Mercurial > repos > iuc > chewbbaca_joinprofiles

comparison macros.xml @ 0:7d6f83322362 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chewbbaca commit 8bb518e20d68623904232ae28bb8a51ec05c1c4a
author iuc
date Wed, 25 Sep 2024 14:12:43 +0000
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-1:000000000000 0:7d6f83322362
1 <macros>
2 <token name="@CHEW_VERSION@">3.3.10</token>
3 <token name="@VERSION_SUFFIX@">0</token>
4 <token name="@PROFILE@">23.0</token>
5 <xml name="requirements">
6 <requirements>
7 <requirement type="package" version="@CHEW_VERSION@">chewbbaca</requirement>
8 <requirement type="package" version="2.15.0">blast</requirement>
9 <requirement type="package" version="3.0">zip</requirement>
10 <requirement type="package" version="2.1.11">fasttree</requirement>
11 <yield/>
12 </requirements>
13 </xml>
14 <xml name="citations">
15 <citations>
16 <citation type="doi">10.1099/mgen.0.000166</citation>
17 </citations>
18 </xml>
19 <xml name="species_id">
20 <option value="1">Streptococcus pyogenes</option>
21 <option value="2">Acinetobacter baumannii</option>
22 <option value="3">Arcobacter butzleri</option>
23 <option value="4">Campylobacter jejuni</option>
24 <option value="5">Escherichia coli</option>
25 <option value="6">Listeria monocytogenes</option>
26 <option value="7">Yersinia enterocolitica</option>
27 <option value="8">Salmonella enterica</option>
28 <option value="9">Streptococcus agalactiae</option>
29 <option value="10">Brucella melitensis</option>
30 <option value="11">Brucella</option>
31 <option value="12">Clostridium perfringens</option>
32 <option value="13">Clostridium chauvoei</option>
33 <option value="14">Bacillus anthracis</option>
34 <option value="15">Klebsiella oxytoca</option>
35 <option value="16">Clostridium neonatale</option>
36 </xml>
37 <token name="@COMMON_INPUT@">
38 --bsr $blast_score_ratio
39 --l $minimum_length
40 --t $translation_table
41 --st $size_threshold
42 </token>
43 <xml name="common_param">
44 <param argument="--blast_score-ratio" type="float" min="0.0" max="1.0" value="0.6" label="BLAST Score Ratio value" />
45 <param argument="--translation-table" type="integer" min="0" value="11" label="Genetic code used to predict genes and to translate coding sequences"/>
46 <param argument="--size-threshold" type="float" min="0" value="0.2" label="CDS size variation threshold"/>
47 </xml>
48 </macros>