diff poretools_stats.xml @ 0:ae4c8446ce30 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/poretools_stats.xml	Tue Dec 19 14:51:34 2017 -0500
@@ -0,0 +1,57 @@
+<?xml version="1.0"?>
+<tool id="poretools_stats" name="Read length statistics" version="@VERSION@.0">
+    <description>from a set of FAST5 files</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <command detect_errors="aggressive">
+    <![CDATA[
+        poretools stats --type $type $detailed '$input' > '$output'
+    ]]>
+    </command>
+    <inputs>
+        <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" />
+        <param name="detailed" argument="--full-tsv" type="boolean" truevalue="--full-tsv" falsevalue="" label="Output detailed statistics" />
+        <expand macro="stat_options" />
+    </inputs>
+    <outputs>
+        <data name="output" format="tabular" />
+    </outputs>
+    <tests>
+        <test>
+            <expand macro="test_input" />
+            <param name="type" value="fwd" />
+            <param name="detailed" value="true" />
+            <output name="output" file="poretools-stats-out1.tabular" ftype="tabular" />
+        </test>
+        <test>
+            <expand macro="test_input" />
+            <param name="type" value="rev" />
+            <param name="detailed" value="false" />
+            <output name="output" file="poretools-stats-out2.tabular" ftype="tabular" />
+        </test>
+        <test>
+            <expand macro="test_input" />
+            <param name="type" value="2D" />
+            <param name="detailed" value="true" />
+            <output name="output" file="poretools-stats-out3.tabular" ftype="tabular" />
+        </test>
+        <test>
+            <expand macro="test_input" />
+            <param name="type" value="best" />
+            <param name="detailed" value="false" />
+            <output name="output" file="poretools-stats-out4.tabular" ftype="tabular" />
+        </test>
+        <test>
+            <expand macro="test_input" />
+            <param name="type" value="all" />
+            <param name="detailed" value="true" />
+            <output name="output" file="poretools-stats-out5.tabular" ftype="tabular" />
+        </test>
+    </tests>
+    <help>
+        Collect read size statistics from a set of FAST5 files.
+    </help>
+    <expand macro="citations" />
+</tool>