|
0
|
1 <tool id="preparecommet" name="Prepare commet" version="1.0">
|
|
|
2 <description>input sets file</description>
|
|
|
3 <command interpreter="python">
|
|
|
4 prepare_commet.py
|
|
|
5 ${read_sets}
|
|
|
6 #for $set in $sets
|
|
|
7 ${set.reads}
|
|
|
8 "${set.setname}"
|
|
|
9 #end for
|
|
|
10
|
|
|
11 </command>
|
|
|
12
|
|
|
13 <inputs>
|
|
|
14 <!-- Input data files -->
|
|
|
15 <repeat name="sets" title="Read sets" min="1">
|
|
|
16 <param name="reads" type="data" multiple="true" format="fasta, fasta.gz, fastq, fastq.gz" label="Dataset"/>
|
|
|
17 <param name="setname" type="text" label="Set name" value="set_name"/>
|
|
|
18 </repeat>
|
|
|
19 </inputs>
|
|
|
20
|
|
|
21 <outputs>
|
|
|
22 <data format="commet" name="read_sets" label="read_sets : ${tool.name} on ${on_string}" />
|
|
|
23 </outputs>
|
|
|
24 <help>
|
|
|
25
|
|
|
26 **Description**
|
|
|
27
|
|
|
28 Prepare a configuration file with sets for commet tool
|
|
|
29
|
|
|
30 -------
|
|
|
31
|
|
|
32 **Created and integrated by**
|
|
|
33
|
|
|
34 Yvan Le Bras and Cyril Monjeaud
|
|
|
35
|
|
|
36 GenOuest Bio-informatics Core Facility
|
|
|
37
|
|
|
38 UMR 6074 IRISA INRIA-CNRS-UR1 Rennes (France)
|
|
|
39
|
|
|
40 support@genouest.org
|
|
|
41
|
|
|
42 If you use this tool in Galaxy, please cite :
|
|
|
43
|
|
|
44 `Y. Le Bras, A. Roult, C. Monjeaud, M. Bahin, O. Quenez, C. Heriveau, A. Bretaudeau, O. Sallou, O. Collin, Towards a Life Sciences Virtual Research Environment : an e-Science initiative in Western France. JOBIM 2013. <https://www.e-biogenouest.org/resources/128>`_
|
|
|
45
|
|
|
46 </help>
|
|
|
47
|
|
|
48 <citations>
|
|
|
49 <citation type="bibtex">@INPROCEEDINGS{JOBIM2013,
|
|
|
50 author = {Le Bras, Y. and ROULT, A. and Monjeaud, C. and Bahin, M. and Quenez, O. and Heriveau, C. and Bretaudeau, A. and Sallou, O. and Collin, O.},
|
|
|
51 title = {Towards a Life Sciences Virtual Research Environment: An e-Science initiative in Western France},
|
|
|
52 booktitle = {JOBIM 2013 Proceedings},
|
|
|
53 year = {2013},
|
|
|
54 url = {https://www.e-biogenouest.org/resources/128},
|
|
|
55 pages = {97-106}
|
|
|
56 }
|
|
|
57 </citation>
|
|
|
58 </citations>
|
|
|
59
|
|
|
60 </tool>
|
|
|
61
|
