Mercurial > repos > iuc > umi_tools_dedup

comparison macros.xml @ 14:d19c4f9fadec draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/umi_tools commit 31bad8c5bf75981eafcd19ec6b00593f184fdeb8"
author iuc
date Thu, 18 Nov 2021 08:21:49 +0000
parents 47843a1169ed
children f76cf6b8c130
comparison
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13:47843a1169ed 14:d19c4f9fadec
2 <macros> 2 <macros>
3 3
4 <!-- macros applying to all umi_tools --> 4 <!-- macros applying to all umi_tools -->
5 5
6 <token name="@TOOL_VERSION@">1.1.2</token> 6 <token name="@TOOL_VERSION@">1.1.2</token>
7 <token name="@VERSION_SUFFIX@">1</token> 7 <token name="@VERSION_SUFFIX@">2</token>
8 <token name="@PROFILE@">21.01</token> 8 <token name="@PROFILE@">21.01</token>
9 <xml name="requirements"> 9 <xml name="requirements">
10 <requirements> 10 <requirements>
11 <requirement type="package" version="@TOOL_VERSION@">umi_tools</requirement> 11 <requirement type="package" version="@TOOL_VERSION@">umi_tools</requirement>
12 <yield /> 12 <yield />
54 <add value="&#91;"/> <!-- left square bracket --> 54 <add value="&#91;"/> <!-- left square bracket -->
55 <add value="&#93;"/> <!-- right square bracket --> 55 <add value="&#93;"/> <!-- right square bracket -->
56 <add value="&#123;"/><!-- left brace --> 56 <add value="&#123;"/><!-- left brace -->
57 <add value="&#125;"/><!-- right brace --> 57 <add value="&#125;"/><!-- right brace -->
58 <add value="&#94;"/> <!-- caret --> 58 <add value="&#94;"/> <!-- caret -->
59 <add value="&#36;"/> <!-- dollar sign-->
60 <add value="&#43;" /><!-- plus sign -->
59 <add value="-"/> 61 <add value="-"/>
60 <add value="!"/> 62 <add value="!"/>
61 </valid> 63 </valid>
62 </sanitizer> 64 </sanitizer>
63 </macro> 65 </macro>
172 174
173 <xml name="fastq_barcode_extraction_options_macro"> 175 <xml name="fastq_barcode_extraction_options_macro">
174 <conditional name="extract_method_cond"> 176 <conditional name="extract_method_cond">
175 <param argument="--extract-method" type="select" label="Barcode Extraction Method" 177 <param argument="--extract-method" type="select" label="Barcode Extraction Method"
176 help="If bracketed expressions are used in the above barcode pattern, then set this to 'regex'. Otherwise leave as 'string'" > 178 help="If bracketed expressions are used in the above barcode pattern, then set this to 'regex'. Otherwise leave as 'string'" >
177 <option value="string" selected="true" /> 179 <option value="string" selected="true">String</option>
178 <option value="regex" /> 180 <option value="regex">Regex</option>
179 </param> 181 </param>
180 <when value="string"> 182 <when value="string">
181 <param argument="--3prime" name="prime3" type="boolean" label="Is barcode on 3' end of the read?" 183 <param argument="--3prime" name="prime3" type="boolean" label="Is barcode on 3' end of the read?"
182 truevalue="--3prime" falsevalue="" 184 truevalue="--3prime" falsevalue=""
183 help="By default the barcode is assumed to be on the 5' end of the read, but 185 help="By default the barcode is assumed to be on the 5' end of the read, but