academic/clustalo: Updated for version 1.1.0.
Signed-off-by: dsomero <xgizzmo@slackbuilds.org>
This commit is contained in:
Petar Petrov
Erik Hanson
parent
d377f5c64a
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84a85d3d9e
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Clustal is a widely used, multiple sequence alignment program. This
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is Clustal Omega, the latest addition to the Clustal family. It
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offers a significant increase in scalability over previous versions,
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allowing hundreds of thousands of sequences to be aligned in only a
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few hours. In addition, the quality of alignments is superior to
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Clustal is a widely used, multiple sequence alignment program. This
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is Clustal Omega, the latest addition to the Clustal family. It
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offers a significant increase in scalability over previous versions,
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allowing hundreds of thousands of sequences to be aligned in only a
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few hours. In addition, the quality of alignments is superior to
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previous versions, as measured by a range of popular benchmarks.
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Clustal Omega is currently a command line-only tool, and is only
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suitable for aligning protein sequences, not DNA or RNA.
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Clustal Omega is currently a command line-only tool, and is only
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suitable for aligning protein sequences, not DNA or RNA.
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If you like Clustal-Omega please cite:
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Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R,
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McWilliam H, Remmert M, Söding J, Thompson JD, Higgins DG.
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Fast, scalable generation of high-quality protein multiple sequence
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alignments using Clustal Omega. Mol Syst Biol. 2011 Oct 11;7:539. doi:
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10.1038/msb.2011.75. PMID: 21988835.
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This requires argtable.
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Clustal Omega is currently under peer review. Please contact the developers/authors before citing Clustal Omega:
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Fast, scalable generation of high quality protein multiple sequence alignments using Clustal Omega
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Fabian Sievers, Andreas Wilm, David Dineen, Toby J. Gibson, Kevin Karplus, Weizhong Li, Rodrigo Lopez, Hamish McWilliam, Michael Remmert, Johannes Söding, Julie D. Thompson, Desmond G. Higgins
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Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R,
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McWilliam H, Remmert M, Söding J, Thompson JD, Higgins DG.
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Fast, scalable generation of high-quality protein multiple sequence
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alignments using Clustal Omega. Mol Syst Biol. 2011 Oct 11;7:539. doi:
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10.1038/msb.2011.75. PMID: 21988835.
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@ -1,17 +1,31 @@
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#!/bin/sh
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# Slackware build script for clustalo
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# Written by Petar Petrov, <ppetrov@paju.oulu.fi> and
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# hereby submitted to the public domain
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# THIS SLACKBUILD IS DISTRIBUTETD IN THE HOPE OF BEING
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# USEFUL BUT WITHOUT ANY WARRANTY. THE AUTHOR IS _NOT_
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# RESPONSIBLE FOR ANY DAMAGE OR DATA LOSS CAUSED BY IT.
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# Copyright 2011-2012 Petar Petrov, ppetrov@paju.oulu.fi
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# All rights reserved.
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#
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# Redistribution and use of this script, with or without modification, is
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# permitted provided that the following conditions are met:
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#
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# 1. Redistributions of this script must retain the above copyright
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# notice, this list of conditions and the following disclaimer.
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#
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# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
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# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
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# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO
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# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
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# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
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# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
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# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
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# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
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# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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PRGNAM=clustalo
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VERSION=${VERSION:-1.0.3}
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PRGNAM=clustalo
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VERSION=${VERSION:-1.1.0}
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BUILD=${BUILD:-1}
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TAG=${TAG:-_SBo}
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TAG=${TAG:-_SBo}
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SRCNAM=clustal-omega
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@ -76,7 +90,7 @@ find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | gr
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mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
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cp -a \
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AUTHORS ChangeLog COPYING INSTALL TODO \
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AUTHORS ChangeLog COPYING INSTALL README TODO \
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$PKG/usr/doc/$PRGNAM-$VERSION
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cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
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cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References
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@ -1,10 +1,10 @@
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PRGNAM="clustalo"
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VERSION="1.0.3"
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VERSION="1.1.0"
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HOMEPAGE="http://www.clustal.org/omega/"
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DOWNLOAD="http://www.clustal.org/omega/clustal-omega-1.0.3.tar.gz"
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MD5SUM="65587c7473db831255a4ecede9b4a747"
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DOWNLOAD="http://www.clustal.org/omega/clustal-omega-1.1.0.tar.gz"
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MD5SUM="187f0204ed1aa27155e4a67cc3f48912"
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DOWNLOAD_x86_64=""
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MD5SUM_x86_64=""
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MAINTAINER="Petar Petrov"
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EMAIL="ppetrov@paju.oulu.fi"
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APPROVED="Niels Horn"
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APPROVED="dsomero"
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@ -8,12 +8,12 @@
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|-----handy-ruler------------------------------------------------------|
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clustalo: clustalo (Clustal Omega)
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clustalo:
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clustalo: Clustal Omega allows hundreds of thousands of sequences to be
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clustalo: Clustal is a widely used, multiple sequence alignment program.
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clustalo: This is Clustal Omega, the latest addition to the Clustal family.
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clustalo: It offers a significant increase in scalability over previous
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clustalo: versions, allowing hundreds of thousands of sequences to be
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clustalo: aligned in only a few hours.
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clustalo:
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clustalo:
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clustalo:
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clustalo:
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clustalo:
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clustalo: References: /usr/doc/clustalo-$VERSION/References
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clustalo: Home: http://www.clustal.org/omega/
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clustalo:
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