81c56050efea28e530a4c1"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES="zulu-openjdk8"

2
academic/jalview/slack-desc
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@ -14,6 +14,6 @@ jalview: It can also work with sequence annotation, secondary structure
jalview: information, phylogenetic trees and 3D molecular structures.
jalview:
jalview: Home: http://www.jalview.org/
jalview: References: /usr/doc/jalview-2.10.0b1/References
jalview:
jalview:
jalview: