Mercurial > repos > matthias > stacks2_refmap

comparison stacks_refmap.xml @ 2:39ebc7633942 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 8b047549e9e8791a5ca9424b1ef391e8980aba79-dirty
author matthias
date Fri, 30 Nov 2018 07:30:43 -0500
parents a8d93e132d3b
children 93fb82c0fc94
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1:a8d93e132d3b 2:39ebc7633942
1 <tool id="stacks2_refmap" name="Stacks2: reference map" version="@WRAPPER_VERSION@"> 1 <tool id="stacks2_refmap" name="Stacks2: reference map" version="@STACKS_VERSION@+galaxy@WRAPPER_VERSION@">
2 <description>the Stacks pipeline with a reference genome (ref_map.pl)</description> 2 <description>the Stacks pipeline with a reference genome (ref_map.pl)</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements"/> 6 <expand macro="requirements"/>
56 <param name="add_log" value="yes" /> 56 <param name="add_log" value="yes" />
57 <output ftype="txt" name="output_log"><assert_contents><has_text text="ref_map.pl is done." /></assert_contents></output> 57 <output ftype="txt" name="output_log"><assert_contents><has_text text="ref_map.pl is done." /></assert_contents></output>
58 <!-- TODO test for outputs --> 58 <!-- TODO test for outputs -->
59 </test> 59 </test>
60 <test> 60 <test>
61 <param name="input_type|input_type_selector" value="manual"/> 61 <param name="input_bam" value="refmap/PopA_01.bam,refmap/PopA_02.bam"/>
62 <param name="input_type|input_bam" value="refmap/PopA_01.bam,refmap/PopA_02.bam"/>
63 <param name="popmap" ftype="tabular" value="denovo_map/popmap_cstacks.tsv" /> 62 <param name="popmap" ftype="tabular" value="denovo_map/popmap_cstacks.tsv" />
64 <param name="paired_select" value="--unpaired"/> 63 <param name="paired_select" value="--unpaired"/>
65 <param name="model_options|var_alpha" value="0.1" /> 64 <param name="model_options|var_alpha" value="0.1" />
66 <param name="model_options|gt_alpha" value="0.1" /> 65 <param name="model_options|gt_alpha" value="0.1" />
67 <assert_command> 66 <assert_command>