diff options
Diffstat (limited to 'academic/finchtv')
-rw-r--r-- | academic/finchtv/COMPANY | 51 | ||||
-rw-r--r-- | academic/finchtv/CONTACT | 20 | ||||
-rw-r--r-- | academic/finchtv/PRIVACY | 42 | ||||
-rw-r--r-- | academic/finchtv/README | 15 | ||||
-rw-r--r-- | academic/finchtv/doinst.sh | 3 | ||||
-rw-r--r-- | academic/finchtv/finchtv.SlackBuild | 77 | ||||
-rw-r--r-- | academic/finchtv/finchtv.desktop | 8 | ||||
-rw-r--r-- | academic/finchtv/finchtv.info | 10 | ||||
-rw-r--r-- | academic/finchtv/slack-desc | 19 |
9 files changed, 245 insertions, 0 deletions
diff --git a/academic/finchtv/COMPANY b/academic/finchtv/COMPANY new file mode 100644 index 0000000000..702989c3ce --- /dev/null +++ b/academic/finchtv/COMPANY @@ -0,0 +1,51 @@ +About Geospiza (http://www.geospiza.com/Company/default.shtml) + +Geospiza is a leading developer of enterprise-class software systems +for workflow management of genetic analysis. + +Geospiza has established itself as the life science industry’s top +software developer for meeting the combined laboratory, data +management and analytical needs of biotechnology and pharmaceutical +companies, universities, researchers, contract core and diagnostic +laboratories involved in genetic testing and manufacturing bio- +therapeutics. + +The life sciences field is rapidly evolving beyond sequencing genomes +for pure research to developing clinically relevant initiatives such +as understanding what genetic information is useful for drug +development, determining drug efficacy, toxicity screening and +diagnosing infectious agents. + +This expansion of the field is resulting in a dramatic increase in the +amount of data that must be managed by genetic testing laboratories +and research institutions. Underscoring this growth is the desire by +the Food & Drug Administration (FDA) and the broader healthcare +community to match drugs more specifically to a person's individual +genetic profile. The FDA is expected to focus on the sensitivity and +accuracy of these new diagnostics, thereby increasing the need for +verifiable, repeatable processes for testing. + +Today, the amount of manual work required to manage and make sense of +the vast amounts of genetic information being generated by clinical +and life science research laboratories worldwide is tremendous. In +order to be able to scale to meet this increased demand and scrutiny +in a cost-effective way, automated solutions are required. + +Geospiza makes software for crunching the vast amounts of genetic +data. When a laboratory uses GeneSifter Lab Edition, they are able to +significantly increase capacity, reduce their backlog, eliminate +errors due to manual processes, and speed time to discovery. The +software is being used today worldwide by leading institutions and +laboratories for everything from clinical DNA testing and bio- +therapeutic manufacturing to contract core lab services and basic +research and discovery. + +Geospiza's products are designed and built by biologists, enabling +researchers to focus on the science, not the software. + + +More Information +info.geospiza@perkinelmer.com +Call (206) 633-4403. + +©Copyright 2013 PerkinElmer, Inc. All rights reserved. diff --git a/academic/finchtv/CONTACT b/academic/finchtv/CONTACT new file mode 100644 index 0000000000..9aa4a571f0 --- /dev/null +++ b/academic/finchtv/CONTACT @@ -0,0 +1,20 @@ +Contact (http://www.geospiza.com/Contact/default.shtml) + +Headquarters: +Geospiza, Inc. +100 West Harrison +North Tower, Suite #330 +Seattle, WA 98119 + +Phone: (206) 633-4403 +Fax: (206) 633-4415 +General Information +info.geospiza@perkinelmer.com + +Product Information +sales.geospiza@perkinelmer.com + +Technical Support +gpz.support@perkinelemer.com + +©Copyright 2013 PerkinElmer, Inc. All rights reserved. diff --git a/academic/finchtv/PRIVACY b/academic/finchtv/PRIVACY new file mode 100644 index 0000000000..88acd6adfb --- /dev/null +++ b/academic/finchtv/PRIVACY @@ -0,0 +1,42 @@ +Privacy Policy (http://www.geospiza.com/privacy.shtml) + +Geospiza requires customers who register to use its Services to +provide contact information, such as name, company name, address, +phone number, and e-mail address. At the time you express interest in +attaining additional information, or when you register for a Service, +we may also ask for additional personal information, such as title, +department name, fax number, or additional company information as well +as billing name and address, credit card number or purchase order +number, and the number of users within the organization that will be +using the Service. + +Geospiza uses the information that is collected to set up these +accounts for individuals and their organizations. We may also use the +information to contact customers to further discuss customer interest +in our company, its Services, and to send information regarding our +company or partners, such as promotions and events. Customers are +invited to receive an email newsletter by providing an email address. +Customer email addresses and any personal customer information will +not be distributed or shared with third parties. Customers can opt out +of being contacted by us, or receiving such information from us, at +any time by sending an email to