diff options
| -rw-r--r-- | academic/lalnview/README | 7 | ||||
| -rw-r--r-- | academic/lalnview/lalnview.SlackBuild | 28 | ||||
| -rw-r--r-- | academic/lalnview/lalnview.png | bin | 977 -> 2394 bytes |
3 files changed, 22 insertions, 13 deletions
diff --git a/academic/lalnview/README b/academic/lalnview/README index e91c30683f..364d8d0378 100644 --- a/academic/lalnview/README +++ b/academic/lalnview/README @@ -5,6 +5,13 @@ similarities between the two sequences. Blocks of similarity between the two sequences are colored according to the degree of identity between segments. +A suitable alignment tool for protein sequences is SIM at ExPASy: +https://web.expasy.org/sim/ + +SIM finds a user-defined number of best non-intersecting alignments +between two protein sequences or within a sequence. Once the alignment +is computed, you can view it using LalnView. + For details and citation: Duret, L., Gasteiger, E. and Perriere, G. (1996) LalnView: a graphical viewer for pairwise sequence alignments. Comput. Applic. diff --git a/academic/lalnview/lalnview.SlackBuild b/academic/lalnview/lalnview.SlackBuild index cb92a3bcc3..3ba95c44d5 100644 --- a/academic/lalnview/lalnview.SlackBuild +++ b/academic/lalnview/lalnview.SlackBuild @@ -2,7 +2,7 @@ # Slackware build script for lalnview -# Copyright 2011-2016 Petar Petrov slackalaxy@gmail.com +# Copyright 2011-2020 Petar Petrov slackalaxy@gmail.com # All rights reserved. # # Redistribution and use of this script, with or without modification, is @@ -26,12 +26,14 @@ PRGNAM=lalnview VERSION=${VERSION:-3.0} -BUILD=${BUILD:-2} +BUILD=${BUILD:-3} TAG=${TAG:-_SBo} +SRCTAR=sources20050615.tar + if [ -z "$ARCH" ]; then case "$( uname -m )" in - i?86) ARCH=i486 ;; + i?86) ARCH=i586 ;; arm*) ARCH=arm ;; *) ARCH=$( uname -m ) ;; esac @@ -42,8 +44,8 @@ TMP=${TMP:-/tmp/SBo} PKG=$TMP/package-$PRGNAM OUTPUT=${OUTPUT:-/tmp} -if [ "$ARCH" = "i486" ]; then - SLKCFLAGS="-O2 -march=i486 -mtune=i686" +if [ "$ARCH" = "i586" ]; then + SLKCFLAGS="-O2 -march=i586 -mtune=i686" LIBDIRSUFFIX="" elif [ "$ARCH" = "i686" ]; then SLKCFLAGS="-O2 -march=i686 -mtune=i686" @@ -64,24 +66,24 @@ cd $TMP rm -rf $PRGNAM-$VERSION mkdir $PRGNAM-$VERSION cd $PRGNAM-$VERSION -tar xvf $CWD/sources20050615.tar +tar xvf $CWD/$SRCTAR chown -R root:root . find -L . \ - \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 -o -perm 511 \) \ - -exec chmod 755 {} \; -o \ - \( -perm 666 -o -perm 664 -o -perm 600 -o -perm 444 -o -perm 440 -o -perm 400 \) \ - -exec chmod 644 {} \; + \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ + -o -perm 511 \) -exec chmod 755 {} \; -o \ + \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ + -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; # Point to the correct place of lalnview.help -sed -i "s:lalnview.help:/usr/doc/$PRGNAM-$VERSION/lalnview.help:" MF_MainWindow.cxx +sed -i "s:$PRGNAM.help:/usr/doc/$PRGNAM-$VERSION/$PRGNAM.help:" MF_MainWindow.cxx OPT="$SLKCFLAGS" make -install -D -m755 lalnview $PKG/usr/bin/$PRGNAM +install -D -m755 $PRGNAM $PKG/usr/bin/$PRGNAM find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \ | cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true -# Couldn't find an icon, so i made one myself. I know it sucks. +# Couldn't find an icon, so i made one myself. mkdir -p $PKG/usr/share/{applications,pixmaps} cp $CWD/$PRGNAM.desktop $PKG/usr/share/applications cp $CWD/$PRGNAM.png $PKG/usr/share/pixmaps diff --git a/academic/lalnview/lalnview.png b/academic/lalnview/lalnview.png Binary files differindex f4cc77c61c..f528cc3d46 100644 --- a/academic/lalnview/lalnview.png +++ b/academic/lalnview/lalnview.png |
