academic/wehi-weasel: Added (Flow cytometry data analysis).

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>

9 files changed, 193 insertions, 0 deletions

diff --git a/academic/wehi-weasel/LICENSE b/academic/wehi-weasel/LICENSE
new file mode 100644
index 0000000000..082f2795f5
--- /dev/null
+++ b/academic/wehi-weasel/LICENSE
@@ -0,0 +1,24 @@
+Acquire a Weasel License
+
+Following your free 30 day trial, continued use of Weasel requires a
+small license fee, the proceeds from which are used to support further
+development. This is not an annual fee but is payable once only for
+permanent use of the current version. As an added bonus, free version
+upgrades are offered from time to time. Furthermore, with every license
+comes a free copy of the ACluE cluster analysis program. 
+
+A single Weasel license for one computer type (e.g. Macintosh) is
+valid for installation on 4 computers. A dual license is also available
+that is valid for installation on 8 computers of any mix of types. 
+
+Weasel licenses may be purchased by filling in and posting a paper
+application form with accompanying cheque. Licenses may also be
+purchased on-line from this page:
+
+http://www.frankbattye.com.au/Weasel/WeaselLicense.html
+
+Please be aware that return of your license code is a manual operation
+and will not occur immediately.
+
+For more information on licensing or if problems arise in license
+purchase, please contact the author.
diff --git a/academic/wehi-weasel/README b/academic/wehi-weasel/README
new file mode 100644
index 0000000000..75908d3f1a
--- /dev/null
+++ b/academic/wehi-weasel/README
@@ -0,0 +1,37 @@
+WEASEL: Walter & Eliza Analysis Software: Eclectic & Lucid*
+
+WEASEL is a general purpose flow cytometry data analysis and display
+program developed at the Walter and Eliza Hall Institute of Medical
+Research (WEHI). Many different display formats are possible as are
+the extraction of a number of numerical or statistical measures.
+Multiple flow cytometry standard (FCS) data files can be compared
+side-by-side on screen and there is facility for fast scanning through
+collections of data files. Display layouts may be saved as may high
+quality graphics which may be incorporated into other documents. One
+of the program's design parameters was to make operation as simple and
+intuitive as possible so self instruction should be the best course.
+
+Features:
+- Common display forms (histograms, contour plots and dot plots).
+- More exotic forms (3D dot plots, population linked displays, pseudo-
+  imaging and biplots).
+- Batch mode processing.
+- Merging and exporting FCS data files. 
+- Export of high resolution graphics.
+- Numerical statistics. 
+- Handles multi-block data.
+
+IMPORTANT!
+This program is NOT free! A fully functional copy can be downloaded
+free for a 30 day trial. Thereafter, a small license fee is required.  
+Licensing information and application form can be found in the doc
+foldert of the package and on the program's website.
+
+DOWNLOAD NOTE:
+You should register at the web-site in order to download WEASEL. This
+means you have to use a web browser. Following the download, you will
+be sent an email message containing your free trial license code. 
+
+---
+* "This software is so cunning you could stick a tail on it and call
+it a weasel." [Blackadder 1989]
diff --git a/academic/wehi-weasel/doinst.sh b/academic/wehi-weasel/doinst.sh
new file mode 100644
index 0000000000..5fb28930db
--- /dev/null
+++ b/academic/wehi-weasel/doinst.sh
@@ -0,0 +1,3 @@
+if [ -x /usr/bin/update-desktop-database ]; then
+  /usr/bin/update-desktop-database -q usr/share/applications >/dev/null 2>&1
+fi
diff --git a/academic/wehi-weasel/slack-desc b/academic/wehi-weasel/slack-desc
new file mode 100644
index 0000000000..79e44625c7
--- /dev/null
+++ b/academic/wehi-weasel/slack-desc
@@ -0,0 +1,19 @@
+# HOW TO EDIT THIS FILE:
+# The "handy ruler" below makes it easier to edit a package description.
+# Line up the first '|' above the ':' following the base package name, and
+# the '|' on the right side marks the last column you can put a character in.
+# You must make exactly 11 lines for the formatting to be correct.  It's also
+# customary to leave one space after the ':' except on otherwise blank lines.
+
+           |-----handy-ruler------------------------------------------------------|
+wehi-weasel: wehi-weasel (Flow cytometry data analysis and display program)
+wehi-weasel:
+wehi-weasel: WEASEL is a general purpose flow cytometry data analysis
+wehi-weasel: and display program developed at the Walter and Eliza Hall Institute
+wehi-weasel: of Medical Research (WEHI). Many different display formats are
+wehi-weasel: possible as are the extraction of a number of numerical or
