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comparison samtools_stats.xml @ 16:8fca6e1eac98 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tool_collections/samtools/samtools_stats commit 26763d398d563ccafd2d66ab325f50f5708b5ebc
author iuc
date Fri, 06 Mar 2026 10:40:14 +0000
parents 57934e90e27c
children
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15:57934e90e27c 16:8fca6e1eac98
1 <tool id="samtools_stats" name="Samtools stats" version="2.0.8" profile="@PROFILE@"> 1 <tool id="samtools_stats" name="Samtools stats" version="2.0.9" profile="@PROFILE@">
2 <description>generate statistics for BAM dataset</description> 2 <description>generate statistics for BAM dataset</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"/>
173 </test> 173 </test>
174 <!-- test_cmd($opts,out=>'stat/1.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/1_map_cigar.sam | tail -n+4", exp_fix=>$efix);--> 174 <!-- test_cmd($opts,out=>'stat/1.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/1_map_cigar.sam | tail -n+4", exp_fix=>$efix);-->
175 <test expect_num_outputs="1"> 175 <test expect_num_outputs="1">
176 <param name="input" value="2_equal_cigar_full_seq.sam" ftype="sam" /> 176 <param name="input" value="2_equal_cigar_full_seq.sam" ftype="sam" />
177 <conditional name="addref_cond"> 177 <conditional name="addref_cond">
178 <param name="addref_select" value="history" /> 178 <param name="addref_select" value="cached" />
179 <param name="ref" value="test.fa" ftype="fasta" /> 179 <param name="ref" value="test" />
180 </conditional> 180 </conditional>
181 <output name="output" file="2.stats.expected" ftype="tabular" lines_diff="8" /> 181 <output name="output" file="2.stats.expected" ftype="tabular" lines_diff="8" />
182 </test> 182 </test>
183 <!-- test_cmd($opts,out=>'stat/2.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/2_equal_cigar_full_seq.sam | tail -n+4", exp_fix=>$efix);--> 183 <!-- test_cmd($opts,out=>'stat/2.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/2_equal_cigar_full_seq.sam | tail -n+4", exp_fix=>$efix);-->
184 <!-- test_cmd($opts,out=>'stat/3.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/3_map_cigar_equal_seq.sam | tail -n+4", exp_fix=>$efix);--> 184 <!-- test_cmd($opts,out=>'stat/3.stats.expected',cmd=>"$$opts{bin}/samtools stats -r $$opts{path}/stat/test.fa $$opts{path}/stat/3_map_cigar_equal_seq.sam | tail -n+4", exp_fix=>$efix);-->