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Phylip's extra ouputs are now stored in the job working directory
author Richard Burhans <burhans@bx.psu.edu>
date Wed, 20 Nov 2013 16:32:01 -0500
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1 <tool id="gd_raxml" name="RAxML" version="1.0.0">
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2 <description>: construct a maximum-likelihood phylogenetic tree</description>
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3
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4 <command interpreter="python">
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5 raxml.py '$input' '$output'
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6 </command>
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7
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8 <inputs>
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9 <param name="input" type="data" format="txt" label="PHYLIP dataset" />
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10 </inputs>
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11
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12 <outputs>
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13 <data name="output" format="nhx" />
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14 </outputs>
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16
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17 <requirements>
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18 <requirement type="package" version="7.7.6">raxml</requirement>
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19 </requirements>
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20
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21 <help>
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22 **What it does**
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24 This tool runs RAxML on a phylip formatted file and returns a maximum
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25 likelihood phylogram supported by a desired number of bootstraps.
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27 This program takes as input a phylip formatted file and optionally a
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28 number of parameters (for further information consult the manual_),
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29 and returns a Newick formatted tree that can be explored with Phyloviz.
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31 By default the program runs 1,000 fast bootstraps on the best likelihood
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32 tree constructed with the GRT + gamma model.
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34 .. _manual: http://sco.h-its.org/exelixis/oldPage/RAxML-Manual.7.0.4.pdf
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35
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36 </help>
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37 </tool>