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comparison qiime2/qiime_feature-classifier_classify-consensus-blast.xml @ 4:914fa4daf16a draft

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Fixes
author florianbegusch
date Wed, 31 Jul 2019 03:06:00 -0400
parents 370e0b6e9826
children de4c22a52df4
comparison
equal deleted inserted replaced
3:558645416841 4:914fa4daf16a
41 41
42 #if $pminconsensus: 42 #if $pminconsensus:
43 --p-min-consensus=$pminconsensus 43 --p-min-consensus=$pminconsensus
44 #end if 44 #end if
45 45
46
47
48
49
50 #if '__sq__' in str($punassignablelabel):
51 #set $punassignablelabel_temp = $punassignablelabel.replace('__sq__', "'")
52 #set $punassignablelabel = $punassignablelabel_temp
53 #end if
54
46 #if str($punassignablelabel): 55 #if str($punassignablelabel):
47 --p-unassignable-label="$punassignablelabel" 56 --p-unassignable-label="$punassignablelabel"
48 #end if 57 #end if
58
59
49 60
50 --o-classification=oclassification 61 --o-classification=oclassification
51 ; 62 ;
52 cp oclassification.qza $oclassification 63 cp oclassification.qza $oclassification
53 ]]></command> 64 ]]></command>
79 <option value="plus">plus</option> 90 <option value="plus">plus</option>
80 <option value="minus">minus</option> 91 <option value="minus">minus</option>
81 </param> 92 </param>
82 <param label="--p-evalue: NUMBER BLAST expectation value (E) threshold for saving hits. [default: 0.001]" name="pevalue" optional="True" type="float" value="0.001"/> 93 <param label="--p-evalue: NUMBER BLAST expectation value (E) threshold for saving hits. [default: 0.001]" name="pevalue" optional="True" type="float" value="0.001"/>
83 <param label="--p-min-consensus: NUMBER Range(0.5, 1.0, inclusive_start=False, inclusive_end=True) Minimum fraction of assignments must match top hit to be accepted as consensus assignment. Must be in range (0.5, 1.0]. [default: 0.51]" name="pminconsensus" optional="True" type="float" min="0.5" max="1" exclude_min="True" exclude_max="False" value="0.51"/> 94 <param label="--p-min-consensus: NUMBER Range(0.5, 1.0, inclusive_start=False, inclusive_end=True) Minimum fraction of assignments must match top hit to be accepted as consensus assignment. Must be in range (0.5, 1.0]. [default: 0.51]" name="pminconsensus" optional="True" type="float" min="0.5" max="1" exclude_min="True" exclude_max="False" value="0.51"/>
84 <param label="--p-unassignable-label: TEXT [default: 'Unassigned']" name="punassignablelabel" optional="True" type="text" value="'Unassigned'"/> 95 <param label="--p-unassignable-label: TEXT [default: 'Unassigned']" name="punassignablelabel" optional="True" type="text" value="Unassigned"/>
85 </inputs> 96 </inputs>
86 <outputs> 97 <outputs>
87 <data format="qza" label="${tool.name} on ${on_string}: classification.qza" name="oclassification"/> 98 <data format="qza" label="${tool.name} on ${on_string}: classification.qza" name="oclassification"/>
88 </outputs> 99 </outputs>
89 <help><![CDATA[ 100 <help><![CDATA[