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comparison fastq_trimmer.xml @ 5:31865771470d draft

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"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_trimmer commit 31edb920789fbd080260f853bc856be72fa7cfa8"
author devteam
date Fri, 01 Nov 2019 13:21:17 -0400
parents 70c29aef62cd
children 7e0939504004
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4:70c29aef62cd 5:31865771470d
1 <tool id="fastq_trimmer" name="FASTQ Trimmer" version="1.1.1"> 1 <tool id="fastq_trimmer" name="FASTQ Trimmer" version="1.1.1">
2 <description>by column</description> 2 <description>by column</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement> 4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement>
5 </requirements> 5 </requirements>
6 <edam_topics>
7 <edam_topic>topic_0622</edam_topic>
8 </edam_topics>
9 <edam_operations>
10 <edam_operation>operation_3192</edam_operation>
11 </edam_operations>
6 <command><![CDATA[ 12 <command><![CDATA[
7 gx-fastq-trimmer '$input_file' '$output_file' ${offset_type['left_column_offset']} ${offset_type['right_column_offset']} ${offset_type['base_offset_type']} '${input_file.extension[len('fastq'):]}' $keep_zero_length 13 gx-fastq-trimmer '$input_file' '$output_file' ${offset_type['left_column_offset']} ${offset_type['right_column_offset']} ${offset_type['base_offset_type']} '${input_file.extension[len('fastq'):]}' $keep_zero_length
8 ]]></command> 14 ]]></command>
9 <inputs> 15 <inputs>
10 <param name="input_file" type="data" format="fastqsanger,fastqcssanger,fastqsanger.gz,fastqcssanger.gz,fastqsanger.bz2,fastqcssanger.bz2" label="FASTQ file"/> 16 <param name="input_file" type="data" format="fastqsanger,fastqcssanger,fastqsanger.gz,fastqcssanger.gz,fastqsanger.bz2,fastqcssanger.bz2" label="FASTQ file"/>