Mercurial > repos > iuc > tbprofiler

comparison tb_profiler_profile.xml @ 5:8d40f9ebbcaf draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/tb-profiler commit 4ad0b10ff7acfadf4cc0a6befa430274b8c47135"
author iuc
date Sat, 18 Jan 2020 18:05:43 +0000
parents 289254ce4663
children c3ec6775c674
comparison
equal deleted inserted replaced
4:289254ce4663 5:8d40f9ebbcaf
67 #end if 67 #end if
68 68
69 ]]> </command> 69 ]]> </command>
70 <inputs> 70 <inputs>
71 <param name="platform" type="select" label="Platform"> 71 <param name="platform" type="select" label="Platform">
72 <option value="Illumina" selected="true">Illumina</option> 72 <option value="illumina" selected="true">Illumina</option>
73 <option value="minION">MinION</option> 73 <option value="nanopore">Nanopore</option>
74 </param> 74 </param>
75 <conditional name="fastq_or_bam"> 75 <conditional name="fastq_or_bam">
76 <param name="input_select" type="select" label="Input File Type"> 76 <param name="input_select" type="select" label="Input File Type">
77 <option value="paired_fastq">Paired Fastq</option> 77 <option value="paired_fastq">Paired Fastq</option>
78 <option value="paired_collection_fastq">Paired Collection Fastq</option> 78 <option value="paired_collection_fastq">Paired Collection Fastq</option>
143 <tests> 143 <tests>
144 <test> 144 <test>
145 <param name="input_select" value="single_fastq"/> 145 <param name="input_select" value="single_fastq"/>
146 <param name="fastq" ftype="fastq.gz" value="rif_resistant.fastq.gz" /> 146 <param name="fastq" ftype="fastq.gz" value="rif_resistant.fastq.gz" />
147 <param name="output_format" value="txt" /> 147 <param name="output_format" value="txt" />
148 <param name="platform" value="Illumina" /> 148 <param name="platform" value="illumina" />
149 <param name="options" value="no" /> 149 <param name="options" value="no" />
150 <output name="output_txt"> 150 <output name="output_txt">
151 <assert_contents> 151 <assert_contents>
152 <has_line line="Drug-resistance: Drug-resistant" /> 152 <has_line line="Drug-resistance: Drug-resistant" />
153 <has_line line="lineage2.2.2&#009;1.000&#009;East-Asian (Beijing)&#009;Beijing-RD105/RD207&#009;RD105;RD207" /> 153 <has_line line="lineage2.2.2&#009;1.000&#009;East-Asian (Beijing)&#009;Beijing-RD105/RD207&#009;RD105;RD207" />
158 </test> 158 </test>
159 <test> 159 <test>
160 <param name="input_select" value="bam"/> 160 <param name="input_select" value="bam"/>
161 <param name="bam_input" ftype="bam" value="rif_resistant.bam" /> 161 <param name="bam_input" ftype="bam" value="rif_resistant.bam" />
162 <param name="output_format" value="txt" /> 162 <param name="output_format" value="txt" />
163 <param name="platform" value="Illumina" /> 163 <param name="platform" value="illumina" />
164 <param name="options" value="no" /> 164 <param name="options" value="no" />
165 <output name="output_txt"> 165 <output name="output_txt">
166 <assert_contents> 166 <assert_contents>
167 <has_line line="Drug-resistance: Drug-resistant" /> 167 <has_line line="Drug-resistance: Drug-resistant" />
168 <has_line line="lineage2.2.2&#009;1.000&#009;East-Asian (Beijing)&#009;Beijing-RD105/RD207&#009;RD105;RD207" /> 168 <has_line line="lineage2.2.2&#009;1.000&#009;East-Asian (Beijing)&#009;Beijing-RD105/RD207&#009;RD105;RD207" />