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comparison egsea.xml @ 4:fba1660fb717 draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/egsea commit c2313b506b3b8ae860bb844b979397d87de4fb44"
author iuc
date Mon, 28 Jun 2021 09:45:14 +0000
parents 31ea4992b948
children
comparison
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3:31ea4992b948 4:fba1660fb717
1 <tool id="egsea" name="EGSEA" version="1.10.0"> 1 <tool id="egsea" name="EGSEA" version="1.20.0">
2 <description> easy and efficient ensemble gene set testing</description> 2 <description> easy and efficient ensemble gene set testing</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.10.0">bioconductor-egsea</requirement> 4 <requirement type="package" version="1.20.0">bioconductor-egsea</requirement>
5 <requirement type="package" version="1.6.0">r-optparse</requirement> 5 <requirement type="package" version="1.6.6">r-optparse</requirement>
6 <requirement type="package" version="0.2.20">r-rjson</requirement> 6 <requirement type="package" version="0.2.20">r-rjson</requirement>
7 <!--statmod is required for fry--> 7 <!--statmod is required for fry-->
8 <requirement type="package" version="1.4.30">r-statmod</requirement> 8 <requirement type="package" version="1.4.36">r-statmod</requirement>
9 </requirements> 9 </requirements>
10 <version_command><![CDATA[ 10 <version_command><![CDATA[
11 echo $(R --version | grep version | grep -v GNU)", EGSEA version" $(R --vanilla --slave -e "library(EGSEA); cat(sessionInfo()\$otherPkgs\$EGSEA\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", optparse version" $(R --vanilla --slave -e "library(optparse); cat(sessionInfo()\$otherPkgs\$optparse\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", rjson version" $(R --vanilla --slave -e "library(rjson); cat(sessionInfo()\$otherPkgs\$rjson\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", statmod version" $(R --vanilla --slave -e "library(statmod); cat(sessionInfo()\$otherPkgs\$statmod\$Version)" 2> /dev/null | grep -v -i "WARNING: ") 11 echo $(R --version | grep version | grep -v GNU)", EGSEA version" $(R --vanilla --slave -e "library(EGSEA); cat(sessionInfo()\$otherPkgs\$EGSEA\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", optparse version" $(R --vanilla --slave -e "library(optparse); cat(sessionInfo()\$otherPkgs\$optparse\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", rjson version" $(R --vanilla --slave -e "library(rjson); cat(sessionInfo()\$otherPkgs\$rjson\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", statmod version" $(R --vanilla --slave -e "library(statmod); cat(sessionInfo()\$otherPkgs\$statmod\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
12 ]]></version_command> 12 ]]></version_command>
13 <command detect_errors="exit_code"><![CDATA[ 13 <command detect_errors="exit_code"><![CDATA[
153 <option value="human" selected="True">Human</option> 153 <option value="human" selected="True">Human</option>
154 <option value="mouse">Mouse</option> 154 <option value="mouse">Mouse</option>
155 <option value="rat">Rat</option> 155 <option value="rat">Rat</option>
156 </param> 156 </param>
157 157
158 <param name="base_methods" type="select" display="checkboxes" multiple="True" min="3" label="Gene Set Testing Methods" help="Select at least 3 gene set testing methods"> 158 <param name="base_methods" type="select" display="checkboxes" multiple="True" min="3" label="Gene Set Testing Methods" help="Select at least 3 gene set testing methods for ensemble analysis. Alternatively, a single method can be chosen.">
159 <option value="camera" selected="True">camera</option> 159 <option value="camera" selected="True">camera</option>
160 <option value="safe">safe</option> 160 <option value="safe">safe</option>
161 <option value="gage">gage</option> 161 <option value="gage">gage</option>
162 <option value="zscore">zscore</option> 162 <option value="zscore">zscore</option>
163 <option value="gsva">gsva</option> 163 <option value="gsva">gsva</option>