|
0
|
1 <?xml version="1.0" ?>
|
|
|
2 <tool id="qiime_phylogeny_fasttree" name="qiime phylogeny fasttree" version="2019.4">
|
|
|
3 <description> - Construct a phylogenetic tree with FastTree.</description>
|
|
|
4 <requirements>
|
|
|
5 <requirement type="package" version="2019.4">qiime2</requirement>
|
|
|
6 </requirements>
|
|
|
7 <command><![CDATA[
|
|
|
8 qiime phylogeny fasttree
|
|
|
9
|
|
|
10 --i-alignment=$ialignment
|
|
|
11
|
|
|
12 #set $pnthreads = '${GALAXY_SLOTS:-4}'
|
|
|
13 #if str($pnthreads):
|
|
|
14 --p-n-threads="$pnthreads"
|
|
|
15 #end if
|
|
|
16
|
|
|
17 --o-tree=otree
|
|
|
18 ;
|
|
|
19 cp otree.qza $otree
|
|
|
20 ]]></command>
|
|
|
21 <inputs>
|
|
|
22 <param format="qza,no_unzip.zip" label="--i-alignment: ARTIFACT FeatureData[AlignedSequence] Aligned sequences to be used for phylogenetic reconstruction. [required]" name="ialignment" optional="False" type="data"/>
|
|
|
23 </inputs>
|
|
|
24 <outputs>
|
|
|
25 <data format="qza" label="${tool.name} on ${on_string}: tree.qza" name="otree"/>
|
|
|
26 </outputs>
|
|
|
27 <help><![CDATA[
|
|
|
28 Construct a phylogenetic tree with FastTree.
|
|
|
29 ############################################
|
|
|
30
|
|
|
31 Construct a phylogenetic tree with FastTree.
|
|
|
32
|
|
|
33 Parameters
|
|
|
34 ----------
|
|
|
35 alignment : FeatureData[AlignedSequence]
|
|
|
36 Aligned sequences to be used for phylogenetic reconstruction.
|
|
|
37
|
|
|
38 Returns
|
|
|
39 -------
|
|
|
40 tree : Phylogeny[Unrooted]
|
|
|
41 The resulting phylogenetic tree.
|
|
|
42 ]]></help>
|
|
|
43 <macros>
|
|
|
44 <import>qiime_citation.xml</import>
|
|
|
45 </macros>
|
|
|
46 <expand macro="qiime_citation"/>
|
|
|
47 </tool>
|
