Mercurial > repos > florianbegusch > qiime2_all
comparison qiime_feature-table_merge-taxa.xml @ 0:09b7bcb72fa7 draft
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| author | florianbegusch |
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| date | Thu, 24 May 2018 02:11:44 -0400 |
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| -1:000000000000 | 0:09b7bcb72fa7 |
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| 1 <?xml version="1.0" ?> | |
| 2 <tool id="qiime_feature-table_merge-taxa" name="qiime feature-table merge-taxa" version="2018.4"> | |
| 3 <description> - Combine collections of feature taxonomies</description> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="2018.4">qiime2</requirement> | |
| 6 </requirements> | |
| 7 <command> | |
| 8 <![CDATA[ | |
| 9 qiime feature-table merge-taxa | |
| 10 | |
| 11 #def list_dict_to_string(list_dict): | |
| 12 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') | |
| 13 #for d in list_dict[1:]: | |
| 14 #set $file_list = $file_list + ' --i-data=' + d['additional_input'].__getattr__('file_name') | |
| 15 #end for | |
| 16 #return $file_list | |
| 17 #end def | |
| 18 | |
| 19 | |
| 20 --i-data=$list_dict_to_string($input_files_idata) | |
| 21 #if str($cmdconfig) != 'None': | |
| 22 --cmd-config=$cmdconfig | |
| 23 #end if | |
| 24 --o-merged-data=omergeddata; | |
| 25 | |
| 26 cp omergeddata.qza $omergeddata; | |
| 27 ]]> | |
| 28 </command> | |
| 29 <inputs> | |
| 30 <repeat name="input_files_idata" optional="False" title="--i-data"> | |
| 31 <param format="qza,no_unzip.zip" label="--i-data: PATH List[FeatureData[Taxonomy]] The collection of feature taxonomies to be merged. [required]" name="additional_input" type="data"/> | |
| 32 </repeat> | |
| 33 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/> | |
| 34 </inputs> | |
| 35 <outputs> | |
| 36 <data format="qza" label="${tool.name} on ${on_string}: merged-data.qza" name="omergeddata"/> | |
| 37 </outputs> | |
| 38 <help> | |
| 39 <![CDATA[ | |
| 40 Combine collections of feature taxonomies | |
| 41 ------------------------------------------ | |
| 42 | |
| 43 Combines a pair of feature data objects which may or may not contain data | |
| 44 for the same features. If different feature data is present for the same | |
| 45 feature id in the inputs, the data from the first will be propagated to the | |
| 46 result. | |
| 47 | |
| 48 Parameters | |
| 49 ---------- | |
| 50 data : List[FeatureData[Taxonomy]] | |
| 51 The collection of feature taxonomies to be merged. | |
| 52 | |
| 53 Returns | |
| 54 ------- | |
| 55 merged_data : FeatureData[Taxonomy] | |
| 56 The resulting collection of feature taxonomies containing all feature | |
| 57 taxonomies provided. | |
| 58 ]]> | |
| 59 </help> | |
| 60 </tool> |