|
6
|
1 <tool id="remove_tail.py" name="Remove 3'-end nts" version="0.1.0">
|
|
|
2 <description>from FASTQ</description>
|
|
55
|
3 <xml name="requirements">
|
|
|
4 <requirements>
|
|
|
5 <requirement type="package" version="1.66">biopython</requirement>
|
|
|
6 </requirements>
|
|
|
7 </xml>
|
|
0
|
8 <macros>
|
|
|
9 <import>macros.xml</import>
|
|
|
10 </macros>
|
|
|
11 <expand macro="stdio" />
|
|
50
|
12 <version_command>python $__tool_directory__/remove_tail.py --version</version_command>
|
|
0
|
13 <command interpreter="python"><![CDATA[remove_tail.py
|
|
|
14 #if $positional_1 and $positional_1 is not None:
|
|
|
15 $positional_1
|
|
|
16 #end if
|
|
|
17
|
|
|
18 #if $positional_2 and $positional_2 is not None:
|
|
|
19 $positional_2
|
|
|
20 #end if
|
|
|
21
|
|
|
22 > $default]]></command>
|
|
|
23 <inputs>
|
|
|
24 <param area="false" label="Fastq file." name="positional_1" type="data" format="fastq"/>
|
|
|
25 <param label="Remove this many nts." name="positional_2" type="integer" value="0"/>
|
|
|
26 </inputs>
|
|
|
27 <outputs>
|
|
|
28 <data format="fastq" hidden="false" name="default"/>
|
|
|
29 </outputs>
|
|
|
30 <tests>
|
|
|
31 <test>
|
|
|
32 <param name="positional_1" value="readswithtail.fastq"/>
|
|
|
33 <param name="positional_2" value="7"/>
|
|
|
34 <output name="default" file="readswithtailremoved.fastq"/>
|
|
|
35 </test>
|
|
|
36 </tests>
|
|
|
37 <help><![CDATA[
|
|
|
38 Remove a certain number of nucleotides from the 3'-tails of sequences in fastq format.
|
|
|
39
|
|
|
40 Author: Daniel Maticzka
|
|
|
41 Copyright: 2015
|
|
|
42 License: Apache
|
|
|
43 Email: maticzkd@informatik.uni-freiburg.de
|
|
|
44 Status: Testing
|
|
|
45 ]]></help>
|
|
|
46 <expand macro="citations" />
|
|
|
47 </tool>
|
