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+=======================================
+Galaxy wrapper for Glimmer gene calling
+=======================================
+
+This wrapper is copyright 2012-2013 by Björn Grüning.
+
+This is a wrapper for the command line tool of Glimmer3_.
+
+.. _Glimmer: http://www.cbcb.umd.edu/software/glimmer/
+
+Glimmer is a system for finding genes in microbial DNA, 
+especially the genomes of bacteria, archaea, and viruses. 
+Glimmer (Gene Locator and Interpolated Markov ModelER) uses interpolated 
+Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA.
+
+S. Salzberg, A. Delcher, S. Kasif, and O. White. Microbial gene identification using interpolated Markov models, Nucleic Acids Research 26:2 (1998), 544-548.
+
+A.L. Delcher, D. Harmon, S. Kasif, O. White, and S.L. Salzberg. Improved microbial gene identification with GLIMMER, Nucleic Acids Research 27:23 (1999), 4636-4641.
+
+A.L. Delcher, K.A. Bratke, E.C. Powers, and S.L. Salzberg. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics (Advance online version) (2007). 
+
+
+============
+Installation
+============
+
+Since version 0.2 the recommended installation procedure is via the `Galaxy Tool Shed`.
+
+.. _`Galaxy Tool Shed`: http://toolshed.g2.bx.psu.edu/view/bjoern-gruening/glimmer3
+
+To install Glimmer3 manually, please download Glimmer3 from:: 
+
+    http://www.cbcb.umd.edu/software/glimmer/glimmer302.tar.gz
+
+and follow the installation instructions. You can also use packages from your distribution like http://packages.debian.org/stable/science/tigr-glimmer
+
+To install the wrapper copy the glimmer3 folder in the galaxy tools
+folder and modify the tools_conf.xml file to make the tool available to Galaxy.
+For example::
+
+	<tool file="gene_prediction/tools/glimmer3/glimmer_w_icm.xml" />
+	<tool file="gene_prediction/tools/glimmer3/glimmer_wo_icm.xml" />
+	<tool file="gene_prediction/tools/glimmer3/glimmer_build-icm.xml" />
+
+=======
+History
+=======
+
+- v0.1: Initial public release
+- v0.2: Add tool shed integration
+
+===============================
+Wrapper Licence (MIT/BSD style)
+===============================
+
+Permission to use, copy, modify, and distribute this software and its
+documentation with or without modifications and for any purpose and
+without fee is hereby granted, provided that any copyright notices
+appear in all copies and that both those copyright notices and this
+permission notice appear in supporting documentation, and that the
+names of the contributors or copyright holders not be used in
+advertising or publicity pertaining to distribution of the software
+without specific prior permission.
+
+THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
+WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
+CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
+OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
+OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
+OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
+OR PERFORMANCE OF THIS SOFTWARE.
+