Mercurial > repos > galaxyp > openms_consensusmapnormalizer
diff ConsensusMapNormalizer.xml @ 12:6c3d3db54b1f draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author | galaxyp |
---|---|
date | Wed, 15 May 2019 05:53:47 -0400 |
parents | 4fec36da6f53 |
children | 6254b3dc8c93 |
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--- a/ConsensusMapNormalizer.xml Mon Feb 12 08:49:19 2018 -0500 +++ b/ConsensusMapNormalizer.xml Wed May 15 05:53:47 2019 -0400 @@ -1,7 +1,7 @@ <?xml version='1.0' encoding='UTF-8'?> -<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> +<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.--> <!--Proposed Tool Section: [Map Alignment]--> -<tool id="ConsensusMapNormalizer" name="ConsensusMapNormalizer" version="2.2.0"> +<tool id="ConsensusMapNormalizer" name="ConsensusMapNormalizer" version="2.3.0"> <description>Normalizes maps of one consensusXML file</description> <macros> <token name="@EXECUTABLE@">ConsensusMapNormalizer</token> @@ -10,7 +10,7 @@ <expand macro="references"/> <expand macro="stdio"/> <expand macro="requirements"/> - <command>ConsensusMapNormalizer + <command detect_errors="aggressive"><![CDATA[ConsensusMapNormalizer #if $param_in: -in $param_in @@ -40,7 +40,7 @@ -force #end if #end if -</command> +]]></command> <inputs> <param name="param_in" type="data" format="consensusxml" optional="False" label="input file" help="(-in) "/> <param name="param_algorithm_type" display="radio" type="select" optional="False" value="robust_regression" label="The normalization algorithm that is applied" help="(-algorithm_type) 'robust_regression' scales each map by a fator computed from the ratios of non-differential background features (as determined by the ratio_threshold parameter), 'quantile' performs quantile normalization, 'median' scales all maps to the same median intensity, 'median_shift' shifts the median instead of scaling (WARNING: if you have regular, log-normal MS data, 'median_shift' is probably the wrong choice. Use only if you know what you're doing!)"> @@ -76,5 +76,5 @@ <help>Normalizes maps of one consensusXML file -For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_ConsensusMapNormalizer.html</help> +For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_ConsensusMapNormalizer.html</help> </tool>