diff qiime2/qiime_phylogeny_fasttree.xml @ 0:370e0b6e9826 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2/qiime_phylogeny_fasttree.xml	Wed Jul 17 03:05:17 2019 -0400
@@ -0,0 +1,47 @@
+<?xml version="1.0" ?>
+<tool id="qiime_phylogeny_fasttree" name="qiime phylogeny fasttree" version="2019.4">
+	<description> - Construct a phylogenetic tree with FastTree.</description>
+	<requirements>
+		<requirement type="package" version="2019.4">qiime2</requirement>
+	</requirements>
+	<command><![CDATA[
+qiime phylogeny fasttree
+
+--i-alignment=$ialignment
+
+#set $pnthreads = '${GALAXY_SLOTS:-4}'
+#if str($pnthreads):
+ --p-n-threads="$pnthreads"
+#end if
+
+--o-tree=otree
+;
+cp otree.qza $otree
+	]]></command>
+	<inputs>
+		<param format="qza,no_unzip.zip" label="--i-alignment: ARTIFACT FeatureData[AlignedSequence] Aligned sequences to be used for phylogenetic reconstruction.                           [required]" name="ialignment" optional="False" type="data"/>
+	</inputs>
+	<outputs>
+		<data format="qza" label="${tool.name} on ${on_string}: tree.qza" name="otree"/>
+	</outputs>
+	<help><![CDATA[
+Construct a phylogenetic tree with FastTree.
+############################################
+
+Construct a phylogenetic tree with FastTree.
+
+Parameters
+----------
+alignment : FeatureData[AlignedSequence]
+    Aligned sequences to be used for phylogenetic reconstruction.
+
+Returns
+-------
+tree : Phylogeny[Unrooted]
+    The resulting phylogenetic tree.
+	]]></help>
+<macros>
+    <import>qiime_citation.xml</import>
+</macros>
+<expand macro="qiime_citation"/>
+</tool>