Mercurial > repos > earlhaminst > ensembl_get_genetree

comparison get_genetree.xml @ 9:667fd2d7a350 draft default tip

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/Ensembl-REST commit a0d7ab86b86bb764e457767bf8e8bc29868d0cbb
author earlhaminst
date Mon, 10 Mar 2025 23:26:15 +0000
parents 935de83b470b
children
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8:935de83b470b 9:667fd2d7a350
113 <conditional name="input_type_conditional"> 113 <conditional name="input_type_conditional">
114 <param name="input_type" value="gene_id" /> 114 <param name="input_type" value="gene_id" />
115 <param name="species" value="Chicken" /> 115 <param name="species" value="Chicken" />
116 </conditional> 116 </conditional>
117 <param name="input" value="ENSGALP00010009242" /> 117 <param name="input" value="ENSGALP00010009242" />
118 <param name="output_format_selector" value="json" /> 118 <conditional name="output_format">
119 <param name="sequence_selector" value="protein" /> 119 <param name="output_format_selector" value="json" />
120 <param name="aligned" value="0" /> 120 <conditional name="sequence">
121 <param name="cigar" value="0" /> 121 <param name="sequence_selector" value="protein" />
122 <param name="aligned" value="0" />
123 <param name="cigar" value="0" />
124 </conditional>
125 </conditional>
122 <output name="output" ftype="json"> 126 <output name="output" ftype="json">
123 <assert_contents> 127 <assert_contents>
124 <has_text text="tree" /> 128 <has_text text="tree" />
125 <has_text text="Euteleostomi" /> 129 <has_text text="Euteleostomi" />
126 <has_text text="ENSG00000139618" /> 130 <has_text text="ENSG00000139618" />
132 <conditional name="input_type_conditional"> 136 <conditional name="input_type_conditional">
133 <param name="input_type" value="gene_id" /> 137 <param name="input_type" value="gene_id" />
134 <param name="species" value="Chicken" /> 138 <param name="species" value="Chicken" />
135 </conditional> 139 </conditional>
136 <param name="input" value="ENSGALP00010009242" /> 140 <param name="input" value="ENSGALP00010009242" />
137 <param name="output_format_selector" value="nh" /> 141 <conditional name="output_format">
138 <param name="nh_format" value="simple" /> 142 <param name="output_format_selector" value="nh" />
143 <param name="nh_format" value="simple" />
144 </conditional>
139 <output name="output" ftype="nhx"> 145 <output name="output" ftype="nhx">
140 <assert_contents> 146 <assert_contents>
141 <has_text text="ENSGALP00010009242" /> 147 <has_text text="ENSGALP00010009242" />
142 <has_text text="ENSP00000369497" /> 148 <has_text text="ENSP00000369497" />
143 </assert_contents> 149 </assert_contents>
146 <test> 152 <test>
147 <conditional name="input_type_conditional"> 153 <conditional name="input_type_conditional">
148 <param name="input_type" value="gene_tree_id" /> 154 <param name="input_type" value="gene_tree_id" />
149 </conditional> 155 </conditional>
150 <param name="input" value="ENSGT00390000003602" /> 156 <param name="input" value="ENSGT00390000003602" />
151 <param name="output_format_selector" value="json" /> 157 <conditional name="output_format">
152 <param name="sequence_selector" value="protein" /> 158 <param name="output_format_selector" value="json" />
153 <param name="aligned" value="0" /> 159 <conditional name="sequence">
154 <param name="cigar" value="0" /> 160 <param name="sequence_selector" value="protein" />
161 <param name="aligned" value="0" />
162 <param name="cigar" value="0" />
163 </conditional>
164 </conditional>
155 <output name="output" ftype="json"> 165 <output name="output" ftype="json">
156 <assert_contents> 166 <assert_contents>
157 <has_text text="tree" /> 167 <has_text text="tree" />
158 <has_text text="Euteleostomi" /> 168 <has_text text="Euteleostomi" />
159 <has_text text="ENSG00000139618" /> 169 <has_text text="ENSG00000139618" />
164 <test> 174 <test>
165 <conditional name="input_type_conditional"> 175 <conditional name="input_type_conditional">
166 <param name="input_type" value="gene_tree_id" /> 176 <param name="input_type" value="gene_tree_id" />
167 </conditional> 177 </conditional>
168 <param name="input" value="ENSGT00390000003602" /> 178 <param name="input" value="ENSGT00390000003602" />
169 <param name="output_format_selector" value="phyloxml" /> 179 <conditional name="output_format">
170 <param name="sequence_selector" value="protein" /> 180 <param name="output_format_selector" value="phyloxml" />
171 <param name="aligned" value="0" /> 181 <conditional name="sequence">
182 <param name="sequence_selector" value="protein" />
183 <param name="aligned" value="0" />
184 </conditional>
185 </conditional>
172 <output name="output" ftype="phyloxml"> 186 <output name="output" ftype="phyloxml">
173 <assert_contents> 187 <assert_contents>
174 <has_text text="Euteleostomi" /> 188 <has_text text="Euteleostomi" />
175 <has_text text="ENSG00000139618" /> 189 <has_text text="ENSG00000139618" />
176 <has_text text="ENSMUSG00000041147" /> 190 <has_text text="ENSMUSG00000041147" />