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comparison genomescope.xml @ 4:73f09aee6a57 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/genomescope commit eb1dd55c41bf179ad72bdbd5560bd25efa35a0bc
author iuc
date Wed, 03 Dec 2025 15:37:35 +0000
parents c3a55a02a2d8
children
comparison
equal deleted inserted replaced
3:c3a55a02a2d8 4:73f09aee6a57
1 <tool id="genomescope" name="GenomeScope" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.01"> 1 <tool id="genomescope" name="GenomeScope" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 <description>reference-free genome profiling</description> 2 <description>reference-free genome profiling</description>
3 <macros> 3 <macros>
4 <token name="@TOOL_VERSION@">2.0.1</token> 4 <token name="@TOOL_VERSION@">2.1.0</token>
5 <token name="@VERSION_SUFFIX@">0</token> 5 <token name="@VERSION_SUFFIX@">0</token>
6 <token name="@PROFILE@">21.01</token>
6 </macros> 7 </macros>
7 <requirements> 8 <requirements>
8 <requirement type="package" version="@TOOL_VERSION@">genomescope2</requirement> 9 <requirement type="package" version="@TOOL_VERSION@">genomescope2</requirement>
9 </requirements> 10 </requirements>
10 <version_command>genomescope2 --version</version_command> 11 <version_command>genomescope2 --version</version_command>
126 <output name="transformed_log_plot" ftype="png"> 127 <output name="transformed_log_plot" ftype="png">
127 <assert_contents> 128 <assert_contents>
128 <has_size value="210889" delta="6000"/> 129 <has_size value="210889" delta="6000"/>
129 </assert_contents> 130 </assert_contents>
130 </output> 131 </output>
131 <output name="model" file="genomescope-out1-1.txt" ftype="txt" lines_diff="2"/> 132 <output name="model" ftype="txt">
132 <output name="summary" file="genomescope-out1-2.txt" ftype="txt" lines_diff="2"/> 133 <assert_contents>
133 <output name="progress" file="genomescope-out1-3.txt" ftype="txt" lines_diff="2"/> 134 <has_n_lines n="19"/>
134 <output name="model_params" file="genomescope-out1-1.tab" ftype="tabular"/> 135 </assert_contents>
136 </output>
137 <output name="summary" ftype="txt">
138 <assert_contents>
139 <has_n_lines n="15"/>
140 </assert_contents>
141 </output>
142 <output name="progress" ftype="txt">
143 <assert_contents>
144 <has_n_lines n="6"/>
145 </assert_contents>
146 </output>
147 <output name="model_params" ftype="tabular">
148 <assert_contents>
149 <has_n_lines n="1"/>
150 </assert_contents>
151 </output>
135 </test> 152 </test>
136 <!--Test initial_repetitiveness option--> 153 <!--Test initial_repetitiveness option-->
137 <test expect_num_outputs="5"> 154 <test expect_num_outputs="5">
138 <param name="input" value="genomescope-in1.tab"/> 155 <param name="input" value="genomescope-in1.tab"/>
139 <param name="kmer_length" value="21"/> 156 <param name="kmer_length" value="21"/>
165 </output> 182 </output>
166 <output name="summary" ftype="txt" lines_diff="2"> 183 <output name="summary" ftype="txt" lines_diff="2">
167 <assert_contents> 184 <assert_contents>
168 <has_line line="initial repetitiveness = 0.1"/> 185 <has_line line="initial repetitiveness = 0.1"/>
169 <has_text text="Homozygous (aa) 98.9538% 98.967%"/> 186 <has_text text="Homozygous (aa) 98.9538% 98.967%"/>
187 <has_n_lines n="15"/>
170 </assert_contents> 188 </assert_contents>
171 </output> 189 </output>
172 </test> 190 </test>
173 <!--Test initial_heterozigosity option--> 191 <!--Test initial_heterozigosity option-->
174 <test expect_num_outputs="5"> 192 <test expect_num_outputs="5">
202 </assert_contents> 220 </assert_contents>
203 </output> 221 </output>
204 <output name="summary" ftype="txt" lines_diff="2"> 222 <output name="summary" ftype="txt" lines_diff="2">
205 <assert_contents> 223 <assert_contents>
206 <has_line line="initial heterozygosities = 0.04,0.01"/> 224 <has_line line="initial heterozygosities = 0.04,0.01"/>
207 <has_text text="Homozygous (aaa) 7.70599% 100%"/> 225 <has_text text="Homozygous (aaa) 5.92481% 100%"/>
226 <has_n_lines n="17"/>
208 </assert_contents> 227 </assert_contents>
209 </output> 228 </output>
210 </test> 229 </test>
211 </tests> 230 </tests>
212 <help><![CDATA[ 231 <help><![CDATA[