diff track_rt_raw.xml @ 0:b96fc0da0a32 draft

planemo upload for repository https://github.com/computational-metabolomics/mspurity-galaxy commit f9591483bef88aef71a9f0cc0ffc75cf6eab480c

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/track_rt_raw.xml	Mon Mar 05 10:05:57 2018 -0500
@@ -0,0 +1,35 @@
+<tool id="track_rt_raw" name="track_rt_raw" version="0.0.7">
+
+        <requirements>
+           <requirement type="package" version="1.4.1" >bioconductor-mspurity</requirement>
+           <requirement type="package" version="1.4.4" >r-optparse</requirement>
+            <yield />
+        </requirements>
+
+    <description>Track the raw retention time in the peak slot of XCMSset objects.
+    </description>
+    <stdio>
+        <exit_code range="1:" />
+    </stdio>
+    <command interpreter="Rscript"><![CDATA[
+        track_rt_raw.R
+            --xset_path=$xset
+            --out_dir=.
+
+    ]]></command>
+    <inputs>
+
+        <param type="data" name="xset"
+                help="xcmsSet object saved as an RData file"/>
+
+    </inputs>
+    <outputs>
+
+        <data name="xset_with_rt_raw" format="rdata" label="xset.track_rt_raw.RData"
+              from_work_dir="xset_rt_raw_tracked.RData" visible="true"/>
+    </outputs>
+    <tests>
+
+    </tests>
+    <help><![CDATA[]]></help>
+</tool>
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