Mercurial > repos > earlhaminst > ensembl_get_genetree

comparison get_genetree.xml @ 4:0602dcf02768 draft

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/Ensembl-REST commit 95bab1105cf8a7b07c668f08f712399e8775a4ae
author earlhaminst
date Fri, 13 Apr 2018 09:43:28 -0400
parents 181e12d6ac96
children 675fd774314e
comparison
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3:181e12d6ac96 4:0602dcf02768
107 <param name="input" value="ENSGALP00000027524" /> 107 <param name="input" value="ENSGALP00000027524" />
108 <param name="output_format_selector" value="json" /> 108 <param name="output_format_selector" value="json" />
109 <param name="sequence_selector" value="protein" /> 109 <param name="sequence_selector" value="protein" />
110 <param name="aligned" value="0" /> 110 <param name="aligned" value="0" />
111 <param name="cigar" value="0" /> 111 <param name="cigar" value="0" />
112 <output name="output" file="genetree.json" ftype="json" compare="sim_size" /> 112 <output name="output" ftype="json">
113 <assert_contents>
114 <has_text text="tree" />
115 <has_text text="Euteleostomi" />
116 <has_text text="ENSG00000139618" />
117 <has_text text="ENSMUSG00000041147" />
118 </assert_contents>
119 </output>
120 </test>
121 <test>
122 <param name="input_type" value="gene_id" />
123 <param name="input" value="ENSGALP00000027524" />
124 <param name="output_format_selector" value="nh" />
125 <param name="nh_format" value="simple" />
126 <output name="output" ftype="nhx">
127 <assert_contents>
128 <has_text text="ENSGALP00000027524" />
129 <has_text text="ENSP00000369497" />
130 </assert_contents>
131 </output>
113 </test> 132 </test>
114 <test> 133 <test>
115 <param name="input_type" value="gene_tree_id" /> 134 <param name="input_type" value="gene_tree_id" />
116 <param name="input" value="ENSGT00390000003602" /> 135 <param name="input" value="ENSGT00390000003602" />
117 <param name="output_format_selector" value="json" /> 136 <param name="output_format_selector" value="json" />
118 <param name="sequence_selector" value="protein" /> 137 <param name="sequence_selector" value="protein" />
119 <param name="aligned" value="0" /> 138 <param name="aligned" value="0" />
120 <param name="cigar" value="0" /> 139 <param name="cigar" value="0" />
121 <output name="output" file="genetree.json" ftype="json" compare="sim_size" /> 140 <output name="output" ftype="json">
141 <assert_contents>
142 <has_text text="tree" />
143 <has_text text="Euteleostomi" />
144 <has_text text="ENSG00000139618" />
145 <has_text text="ENSMUSG00000041147" />
146 </assert_contents>
147 </output>
122 </test> 148 </test>
123 <test> 149 <test>
124 <param name="input_type" value="gene_tree_id" /> 150 <param name="input_type" value="gene_tree_id" />
125 <param name="input" value="ENSGT00390000003602" /> 151 <param name="input" value="ENSGT00390000003602" />
126 <param name="output_format_selector" value="phyloxml" /> 152 <param name="output_format_selector" value="phyloxml" />
127 <param name="sequence_selector" value="protein" /> 153 <param name="sequence_selector" value="protein" />
128 <param name="aligned" value="0" /> 154 <param name="aligned" value="0" />
129 <output name="output" file="genetree.phyloxml" ftype="phyloxml" compare="sim_size" /> 155 <output name="output" ftype="phyloxml">
156 <assert_contents>
157 <has_text text="Euteleostomi" />
158 <has_text text="ENSG00000139618" />
159 <has_text text="ENSMUSG00000041147" />
160 <has_text text="&lt;/phyloxml&gt;" />
161 </assert_contents>
162 </output>
130 </test> 163 </test>
131 </tests> 164 </tests>
132 165
133 <help> 166 <help>
134 <![CDATA[ 167 <![CDATA[