diff poretools_yield_plot.xml @ 0:64a83664b814 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_yield_plot.xml	Tue Dec 19 14:54:20 2017 -0500
@@ -0,0 +1,48 @@
+<?xml version="1.0"?>
+<tool id="poretools_yield_plot" name="Collector’s curve" version="@VERSION@.0">
+    <description>of sequencing yield over time</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <command detect_errors="aggressive">
+    <![CDATA[
+        poretools yield_plot '$input' --saveas plot.$extension --plot-type $plot_type
+            $theme_bw
+        #if $skip != '0':
+            --skip $skip
+        #end if
+        && mv plot.$extension '$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="plot_type" argument="--plot-type" type="select" label="Plot reads or base pairs">
+            <option value="reads">Reads</option>
+            <option value="basepairs">Base pairs</option>
+        </param>
+        <param argument="--skip" type="integer" value="0" label="Plot only every nth point" help="Increases performance at the cost of resolution." />
+        <expand macro="plot_options" />
+    </inputs>
+    <outputs>
+        <expand macro="image_output" />
+    </outputs>
+    <tests>
+        <test>
+            <expand macro="test_input" />
+            <param name="extension" value="png" />
+            <param name="plot_type" value="reads" />
+            <output name="output" file="poretools-yield-plot-out1.png" ftype="png" lines_diff="301" />
+        </test>
+        <test>
+            <expand macro="test_input" />
+            <param name="extension" value="svg" />
+            <param name="plot_type" value="basepairs" />
+            <output name="output" file="poretools-yield-plot-out2.svg" ftype="svg" lines_diff="40" />
+        </test>
+    </tests>
+    <help>
+        Create a collector’s curve reflecting the sequencing yield over time.
+    </help>
+    <expand macro="citations" />
+</tool>