Mercurial > repos > galaxyp > openms_mssimulator
comparison MSSimulator.xml @ 5:66f0ddeb23f3 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 58476cadaaf10b494317a604ad81d41c2d15f29b
author | galaxyp |
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date | Mon, 12 Feb 2018 13:05:46 -0500 |
parents | a4c3db6825f4 |
children | d7cddde5703a |
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4:0480462adc36 | 5:66f0ddeb23f3 |
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1 <?xml version='1.0' encoding='UTF-8'?> | 1 <?xml version='1.0' encoding='UTF-8'?> |
2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> | 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.--> |
3 <!--Proposed Tool Section: [Utilities]--> | 3 <!--Proposed Tool Section: [Utilities]--> |
4 <tool id="MSSimulator" name="MSSimulator" version="2.2.0"> | 4 <tool id="MSSimulator" name="MSSimulator" version="2.3.0"> |
5 <description>A highly configurable simulator for mass spectrometry experiments.</description> | 5 <description>A highly configurable simulator for mass spectrometry experiments.</description> |
6 <macros> | 6 <macros> |
7 <token name="@EXECUTABLE@">MSSimulator</token> | 7 <token name="@EXECUTABLE@">MSSimulator</token> |
8 <import>macros.xml</import> | 8 <import>macros.xml</import> |
9 </macros> | 9 </macros> |
624 <remove value="""/> | 624 <remove value="""/> |
625 </valid> | 625 </valid> |
626 </sanitizer> | 626 </sanitizer> |
627 </param> | 627 </param> |
628 <param name="param_algorithm_MSSim_Digestion_enzyme" type="select" optional="False" value="Trypsin" label="Enzyme to use for digestion (select 'no cleavage' to skip digestion)" help="(-enzyme) "> | 628 <param name="param_algorithm_MSSim_Digestion_enzyme" type="select" optional="False" value="Trypsin" label="Enzyme to use for digestion (select 'no cleavage' to skip digestion)" help="(-enzyme) "> |
629 <option value="CNBr">CNBr</option> | |
630 <option value="Trypsin/P">Trypsin/P</option> | |
631 <option value="Lys-C">Lys-C</option> | |
632 <option value="Formic_acid">Formic_acid</option> | |
633 <option value="Arg-C/P">Arg-C/P</option> | |
634 <option value="Alpha-lytic protease">Alpha-lytic protease</option> | |
629 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> | 635 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> |
630 <option value="Trypsin/P">Trypsin/P</option> | 636 <option value="proline endopeptidase">proline endopeptidase</option> |
631 <option value="Formic_acid">Formic_acid</option> | 637 <option value="Arg-C">Arg-C</option> |
638 <option value="unspecific cleavage">unspecific cleavage</option> | |
639 <option value="Trypsin" selected="true">Trypsin</option> | |
632 <option value="TrypChymo">TrypChymo</option> | 640 <option value="TrypChymo">TrypChymo</option> |
641 <option value="V8-E">V8-E</option> | |
642 <option value="2-iodobenzoate">2-iodobenzoate</option> | |
643 <option value="Chymotrypsin/P">Chymotrypsin/P</option> | |
644 <option value="no cleavage">no cleavage</option> | |
645 <option value="Asp-N_ambic">Asp-N_ambic</option> | |
646 <option value="PepsinA">PepsinA</option> | |
647 <option value="Chymotrypsin">Chymotrypsin</option> | |
633 <option value="V8-DE">V8-DE</option> | 648 <option value="V8-DE">V8-DE</option> |
634 <option value="CNBr">CNBr</option> | 649 <option value="Asp-N/B">Asp-N/B</option> |
635 <option value="Chymotrypsin">Chymotrypsin</option> | 650 <option value="Lys-N">Lys-N</option> |
651 <option value="Lys-C/P">Lys-C/P</option> | |
652 <option value="leukocyte elastase">leukocyte elastase</option> | |
636 <option value="Asp-N">Asp-N</option> | 653 <option value="Asp-N">Asp-N</option> |
637 <option value="Lys-C">Lys-C</option> | |
638 <option value="PepsinA">PepsinA</option> | |
639 <option value="Lys-C/P">Lys-C/P</option> | |
640 <option value="Asp-N_ambic">Asp-N_ambic</option> | |
641 <option value="Arg-C">Arg-C</option> | |
642 <option value="proline endopeptidase">proline endopeptidase</option> | |
643 <option value="Trypsin" selected="true">Trypsin</option> | |
644 <option value="2-iodobenzoate">2-iodobenzoate</option> | |
645 <option value="no cleavage">no cleavage</option> | |
646 <option value="unspecific cleavage">unspecific cleavage</option> | |
647 <option value="V8-E">V8-E</option> | |
648 <option value="leukocyte elastase">leukocyte elastase</option> | |
649 </param> | 654 </param> |
650 <param name="param_algorithm_MSSim_Digestion_model" display="radio" type="select" optional="False" value="naive" label="The cleavage model to use for digestion" help="(-model) 'Trained' is based on a log likelihood model (see DOI:10.1021/pr060507u)"> | 655 <param name="param_algorithm_MSSim_Digestion_model" display="radio" type="select" optional="False" value="naive" label="The cleavage model to use for digestion" help="(-model) 'Trained' is based on a log likelihood model (see DOI:10.1021/pr060507u)"> |
651 <option value="trained">trained</option> | 656 <option value="trained">trained</option> |
652 <option value="naive" selected="true">naive</option> | 657 <option value="naive" selected="true">naive</option> |
653 </param> | 658 </param> |