Mercurial > repos > earlhaminst > t_coffee

comparison t_coffee.xml @ 10:ce83c3f83561 draft default tip

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/t_coffee commit a0d7ab86b86bb764e457767bf8e8bc29868d0cbb
author earlhaminst
date Mon, 10 Mar 2025 23:36:23 +0000
parents e3507be607eb
children
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9:e3507be607eb 10:ce83c3f83561
132 <filter>'score_html' in outputs</filter> 132 <filter>'score_html' in outputs</filter>
133 </data> 133 </data>
134 </outputs> 134 </outputs>
135 <tests> 135 <tests>
136 <test expect_num_outputs="1"> 136 <test expect_num_outputs="1">
137 <param name="filter_fasta" value="no" /> 137 <conditional name="input_type">
138 <param name="input" value="input.fasta" ftype="fasta" /> 138 <param name="filter_fasta" value="no" />
139 <param name="input" value="input.fasta" ftype="fasta" />
140 </conditional>
139 <param name="method02" value="clustalw_msa" /> 141 <param name="method02" value="clustalw_msa" />
140 <param name="outputs" value="fasta_aln" /> 142 <param name="outputs" value="fasta_aln" />
141 <output name="fasta_aln" file="output1.fasta" /> 143 <output name="fasta_aln" file="output1.fasta" />
142 </test> 144 </test>
143 <test expect_num_outputs="1"> 145 <test expect_num_outputs="1">
144 <param name="filter_fasta" value="yes" /> 146 <conditional name="input_type">
145 <param name="fasta_input" value="input.fasta" ftype="fasta" /> 147 <param name="filter_fasta" value="yes" />
146 <param name="identifiers" value="ids.txt" ftype="txt" /> 148 <param name="fasta_input" value="input.fasta" ftype="fasta" />
149 <param name="identifiers" value="ids.txt" ftype="txt" />
150 </conditional>
147 <param name="method02" value="clustalw_msa" /> 151 <param name="method02" value="clustalw_msa" />
148 <param name="outputs" value="fasta_aln" /> 152 <param name="outputs" value="fasta_aln" />
149 <output name="fasta_aln" file="output2.fasta" /> 153 <output name="fasta_aln" file="output2.fasta" />
150 </test> 154 </test>
151 <!-- Test all non-builtin methods and all outputs --> 155 <!-- Test all non-builtin methods and all outputs -->
152 <test expect_num_outputs="10"> 156 <test expect_num_outputs="10">
153 <param name="filter_fasta" value="no" /> 157 <conditional name="input_type">
154 <param name="input" value="input.fasta" ftype="fasta" /> 158 <param name="filter_fasta" value="no" />
159 <param name="input" value="input.fasta" ftype="fasta" />
160 </conditional>
155 <param name="method03" value="clustalw_pair,t_coffee_pair" /> 161 <param name="method03" value="clustalw_pair,t_coffee_pair" />
156 <param name="method01" value="sap_pair,mustang_pair,TMalign_pair" /> 162 <param name="method01" value="sap_pair,mustang_pair,TMalign_pair" />
157 <param name="method02" value="mafft_msa,clustalw_msa,dialigntx_msa,poa_msa,probcons_msa,muscle_msa,t_coffee_msa,kalign_msa" /> 163 <param name="method02" value="mafft_msa,clustalw_msa,dialigntx_msa,poa_msa,probcons_msa,muscle_msa,t_coffee_msa,kalign_msa" />
158 <param name="outputs" value="clustalw_aln,dnd,fasta_aln,fasta_seq,msf_aln,phylip,pir_aln,pir_seq,score_ascii,score_html" /> 164 <param name="outputs" value="clustalw_aln,dnd,fasta_aln,fasta_seq,msf_aln,phylip,pir_aln,pir_seq,score_ascii,score_html" />
159 <output name="clustalw_aln"> 165 <output name="clustalw_aln">