Mercurial > repos > greg > gene_family_aligner

comparison gene_family_aligner.xml @ 63:77fcf796be0e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author greg
date Wed, 25 Oct 2017 11:27:00 -0400
parents 763a50c4f9fc
children 71619c9e01d3
comparison
equal deleted inserted replaced
62:763a50c4f9fc 63:77fcf796be0e
45 #if str($remove_sequences_with_gaps_cond.iterative_realignment): 45 #if str($remove_sequences_with_gaps_cond.iterative_realignment):
46 --iterative_realignment $remove_sequences_with_gaps_cond.iterative_realignment 46 --iterative_realignment $remove_sequences_with_gaps_cond.iterative_realignment
47 #end if 47 #end if
48 #end if 48 #end if
49 #end if 49 #end if
50 &>proc.log
50 ]]></command> 51 ]]></command>
51 <inputs> 52 <inputs>
52 <param name="input" format="fasta" type="data_collection" collection_type="list" label="Integrated orthogroup fasta files" /> 53 <param name="input" format="fasta" type="data_collection" collection_type="list" label="Integrated orthogroup fasta files" />
53 <conditional name="alignment_method_cond"> 54 <conditional name="alignment_method_cond">
54 <param name="alignment_method" type="select" force_select="true" label="Multiple sequence alignment method"> 55 <param name="alignment_method" type="select" force_select="true" label="Multiple sequence alignment method">
132 </outputs> 133 </outputs>
133 <tests> 134 <tests>
134 <test> 135 <test>
135 <param name="input"> 136 <param name="input">
136 <collection type="list"> 137 <collection type="list">
137 <element name="3722.faa" value="3722.faa"/> 138 <element name="3722.faa" value="3722.faa"/>
138 <element name="3722.fna" value="3722.fna"/> 139 <element name="3722.fna" value="3722.fna"/>
139 <element name="38889.faa" value="38889.faa"/> 140 <element name="38889.faa" value="38889.faa"/>
140 <element name="38889.fna" value="38889.fna"/> 141 <element name="38889.fna" value="38889.fna"/>
141 <element name="39614.faa" value="39614.faa"/> 142 <element name="39614.faa" value="39614.faa"/>
142 <element name="39614.fna" value="39614.fna"/> 143 <element name="39614.fna" value="39614.fna"/>
143 </collection> 144 </collection>
144 </param> 145 </param>
146 <param name="codon_alignments" value="yes"/>
145 <output_collection name="primary_faa" type="list"> 147 <output_collection name="primary_faa" type="list">
146 <element name="3722.faa.aln" file="3722.faa.aln" ftype="fasta"/> 148 <element name="3722.faa.aln" file="3722.faa.aln" ftype="fasta"/>
147 <element name="38889.faa.aln" file="38889.faa.aln" ftype="fasta"/> 149 <element name="38889.faa.aln" file="38889.faa.aln" ftype="fasta"/>
148 <element name="39614.faa.aln" file="39614.faa.aln" ftype="fasta"/> 150 <element name="39614.faa.aln" file="39614.faa.aln" ftype="fasta"/>
149 </output_collection> 151 </output_collection>