Mercurial > repos > iuc > busco
comparison busco.xml @ 17:e824f5d958d0 draft
planemo upload commit 4b9a335c08b5d42b4297e641a28ff34b045810c3
author | iuc |
---|---|
date | Thu, 02 Mar 2023 17:02:45 +0000 |
parents | bb935709506a |
children | 94170eee0ad8 |
comparison
equal
deleted
inserted
replaced
16:bb935709506a | 17:e824f5d958d0 |
---|---|
171 <conditional name="use_augustus"> | 171 <conditional name="use_augustus"> |
172 <param name="use_augustus_selector" value="yes" /> | 172 <param name="use_augustus_selector" value="yes" /> |
173 </conditional> | 173 </conditional> |
174 </conditional> | 174 </conditional> |
175 <param name="outputs" value="short_summary,missing,gff" /> | 175 <param name="outputs" value="short_summary,missing,gff" /> |
176 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="4" /> | 176 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="6" /> |
177 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> | 177 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> |
178 <output name="busco_gff"> | 178 <output name="busco_gff"> |
179 <assert_contents> | 179 <assert_contents> |
180 <has_n_lines n="1"/> | 180 <has_n_lines n="1"/> |
181 <has_text text="##gff-version 3" /> | 181 <has_text text="##gff-version 3" /> |
195 </conditional> | 195 </conditional> |
196 <conditional name="busco_mode"> | 196 <conditional name="busco_mode"> |
197 <param name="mode" value="prot" /> | 197 <param name="mode" value="prot" /> |
198 </conditional> | 198 </conditional> |
199 <param name="outputs" value="short_summary,missing,image,gff" /> | 199 <param name="outputs" value="short_summary,missing,image,gff" /> |
200 <output name="busco_sum" file="proteome_results/short_summary" compare="diff" lines_diff="4" /> | 200 <output name="busco_sum" file="proteome_results/short_summary" compare="diff" lines_diff="6" /> |
201 <output name="busco_table" file="proteome_results/full_table" compare="diff" lines_diff="4" /> | 201 <output name="busco_table" file="proteome_results/full_table" compare="diff" lines_diff="4" /> |
202 <output name="busco_missing" file="proteome_results/missing_buscos_list" compare="diff" lines_diff="4" /> | 202 <output name="busco_missing" file="proteome_results/missing_buscos_list" compare="diff" lines_diff="4" /> |
203 <output name="summary_image" file="proteome_results/summary.png" compare="sim_size" /> | 203 <output name="summary_image" file="proteome_results/summary.png" compare="sim_size" /> |
204 <output name="busco_gff"> | 204 <output name="busco_gff"> |
205 <assert_contents> | 205 <assert_contents> |
239 <param name="augustus_species" value="human" /> | 239 <param name="augustus_species" value="human" /> |
240 </conditional> | 240 </conditional> |
241 </conditional> | 241 </conditional> |
242 </conditional> | 242 </conditional> |
243 <param name="outputs" value="short_summary,gff" /> | 243 <param name="outputs" value="short_summary,gff" /> |
244 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="4" /> | 244 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="6" /> |
245 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> | 245 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> |
246 <output name="busco_gff"> | 246 <output name="busco_gff"> |
247 <assert_contents> | 247 <assert_contents> |
248 <has_n_lines n="1"/> | 248 <has_n_lines n="1"/> |
249 <has_text text="##gff-version 3" /> | 249 <has_text text="##gff-version 3" /> |
265 <param name="augustus_model" value="local.tar.gz" ftype="augustus" /> | 265 <param name="augustus_model" value="local.tar.gz" ftype="augustus" /> |
266 </conditional> | 266 </conditional> |
267 </conditional> | 267 </conditional> |
268 </conditional> | 268 </conditional> |
269 <param name="outputs" value="short_summary,missing" /> | 269 <param name="outputs" value="short_summary,missing" /> |
270 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="4" /> | 270 <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="6" /> |
271 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> | 271 <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> |
272 <output name="busco_missing" file="genome_results/missing_buscos_list" compare="diff" lines_diff="4" /> | 272 <output name="busco_missing" file="genome_results/missing_buscos_list" compare="diff" lines_diff="4" /> |
273 </test> | 273 </test> |
274 <test expect_num_outputs="5"> | 274 <test expect_num_outputs="5"> |
275 <param name="input" value="genome.fa" /> | 275 <param name="input" value="genome.fa" /> |