Mercurial > repos > florianbegusch > qiime2_wrappers
diff qiime2/qiime_diversity_core-metrics.xml @ 4:71f124e02000 draft default tip
Fixes
author | florianbegusch |
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date | Tue, 13 Aug 2019 07:40:25 -0400 |
parents | 149432539226 |
children |
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--- a/qiime2/qiime_diversity_core-metrics.xml Wed Jul 17 01:53:11 2019 -0400 +++ b/qiime2/qiime_diversity_core-metrics.xml Tue Aug 13 07:40:25 2019 -0400 @@ -8,23 +8,26 @@ qiime diversity core-metrics --i-table=$itable ---p-sampling-depth="$psamplingdepth" + +#if str($psamplingdepth): + --p-sampling-depth="$psamplingdepth" +#end if #set $pnjobs = '${GALAXY_SLOTS:-4}' #if str($pnjobs): --p-n-jobs="$pnjobs" #end if +#if $input_files_mmetadatafile: #def list_dict_to_string(list_dict): #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') #for d in list_dict[1:]: - #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') + #set $file_list = $file_list + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name') #end for #return $file_list #end def - --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) - +#end if --o-rarefied-table=orarefiedtable --o-observed-otus-vector=oobservedotusvector @@ -56,7 +59,7 @@ <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples over which diversity metrics should be computed. [required]" name="itable" optional="False" type="data"/> <param label="--p-sampling-depth: INTEGER Range(1, None) The total frequency that each sample should be rarefied to prior to computing diversity metrics. [required]" name="psamplingdepth" optional="False" min="1" value="" type="integer"/> - <repeat name="input_files_mmetadatafile" optional="False" title="--m-metadata-file"> + <repeat name="input_files_mmetadatafile" optional="False" title="--m-metadata-file [required]"> <param label="--m-metadata-file: METADATA... (multiple arguments will be merged) The sample metadata to use in the emperor plots. [required]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" /> </repeat>