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comparison qiime2/qiime_diversity_core-metrics-phylogenetic.xml @ 6:de4c22a52df4 draft

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Fixes
author florianbegusch
date Tue, 13 Aug 2019 07:46:48 -0400
parents 914fa4daf16a
children f190567fe3f6
comparison
equal deleted inserted replaced
5:a025a4a89e07 6:de4c22a52df4
7 <command><![CDATA[ 7 <command><![CDATA[
8 qiime diversity core-metrics-phylogenetic 8 qiime diversity core-metrics-phylogenetic
9 9
10 --i-table=$itable 10 --i-table=$itable
11 --i-phylogeny=$iphylogeny 11 --i-phylogeny=$iphylogeny
12 --p-sampling-depth="$psamplingdepth" 12
13 #if str($psamplingdepth):
14 --p-sampling-depth="$psamplingdepth"
15 #end if
13 16
14 #set $pnjobs = '${GALAXY_SLOTS:-4}' 17 #set $pnjobs = '${GALAXY_SLOTS:-4}'
15 #if str($pnjobs): 18 #if str($pnjobs):
16 --p-n-jobs="$pnjobs" 19 --p-n-jobs="$pnjobs"
17 #end if 20 #end if
19 22
20 #if $input_files_mmetadatafile: 23 #if $input_files_mmetadatafile:
21 #def list_dict_to_string(list_dict): 24 #def list_dict_to_string(list_dict):
22 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') 25 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name')
23 #for d in list_dict[1:]: 26 #for d in list_dict[1:]:
24 #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') 27 #set $file_list = $file_list + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name')
25 #end for 28 #end for
26 #return $file_list 29 #return $file_list
27 #end def 30 #end def
28 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) 31 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile)
29 #end if 32 #end if