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author Matteo Bernardini2017-07-26 17:54:50 +0200
committer Matteo Bernardini2019-12-07 19:58:11 +0100
commitdcf56faf2fe7d1ba9c907da88d690ca8070602e3 (patch)
tree864ab7d2d13b1f36e063bc89b8a4d9cd5e259dba
parent4b7b01aae75cc2cc8db1eedc90b43f8400bef53e (diff)
downloadslackbuilds-ugene.tar.gz
academic/ugene: Patch to avoid hardcoding headers location.ugene
Signed-off-by: Matteo Bernardini <ponce@slackbuilds.org>
-rw-r--r--academic/ugene/ugene-1.22.0-dont_hardcode_includes.patch24
-rw-r--r--academic/ugene/ugene.SlackBuild3
2 files changed, 27 insertions, 0 deletions
diff --git a/academic/ugene/ugene-1.22.0-dont_hardcode_includes.patch b/academic/ugene/ugene-1.22.0-dont_hardcode_includes.patch
new file mode 100644
index 0000000000..6bc26e1f19
--- /dev/null
+++ b/academic/ugene/ugene-1.22.0-dont_hardcode_includes.patch
@@ -0,0 +1,24 @@
+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
diff --git a/academic/ugene/ugene.SlackBuild b/academic/ugene/ugene.SlackBuild
index ac95c63b17..1b68d3e510 100644
--- a/academic/ugene/ugene.SlackBuild
+++ b/academic/ugene/ugene.SlackBuild
@@ -73,6 +73,9 @@ 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