Mercurial > repos > iuc > bcftools_view
comparison bcftools_view.xml @ 18:3ca3de4e5291 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit db275932cbb485cb44ae91e0b421d6f57698db49
author | iuc |
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date | Tue, 20 Sep 2022 13:04:09 +0000 |
parents | 38d75661c235 |
children | abc3ced31cd1 |
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17:38d75661c235 | 18:3ca3de4e5291 |
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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 ===================================== |