Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 74:270e8f69228b

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 14:45:49 -0400
parents 61b7ab692529
children eeddd4dfd7f5
comparison
equal deleted inserted replaced
73:61b7ab692529 74:270e8f69228b
86 <when value="centriflaken_hy"> 86 <when value="centriflaken_hy">
87 <param name="long_read_platform" value="N/A" type="text" optional="true" label="Mention long read sequencing platform and type" 87 <param name="long_read_platform" value="N/A" type="text" optional="true" label="Mention long read sequencing platform and type"
88 help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS."/> 88 help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS."/>
89 </when> 89 </when>
90 </conditional> 90 </conditional>
91 <param name="fq_suffix" value=".fastq.gz" type="text" label="Suffix of the R1 FASTQ or Unpaired FASTQ"/> 91 <param name="fq_suffix" value=".fastq.gz" type="text" label="Suffix of the Unpaired FASTQ"/>
92 </when> 92 </when>
93 <when value="paired"> 93 <when value="paired">
94 <param name="input_pair" type="data_collection" collection_type="list:paired" format="fastq,fastq.gz,fastqsanger.gz,fastqsanger" 94 <param name="input_pair" type="data_collection" collection_type="list:paired" format="fastq,fastq.gz,fastqsanger.gz,fastqsanger"
95 label="List of Dataset pairs" /> 95 label="List of Dataset pairs" />
96 <conditional name="pipeline_cond"> 96 <conditional name="pipeline_cond">
101 <when value="centriflaken_hy"> 101 <when value="centriflaken_hy">
102 <param name="long_read_platform" value="N/A" type="text" optional="true" label="Mention long read sequencing platform and type" 102 <param name="long_read_platform" value="N/A" type="text" optional="true" label="Mention long read sequencing platform and type"
103 help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS."/> 103 help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS."/>
104 </when> 104 </when>
105 </conditional> 105 </conditional>
106 <param name="fq_suffix" value="_R1_001.fastq.gz" type="text" label="Suffix of the R1 FASTQ or Unpaired FASTQ"/> 106 <param name="fq_suffix" value="_R1_001.fastq.gz" type="text" label="Suffix of the R1 FASTQ"/>
107 <param name="fq2_suffix" value="_R2_001.fastq.gz" type="text" label="Suffix of the R2 FASTQ"/> 107 <param name="fq2_suffix" value="_R2_001.fastq.gz" type="text" label="Suffix of the R2 FASTQ"/>
108 </when> 108 </when>
109 </conditional> 109 </conditional>
110 <param name="fq_filter_by_len" optional="true" value="" type="integer" label="Enter minimum read length to retain before starting the analysis" 110 <param name="fq_filter_by_len" optional="true" value="" type="integer" label="Enter minimum read length to retain before starting the analysis"
111 help="Keep this option empty to use default values. Default for centriflaken (long reads) is 4000 bp and for centriflaken_hy (short reads) is 75 bp."/> 111 help="Keep this option empty to use default values. Default for centriflaken (long reads) is 4000 bp and for centriflaken_hy (short reads) is 75 bp."/>