Mercurial > repos > iuc > macs2
comparison macs2_filterdup.xml @ 18:640d3af5d833 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/macs2 commit e8307adcc6ee9245fa2bb9ecb6de1cbe008dc2c3"
author | iuc |
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date | Sat, 02 Apr 2022 21:37:38 +0000 |
parents | 424aefbd7777 |
children | 86e2413cf3f8 |
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17:424aefbd7777 | 18:640d3af5d833 |
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1 <tool id="macs2_filterdup" name="MACS2 filterdup" version="@VERSION_STRING@.1"> | 1 <tool id="macs2_filterdup" name="MACS2 filterdup" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01"> |
2 <description>Remove duplicate reads at the same position</description> | 2 <description>Remove duplicate reads at the same position</description> |
3 <expand macro="bio_tools"/> | |
3 <macros> | 4 <macros> |
4 <import>macs2_macros.xml</import> | 5 <import>macs2_macros.xml</import> |
5 </macros> | 6 </macros> |
6 <expand macro="requirements" /> | 7 <expand macro="requirements" /> |
7 <expand macro="stdio" /> | 8 <expand macro="stdio" /> |
18 #if str( $keep_dup_options.keep_dup_options_selector ) == "user": | 19 #if str( $keep_dup_options.keep_dup_options_selector ) == "user": |
19 --keep-dup '${ keep_dup_options.user_keepdup }' | 20 --keep-dup '${ keep_dup_options.user_keepdup }' |
20 #else | 21 #else |
21 --keep-dup '${ keep_dup_options.keep_dup_options_selector }' | 22 --keep-dup '${ keep_dup_options.keep_dup_options_selector }' |
22 #end if | 23 #end if |
24 @buffer_size@ | |
23 ]]> | 25 ]]> |
24 </command> | 26 </command> |
25 <inputs> | 27 <inputs> |
26 <param name="infile" type="data" format="bam,bed" label="Sequencing alignment file" /> | 28 <param name="infile" type="data" format="bam,bed" label="Sequencing alignment file" /> |
27 <expand macro="conditional_effective_genome_size" /> | 29 <expand macro="conditional_effective_genome_size" /> |
28 <expand macro="tag_size" /> | 30 <expand macro="tag_size" /> |
29 <param name="pvalue" type="text" value="1e-5" label="Pvalue cutoff for binomial distribution test" help="Default=1e-5 (--pvalue)" /> | 31 <param name="pvalue" type="text" value="1e-5" label="Pvalue cutoff for binomial distribution test" help="Default=1e-5 (--pvalue)" /> |
30 <expand macro="keep_duplicates" /> | 32 <expand macro="keep_duplicates" /> |
31 | 33 <expand macro="buffer_size"/> |
32 </inputs> | 34 </inputs> |
33 <outputs> | 35 <outputs> |
34 <data name="outfile" format="bed" label="${tool.name} on ${on_string}" /> | 36 <data name="outfile" format="bed" label="${tool.name} on ${on_string}" /> |
35 </outputs> | 37 </outputs> |
36 <tests> | 38 <tests> |