diff cat.xml @ 1:43b1f073b693 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 369e40078146d00608d52205bb8cee66ae735b76-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cat.xml	Tue Jun 30 16:23:23 2015 -0400
@@ -0,0 +1,74 @@
+<tool id="tp_cat" name="Concatenate datasets" version="0.1.0">
+    <description>tail-to-head (cat)</description>
+    <requirements>
+        <requirement type="package" version="8.22">gnu_coreutils</requirement>
+    </requirements>
+    <version_command>
+    <![CDATA[
+        cat --version | head -n 1
+    ]]>
+    </version_command>
+    <command>
+    <![CDATA[
+        cat
+            #for $file in $inputs:
+                "${file}"
+            #end for
+        > $out_file1
+    ]]></command>
+    <inputs>
+        <param name="inputs" multiple="true" type="data" format="txt" label="datasets to concatenate"/>
+    </inputs>
+    <outputs>
+        <data name="out_file1" format_source="inputs" metadata_source="inputs"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="inputs" value="sort_result1.bed,sort_result2.bed,sort_result3.bed"/>
+            <output name="out_file1" file="cat_result1.txt"/>
+        </test>
+    </tests>
+    <help>
+<![CDATA[
+
+.. class:: warningmark
+
+**WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This tool does not check if the datasets being concatenated are in the same format.
+
+-----
+
+**What it does**
+
+Concatenates datasets
+
+-----
+
+**Example**
+
+Concatenating Dataset::
+
+    chrX  151087187  151087355  A  0  -
+    chrX  151572400  151572481  B  0  +
+
+with Dataset1::
+
+    chr1  151242630  151242955  X  0  +
+    chr1  151271715  151271999  Y  0  +
+    chr1  151278832  151279227  Z  0  -
+
+and with Dataset2::
+
+    chr2  100000030  200000955  P  0  +
+    chr2  100000015  200000999  Q  0  +
+
+will result in the following::
+
+    chrX  151087187  151087355  A  0  -
+    chrX  151572400  151572481  B  0  +
+    chr1  151242630  151242955  X  0  +
+    chr1  151271715  151271999  Y  0  +
+    chr1  151278832  151279227  Z  0  -
+    chr2  100000030  200000955  P  0  +
+    chr2  100000015  200000999  Q  0  +
+]]></help>
+</tool>