+wehi-weasel: statistical measures. Multiple flow cytometry standard (FCS) data
+wehi-weasel: files can be compared side-by-side on screen and there is facility
+wehi-weasel: for fast scanning through collections of data files.
+wehi-weasel:
+wehi-weasel: Home: http://www.frankbattye.com.au/Weasel/
diff --git a/academic/wehi-weasel/wehi-weasel b/academic/wehi-weasel/wehi-weasel
new file mode 100644
index 0000000000..994a389f76
--- /dev/null
+++ b/academic/wehi-weasel/wehi-weasel
@@ -0,0 +1,6 @@
+#!/bin/sh
+
+# This starts the program jar file. The -Xmx1024m value indicates the
+# amount of RAM allocated to the program. You may wish to change this.
+
+java -jar -Xmx1024m /usr/share/java/wehi-weasel/Weasel.jar
diff --git a/academic/wehi-weasel/wehi-weasel.SlackBuild b/academic/wehi-weasel/wehi-weasel.SlackBuild
new file mode 100644
index 0000000000..9770ceb8ac
--- /dev/null
+++ b/academic/wehi-weasel/wehi-weasel.SlackBuild
@@ -0,0 +1,86 @@
+#!/bin/sh
+
+# Slackware build script for wehi-weasel
+
+# Copyright 2016 Petar Petrov slackalaxy@gmail.com
+# All rights reserved.
+#
+# Redistribution and use of this script, with or without modification, is
+# permitted provided that the following conditions are met:
+#
+# 1. Redistributions of this script must retain the above copyright
+#    notice, this list of conditions and the following disclaimer.
+#
+#  THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
+#  WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
+#  MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.  IN NO
+#  EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+#  SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
+#  PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
+#  OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
+#  WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
+#  OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
+#  ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+
+PRGNAM=wehi-weasel
+VERSION=${VERSION:-3.3.2.16}
+BUILD=${BUILD:-1}
+TAG=${TAG:-_SBo}
+
+ARCH=noarch
+
+CWD=$(pwd)
+TMP=${TMP:-/tmp/SBo}
+PKG=$TMP/package-$PRGNAM
+OUTPUT=${OUTPUT:-/tmp}
+
+SRCNAM=wsl
+JARNAM=Weasel
+SRCVER=33216
+SRCDIST=unix
+LICENSE=Weaselv3_3_2License
+
+set -e
+
+rm -rf $PKG
+mkdir -p $TMP $PKG $OUTPUT
+cd $TMP
+rm -rf $JARNAM
+unzip $CWD/${SRCNAM}${SRCVER}${SRCDIST}.zip
+cd $JARNAM
+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 \
+ \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
+  -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
+
+# Copy the jar file and the icons. I am not sure the icons are needed
+# by the program at runtime, but it will not hurt to have them there.
+mkdir -p $PKG/usr/share/java/$PRGNAM
+cp -a \
+  $JARNAM.jar WeaselIcon16.gif WeaselIcon32.gif WeaselIcon.ico \
+  $PKG/usr/share/java/$PRGNAM
+
+# You may wish to check this simple wrapper for the amount of RAM that
+# is allocated to the program.
+install -D -m755 $CWD/$PRGNAM $PKG/usr/bin/$PRGNAM
+
+# This doc file is what you need in order to apply for license.
+mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
+cp -a \
+  README.txt $LICENSE.doc \
+  $PKG/usr/doc/$PRGNAM-$VERSION
+cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
+cat $CWD/LICENSE > $PKG/usr/doc/$PRGNAM-$VERSION/LICENSE
+
+mkdir -p $PKG/usr/share/{applications,pixmaps}
+cp $CWD/$PRGNAM.desktop $PKG/usr/share/applications
+cp $CWD/$PRGNAM.png $PKG/usr/share/pixmaps
+
+mkdir -p $PKG/install
+cat $CWD/slack-desc > $PKG/install/slack-desc
+cat $CWD/doinst.sh > $PKG/install/doinst.sh
+
+cd $PKG
+/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}
diff --git a/academic/wehi-weasel/wehi-weasel.desktop b/academic/wehi-weasel/wehi-weasel.desktop
new file mode 100644
index 0000000000..83aec62532
--- /dev/null
+++ b/academic/wehi-weasel/wehi-weasel.desktop
@@ -0,0 +1,8 @@
+[Desktop Entry]
+Categories=Education;
+Comment=Flow cytometry analysis
+Exec=wehi-weasel
+Icon=wehi-weasel.png
+Name=Flow cytometry Weasel
+StartupNotify=false
+Type=Application
diff --git a/academic/wehi-weasel/wehi-weasel.info b/academic/wehi-weasel/wehi-weasel.info
new file mode 100644
index 0000000000..d8c2485354
--- /dev/null
+++ b/academic/wehi-weasel/wehi-weasel.info
@@ -0,0 +1,10 @@
+PRGNAM="wehi-weasel"
+VERSION="3.3.2.16"
+HOMEPAGE="http://www.frankbattye.com.au/Weasel/"
+DOWNLOAD="http://www.frankbattye.com.au/Weasel/WeaselDownload.html"
+MD5SUM="51c62248d897eff7095d3ffd211d2261"
+DOWNLOAD_x86_64=""
+MD5SUM_x86_64=""
+REQUIRES="jdk"
+MAINTAINER="Petar Petrov"
+EMAIL="slackalaxy@gmail.com"
diff --git a/academic/wehi-weasel/wehi-weasel.png b/academic/wehi-weasel/wehi-weasel.png
new file mode 100644
index 0000000000..6c6da1ff07
--- /dev/null
+++ b/academic/wehi-weasel/wehi-weasel.png