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comparison bcftools_view.xml @ 20:a950754650d0 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit db275932cbb485cb44ae91e0b421d6f57698db49
author iuc
date Tue, 20 Sep 2022 12:27:35 +0000
parents 97521f8c3514
children 733e81d6f715
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19:97521f8c3514 20:a950754650d0
1 <?xml version='1.0' encoding='utf-8'?> 1 <?xml version='1.0' encoding='utf-8'?>
2 <tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@TOOL_VERSION@"> 2 <tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
3 <description>VCF/BCF conversion, view, subset and filter VCF/BCF files</description> 3 <description>VCF/BCF conversion, view, subset and filter VCF/BCF files</description>
4 <macros> 4 <macros>
5 <token name="@EXECUTABLE@">view</token> 5 <token name="@EXECUTABLE@">view</token>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
7 <xml name="macro_types_options"> 7 <xml name="macro_types_options">
373 <has_text text="rs78249411" /> 373 <has_text text="rs78249411" />
374 <not_has_text text="3048719" /> 374 <not_has_text text="3048719" />
375 </assert_contents> 375 </assert_contents>
376 </output> 376 </output>
377 </test> 377 </test>
378 <!-- Test region overlap option -->
379 <test>
380 <param name="input_file" ftype="vcf" value="view.vcf" />
381 <param name="min_ac" value="1" />
382 <param name="max_ac" value="1" />
383 <param name="samples" value="NA00002" />
384 <param name="types" value="snps" />
385 <param name="output_type" value="v" />
386 <section name="sec_restrict">
387 <param name="regions_overlap" value="1"/>
388 </section>
389 <output name="output_file">
390 <assert_contents>
391 <has_text text="rs2298108" />
392 <not_has_text text="rs6111385" />
393 </assert_contents>
394 </output>
395 <assert_command>
396 <has_text text="--regions-overlap" />
397 </assert_command>
398 </test>
378 </tests> 399 </tests>
379 <help><![CDATA[ 400 <help><![CDATA[
380 ===================================== 401 =====================================
381 bcftools @EXECUTABLE@ 402 bcftools @EXECUTABLE@
382 ===================================== 403 =====================================