Mercurial > repos > iuc > limma_voom

comparison limma_voom.xml @ 21:58c35179ebf0 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/limma_voom commit 127882bd6729d92500ce2a7a51eb5f8949a4c2b5"
author iuc
date Fri, 04 Jun 2021 20:37:04 +0000
parents 0921444c832d
children 708348a17fa1
comparison
equal deleted inserted replaced
20:0921444c832d 21:58c35179ebf0
1 <tool id="limma_voom" name="limma" version="3.38.3+galaxy3"> 1 <tool id="limma_voom" name="limma" version="3.48.0">
2 <description> 2 <description>
3 Perform differential expression with limma-voom or limma-trend 3 Perform differential expression with limma-voom or limma-trend
4 </description> 4 </description>
5 <xrefs>
6 <xref type="bio.tools">limma</xref>
7 </xrefs>
8 <edam_topics>
9 <edam_topic>topic_3308</edam_topic>
10 </edam_topics>
11 <edam_operations>
12 <edam_operation>operation_3563</edam_operation>
13 <edam_operation>operation_3223</edam_operation>
14 </edam_operations>
5 15
6 <requirements> 16 <requirements>
7 <requirement type="package" version="3.38.3">bioconductor-limma</requirement> 17 <requirement type="package" version="3.48.0">bioconductor-limma</requirement>
8 <requirement type="package" version="3.24.1">bioconductor-edger</requirement> 18 <requirement type="package" version="3.34.0">bioconductor-edger</requirement>
9 <requirement type="package" version="1.4.30">r-statmod</requirement> 19 <requirement type="package" version="1.4.36">r-statmod</requirement>
10 <requirement type="package" version="1.0.0">r-scales</requirement> 20 <requirement type="package" version="1.1.1">r-scales</requirement>
11 <requirement type="package" version="0.2.20">r-rjson</requirement> 21 <requirement type="package" version="0.2.20">r-rjson</requirement>
12 <requirement type="package" version="1.20.2">r-getopt</requirement> 22 <requirement type="package" version="1.20.3">r-getopt</requirement>
13 <requirement type="package" version="3.0.1">r-gplots</requirement> 23 <requirement type="package" version="3.1.1">r-gplots</requirement>
14 <requirement type="package" version="1.10.0">bioconductor-glimma</requirement> 24 <requirement type="package" version="2.2.0">bioconductor-glimma</requirement>
15 </requirements> 25 </requirements>
16 26
17 <version_command><![CDATA[ 27 <version_command><![CDATA[
18 echo $(R --version | grep version | grep -v GNU)", limma version" $(R --vanilla --slave -e "library(limma); cat(sessionInfo()\$otherPkgs\$limma\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", edgeR version" $(R --vanilla --slave -e "library(edgeR); cat(sessionInfo()\$otherPkgs\$edgeR\$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: ")", scales version" $(R --vanilla --slave -e "library(scales); cat(sessionInfo()\$otherPkgs\$scales\$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: ")", getopt version" $(R --vanilla --slave -e "library(getopt); cat(sessionInfo()\$otherPkgs\$getopt\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", gplots version" $(R --vanilla --slave -e "library(gplots); cat(sessionInfo()\$otherPkgs\$gplots\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", Glimma version" $(R --vanilla --slave -e "library(Glimma); cat(sessionInfo()\$otherPkgs\$Glimma\$Version)" 2> /dev/null | grep -v -i "WARNING: ") 28 echo $(R --version | grep version | grep -v GNU)", limma version" $(R --vanilla --slave -e "library(limma); cat(sessionInfo()\$otherPkgs\$limma\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", edgeR version" $(R --vanilla --slave -e "library(edgeR); cat(sessionInfo()\$otherPkgs\$edgeR\$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: ")", scales version" $(R --vanilla --slave -e "library(scales); cat(sessionInfo()\$otherPkgs\$scales\$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: ")", getopt version" $(R --vanilla --slave -e "library(getopt); cat(sessionInfo()\$otherPkgs\$getopt\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", gplots version" $(R --vanilla --slave -e "library(gplots); cat(sessionInfo()\$otherPkgs\$gplots\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", Glimma version" $(R --vanilla --slave -e "library(Glimma); cat(sessionInfo()\$otherPkgs\$Glimma\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
19 ]]></version_command> 29 ]]></version_command>