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comparison file_info.xml @ 0:ba86fd127f5a draft

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author galaxyp
date Wed, 19 Dec 2012 00:32:25 -0500
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1 <tool id="openms_file_info" version="0.1.0" name="File Info">
2 <description>
3 Shows basic information about the file, such as data ranges and file type.
4 </description>
5 <requirements>
6 <requirement type="package">openms</requirement>
7 </requirements>
8 <command interpreter="python">
9 openms_wrapper.py --executable 'FileInfo' --config $config
10 </command>
11 <configfiles>
12 <configfile name="config">[simple_options]
13 m=${m}
14 p=${p}
15 s=${s}
16 d=${d}
17 in=${in}
18 in_type=${in.ext}
19 out=${out}
20 </configfile>
21 </configfiles>
22 <inputs>
23 <param format="mzxml,mzml,mgf,pepxml,idxml" name="in" type="data" label="Input Mass Spec Related File"/>
24 <param type="boolean" name="m" label="Show meta information about the whole experiment" />
25 <param type="boolean" name="p" label="Shows data processing information" />
26 <param type="boolean" name="s" label="Computes a five-number statistics of intensities, qualities, and widths" />
27 <param type="boolean" name="d" label="Show detailed listing of all spectra and chromatograms (peak files only)" />
28 <param type="boolean" name="c" label="Check for corrupt data in the file (peak files only)" />
29 </inputs>
30 <outputs>
31 <data format="txt" name="out" />
32 </outputs>
33 <help>
34 **What it does**
35
36 Shows basic information about the file, such as data ranges and file type.
37
38 **Citation**
39
40 For the underlying tool, please cite ``Marc Sturm, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt, Rene Hussong, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert, and Oliver Kohlbacher, 2008. OpenMS – an Open-Source Software Framework for Mass Spectrometry. BMC Bioinformatics 9: 163. doi:10.1186/1471-2105-9-163.``
41
42 If you use this tool in Galaxy, please cite Chilton J, et al. https://bitbucket.org/galaxyp/galaxyp-toolshed-openms
43 </help>
44 </tool>