diff get_term_id_vs_term_name.xml @ 0:b2471db454a0 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/onto-toolkit commit 9422f839ae354d4c26b02d4494abdeaad518d0e6

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/get_term_id_vs_term_name.xml	Fri Nov 10 11:32:46 2017 -0500
@@ -0,0 +1,51 @@
+<tool id="onto_tk_term_id_vs_term_name" name="Get all the term IDs and term names" version="@VERSION@.0">
+    <description>of a given OBO ontology</description>
+    <macros>
+        <import>onto_macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <command detect_errors="aggressive">
+        get_term_id_vs_term_name.pl
+        -f '$input' > '$output'
+    </command>
+    <inputs>
+        <expand macro="input_ontology" />
+    </inputs>
+    <outputs>
+        <data format="tabular" name="output">
+            <actions>
+                <action name="column_names" type="metadata" default="term ID,term name" />
+            </actions>
+        </data>
+    </outputs>
+    <tests>
+        <test>
+            <param name="input" value="pre_cco_core.obo"/>
+            <output name="output" file="term_id_vs_term_name.tab"/>
+        </test>
+    </tests>
+    <help>
+
+.. class:: infomark
+
+Generates a flat file with two columns (TAB separated) with the term_id and term_name from the elements of the given OBO ontology.
+
+
+**Example**
+
+If you ask for the term IDs and terms names of the Gene Ontology, you will get::
+
+  GO:0050129	N-formylglutamate deformylase activity
+  GO:0051663	oocyte nucleus localization involved in oocyte dorsal/ventral axis specification
+  GO:0051712	positive regulation of killing of cells of another organism
+  GO:0033972	proclavaminate amidinohydrolase activity
+  GO:0032513	negative regulation of protein phosphatase type 2B activity
+  GO:0008711	ADP-L-glycero-D-manno-heptose synthase activity
+  GO:0006285	base-excision repair, AP site formation
+  GO:0043527	tRNA methyltransferase complex
+  ...
+  ...
+
+    </help>
+    <expand macro="citations" />
+</tool>