gpz.support@perkinelmer.com. + +Separately, customers are also asked to provide an email address when +registering for the Service, in order to receive a username and +password. We may also email information regarding updates to Services +or company, and will send a Customer Newsletter. Again, email will not +be distributed or shared and customers can opt out of receiving any +communication by emailing gpz.support@perkinelmer.com at the time it +is distributed, or at the time any customer registers for a Service. + +Customers of the Service will be using the Service to host data and +information ("Data"). Geospiza will not review, share, distribute, +print, or reference any such Data except as provided in the Service’s +Master Subscription Agreement, or as may be required by law. +Individual records may at times be viewed or accessed only for the +purpose of resolving a problem, support issue, or suspected violation +of the Master Subscription Agreement, or as may be required by law. +Of course, customers are responsible for maintaining the +confidentiality and security of their user registration and password. + +©Copyright 2013 PerkinElmer, Inc. All rights reserved. diff --git a/academic/finchtv/README b/academic/finchtv/README new file mode 100644 index 0000000000..73c987e6d8 --- /dev/null +++ b/academic/finchtv/README @@ -0,0 +1,15 @@ +FinchTV - A Brilliant Trace Viewer + +Geospiza's FinchTV is the popular way to view DNA sequence traces. +FinchTV started as the only chromatogram viewer that can display an +entire trace in a scalable multi-pane view. And it leads the way with +raw data views, BLAST searching and the ability to reverse complement +sequences and traces. + +This is just repackaging of the ready i386 binary. It WILL work on a +stock Slackware64 as well (no multilib needed). + +NOTE! +This program is free, but you should REGISTER in order to get it. +This means you have to use a web browser to download the "source" +tarball. diff --git a/academic/finchtv/doinst.sh b/academic/finchtv/doinst.sh new file mode 100644 index 0000000000..5fb28930db --- /dev/null +++ b/academic/finchtv/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/finchtv/finchtv.SlackBuild b/academic/finchtv/finchtv.SlackBuild new file mode 100644 index 0000000000..f758937d3b --- /dev/null +++ b/academic/finchtv/finchtv.SlackBuild @@ -0,0 +1,77 @@ +#!/bin/sh + +# Slackware build script for finchtv + +# Copyright 2015 Petar Petrov, petar.petrov@student.oulu.fi +# 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=finchtv +VERSION=${VERSION:-1.3.1} +BUILD=${BUILD:-1} +TAG=${TAG:-_SBo} + +SRCVER=1_3_1 +ARCH=i386 # This will work on a stock Slackware64 as well. + +CWD=$(pwd) +TMP=${TMP:-/tmp/SBo} +PKG=$TMP/package-$PRGNAM +OUTPUT=${OUTPUT:-/tmp} + +set -e + +rm -rf $PKG +mkdir -p $TMP $PKG $OUTPUT +cd $TMP +rm -rf ${PRGNAM}_${SRCVER} +tar xvf $CWD/${PRGNAM}_${SRCVER}.tar.gz +cd ${PRGNAM}_${SRCVER} +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 {} \; + +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 + +mkdir -p $PKG/usr/share/$PRGNAM +cp -a SampleData $PKG/usr/share/$PRGNAM + +mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION +cp -a Help License.txt ReleaseNotes.txt $PKG/usr/doc/$PRGNAM-$VERSION +cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild +cat $CWD/COMPANY > $PKG/usr/doc/$PRGNAM-$VERSION/COMPANY +cat $CWD/CONTACT > $PKG/usr/doc/$PRGNAM-$VERSION/CONTACT +cat $CWD/PRIVACY > $PKG/usr/doc/$PRGNAM-$VERSION/PRIVACY + +mkdir -p $PKG/usr/share/{applications,pixmaps} +cp $CWD/$PRGNAM.desktop $PKG/usr/share/applications +cp Help/media/FinchTV_Mac_App.png $PKG/usr/share/pixmaps/$PRGNAM.png + +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/finchtv/finchtv.desktop b/academic/finchtv/finchtv.desktop new file mode 100644 index 0000000000..85c1a64113 --- /dev/null +++ b/academic/finchtv/finchtv.desktop @@ -0,0 +1,8 @@ +[Desktop Entry] +Categories=Education; +Exec=finchtv +Icon=finchtv.png +Name=FinchTV +StartupNotify=false +Type=Application +GenericName= diff --git a/academic/finchtv/finchtv.info b/academic/finchtv/finchtv.info new file mode 100644 index 0000000000..97df56fc94 --- /dev/null +++ b/academic/finchtv/finchtv.info @@ -0,0 +1,10 @@ +PRGNAM="finchtv" +VERSION="1.3.1" +HOMEPAGE="http://www.geospiza.com/Products/finchtv.shtml" +DOWNLOAD="http://www.geospiza.com/Products/finchtvdlrequest.shtml" +MD5SUM="bafea0b08c5348cbe745d1a4857948a4" +DOWNLOAD_x86_64="" +MD5SUM_x86_64="" +REQUIRES="" +MAINTAINER="Petar Petrov" +EMAIL="petar.petrov@oulu.oulu.fi" diff --git a/academic/finchtv/slack-desc b/academic/finchtv/slack-desc new file mode 100644 index 0000000000..4b6e80d9cb --- /dev/null +++ b/academic/finchtv/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------------------------------------------------------| +finchtv: finchtv (A Brilliant Trace Viewer) +finchtv: +finchtv: Geospiza's FinchTV is the popular way to view DNA sequence traces. +finchtv: FinchTV started as the only chromatogram viewer that can display +finchtv: an entire trace in a scalable multi-pane view. And it leads the +finchtv: way with raw data views, BLAST searching and the ability to reverse +finchtv: complement sequences and traces. +finchtv: +finchtv: Home: http://www.geospiza.com/Products/finchtv.shtml +finchtv: +finchtv: |