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comparison picard_MergeSamFiles.xml @ 15:a5a13ea16d17 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 5ebd6c8453b49dd6a36e372eb1eb6e323bb7ad8a
author iuc
date Tue, 19 Jun 2018 11:28:30 -0400
parents 486d7500da69
children c943f4a04af0
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14:486d7500da69 15:a5a13ea16d17
1 <tool name="MergeSamFiles" id="picard_MergeSamFiles" version="@TOOL_VERSION@.@WRAPPER_VERSION@"> 1 <tool name="MergeSamFiles" id="picard_MergeSamFiles" version="@TOOL_VERSION@.@WRAPPER_VERSION@">
2 <description>merges multiple SAM/BAM datasets into one</description> 2 <description>merges multiple SAM/BAM datasets into one</description>
3 <macros> 3 <macros>
4 <import>picard_macros.xml</import> 4 <import>picard_macros.xml</import>
5 <token name="@WRAPPER_VERSION@">0</token> 5 <token name="@WRAPPER_VERSION@">1</token>
6 </macros> 6 </macros>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command detect_errors="exit_code"><![CDATA[ 8 <command detect_errors="exit_code"><![CDATA[
9 @java_options@ 9 @java_options@
10 picard 10 picard
25 USE_THREADING=true 25 USE_THREADING=true
26 SORT_ORDER=coordinate 26 SORT_ORDER=coordinate
27 VALIDATION_STRINGENCY="${validation_stringency}" 27 VALIDATION_STRINGENCY="${validation_stringency}"
28 QUIET=true 28 QUIET=true
29 VERBOSITY=ERROR 29 VERBOSITY=ERROR
30 @TMPDIR_OPTION@
30 31
31 ]]></command> 32 ]]></command>
32 <inputs> 33 <inputs>
33 <param format="sam,bam" name="inputFile" type="data" multiple="True" label="Select SAM/BAM dataset or dataset collection" help="If empty, upload or import a SAM/BAM dataset"/> 34 <param format="sam,bam" name="inputFile" type="data" multiple="True" label="Select SAM/BAM dataset or dataset collection" help="If empty, upload or import a SAM/BAM dataset"/>
34 <param name="merge_sequence_dictionaries" type="boolean" label="Merge the sequence dictionaries of the datasets being merged" help="MERGE_SEQUENCE_DICTIONARIES; default=False"/> 35 <param name="merge_sequence_dictionaries" type="boolean" label="Merge the sequence dictionaries of the datasets being merged" help="MERGE_SEQUENCE_DICTIONARIES; default=False"/>