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academic/ugene: update for version 38.1 

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
This commit is contained in:
Petar Petrov 2021-05-18 17:03:19 +03:00 committed by Willy Sudiarto Raharjo
parent 0608bb1e84
commit ba506941e5
No known key found for this signature in database
GPG Key ID: 3F617144D7238786
3 changed files with 6 additions and 33 deletions
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24
academic/ugene/ugene-1.22.0-dont_hardcode_includes.patch
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@ -1,24 +0,0 @@
diff -up ugene-1.22.0/src/libs_3rdparty/samtools/samtools.pri.dont_hardcode_includes ugene-1.22.0/src/libs_3rdparty/samtools/samtools.pri
--- ugene-1.22.0/src/libs_3rdparty/samtools/samtools.pri.dont_hardcode_includes 2016-03-31 07:21:56.000000000 -0500
+++ ugene-1.22.0/src/libs_3rdparty/samtools/samtools.pri 2016-06-02 17:49:02.383069490 -0500
@@ -3,7 +3,7 @@ UGENE_RELATIVE_DESTDIR = ''
TEMPLATE = lib
CONFIG +=thread debug_and_release staticlib warn_off
-INCLUDEPATH += src src/samtools ../../include /usr/include
+INCLUDEPATH += src src/samtools ../../include
win32 : INCLUDEPATH += src/samtools/win32
DEFINES+="_FILE_OFFSET_BITS=64" _LARGEFILE64_SOURCE _USE_KNETFILE
win32 : DEFINES += _USE_MATH_DEFINES "inline=__inline" "__func__=__FUNCTION__" "R_OK=4" "atoll=_atoi64" "alloca=_alloca"
diff -up ugene-1.22.0/src/plugins_3rdparty/variants/variants.pri.dont_hardcode_includes ugene-1.22.0/src/plugins_3rdparty/variants/variants.pri
--- ugene-1.22.0/src/plugins_3rdparty/variants/variants.pri.dont_hardcode_includes 2016-03-31 07:22:09.000000000 -0500
+++ ugene-1.22.0/src/plugins_3rdparty/variants/variants.pri 2016-06-02 20:26:35.265356432 -0500
@@ -20,7 +20,7 @@ use_bundled_zlib() {
win32 : LIBS += -lwsock32
-INCLUDEPATH += src ../../include /usr/include
+INCLUDEPATH += src ../../include
INCLUDEPATH += ../../libs_3rdparty/samtools/src/samtools
INCLUDEPATH += ../../libs_3rdparty/samtools/src
INCLUDEPATH += ../../libs_3rdparty/samtools/src/samtools/bcftools

9
academic/ugene/ugene.SlackBuild
View File

@ -2,7 +2,7 @@
# Slackware build script for ugene
# Copyright 2013-2020 Petar Petrov slackalaxy@gmail.com
# Copyright 2013-2021 Petar Petrov slackalaxy@gmail.com
# All rights reserved.
#
# Redistribution and use of this script, with or without modification, is
@ -23,7 +23,7 @@
# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
PRGNAM=ugene
VERSION=${VERSION:-35.0}
VERSION=${VERSION:-38.1}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}
@ -73,9 +73,6 @@ find -L . \
\( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
-o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
# Thanks fedora
patch -p1 < $CWD/ugene-1.22.0-dont_hardcode_includes.patch
# Fix libraries and man pages paths
sed -i "s:/lib:/lib${LIBDIRSUFFIX}:g" src/ugene_globals.pri
sed -i "s:/share/man:/man:g" src/ugene_globals.pri
@ -92,7 +89,7 @@ find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | gr
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
cp -a \
build.txt README.md LICENSE.txt LICENSE.3rd_party.txt \
README.md LICENSE.txt LICENSE.3rd_party.txt \
$PKG/usr/doc/$PRGNAM-$VERSION
cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild

6
academic/ugene/ugene.info
View File

@ -1,8 +1,8 @@
PRGNAM="ugene"
VERSION="35.0"
VERSION="38.1"
HOMEPAGE="http://ugene.net/"
DOWNLOAD="https://github.com/ugeneunipro/ugene/archive/35.0/ugene-35.0.tar.gz"
MD5SUM="c1cb1ee73140d09568706f1fc1b798dd"
DOWNLOAD="https://github.com/ugeneunipro/ugene/archive/38.1/ugene-38.1.tar.gz"
MD5SUM="4add1b1c0216ce42e588e982a3d7147e"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES=""