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diff biom_from_uc.xml @ 0:26c9cf427dcd draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/biom_format commit f726b353973996a1f59e2044e80ef7c9b75833ab"
author iuc
date Wed, 11 Sep 2019 12:40:39 -0400
parents
children 2cdeed709bf4
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/biom_from_uc.xml	Wed Sep 11 12:40:39 2019 -0400
@@ -0,0 +1,32 @@
+<tool id="biom_from_uc" name="Create a BIOM table" version="@VERSION@.1">
+    <description>from a vsearch/uclust/usearch BIOM file</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="version_command" />
+    <command detect_errors="exit_code">
+        <![CDATA[
+            biom from-uc
+                --input-fp '$input_fp'
+                --output-fp '$output_fp'
+        ]]>
+    </command>
+    <inputs>
+        <param name="input_fp" argument="--input-fp" type="data" format="txt" label="UC File" />
+        <param name="rep_set_fp" argument="--rep-set-fp" type="data" format="fasta" optional="true" label="Fasta file containing representative sequences with where sequences are labeled with OTU identifiers, and description fields contain original sequence identifiers" help="This output is created, for example, by vsearch with the --relabel_sha1 --relabel_keep options."/>
+    </inputs>
+    <outputs>
+        <data format="biom1" name="output_fp"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="input_fp" value="uc_table.uc" />
+            <output name="output_fp" file="biom_from_uc.biom" compare="sim_size"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+Create a BIOM table from a vsearch/uclust/usearch BIOM file.
+    ]]></help>
+    <expand macro="citations" />
+</tool>