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+Galaxy wrapper for t-RNA prediction tools
+=========================================
+
+This wrapper is copyright 2012-2013 by Björn Grüning.
+
+This prepository contains wrapper for the command line tools of tRNAscan-SE_ and Arogorn_.
+
+.. _tRNAscan-SE: http://lowelab.ucsc.edu/tRNAscan-SE/
+.. _Arogorn: http://mbio-serv2.mbioekol.lu.se/ARAGORN/
+
+Dean Laslett and Bjorn Canback
+ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences Nucl. Acids Res. (2004) 32(1): 11-16
+doi:10.1093/nar/gkh152
+
+Todd M. Lowe and Sean R. Eddy
+tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence Nucl. Acids Res. (1997) 25(5): 0955-964
+doi:10.1093/nar/25.5.0955 
+
+
+============
+Installation
+============
+
+The t-RNA prediction wrappers are available through the toolshed_ and can be automatically installed.
+
+.. _toolshed: http://toolshed.g2.bx.psu.edu/view/bjoern-gruening/trna_prediction
+
+For manuel installation, please download tRNAscan-SE from the following URL and follow the install instructions::
+
+	http://lowelab.ucsc.edu/software/tRNAscan-SE.tar.gz
+
+Arogorn can be download from::
+
+	http://mbio-serv2.mbioekol.lu.se/ARAGORN/aragorn1.2.33.c
+
+With a recent GNU-Compiler (gcc) you can compile it with the following command::
+
+	gcc -O3 -ffast-math -finline-functions -o aragorn aragorn1.2.33.c
+
+Please include aragorn and tRNAscan-SE into your PATH::
+
+	export PATH=$PATH:/home/user/bin/aragorn/bin/
+
+
+To install the wrappers copy the files aragorn.xml and tRNAscan.xml in the galaxy tools
+folder and modify the tools_conf.xml file to make the tool available to Galaxy.
+For example add the following lines::
+
+	<tool file="trna_prediction/aragorn.xml" />
+	<tool file="trna_prediction/tRNAscan.xml" />
+
+
+=======
+History
+=======
+
+tRNAscan:
+
+    - v0.1: Initial public release
+    - v0.2: add fasta output
+    - v0.2.1: added tool-dependency
+    - v0.2.2: patch from Nicola Soranzo added
+    - v0.3: add unit tests, documentation improvements, bug fixes
+
+aragorn:
+
+    - v0.1: Initial public release
+    - v0.2: added options, upgrade to 1.2.36, tool-dependency
+    - v0.3: add unit tests, documentation improvements
+
+
+
+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.
+