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comparison maf-convert.xml @ 5:f5a5a2b39ff2 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/last commit 4568799de240022f4058ec1602e08f536916e2af"
author iuc
date Thu, 25 Mar 2021 20:53:27 +0000
parents 8705e0d74a0f
children 19c265784f35
comparison
equal deleted inserted replaced
4:8705e0d74a0f 5:f5a5a2b39ff2
57 <option value="html">html</option> 57 <option value="html">html</option>
58 <option value="psl" selected="true">psl</option> 58 <option value="psl" selected="true">psl</option>
59 <option value="sam">sam</option> 59 <option value="sam">sam</option>
60 <option value="tab">tab</option> 60 <option value="tab">tab</option>
61 </param> 61 </param>
62 <when value="axt"/>
62 <when value="blast"> 63 <when value="blast">
63 <param argument="-l" type="integer" value="60" label="Line length"/> 64 <param argument="-l" type="integer" value="60" label="Line length"/>
64 </when> 65 </when>
66 <when value="blasttab"/>
67 <when value="chain"/>
65 <when value="html"> 68 <when value="html">
66 <param argument="-l" type="integer" value="60" label="Line length"/> 69 <param argument="-l" type="integer" value="60" label="Line length"/>
67 </when> 70 </when>
68 <when value="psl"> 71 <when value="psl">
69 <param name="protein" argument="-p" type="boolean" truevalue="-p" falsevalue="" checked="false" label="Protein alignments." /> 72 <param name="protein" argument="-p" type="boolean" truevalue="-p" falsevalue="" checked="false" label="Protein alignments." />
70 <param argument="-j" type="integer" value="1" label="Join neighboring alignments" help="Join neighboring alignments if they are co-linear and separated by at most N letters."/> 73 <param argument="-j" type="integer" value="1" label="Join neighboring alignments" help="Join neighboring alignments if they are co-linear and separated by at most N letters."/>
71 </when> 74 </when>
72 <when value="sam"> 75 <when value="sam">
73 <conditional name="sam_file"> 76 <conditional name="sam_file">
74 <param name="dictionary" argument="-d" type="boolean" truevalue="-d" falsevalue="" checked="false" label="Include dictionary of sequence lengths in sam format"/> 77 <param name="dictionary" argument="-d" type="select" label="Include dictionary of sequence lengths in sam format">
78 <option value="-d">Yes</option>
79 <option value="" selected="true">No</option>
80 </param>
81 <when value=""/>
75 <when value="-d"> 82 <when value="-d">
76 <param argument="-f" type="data" format="dict" label="Get a sequence dictionary from DICTFILE" /> 83 <param argument="-f" type="data" format="dict" label="Get a sequence dictionary from DICTFILE" />
77 </when> 84 </when>
78 </conditional> 85 </conditional>
79 <param argument="-r" type="text" value="" label="Specify read group information" help="Example: 'ID:1 PL:ILLUMINA SM:mysample'"/> 86 <param argument="-r" type="text" value="" label="Specify read group information" help="Example: 'ID:1 PL:ILLUMINA SM:mysample'"/>
80 </when> 87 </when>
88 <when value="tab"/>
81 </conditional> 89 </conditional>
82 </section> 90 </section>
83 </inputs> 91 </inputs>
84 92
85 <outputs> 93 <outputs>