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comparison qiime2-2020.8/qiime_feature-table_merge-taxa.xml @ 0:5c352d975ef7 draft

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author florianbegusch
date Thu, 03 Sep 2020 09:33:04 +0000
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1 <?xml version="1.0" ?>
2 <tool id="qiime_feature-table_merge-taxa" name="qiime feature-table merge-taxa"
3 version="2020.8">
4 <description>Combine collections of feature taxonomies</description>
5 <requirements>
6 <requirement type="package" version="2020.8">qiime2</requirement>
7 </requirements>
8 <command><![CDATA[
9 qiime feature-table merge-taxa
10 # if $input_files_idata:
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 $file_list
17 # end def
18 --i-data=$list_dict_to_string($input_files_idata)
19 # end if
20
21 --o-merged-data=omergeddata
22
23 #if str($examples) != 'None':
24 --examples=$examples
25 #end if
26
27 ;
28 cp omergeddata.qza $omergeddata
29
30 ]]></command>
31 <inputs>
32 <repeat name="input_files_idata" optional="False" title="--i-data">
33 <param format="qza,no_unzip.zip" label="--i-data: ARTIFACTS... List[FeatureData[Taxonomy]] The collection of feature taxonomies to be merged. [required]" name="additional_input" optional="False" type="data" />
34 </repeat>
35 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
36
37 </inputs>
38
39 <outputs>
40 <data format="qza" label="${tool.name} on ${on_string}: mergeddata.qza" name="omergeddata" />
41
42 </outputs>
43
44 <help><![CDATA[
45 Combine collections of feature taxonomies
46 ###############################################################
47
48 Combines a pair of feature data objects which may or may not contain data
49 for the same features. If different feature data is present for the same
50 feature id in the inputs, the data from the first will be propagated to the
51 result.
52
53 Parameters
54 ----------
55 data : List[FeatureData[Taxonomy]]
56 The collection of feature taxonomies to be merged.
57
58 Returns
59 -------
60 merged_data : FeatureData[Taxonomy]
61 The resulting collection of feature taxonomies containing all feature
62 taxonomies provided.
63 ]]></help>
64 <macros>
65 <import>qiime_citation.xml</import>
66 </macros>
67 <expand macro="qiime_citation"/>
68 </tool>