Mercurial > repos > iuc > deseq2
comparison deseq2.xml @ 14:0fb62f07f8b7 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit e0f819a2fd56eb5ee30a7fd772780693e1f085fa
| author | iuc |
|---|---|
| date | Wed, 02 Dec 2015 17:41:10 -0500 |
| parents | 00ff49f9e750 |
| children | d856341e03c8 |
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| 13:00ff49f9e750 | 14:0fb62f07f8b7 |
|---|---|
| 1 <tool id="deseq2" name="DESeq2" version="2.1.8.2"> | 1 <tool id="deseq2" name="DESeq2" version="2.1.8.3"> |
| 2 <description>Determines differentially expressed features from count tables</description> | 2 <description>Determines differentially expressed features from count tables</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <!-- odering is crucial, otherwise R will override the ENV variables from deseq2 --> | 4 <!-- odering is crucial, otherwise R will override the ENV variables from deseq2 --> |
| 5 <requirement type="package" version="1.8.2">deseq2</requirement> | 5 <requirement type="package" version="1.8.2">deseq2</requirement> |
| 6 </requirements> | 6 </requirements> |
| 39 #for $file in $level.countsFile: | 39 #for $file in $level.countsFile: |
| 40 $count_files.append(str($file)) | 40 $count_files.append(str($file)) |
| 41 #end for | 41 #end for |
| 42 $temp_factor.append( {str($level.factorLevel): $count_files} ) | 42 $temp_factor.append( {str($level.factorLevel): $count_files} ) |
| 43 #end for | 43 #end for |
| 44 $temp_factor.reverse() | |
| 44 $temp_factor_names.append([str($factor.factorName), $temp_factor]) | 45 $temp_factor_names.append([str($factor.factorName), $temp_factor]) |
| 45 #end for | 46 #end for |
| 46 -f '#echo json.dumps(temp_factor_names)#' | 47 -f '#echo json.dumps(temp_factor_names)#' |
| 47 -t "$fit_type" | 48 -t "$fit_type" |
| 48 #if $outlier_replace_off: | 49 #if $outlier_replace_off: |