Mercurial > repos > galaxyp > psm_validation

comparison psm_validation.xml @ 1:b71c651e7950 draft default tip

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/psm_validation commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c"
author galaxyp
date Thu, 29 Oct 2020 16:22:07 +0000
parents ddcab0f11473
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0:ddcab0f11473 1:b71c651e7950
1 <tool id="psmvalidator" name="PSM-Fragment Validator" version="@VERSION@"> 1 <tool id="psmvalidator" name="PSM-Fragment Validator" version="@VERSION@+galaxy@VERSION_SUFFIX@">
2 <macros> 2 <macros>
3 <import>macros.xml</import> 3 <import>macros.xml</import>
4 </macros> 4 </macros>
5 <description>Validate PSMs against Ion Fragmentation</description> 5 <description>Validate PSMs against Ion Fragmentation</description>
6 <expand macro="pkg_requirement" /> 6 <expand macro="pkg_requirement" />
28 <param name="peptide_sequences" type="data" format="tabular" label="Peptide Sequence List" /> 28 <param name="peptide_sequences" type="data" format="tabular" label="Peptide Sequence List" />
29 <param name="b_ion_run" type="integer" value="2" label="Consecutive B-Ions" /> 29 <param name="b_ion_run" type="integer" value="2" label="Consecutive B-Ions" />
30 <param name="y_ion_run" type="integer" value="2" label="Consecutive Y-Ions" /> 30 <param name="y_ion_run" type="integer" value="2" label="Consecutive Y-Ions" />
31 <param name="neutral_loss_ions" type="boolean" checked="True" label="Use Neutral Loss" /> 31 <param name="neutral_loss_ions" type="boolean" checked="True" label="Use Neutral Loss" />
32 <param name="internal_ions" type="boolean" checked="True" label="Use Internals" /> 32 <param name="internal_ions" type="boolean" checked="True" label="Use Internals" />
33 <param name="epsilon" type="float" value="0.5" label="Epsilon" /> 33 <param name="epsilon" type="float" value="0.5" label="Fragment Tolerance" />
34 </inputs> 34 </inputs>
35 <outputs> 35 <outputs>
36 <data name="html_output" format="html" from_work_dir="index.html" label="PSM Ion Fragementation Report" /> 36 <data name="html_output" format="html" from_work_dir="index.html" label="PSM Ion Fragementation Report" />
37 <data name="text_output" format="tabular" from_work_dir="results.tab" label="Tabular Results" /> 37 <data name="text_output" format="tabular" from_work_dir="results.tab" label="Tabular Results" />
38 </outputs> 38 </outputs>