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comparison sort_rows.xml @ 4:56e80527c482 draft

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author bgruening
date Wed, 07 Jan 2015 11:10:52 -0500
parents 7068d1548234
children 8928e6d1e7ba
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3:7068d1548234 4:56e80527c482
1 <tool id="tp_sort_rows" name="Sort a row" version="0.0.1"> 1 <tool id="tp_sort_rows" name="Sort a row" version="@BASE_VERSION@.0">
2 <description>according to their columns</description> 2 <description>according to their columns</description>
3 <command>python -c 'for line in ["\t".join(sorted(line.strip().split("\t"))) for line in open("$input").readlines() ]: print line' > $outfile</command> 3 <macros>
4 <inputs> 4 <import>macros.xml</import>
5 <param format="tabular" name="input" type="data" label="Tabular file that should be sorted"/> 5 </macros>
6 </inputs> 6 <command>
7 <outputs> 7 <![CDATA[
8 <data format="tabular" name="outfile" metadata_source="input"/> 8 python -c 'for line in ( "\t".join(sorted(line.strip().split("\t"))) for line in open("$infile") ): print line' > $outfile
9 </outputs> 9 ]]>
10 <options sanitize="False"/> 10 </command>
11 <tests> 11 <inputs>
12 12 <param format="tabular" name="infile" type="data" label="Tabular file that should be sorted"/>
13 </tests> 13 </inputs>
14 <help> 14 <outputs>
15 15 <data format="tabular" name="outfile" metadata_source="infile"/>
16 </outputs>
17 <options sanitize="False"/>
18 <tests>
19 <test>
20 <param name="infile" value="sort_rows1.tabular" ftype="tabular" />
21 <output name="outfile" file="sort_rows_results1.bed"/>
22 </test>
23 </tests>
24 <help>
25 <![CDATA[
16 .. class:: infomark 26 .. class:: infomark
17 27
18 **TIP:** If your data is not TAB delimited, use *Text Manipulation-&gt;Convert* 28 **TIP:** If your data is not TAB delimited, use *Text Manipulation->Convert*
19 29
20 **What it does** 30 **What it does**
21 31
22 That tool sorts each row in a TAB separated file, according to their columns. In other words: It is a sorted reordering of all columns. 32 That tool sorts each row in a TAB separated file, according to their columns. In other words: It is a sorted reordering of all columns.
23 33
24 34 @REFERENCES@
25 </help> 35 ]]>
36 </help>
26 </tool> 37 </tool>