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comparison qiime2/qiime_feature-table_summarize.xml @ 2:51025741f326 draft

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Uploaded
author florianbegusch
date Thu, 18 Jul 2019 12:19:15 -0400
parents 370e0b6e9826
children f190567fe3f6
comparison
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1:255f48db74f8 2:51025741f326
7 <command><![CDATA[ 7 <command><![CDATA[
8 qiime feature-table summarize 8 qiime feature-table summarize
9 9
10 --i-table=$itable 10 --i-table=$itable
11 11
12
13 #if $m_sample_metadatafile:
12 #def list_dict_to_string(list_dict): 14 #def list_dict_to_string(list_dict):
13 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') 15 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name')
14 #for d in list_dict[1:]: 16 #for d in list_dict[1:]:
15 #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') 17 #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name')
16 #end for 18 #end for
17 #return $file_list 19 #return $file_list
18 #end def 20 #end def
19 --m-sample-metadata-file=$list_dict_to_string($m_sample_metadatafile) 21 --m-sample-metadata-file=$list_dict_to_string($m_sample_metadatafile)
22 #end if
23
20 24
21 --o-visualization=ovisualization 25 --o-visualization=ovisualization
22 ; 26 ;
23 qiime tools export --input-path ovisualization.qzv --output-path out && mkdir -p '$ovisualization.files_path' 27 qiime tools export --input-path ovisualization.qzv --output-path out && mkdir -p '$ovisualization.files_path'
24 && cp -r out/* '$ovisualization.files_path' 28 && cp -r out/* '$ovisualization.files_path'