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comparison qiime2/qiime_feature-table_presence-absence.xml @ 14:a0a8d77a991c draft

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author florianbegusch
date Thu, 03 Sep 2020 09:51:29 +0000
parents f190567fe3f6
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13:887cd4ad8e16 14:a0a8d77a991c
1 <?xml version="1.0" ?> 1 <?xml version="1.0" ?>
2 <tool id="qiime_feature-table_presence-absence" name="qiime feature-table presence-absence" version="2019.7"> 2 <tool id="qiime_feature-table_presence-absence" name="qiime feature-table presence-absence"
3 <description> - Convert to presence/absence</description> 3 version="2020.8">
4 <requirements> 4 <description>Convert to presence/absence</description>
5 <requirement type="package" version="2019.7">qiime2</requirement> 5 <requirements>
6 </requirements> 6 <requirement type="package" version="2020.8">qiime2</requirement>
7 <command><![CDATA[ 7 </requirements>
8 <command><![CDATA[
8 qiime feature-table presence-absence 9 qiime feature-table presence-absence
9 10
10 --i-table=$itable 11 #if $itable:
12 --i-table
13 #end if
11 14
12 --o-presence-absence-table=opresenceabsencetable 15 #if $opresenceabsencetable:
16 --o-presence-absence-table
17 #end if
18
19 #if str($examples) != 'None':
20 --examples=$examples
21 #end if
22
13 ; 23 ;
14 cp opresenceabsencetable.qza $opresenceabsencetable 24 cp omergeddata.qza $omergeddata
15 ]]></command> 25
16 <inputs> 26 ]]></command>
17 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency | RelativeFrequency] The feature table to be converted into presence/absence abundances. [required]" name="itable" optional="False" type="data"/> 27 <inputs>
18 </inputs> 28 <param format="qza,no_unzip.zip" label="--i-table: --i-table: ARTIFACT FeatureTable[Frequency | RelativeFrequency] The feature table to be converted into presence/absence abundances. [required]" name="itable" selected="False" type="boolean" />
19 <outputs> 29 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
20 <data format="qza" label="${tool.name} on ${on_string}: presenceabsencetable.qza" name="opresenceabsencetable"/> 30
21 </outputs> 31 </inputs>
22 <help><![CDATA[ 32
33 <outputs>
34 <param label="--o-presence-absence-table: --o-presence-absence-table: ARTIFACT FeatureTable[PresenceAbsence] The resulting presence/absence feature table. [required]" name="opresenceabsencetable" selected="False" type="boolean" />
35
36 </outputs>
37
38 <help><![CDATA[
23 Convert to presence/absence 39 Convert to presence/absence
24 ########################### 40 ###############################################################
25 41
26 Convert frequencies to binary values indicating presence or absence of a 42 Convert frequencies to binary values indicating presence or absence of a
27 feature in a sample. 43 feature in a sample.
28 44
29 Parameters 45 Parameters
33 49
34 Returns 50 Returns
35 ------- 51 -------
36 presence_absence_table : FeatureTable[PresenceAbsence] 52 presence_absence_table : FeatureTable[PresenceAbsence]
37 The resulting presence/absence feature table. 53 The resulting presence/absence feature table.
38 ]]></help> 54 ]]></help>
39 <macros> 55 <macros>
40 <import>qiime_citation.xml</import> 56 <import>qiime_citation.xml</import>
41 </macros> 57 </macros>
42 <expand macro="qiime_citation"/> 58 <expand macro="qiime_citation"/>
43 </tool> 59 </tool>