Mercurial > repos > devteam > fastq_masker_by_quality

comparison fastq_masker_by_quality.xml @ 5:fcf810725e6c draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_masker_by_quality commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
author iuc
date Wed, 19 Feb 2020 16:56:17 +0000
parents bf7a192ad8e2
children 33a01356742b
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4:bf7a192ad8e2 5:fcf810725e6c
1 <tool id="fastq_masker_by_quality" name="FASTQ Masker" version="1.1.1"> 1 <tool id="fastq_masker_by_quality" name="FASTQ Masker" version="@TOOL_VERSION@">
2 <description>by quality score</description> 2 <description>by quality score</description>
3 <requirements> 3 <macros>
4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement> 4 <import>macros.xml</import>
5 </requirements> 5 </macros>
6 <expand macro="requirements"/>
6 <edam_topics> 7 <edam_topics>
7 <edam_topic>topic_0622</edam_topic> 8 <edam_topic>topic_0622</edam_topic>
8 </edam_topics> 9 </edam_topics>
9 <edam_operations> 10 <edam_operations>
10 <edam_operation>operation_0368</edam_operation> 11 <edam_operation>operation_0368</edam_operation>
11 </edam_operations> 12 </edam_operations>
12 <command><![CDATA[ 13 <command><![CDATA[
13 gx-fastq-masker-by-quality '$input_file' '$output_file' -f '${input_file.extension[len( 'fastq' ):]}' -s ${quality_score} -c ${score_comparison} 14 gx-fastq-masker-by-quality '$input_file' '$output_file' -f '${input_file.extension[len('fastq'):]}' -s ${quality_score} -c ${score_comparison}
14 #if $mask_type.value == 'lowercase' 15 #if $mask_type == 'lowercase'
15 --lowercase 16 --lowercase
16 #else 17 #else
17 -m ${mask_type} 18 -m ${mask_type}
18 #end if 19 #end if
19 ]]></command> 20 ]]></command>