Mercurial > repos > iuc > bcftools_plugin_missing2ref

comparison macros.xml @ 20:34dc0bbc7e93 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit bfc4ff4956b94885638ae07a2560bac5f84fcca8
author iuc
date Tue, 16 Jul 2024 17:16:13 +0000
parents 2f4eef1f0d22
children 8b260d252ff4
comparison
equal deleted inserted replaced
19:2f4eef1f0d22 20:34dc0bbc7e93
172 --fasta-ref '${section.fasta_ref}' 172 --fasta-ref '${section.fasta_ref}'
173 #end if 173 #end if
174 </token> 174 </token>
175 175
176 <xml name="macro_AF_file"> 176 <xml name="macro_AF_file">
177 <param name="AF_file" argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" /> 177 <param argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" />
178 </xml> 178 </xml>
179 <!-- This may need to bgzip and tabix the file --> 179 <!-- This may need to bgzip and tabix the file -->
180 <token name="@PREPARE_AF_FILE@"> 180 <token name="@PREPARE_AF_FILE@">
181 <![CDATA[ 181 <![CDATA[
182 #if 'AF_file' in $section and $section.AF_file: 182 #if 'AF_file' in $section and $section.AF_file:
189 --AF-file '${section.AF_file}' 189 --AF-file '${section.AF_file}'
190 #end if 190 #end if
191 </token> 191 </token>
192 192
193 <xml name="macro_estimate_AF"> 193 <xml name="macro_estimate_AF">
194 <param name="estimate_AF" argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples (&quot;-&quot;) or samples listed in &lt;file&gt;" /> 194 <param argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples (&quot;-&quot;) or samples listed in &lt;file&gt;" />
195 </xml> 195 </xml>
196 <token name="@ESTIMATE_AF@"> 196 <token name="@ESTIMATE_AF@">
197 #if 'estimate_AF' in $section and $section.estimate_AF: 197 #if 'estimate_AF' in $section and $section.estimate_AF:
198 --estimate-AF "${section.estimate_AF}" 198 --estimate-AF "${section.estimate_AF}"
199 #end if 199 #end if