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comparison inner_distance.xml @ 61:5968573462fa draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 8a91236cee4d408ae2b53a3e9b6daebc332d631a
author iuc
date Sat, 10 Dec 2022 11:23:05 +0000
parents 1421603cc95b
children 27e16a30667a
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60:1421603cc95b 61:5968573462fa
1 <tool id="rseqc_inner_distance" name="Inner Distance" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@"> 1 <tool id="rseqc_inner_distance" name="Inner Distance" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@">
2 <description>calculate the inner distance (or insert size) between two paired RNA reads</description> 2 <description>calculate the inner distance (or insert size) between two paired RNA reads</description>
3 <expand macro="bio_tools"/>
4 <macros> 3 <macros>
5 <import>rseqc_macros.xml</import> 4 <import>rseqc_macros.xml</import>
6 </macros> 5 </macros>
6
7 <expand macro="bio_tools"/>
7 8
8 <expand macro="requirements" /> 9 <expand macro="requirements" />
9 10
10 <expand macro="stdio" /> 11 <expand macro="stdio" />
11 12
32 <expand macro="mapq_param" /> 33 <expand macro="mapq_param" />
33 <expand macro="rscript_output_param" /> 34 <expand macro="rscript_output_param" />
34 </inputs> 35 </inputs>
35 36
36 <outputs> 37 <outputs>
37 <expand macro="pdf_output_data" filename="output.inner_distance_plot.pdf" /> 38 <expand macro="pdf_output_data" filename="output.inner_distance_plot.pdf" label="${tool.name} on ${on_string}: plot (PDF)"/>
38 <data format="txt" name="outputtxt" from_work_dir="output.inner_distance.txt" label="${tool.name} on ${on_string} (text)"/> 39 <data format="txt" name="outputtxt" from_work_dir="output.inner_distance.txt" label="${tool.name} on ${on_string}: TXT"/>
39 <data format="txt" name="outputfreqtxt" from_work_dir="output.inner_distance_freq.txt" label="${tool.name} on ${on_string} (frequency text)" /> 40 <data format="txt" name="outputfreqtxt" from_work_dir="output.inner_distance_freq.txt" label="${tool.name} on ${on_string}: frequency (TXT)" />
40 <expand macro="rscript_output_data" filename="output.inner_distance_plot.r" /> 41 <expand macro="rscript_output_data" filename="output.inner_distance_plot.r" label="${tool.name} on ${on_string}: Rscript"/>
41 </outputs> 42 </outputs>
42 43
43 <tests> 44 <tests>
44 <test> 45 <test>
45 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> 46 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/>