Mercurial > repos > bgruening > gfastats
comparison gfastats.xml @ 6:690c2caa367e draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/gfastats commit 10ccc47885ce71e602d66e157bd475f1facbd042
author | bgruening |
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date | Mon, 05 Dec 2022 12:20:31 +0000 |
parents | 3fba9c77550a |
children | 3ef480892a9f |
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5:5127a713de83 | 6:690c2caa367e |
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31 --sort $mode_condition.sort | 31 --sort $mode_condition.sort |
32 #end if | 32 #end if |
33 #if $mode_condition.homopolymer_compress | 33 #if $mode_condition.homopolymer_compress |
34 --homopolymer-compress $mode_condition.homopolymer_compress | 34 --homopolymer-compress $mode_condition.homopolymer_compress |
35 #end if | 35 #end if |
36 $mode_condition.discover_paths | |
36 -o dataset.$mode_condition.output_condition.out_format | 37 -o dataset.$mode_condition.output_condition.out_format |
37 #if $mode_condition.output_condition.out_format == 'fasta' | 38 #if $mode_condition.output_condition.out_format == 'fasta' |
38 #if $mode_condition.output_condition.line_length | 39 #if $mode_condition.output_condition.line_length |
39 --line-length $mode_condition.output_condition.line_length | 40 --line-length $mode_condition.output_condition.line_length |
40 #end if | 41 #end if |
127 </when> | 128 </when> |
128 <when value="fastq"/> | 129 <when value="fastq"/> |
129 <when value="fastq.gz"/> | 130 <when value="fastq.gz"/> |
130 <when value="gfa"/> | 131 <when value="gfa"/> |
131 <when value="gfa.gz"/> | 132 <when value="gfa.gz"/> |
132 </conditional> | 133 </conditional> |
134 <param argument="--discover-paths" type="boolean" truevalue="--discover-paths" falsevalue="" checked="false" label="Generates the initial set of paths" help="In the graph space an assembly | |
135 is a collection of segment and edges/gaps between these segments. A path defines a potential walk through the segments and edges/gaps that corresponds to a hypothesis of the actual linear sequence" /> | |
133 <param argument="--sort" type="select" label="Sort sequences" help="Specify how to sort the sequences. Ascending/descending used the sequence/path header."> | 136 <param argument="--sort" type="select" label="Sort sequences" help="Specify how to sort the sequences. Ascending/descending used the sequence/path header."> |
134 <option value="" selected="true">Disabled</option> | 137 <option value="" selected="true">Disabled</option> |
135 <option value="ascending">Ascending</option> | 138 <option value="ascending">Ascending</option> |
136 <option value="descending">Descending</option> | 139 <option value="descending">Descending</option> |
137 <option value="largest">Largest</option> | 140 <option value="largest">Largest</option> |