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comparison macs2_filterdup.xml @ 2:bfe57d6e0c4c draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/macs2 commit 63955994af5090ec444c03c221df0012d5ae4e74
author iuc
date Mon, 12 Oct 2015 11:24:39 -0400
parents fe62ba547975
children beb902da6e5f
comparison
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1:859c982b1f7f 2:bfe57d6e0c4c
1 <tool id="macs2_filterdup" name="MACS2 filterdup" version="@VERSION_STRING@.0"> 1 <tool id="macs2_filterdup" name="MACS2 filterdup" version="@VERSION_STRING@.0">
2 <description>Remove duplicate reads at the same position</description> 2 <description>Remove duplicate reads at the same position</description>
3 <expand macro="requirements" />
4 <expand macro="version_command" />
5 <macros> 3 <macros>
6 <import>macs2_macros.xml</import> 4 <import>macs2_macros.xml</import>
7 </macros> 5 </macros>
6 <expand macro="requirements" />
7 <expand macro="stdio" />
8 <expand macro="version_command" />
8 <command> 9 <command>
9 macs2 filterdup 10 macs2 filterdup
10 -i "${ infile }" 11 -i "${ infile }"
11 -o temp_outfile 12 -o temp_outfile
12 13
20 --keep-dup "${ keep_dup_options.keep_dup_options_selector }" 21 --keep-dup "${ keep_dup_options.keep_dup_options_selector }"
21 #end if 22 #end if
22 ; 23 ;
23 mv temp_outfile "${ outfile }" 24 mv temp_outfile "${ outfile }"
24 </command> 25 </command>
25 <expand macro="stdio" />
26 <inputs> 26 <inputs>
27 <param name="infile" type="data" format="sam,bam,bed" label="Sequencing alignment file" /> 27 <param name="infile" type="data" format="sam,bam,bed" label="Sequencing alignment file" />
28 <expand macro="conditional_effective_genome_size" /> 28 <expand macro="conditional_effective_genome_size" />
29 <expand macro="tag_size" /> 29 <expand macro="tag_size" />
30 <param name="pvalue" type="text" value="1e-5" label="Pvalue cutoff for binomial distribution test" help="default: 1e-5 (--pvalue)" /> 30 <param name="pvalue" type="text" value="1e-5" label="Pvalue cutoff for binomial distribution test" help="default: 1e-5 (--pvalue)" />