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comparison masigpro.xml @ 3:83f8b5ceff43 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/masigpro commit 60951bbe9b08fa6eb2762db9ee15c88e8acf1a1f"
author iuc
date Tue, 03 Dec 2019 06:18:47 -0500
parents db04ba860dab
children 402e0b9cfd87
comparison
equal deleted inserted replaced
2:db04ba860dab 3:83f8b5ceff43
1 <tool id="masigpro" name="maSigPro" version="1.49.3.1"> 1 <tool id="masigpro" name="maSigPro" version="1.49.3.1+galaxy1">
2 <description>Significant Gene Expression Profile Differences in Time Course Gene Expression Data</description> 2 <description>Significant Gene Expression Profile Differences in Time Course Gene Expression Data</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="8.25">coreutils</requirement>
4 <requirement type="package" version="1.49.3">bioconductor-masigpro</requirement> 5 <requirement type="package" version="1.49.3">bioconductor-masigpro</requirement>
5 <requirement type="package" version="1.3.2">r-optparse</requirement> 6 <requirement type="package" version="1.3.2">r-optparse</requirement>
6 <requirement type="package" version="4.4">sed</requirement> 7 <requirement type="package" version="4.4">sed</requirement>
7 </requirements> 8 </requirements>
8 <stdio> 9 <stdio>
40 <(cut -f2 $file) 41 <(cut -f2 $file)
41 #end for 42 #end for
42 #end for 43 #end for
43 > data && sed -i '1i$header' data && 44 > data && sed -i '1i$header' data &&
44 #if $source.enable_output: 45 #if $source.enable_output:
45 ln -f data $data_out && ln -f $design_matrix $edesign_out && 46 cp $design_matrix $edesign_out &&
46 #end if 47 #end if
47 #set $data = 'data' 48 #set $data = 'data'
48 #set $edesign = $design_matrix 49 #set $edesign = $design_matrix
49 #else: 50 #else:
50 #set $data = $source.data 51 #set $data = $source.data
82 --color_mode $pdf.seeGenes.colorMode 83 --color_mode $pdf.seeGenes.colorMode
83 --show_fit $pdf.seeGenes.showFit 84 --show_fit $pdf.seeGenes.showFit
84 --show_lines $pdf.seeGenes.showLines 85 --show_lines $pdf.seeGenes.showLines
85 --cexlab $pdf.seeGenes.cexlab 86 --cexlab $pdf.seeGenes.cexlab
86 --legend $pdf.seeGenes.legend 87 --legend $pdf.seeGenes.legend
88 #end if
89 #if str($source.source_selector) == "advanced" and $source.enable_output
90 && mv data $data_out
87 #end if 91 #end if
88 ]]> 92 ]]>
89 </command> 93 </command>
90 <configfiles> 94 <configfiles>
91 <configfile name="design_matrix">#if str($source.source_selector) == "advanced": 95 <configfile name="design_matrix">#if str($source.source_selector) == "advanced":