Mercurial > repos > galaxyp > openms_psmfeatureextractor
comparison PSMFeatureExtractor.xml @ 6:151e4b119c70 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"
author | galaxyp |
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date | Tue, 13 Oct 2020 20:27:32 +0000 |
parents | 8d4b175e06b5 |
children | 59736982ab7b |
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5:3787addbb8e1 | 6:151e4b119c70 |
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55 <expand macro="adv_opts_macro"> | 55 <expand macro="adv_opts_macro"> |
56 <param name="skip_db_check" argument="-skip_db_check" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Manual override to skip the check if same settings for multiple search engines were applied" help="Only valid together with -multiple_search_engines flag"/> | 56 <param name="skip_db_check" argument="-skip_db_check" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Manual override to skip the check if same settings for multiple search engines were applied" help="Only valid together with -multiple_search_engines flag"/> |
57 <param name="concat" argument="-concat" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Naive merging of PSMs from different search engines: concatenate multiple search results instead of merging on scan level" help="Only valid together with -multiple_search_engines flag"/> | 57 <param name="concat" argument="-concat" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Naive merging of PSMs from different search engines: concatenate multiple search results instead of merging on scan level" help="Only valid together with -multiple_search_engines flag"/> |
58 <param name="impute" argument="-impute" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Will instead of discarding all PSM not unanimously detected by all SE, impute missing values by their respective scores min/max observed" help="Only valid together with -multiple_search_engines flag"/> | 58 <param name="impute" argument="-impute" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Will instead of discarding all PSM not unanimously detected by all SE, impute missing values by their respective scores min/max observed" help="Only valid together with -multiple_search_engines flag"/> |
59 <param name="limit_imputation" argument="-limit_imputation" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Will impute missing scores with the worst numerical limit (instead of min/max observed) of the respective score" help="Only valid together with -multiple_search_engines flag"/> | 59 <param name="limit_imputation" argument="-limit_imputation" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Will impute missing scores with the worst numerical limit (instead of min/max observed) of the respective score" help="Only valid together with -multiple_search_engines flag"/> |
60 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overwrite tool specific checks" help=""/> | 60 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/> |
61 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> | 61 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> |
62 <expand macro="list_string_san"/> | 62 <expand macro="list_string_san"/> |
63 </param> | 63 </param> |
64 </expand> | 64 </expand> |
65 <param name="OPTIONAL_OUTPUTS" type="select" multiple="true" label="Optional outputs" optional="true"> | 65 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs"> |
66 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> | 66 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> |
67 </param> | 67 </param> |
68 </inputs> | 68 </inputs> |
69 <outputs> | 69 <outputs> |
70 <data name="out" label="${tool.name} on ${on_string}: out"> | 70 <data name="out" label="${tool.name} on ${on_string}: out"> |
82 <expand macro="manutest_PSMFeatureExtractor"/> | 82 <expand macro="manutest_PSMFeatureExtractor"/> |
83 </tests> | 83 </tests> |
84 <help><![CDATA[Computes extra features for each input PSM. | 84 <help><![CDATA[Computes extra features for each input PSM. |
85 | 85 |
86 | 86 |
87 For more information, visit http://www.openms.de/documentation/UTILS_PSMFeatureExtractor.html]]></help> | 87 For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/UTILS_PSMFeatureExtractor.html]]></help> |
88 <expand macro="references"/> | 88 <expand macro="references"/> |
89 </tool> | 89 </tool> |