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academic/staden: Build fixes for Slackware 14.0

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Signed-off-by: Robby Workman <rworkman@slackbuilds.org>
This commit is contained in:
Petar Petrov 2012-09-11 22:47:57 +03:00 committed by Robby Workman
parent 4be8b0406f
commit dea576fec3
3 changed files with 15 additions and 9 deletions
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4
academic/staden/README
View file

@ -1,5 +1,5 @@
The programs part of the Staden package provide a fully developed set
of DNA sequence assembly, editing, analysis and more.
The programs part of the Staden package provide an excellent and fully
developed set of DNA sequence assembly, editing, analysis and more.
Some of its features include:
GAP4 - Performs assembly, contig joining, assembly checking, repeat

12
academic/staden/staden.SlackBuild Normal file → Executable file
View file

@ -24,7 +24,7 @@
PRGNAM=staden
VERSION=${VERSION:-2.0.0b9}
BUILD=${BUILD:-2}
BUILD=${BUILD:-3}
TAG=${TAG:-_SBo}
if [ -z "$ARCH" ]; then
@ -35,8 +35,8 @@ if [ -z "$ARCH" ]; then
esac
fi
SLKTCL=tcl8.5.9 # Slackware 13.37 sources for TCL
SLKTK=tk8.5.9 # Slackware 13.37 sources for TK
SLKTCL=tcl8.5.11 # Slackware 14.0 sources for TCL
SLKTK=tk8.5.11 # Slackware 14.0 sources for TK
TKLIB=tklib0.5 # Folder name of TKLIB
CWD=$(pwd)
@ -86,6 +86,7 @@ find $PRGNAM-$VERSION-src ${PRGNAM}_doc-$VERSION-src \
-exec chmod 644 {} \;
cd $PRGNAM-$VERSION-src
# On Slackware64, the components of staden (like GAP4, GAP5, PREGAP4,
# SPIN, TREV) will not run, as they still expect their libraries to be
# in /usr/lib not /usr/lib64. Let's correct the libraries path.
@ -103,6 +104,11 @@ sed -i "73 a EMBOSS_DATA=/usr/share/EMBOSS/data; export EMBOSS_DATA" spin/spin
# Correct the path where staden components look for their manual.
sed -i "s:/share/doc/staden/manual:/doc/$PRGNAM-$VERSION/manual:" tk_utils/help_config
# These fixes are from Arch linux AUR
# http://aur.archlinux.org/packages/st/staden/PKGBUILD
sed -i 's:-DSVN_VERSION=$(SVNVERS)::' system.mk.in
sed -i "s/gzFile\ \*gz/gzFile\ gz/" gap5/zfio.h
CFLAGS="$SLKCFLAGS" \
CXXFLAGS="$SLKCFLAGS" \
./configure \

8
academic/staden/staden.info
View file

@ -3,12 +3,12 @@ VERSION="2.0.0b9"
HOMEPAGE="http://staden.sourceforge.net/"
DOWNLOAD="http://sourceforge.net/projects/staden/files/staden/2.0.0b9/staden-2.0.0b9-src.tar.gz \
http://sourceforge.net/projects/staden/files/staden/2.0.0b9/staden_doc-2.0.0b9-src.tar.gz \
http://slackware.osuosl.org/slackware-13.37/source/tcl/tcl/tcl8.5.9-src.tar.xz \
http://slackware.osuosl.org/slackware-13.37/source/tcl/tk/tk8.5.9-src.tar.xz"
http://slackware.osuosl.org/slackware-14.0/source/tcl/tcl/tcl8.5.11-src.tar.xz \
http://slackware.osuosl.org/slackware-14.0/source/tcl/tk/tk8.5.11-src.tar.xz"
MD5SUM="94dc304b00d18b95f783136c9ffd934f \
730b433d8344624925b662ec37ac0804 \
c1e4eea4afdd9a8f8888d5b7c481122d \
78b59df55904095af40d64a0cd08c50d"
304a8ecc61d5db9e41f3653161997712 \
fd5a5fabaf946568b4bb8d5213b7a92c"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES="io_lib tklib"