Mercurial > repos > artbio > sequence_format_converter

annotate sequence_format_converter.xml @ 1:9ce7ccd468aa draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
author artbio
date Fri, 16 Feb 2018 04:55:44 -0500
parents a8aacccd79a3
children f1d59113125a
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
1
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
1 <tool id="sequence_format_converter" name="sequence_format_converter" version="2.1.0">
0
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
2 <description></description>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
3 <command><![CDATA[
1
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
4 #if $input.is_of_type('fastq.gz'):
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
5 gzip -dc $input > '${input}.tmp';
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
6 python '$__tool_directory__'/sequence_format_converter.py
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
7 --input '${input}.tmp'
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
8 --output '$output'
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
9 --format '$output_format';
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
10 rm '${input}.tmp';
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
11 #else:
0
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
12 python '$__tool_directory__'/sequence_format_converter.py
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
13 --input '$input'
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
14 --output '$output'
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
15 --format '$output_format'
1
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
16 #end if
0
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
17 ]]></command>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
18
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
19 <inputs>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
20 <param name="input" type="data" format="fasta, fastq, tabular" label="file to convert to tabular (input format is automatically detected)"/>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
21 <param name="output_format" type="select" label="conversion options">
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
22 <option value="tabular" selected="true">tabular</option>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
23 <option value="fasta">Fasta</option>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
24 <option value="fastaw">Weighted fasta</option>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
25 </param>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
26 </inputs>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
27
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
28 <outputs>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
29 <data format="fasta" name="output" label="${output_format} conversion of ${input.name}">
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
30 <change_format>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
31 <when input="output_format" value="tabular" format="tabular"/>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
32 </change_format>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
33 </data>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
34 </outputs>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
35
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
36 <tests>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
37 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
38 <!-- convertion fasta to tabular -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
39 <param name="output_format" value="tabular" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
40 <param ftype="fasta" name="input" value="input.fa" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
41 <output file="output.tab" name="output" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
42 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
43 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
44 <!-- convertion tabular to fasta -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
45 <param name="output_format" value="fasta" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
46 <param ftype="tabular" name="input" value="output.tab" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
47 <output file="input.sorted.fa" name="output" sort="True"/>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
48 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
49 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
50 <!-- convertion fastaw to tabular -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
51 <param name="output_format" value="tabular" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
52 <param ftype="fasta" name="input" value="output.faw" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
53 <output file="output.sorted.tab" name="output" sort="True"/>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
54 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
55 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
56 <!-- convertion tabular to fastaw -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
57 <param name="output_format" value="fastaw" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
58 <param ftype="tabular" name="input" value="output.tab" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
59 <output file="output.sorted.faw" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
60 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
61 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
62 <!-- convertion fasta to fastaw -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
63 <param name="output_format" value="fastaw" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
64 <param ftype="fasta" name="input" value="input.fa" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
65 <output file="output.sorted.faw" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
66 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
67 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
68 <!-- convertion fastaw to fasta -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
69 <param name="output_format" value="fasta" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
70 <param ftype="fasta" name="input" value="output.faw" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
71 <output file="input.sorted.fa" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
72 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
73 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
74 <!-- convertion fastq to tabular -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
75 <param name="output_format" value="tabular" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
76 <param ftype="fastq" name="input" value="input.fastqsanger" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
77 <output file="fastqTotabular.sorted.tab" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
78 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
79 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
80 <!-- convertion fastq to fasta -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
81 <param name="output_format" value="fasta" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
82 <param ftype="fasta" name="input" value="input.fastqsanger" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
83 <output file="fastqTofasta.sorted.fa" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
84 </test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
85 <test>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
86 <!-- convertion fastq to fastaw -->
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
87 <param name="output_format" value="fastaw" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
88 <param ftype="fasta" name="input" value="input.fastqsanger" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
89 <output file="fastqTofastaw.sorted.faw" name="output" sort="True" />
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
90 </test>
1
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
91 <test>
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
92 <!-- convertion fastq.gz to tabular -->
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
93 <param name="output_format" value="tabular" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
94 <param ftype="fastq.gz" name="input" value="input.fastqsanger.gz" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
95 <output file="fastqTotabular.sorted.tab" name="output" sort="True" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
96 </test>
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
97 <test>
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
98 <!-- convertion fastq.gz to fasta -->
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
99 <param name="output_format" value="fasta" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
100 <param ftype="fastq.gz" name="input" value="input.fastqsanger.gz" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
101 <output file="fastqTofasta.sorted.fa" name="output" sort="True" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
102 </test>
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
103 <test>
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
104 <!-- convertion fastq.gz to fastaw -->
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
105 <param name="output_format" value="fastaw" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
106 <param ftype="fastq.gz" name="input" value="input.fastqsanger.gz" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
107 <output file="fastqTofastaw.sorted.faw" name="output" sort="True" />
9ce7ccd468aa planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit dfecfb40f245a3cdb09dd1cfe37be4cb164ad2eb
artbio
parents: 0
diff changeset
108 </test>
0
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
109 </tests>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
110
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
111
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
112 <help>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
113
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
114 **What it does**
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
115
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
116 The tool performs all pairwise conversions between sequence formats fasta, fastaw and tabular.
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
117
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
118 The tool is also able to convert fastq format in any of the formats fasta, fastaw and tabular.
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
119
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
120 The format of the input is automatically detected by the tool.
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
121
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
122 **Formats**
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
123
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
124 *Fasta*
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
125
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
126 >id1
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
127
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
128 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
129
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
130 >id2
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
131
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
132 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
133
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
134 Note that the tool handles fasta sequences over multiple lines
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
135
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
136
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
137 ----------
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
138
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
139 *Fastaw*
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
140
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
141 Allows to reduce the size of a fasta file of sequence reads:
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
142
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
143 >id1_n1
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
144
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
145 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
146
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
147 >id2_n2
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
148
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
149 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
150
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
151 etc...
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
152
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
153 Here n1 and n2 are integers that indicate the number of reads of the sequence found in the sequencing dataset
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
154
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
155 Note that if 2 fastaw files are merged (e.g. by concatenation), the values of the number of reads are wrong.
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
156
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
157 These values can simply be re-computed by submitting the merged file to a fastaw conversion with the *sequence_format_converter* tool !
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
158
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
159
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
160 ----------
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
161
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
162 *Tabular*
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
163
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
164 Is a tabular version of fastaw without fasta headers:
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
165
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
166 column 1 column2
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
167
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
168 ATGCATGACCAGATAGGAC n1
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
169
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
170 ATGCATGACCAGATAGGAC n2
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
171
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
172
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
173 ----------
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
174
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
175 *Fastq*
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
176
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
177 @HWI-1
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
178
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
179 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
180
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
181 \+
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
182
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
183 BBBA;ACB9ABCBABB@@/
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
184
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
185 @HWI-2
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
186
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
187 ATGCATGACCAGATAGGAC
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
188
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
189 \+
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
190
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
191 ?03@?82?B>C@B>@CC?0
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
192
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
193
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
194 </help>
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
195
a8aacccd79a3 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit d6ef80f9db43eae4f58b33f58b5ef6f8209907db
artbio
parents:
diff changeset
196 </tool>