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| author |   Petar Petrov <slackalaxy@gmail.com> | 2023-09-14 21:24:50 +0900 |
|---|---|---|
| committer |   Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2023-09-17 00:10:16 +0700 |
| commit | 907b85818edfd69a03eff897b2b6e0da320799a0 (patch) | |
| tree | fa6f00d7133359f399fac7ca29faa2be7d55560e /academic/jalview | |
| parent | a2c3fdc1cd3df4116d957529390da7a4305c42ab (diff) | |
| download | slackbuilds-907b85818edfd69a03eff897b2b6e0da320799a0.tar.gz slackbuilds-907b85818edfd69a03eff897b2b6e0da320799a0.tar.xz | |
academic/jalview: Updated for version 2.11.2.7.
Signed-off-by: Andrew Clemons <andrew.clemons@gmail.com>
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic/jalview')
| -rw-r--r-- | academic/jalview/README | 5 | ||||
| -rwxr-xr-x[-rw-r--r--] | academic/jalview/jalview | 11 | ||||
| -rw-r--r-- | academic/jalview/jalview.SlackBuild | 4 | ||||
| -rw-r--r-- | academic/jalview/jalview.info | 6 | ||||
| -rw-r--r-- | academic/jalview/slack-desc | 2 |
5 files changed, 19 insertions, 9 deletions
diff --git a/academic/jalview/README b/academic/jalview/README index ba6e70c2c7..a028e48bcd 100644 --- a/academic/jalview/README +++ b/academic/jalview/README @@ -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 diff --git a/academic/jalview/jalview b/academic/jalview/jalview index bccd58e93b..21f9cff3d2 100644..100755 --- a/academic/jalview/jalview +++ b/academic/jalview/jalview @@ -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 diff --git a/academic/jalview/jalview.SlackBuild b/academic/jalview/jalview.SlackBuild index 2999f8ead7..879740e8fa 100644 --- a/academic/jalview/jalview.SlackBuild +++ b/academic/jalview/jalview.SlackBuild @@ -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 diff --git a/academic/jalview/jalview.info b/academic/jalview/jalview.info index b8e91f5f63..90b4e3b971 100644 --- a/academic/jalview/jalview.info +++ b/academic/jalview/jalview.info @@ -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" diff --git a/academic/jalview/slack-desc b/academic/jalview/slack-desc index 3afaa82c61..fd372a3f3a 100644 --- a/academic/jalview/slack-desc +++ b/academic/jalview/slack-desc @@ -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: |