Mercurial > repos > florianbegusch > qiime2_suite
comparison qiime2/qiime_feature-classifier_classify-consensus-vsearch.xml @ 4:914fa4daf16a draft
Fixes
author | florianbegusch |
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date | Wed, 31 Jul 2019 03:06:00 -0400 |
parents | 370e0b6e9826 |
children | de4c22a52df4 |
comparison
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3:558645416841 | 4:914fa4daf16a |
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18 #set $tax = $id_to_taxonomy_fp.taxonomy_fp.fields.path | 18 #set $tax = $id_to_taxonomy_fp.taxonomy_fp.fields.path |
19 --i-reference-taxonomy '$tax' | 19 --i-reference-taxonomy '$tax' |
20 #end if | 20 #end if |
21 | 21 |
22 | 22 |
23 | |
23 #if $pmaxaccepts: | 24 #if $pmaxaccepts: |
24 --p-maxaccepts=$pmaxaccepts | 25 --p-maxaccepts=$pmaxaccepts |
25 #end if | 26 #end if |
26 | 27 |
27 #if $ppercidentity: | 28 #if $ppercidentity: |
38 | 39 |
39 #if $pminconsensus: | 40 #if $pminconsensus: |
40 --p-min-consensus=$pminconsensus | 41 --p-min-consensus=$pminconsensus |
41 #end if | 42 #end if |
42 | 43 |
44 | |
45 | |
46 | |
47 | |
48 #if '__sq__' in str($punassignablelabel): | |
49 #set $punassignablelabel_temp = $punassignablelabel.replace('__sq__', "'") | |
50 #set $punassignablelabel = $punassignablelabel_temp | |
51 #end if | |
52 | |
43 #if str($punassignablelabel): | 53 #if str($punassignablelabel): |
44 --p-unassignable-label="$punassignablelabel" | 54 --p-unassignable-label="$punassignablelabel" |
45 #end if | 55 #end if |
56 | |
57 | |
58 | |
46 | 59 |
47 #set $pthreads = '${GALAXY_SLOTS:-4}' | 60 #set $pthreads = '${GALAXY_SLOTS:-4}' |
48 #if str($pthreads): | 61 #if str($pthreads): |
49 --p-threads="$pthreads" | 62 --p-threads="$pthreads" |
50 #end if | 63 #end if |
79 <option value="None">Selection is Optional</option> | 92 <option value="None">Selection is Optional</option> |
80 <option selected="True" value="both">both</option> | 93 <option selected="True" value="both">both</option> |
81 <option value="plus">plus</option> | 94 <option value="plus">plus</option> |
82 </param> | 95 </param> |
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"/> | 96 <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'"/> | 97 <param label="--p-unassignable-label: TEXT [default: 'Unassigned']" name="punassignablelabel" optional="True" type="text" value="Unassigned"/> |
85 </inputs> | 98 </inputs> |
86 <outputs> | 99 <outputs> |
87 <data format="qza" label="${tool.name} on ${on_string}: classification.qza" name="oclassification"/> | 100 <data format="qza" label="${tool.name} on ${on_string}: classification.qza" name="oclassification"/> |
88 </outputs> | 101 </outputs> |
89 <help><![CDATA[ | 102 <help><![CDATA[ |