Mercurial > repos > p.lucas > mafft_add_sequence

comparison mafft.xml @ 8:6e4e5e8f06fe draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author p.lucas
date Thu, 02 May 2019 08:04:09 -0400
parents 836c7a8e563f
children
comparison
equal deleted inserted replaced
7:836c7a8e563f 8:6e4e5e8f06fe
12 mafft --version 12 mafft --version
13 ]]> 13 ]]>
14 </version_command> 14 </version_command>
15 <command> 15 <command>
16 <![CDATA[ 16 <![CDATA[
17 mafft --thread \${GALAXY_SLOTS:-1} --add $seqtoadd --reorder $existingalignment $outputFormat > $outputAlignment; 17 mafft --thread \${GALAXY_SLOTS:-1} --add $seqtoadd --reorder $existingalignment > $outputAlignment;
18 ]]> 18 ]]>
19 </command> 19 </command>
20 <inputs> 20 <inputs>
21 <param name="seqtoadd" type="data" format="fasta" label="Sequences to add" help="Sequences to add in FASTA format."/> 21 <param name="seqtoadd" type="data" format="fasta" label="Sequences to add" help="Sequences to add in FASTA format."/>
22 <param name="existingalignment" type="data" format="fasta" label="Alignment already done" help="Multi-alignment in FASTA format."/> 22 <param name="existingalignment" type="data" format="fasta" label="Alignment already done" help="Multi-alignment in FASTA format."/>
23 <param name="outputFormat" type="select" label="Output format" help="Either FASTA or ClustalW or Phylip">
24 <option value="" selected="true">FASTA</option>
25 <option value="--clustalout">ClustalW</option>
26 <option value="--phylipout">Phylip</option>
27 </param>
28 </inputs> 23 </inputs>
29 <outputs> 24 <outputs>
30 <data format="fasta" name="outputAlignment" label="${tool.name} on ${on_string}"> 25 <data format="fasta" name="outputAlignment" label="${tool.name} on ${on_string}"/>
31 <change_format>
32 <when input="outputFormat" value="--clustalout" format="clustal"/>
33 <when input="outputFormat" value="--phylipout" format="phylip"/>
34 </change_format>
35 </data>
36 </outputs> 26 </outputs>
37 <help> 27 <help>
38 <![CDATA[ 28 <![CDATA[
39 **What it does** 29 **What it does**
40 30