From bc0982abdc858be0169a2a52361e6d1f1369072e Mon Sep 17 00:00:00 2001 From: Petar Petrov Date: Mon, 19 Dec 2016 06:49:30 +0700 Subject: academic/wehi-deid: Added (Flow cytometry De-Identifier). Signed-off-by: Willy Sudiarto Raharjo --- academic/wehi-deid/README | 9 +++++ academic/wehi-deid/doinst.sh | 3 ++ academic/wehi-deid/slack-desc | 19 +++++++++++ academic/wehi-deid/wehi-deid.SlackBuild | 58 ++++++++++++++++++++++++++++++++ academic/wehi-deid/wehi-deid.desktop | 8 +++++ academic/wehi-deid/wehi-deid.info | 10 ++++++ academic/wehi-deid/wehi-deid.png | Bin 0 -> 502 bytes 7 files changed, 107 insertions(+) create mode 100644 academic/wehi-deid/README create mode 100644 academic/wehi-deid/doinst.sh create mode 100644 academic/wehi-deid/slack-desc create mode 100644 academic/wehi-deid/wehi-deid.SlackBuild create mode 100644 academic/wehi-deid/wehi-deid.desktop create mode 100644 academic/wehi-deid/wehi-deid.info create mode 100644 academic/wehi-deid/wehi-deid.png (limited to 'academic/wehi-deid') diff --git a/academic/wehi-deid/README b/academic/wehi-deid/README new file mode 100644 index 0000000000..b808b1f009 --- /dev/null +++ b/academic/wehi-deid/README @@ -0,0 +1,9 @@ +Flow cytometry De-Identifier + +Where flow cytometry data files from the clinic are to be used in +research projects, DeID is used to remove patient identification. This +is achieved by writing a copy of the data file with selected keyword +values removed. + +DeID has been revised (July 2013) to enable processing of multi-block +data files. diff --git a/academic/wehi-deid/doinst.sh b/academic/wehi-deid/doinst.sh new file mode 100644 index 0000000000..5fb28930db --- /dev/null +++ b/academic/wehi-deid/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-deid/slack-desc b/academic/wehi-deid/slack-desc new file mode 100644 index 0000000000..8f3033ef36 --- /dev/null +++ b/academic/wehi-deid/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-deid: wehi-deid (Flow cytometry De-Identifier) +wehi-deid: +wehi-deid: Where flow cytometry data files from the clinic are to be used in +wehi-deid: research projects, DeID is used to remove patient identification. +wehi-deid: This is achieved by writing a copy of the data file with selected +wehi-deid: keyword values removed. +wehi-deid: +wehi-deid: Home: http://www.frankbattye.com.au/freesoftware.html +wehi-deid: +wehi-deid: +wehi-deid: diff --git a/academic/wehi-deid/wehi-deid.SlackBuild b/academic/wehi-deid/wehi-deid.SlackBuild new file mode 100644 index 0000000000..af6a31c284 --- /dev/null +++ b/academic/wehi-deid/wehi-deid.SlackBuild @@ -0,0 +1,58 @@ +#!/bin/sh + +# Slackware build script for wehi-deid + +# 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-deid +VERSION=${VERSION:-20130720} +BUILD=${BUILD:-1} +TAG=${TAG:-_SBo} + +ARCH=noarch +SRCNAM=DeID + +CWD=$(pwd) +TMP=${TMP:-/tmp/SBo} +PKG=$TMP/package-$PRGNAM +OUTPUT=${OUTPUT:-/tmp} + +set -e + +rm -rf $PKG +mkdir -p $TMP $PKG $OUTPUT +cd $TMP + +install -D -m755 $CWD/$SRCNAM.jar $PKG/usr/bin/$PRGNAM.jar + +mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION +cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild + +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-deid/wehi-deid.desktop b/academic/wehi-deid/wehi-deid.desktop new file mode 100644 index 0000000000..4c6f5527d1 --- /dev/null +++ b/academic/wehi-deid/wehi-deid.desktop @@ -0,0 +1,8 @@ +[Desktop Entry] +Type=Application +Exec=java -jar /usr/bin/wehi-deid.jar +Terminal=false +Name=Flow cytometry DeID +Comment=Flow cytometry De-Identifier +Icon=wehi-deid.png +Categories=Education; diff --git a/academic/wehi-deid/wehi-deid.info b/academic/wehi-deid/wehi-deid.info new file mode 100644 index 0000000000..ce613b6662 --- /dev/null +++ b/academic/wehi-deid/wehi-deid.info @@ -0,0 +1,10 @@ +PRGNAM="wehi-deid" +VERSION="20130720" +HOMEPAGE="http://www.frankbattye.com.au/freesoftware.html" +DOWNLOAD="http://www.frankbattye.com.au/downloads/DeID.jar" +MD5SUM="bd938d07b0471cf9ed9f32b778ded63d" +DOWNLOAD_x86_64="" +MD5SUM_x86_64="" +REQUIRES="jdk" +MAINTAINER="Petar Petrov" +EMAIL="slackalaxy@gmail.com" diff --git a/academic/wehi-deid/wehi-deid.png b/academic/wehi-deid/wehi-deid.png new file mode 100644 index 0000000000..3699088e53 Binary files /dev/null and b/academic/wehi-deid/wehi-deid.png differ -- cgit v1.2.3-65-gdbad