TraceTuner and US patent 6,681,186
Le Tue, Apr 08, 2008 at 03:09:54PM +0000, CDD Subversion Commit a écrit :
> Author: tille
> Date: Tue Apr 8 15:09:54 2008
> New Revision: 687
>
> Modified:
> projects/med/trunk/debian-med/tasks/bio
> Log:
> Added tracetuner as prospective package
>
>
> Modified: projects/med/trunk/debian-med/tasks/bio
> ==============================================================================
> --- projects/med/trunk/debian-med/tasks/bio (original)
> +++ projects/med/trunk/debian-med/tasks/bio Tue Apr 8 15:09:54 2008
> @@ -889,3 +889,26 @@
> Pkg-Description: draw phylogenetic trees
> PhpPhylotree is a web application that is able to draw phylogenetic trees.
> It produces an SVG (Scalable Vector Graphic) file from phylip/newick tree files.
> +
> +Depends: tracetuner
> +Homepage: http://www.jcvi.org/cms/research/software/tracetuner/overview
> +License: GPL
> +Pkg-Description: DNA sequencing and trace processing
> + TraceTuner is a DNA sequencing quality value, base calling and trace
> + processing software application originally developed by Paracel,
> + Inc. While providing a flexible interface and capability to adopt the
> + ?pure? base calls produced by Phred, KB or any other ?original?
> + caller, it offers competitive features not currently available in
> + other tools, such as customized calibration of quality values,
> + advanced heterozygote and mixed base calling and deconvolving the
> + ?mixed? electropherograms resulting from the presence of indels into
> + a couple of ?pure? electropherograms. Previous versions of TraceTuner
> + were used by Celera Genomics to process over 27 million reads from
> + both Drosophila and human genome projects and by Applied Biosystems,
> + as a component of its SNP detection and genotyping software product
> + SeqScape. TraceTuner implements an advanced peak processing
> + technology for resolving overlapping peaks of the same dye color into
> + individual, or ?intrinsic? peaks. This technology was protected by US
> + Patent #6,681,186. Currently, TraceTuner is an open source software,
> + which has been used by J. Craig Venter Institute?s DNA Sequencing and
> + Resequencing pipelines.
>
Hi Andreas,
Good catch! Unfortunately, README.txt of TraceTuner says:
The TraceTuner Software (Copyright 1999-2003, Paracel, Inc. All
rights reserved.) (the "Software") is covered by US Patent #6,681,186 and is
being made available free of charge by Applera Corporation subject to the terms
and conditions of the GNU General Public License, version 2, as published by the
Free Software Foundation (the "GNU General Public License").
http://tracetuner.cvs.sourceforge.net/tracetuner/README.txt?revision=1.2&view=markup
http://www.google.com/patents?id=XYESAAAAEBAJ&dq=6,681,186
Do you know what consequences it can have on its pacakging for Debian ?
Have a nice day,
--
Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
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