Mercurial > repos > iuc > spades_rnaviralspades

comparison rnaviralspades.xml @ 5:b3490b036c5a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/spades commit a09a5e3ee3c76550526f082b97de8da75181a1dd
author iuc
date Wed, 13 Jul 2022 07:41:31 +0000
parents 249f6a28c751
children 48cf45a53456
comparison
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4:b65a43f70b99 5:b3490b036c5a
115 <conditional name="singlePaired"> 115 <conditional name="singlePaired">
116 <param name="sPaired" value="paired"/> 116 <param name="sPaired" value="paired"/>
117 <param name="input1" value="ecoli_1K_1.fastq.gz"/> 117 <param name="input1" value="ecoli_1K_1.fastq.gz"/>
118 <param name="input2" value="ecoli_1K_2.fastq.gz"/> 118 <param name="input2" value="ecoli_1K_2.fastq.gz"/>
119 </conditional> 119 </conditional>
120 <conditional name="cov_cond">
121 <param name="cov_cutoff" value="auto"/>
122 </conditional>
123 <param name="mode_sel" value="--disable-rr,--iontorrent"/> 120 <param name="mode_sel" value="--disable-rr,--iontorrent"/>
124 <param name="phred_offset" value="33"/> 121 <param name="phred_offset" value="33"/>
125 <param name="optional_output" value="ag,ags,cn,cp,cs,cr,sc,sp,ss,l"/> 122 <param name="optional_output" value="ag,ags,cn,cp,cs,cr,sc,sp,ss,l"/>
126 <output name="out_ag"> 123 <output name="out_ag">
127 <assert_contents> 124 <assert_contents>
144 <output name="out_cp"> 141 <output name="out_cp">
145 <assert_contents> 142 <assert_contents>
146 <has_n_lines n="0"/> 143 <has_n_lines n="0"/>
147 </assert_contents> 144 </assert_contents>
148 </output> 145 </output>
149 <output_collection name="out_cr" type="list" count="2"> 146 <output_collection name="out_cr" type="list" count="4">
150 <element name="ecoli_1K_1.fastq.gz.fastq0_0.cor"> 147 <element name="ecoli_1K_1.fastq.gz.fastq0_0.cor">
151 <assert_contents> 148 <assert_contents>
152 <has_size value="34468" delta="2000"/> 149 <has_size value="34468" delta="2000"/>
153 </assert_contents> 150 </assert_contents>
154 </element> 151 </element>
158 </assert_contents> 155 </assert_contents>
159 </element> 156 </element>
160 </output_collection> 157 </output_collection>
161 <output name="out_cs"> 158 <output name="out_cs">
162 <assert_contents> 159 <assert_contents>
163 <has_n_lines n="1"/> 160 <has_n_lines n="2"/>
164 <has_text_matching expression="#name&#009;length&#009;coverage"/> 161 <has_text_matching expression="#name&#009;length&#009;coverage"/>
162 <has_text_matching expression="NODE_1&#009;1000&#009;163.263933"/>
165 </assert_contents> 163 </assert_contents>
166 </output> 164 </output>
167 <output name="out_l"> 165 <output name="out_l">
168 <assert_contents> 166 <assert_contents>
169 <has_text_matching expression="Thank you for using SPAdes!"/> 167 <has_text_matching expression="Thank you for using SPAdes!"/>